Immune Profiling of Premalignant Lesions in Patients with Lynch Syndrome

Supplementary Online Content

Chang K, Taggart MW, Reyes-Uribe L, et al. Immune profiling of premalignant lesions in patients with Lynch syndrome. JAMA Oncol. Published online April 16, 2018. doi:10.1001/jamaoncol.2018.1482

eTable 1. Clinical characteristics of FAP and LS patients eTable 2. Pathology characteristics of FAP and LS polyps eTable 3. Immune profile of LS polyps compared to FAP eTable 4. Immune profile of FAP polyps LS polyps, and LS carcinomas eTable 5. Gene set enrichment analysis of FAP and LS polyps, LS tumor eTable 6. Mutational rate analysis in FAP, LS and LS hypermutated polyps, and Nonhyper and hypermutated Stage I-II TCGA CRC using RNAseq data eTable 7. Immune profile of LS polyps classified by mutational rate (hyper- versus non- hypermutant) eTable 8. Predicted Class I and II HLA genotype of FAP and LS normal mucosa samples eTable 9. List of Predicted neoantigens eTable 10. Pathways analysis of MHC I and II neoantigens eTable 11. Germline and somatic mutation detected in FAP and LS polyps. Mutational data derived from RNA-seq analysis eFigure 1. Immune profile of Lynch syndrome premalignancy and carcinomas eFigure 2. Correlation of DNA and RNA mutation rate in samples from TCGA eFigure 3. Mutation Spectrum of FAP and LS polyps eFigure 4. Immunohistochemical staining of CD4 and FOXP3 eFigure 5. MHC Class I and II neoantigens in Lynch syndrome and FAP premalignancy, and LS carcinomas eMaterials and Methods eReferences

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This supplementary material has been provided by the authors to give readers additional information about their work.

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eTable 1. Clinical characteristics of FAP and LS patients

No. of No. of No. of Col Germline mutation No. of polyp normal adenom Patient ore Cancer tumors Gender Age Race s mucosa as ID ctal Dx sequen detect Gene gDNA Protein sequen sequen Sx ced ed ced ced FAP_1 M 35 W IRA >100 APC c.1880dupA p.Ala630* 1 2 0 FAP_2 M 33 W IRA <5 APC c.3810T>A p.Cys1270* 1 2 0 FAP_3 F 42 W IRA 5 APC del exon 14 p.? 1 2 0 FAP_4 M 42 W P >100 HCC, APC c.622C>T p.Gln208* 1 3 0 D FAP_5 F 40 W IRA 5 APC del exons 8-9 p.? 1 1 0 FAP_6 M 37 W IRA <5 APC c.1658G>A p.Trp553* 1 1 0 FAP_7 M 65 W IRA <50 APC c.477C>G p.Tyr159* 1 1 0

FAP_8 F 25 AA NP >100 D APC c.4733_4734del p.Cys1578Tyrf 1 2 0 s*12 FAP_9 F 28 W IRA >100 EC, APC c.847C>T p.Arg283* 1 1 0 OC FAP_10 F 25 W P >100 APC c.3810T>A p.Cys1270* 1 1 0 LS_1 M 53 W RH 1 CC MSH6 c.3744_3773del3 p.His1248_Ser 1 1 0 0 1257del LS_2 F 46 W NP 3 EC MSH2 c.687delA p.Ala230Leufs* 1 1 0 16 LS_3 M 52 W LH 1 CC PMS2 del exon 14 p.? 1 1 0 LS_4 F 37 W NP 1 MSH2 c.1034G>A p.Trp345* 1 1 0 LS_5 F 53 W NP 1 MSH2 c.1661+1G>A p.? 1 1 0 LS_6 M 58 W NP 2 MSH2 del exons 1-6 p.? 1 1 0 LS_7 M 76 W LH 2 CC MSH2 c.1216C>T p.Arg406* 1 1 0 LS_8 F 68 W NP 4 EC MSH6 c.3238_3239delC p.Leu1080Valfs 2 1 0 T *12 LS_9 F 62 W NP 1 EC MSH6 c.3860ins4 p.P1289X 1 1 0 LS_10 F 43 W RH 3 CC MSH6 c.2645_2653delT p.Phe882* 1 1 0 TAAGTCTA

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LS_11 F 63 W TC 3 CC, EC MSH6 c.3699_3702delA p.Lys1233Asnf 1 1 0 R GAA s*6 LS_12 F 35 W SC 0 CC MLH1 c.1279C>T p.Gln427* 1 0 1 LS_13 F 76 W SC 0 CC, MLH1 1 0 1 BC, c.1918C>T p.Pro640Ser GIST LS_14 F 61 W RH 0 CC PMS2 c.2059C>T p.Arg687Trp 1 0 1 Abbreviations: M, male; F, Female; W, white; AA, African-American; IRA, ileorectal anastomosis; P, pouch; RH, right hemicolectomy; LH, left hemicolectomy; TCR, transverse colon resection; SC, subtotal colectomy; NP, not performed; NA, not available; CC, colon cancer; HCC, hepatocellular carcinoma; HepBI, hepatoblastoma; D, desmoid; EC, endometrial cancer; OC, ovarian cancer. *Denotes Hispanic ancestry.

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eTable 2. Pathology characteristics of FAP and LS polyps

Patient ID Sample ID Disease Pathology Location Size/TNM IHC-MSH2 IHC-MSH6 IHC-MLH1 IHC-PMS2 FAP_1 FAP_G2 FAP TA R 5-10 NA NA NA NA FAP_1 FAP_G3 FAP TA R 5-10 NA NA NA NA FAP_2 FAP_G53 FAP TA R <5 NA NA NA NA FAP_2 FAP_G55 FAP TA R <5 NA NA NA NA FAP_3 FAP_G5 FAP TA R <5 NA NA NA NA FAP_3 FAP_G6 FAP TA R <5 NA NA NA NA FAP_4 FAP_G13 FAP TA R 5-10 NA NA NA NA FAP_4 FAP_G14 FAP TA R 5-10 NA NA NA NA FAP_4 FAP_G15 FAP TA R 5-10 NA NA NA NA FAP_5 FAP_G25 FAP TA R <5 NA NA NA NA FAP_6 FAP_G29 FAP TA R NA NA NA NA NA FAP_7 FAP_G39 FAP TA R <5 NA NA NA NA FAP_8 FAP_G47 FAP TA R <5 NA NA NA NA FAP_8 FAP_G48 FAP TA R <5 NA NA NA NA FAP_9 FAP_G67 FAP TA R 5-10 NA NA NA NA FAP_10 FAP_G61 FAP TA NA NA NA NA NA NA LS_1 LS_EBL1 LS TA D 5-10 Intact Intact NA NA LS_2 LS_EBL3 LS TA A <5 Intact Intact NA NA LS_3 LS_EBL5 LS HP D 5-10 NA NA Intact Intact LS_4 LS_EBL7 LS TA with HGD D >10 Lost Lost NA NA LS_5 LS_EBL9 LS TA R 5-10 Lost Lost NA NA LS_6 LS_EBL11 LS TA A >10 Lost Lost NA NA LS_7 LS_EBL13 LS TA A 5-10 Intact Intact NA NA LS_8 LS_EBL18 LS HP D 5-10 Intact Intact NA NA LS_9 LS_EBL26 LS TA D 5-10 NA Intact NA NA LS_10 LS_EBL20 LS TA D 5-10 Intact Lost NA NA LS_11 LS_EBL23 LS TA A <5 Intact Intact NA NA LS_12 LS_T3 LS CA D pT3N0 Intact Intact Lost Lost LS_13 LS_T2 LS CA D pT4aN0 Intact Intact Lost Lost LS_14 LS_T1 LS CA A pT2N0 Intact Intact Intact Lost Abbreviations: TA, tubular adenoma; HP, hyperplastic polyp; HGD, high grade dysplasia; A, cecum/ascending/hepatic flexure; D, transverse/descending/sigmoid; R, rectum/rectosigmoid; NA, not assessed. Assessment of expression of MMR proteins in LS polyps was based on the already known germline mutations.Therefore, only the protein pair matching the germline mutation was performed.

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eTable 3. Immune profile of LS polyps compared to FAP

Gene LS Mean FAP Mean t test FDR t test P value CD4 45.9874 25.3987 0.0015 0.0002 IFNG 0.1597 0.0483 0.0014 0.0001 TBX21 0.8563 0.6690 0.2707 0.0902 CD8A 9.1375 6.7203 0.3497 0.1813 GZMB 1.4093 1.1421 0.4101 0.2430 PRF1 4.2415 2.9592 0.0237 0.0070 IL21 0.0482 0.0307 0.5886 0.3924 CTLA4 1.3825 1.7024 0.6779 0.5188 PDCD1 1.1953 0.9679 0.4101 0.2356 LAG3 2.8509 1.3900 0.0001 0.0000 CD274 3.5577 2.4652 0.0191 0.0050 IL17A 0.0821 0.1481 0.6779 0.5160 RORC 41.5334 49.5505 0.3011 0.1186 IL23A 0.6413 0.5203 0.7392 0.6023 FOXP3 1.7133 1.2396 0.3160 0.1405 IL10 2.7205 2.6852 0.9142 0.8465 TGFB1 15.6416 13.5568 0.3497 0.1770 PTGS2 3.4271 3.3329 0.9608 0.9608 IL1B 4.9144 8.3386 0.7934 0.7053 IL18 61.2560 53.7937 0.7403 0.6306 IL6 0.2909 0.1470 0.3011 0.1227 IL12A 0.5554 0.2966 0.0015 0.0002 TNF 2.7957 1.4689 0.0109 0.0020 IDO1 8.9288 9.0646 0.9608 0.9570 NOS2 20.7018 17.6395 0.4282 0.2696 HIF1A 110.5035 100.6122 0.6779 0.5273 Genes linked to the immune microenvironment of CRC and MMR deficiency were grouped by lineage and/or function (Th1/Tc1, CTL, Th17, Treg, proinflammation, and metabolism) as previously reported by Llosa et al, Cancer Discovery (2016). Expression values are counts per million. The statistical tests were performed on log2-transformed CPM. Welch's t-Test and multiple correction by Benjamini & Hochberg were used (FDR<0.05). Significantly different genes are in bold

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eTable 4. Immune profile of FAP polyps LS polyps, and LS carcinomas

Mean LS Mean FAP LS Tumor vs LS LS vs FAP LS Tumor vs FAP Gene Tumor Mean LS Polyp Polyp Polyp FDR Polyp FDR Polyp FDR CD4 30.9748 45.9874 25.3987 0.3335 0.0471 0.8489 IFNG 0.6023 0.1597 0.0483 0.0000 0.0733 0.0000 TBX21 1.3767 0.8563 0.6690 0.1753 0.9991 0.0340 CD8A 18.3933 9.1375 6.7203 0.0198 0.9991 0.0024 GZMB 15.7904 1.4093 1.1421 0.0000 0.9991 0.0000 PRF1 20.3994 4.2415 2.9592 0.0000 0.9991 0.0000 IL21 0.0395 0.0482 0.0307 0.9207 0.9991 0.9132 IL17A 0.4575 0.0821 0.1481 0.0095 0.9991 0.0256 RORC 2.2877 41.5334 49.5505 0.0003 0.8842 0.0000 IL23A 0.9280 0.6413 0.5203 0.5635 0.9991 0.2871 FOXP3 4.6952 1.7133 1.2396 0.0111 0.9991 0.0023 IL10 0.9193 2.7205 2.6852 0.0012 0.9991 0.0010 TGFB1 31.5878 15.6416 13.5568 0.0003 0.9991 0.0001 PTGS2 24.6403 3.4271 3.3329 0.0001 0.9991 0.0001 IL1B 83.1729 4.9144 8.3386 0.0000 0.9991 0.0000 IL18 5.9157 61.2560 53.7937 0.0108 0.9991 0.0226 IL6 11.3027 0.2909 0.1470 0.0000 0.9991 0.0000 IL12A 0.4365 0.5554 0.2966 0.7072 0.0733 0.6126 TNF 0.6861 2.7957 1.4689 0.0198 0.0710 0.5714 CTLA4 5.4882 1.3825 1.7024 0.0003 0.9991 0.0006 PDCD1 1.5828 1.1953 0.9679 0.5627 0.9991 0.1939 LAG3 5.7383 2.8509 1.3900 0.0001 0.0051 0.0000 CD274 11.9252 3.5577 2.4652 0.0003 0.9991 0.0000 IDO1 17.7229 8.9288 9.0646 0.0118 0.9991 0.0107 NOS2 85.6532 20.7018 17.6395 0.0003 0.9991 0.0001 HIF1A 230.4215 110.5035 100.6122 0.0003 0.9991 0.0001 Genes linked to the immune microenvironment of CRC and MMR deficiency were grouped by lineage and/or function (Th1/Tc1, CTL, Th17, Treg, proinflammation, and metabolism) as previously reported by Llosa et al, Cancer Discovery (2016). Expression values are expressed in counts per million. The statistical tests were performed on log2-transformed CPM. Significance between each groups is tested using ANOVA and Tukey’s Test, and Benjamini & Hochberg is used for multiple correction (FDR<0.05). Significantly different genes are in bold.

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eTable 5. Gene set enrichment analysis of FAP and LS polyps, LS tumor

FAP vs LS FAP Polyp vs LS LS Polyp vs LS Number of Pathways Polyp FDR Tumor FDR Tumor FDR genes Reference IMMUNE_ESTIMATE 0.0402 0.4524 0.9942 141 PMID_24113773 IMMUNE_RESP_GO_BP 0.0402 0.9980 0.9942 235 GO_BP PMID_17008531_2130397 IMMUNE_TH1_GALON 0.1113 0.0843 0.9942 8 6 IMMUNE_TH17_GOUNARI 0.6927 0.9980 0.9942 27 PMID_24574339 IMMUNE_TREG_LUCAS 0.8493 0.9980 0.9942 18 PMID_19224638 PD1_REACTOME 0.0007 0.0843 0.9942 18 REACTOME T-cell-signature 0.0003 0.0028 0.9942 13 PMID_27837020 Significance between each groups is tested using ANOVA and Tukey’s Test, and Benjamini & Hochberg is used for multiple correction (FDR<0.05). Significantly different genes are in bold.

eTable 6. Mutational rate analysis in FAP, LS and LS hypermutated polyps, and Nonhyper and hypermutated Stage I-II TCGA CRC using RNAseq data

Sample ID Type of Sample Mutations/Mb LS_EBL1 LS 21.755 LS_EBL13 LS 15.591 LS_EBL18 LS 7.847 LS_EBL23 LS 7.68 LS_EBL26 LS 9.727 LS_EBL3 LS 12.81 LS_EBL5 LS 9.647 LS_EBL7 LS 12.539 LS_EBL11 LS Hyper 33.2 LS_EBL20 LS Hyper 23.693 LS_EBL9 LS Hyper 51.627 LS_T1 LS Tumor 21.4 LS_T2 LS Tumor 26.4 LS_T3 LS Tumor 51.5 FAP_G13 FAP 16.165

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FAP_G14 FAP 13.67 FAP_G15 FAP 14.628 FAP_G2 FAP 13.673 FAP_G25 FAP 19.071 FAP_G29 FAP 17.095 FAP_G3 FAP 13.545 FAP_G39 FAP 12.346 FAP_G47 FAP 12.785 FAP_G48 FAP 14.194 FAP_G5 FAP 13.514 FAP_G53 FAP 15.093 FAP_G55 FAP 12.861 FAP_G6 FAP 11.914 FAP_G61 FAP 13.669 FAP_G67 FAP 14.297 TCGA-AA-3517 CRC Stage I,II Nonhyper 8.104 TCGA-AA-3524 CRC Stage I,II Nonhyper 35.901 TCGA-AA-3526 CRC Stage I,II Nonhyper 51.05 TCGA-AA-3527 CRC Stage I,II Nonhyper 35.745 TCGA-AA-3530 CRC Stage I,II Nonhyper 11.371 TCGA-AA-3531 CRC Stage I,II Nonhyper 20.134 TCGA-AA-3532 CRC Stage I,II Nonhyper 9.471 TCGA-AA-3534 CRC Stage I,II Nonhyper 11.247 TCGA-AA-3538 CRC Stage I,II Nonhyper 19.819 TCGA-AA-3544 CRC Stage I,II Nonhyper 21.561 TCGA-AA-3549 CRC Stage I,II Nonhyper 11.601 TCGA-AA-3556 CRC Stage I,II Nonhyper 20.595 TCGA-AA-3561 CRC Stage I,II Nonhyper 10.977 TCGA-AA-3664 CRC Stage I,II Nonhyper 13.049 TCGA-AA-3667 CRC Stage I,II Nonhyper 12.238 TCGA-AA-3673 CRC Stage I,II Nonhyper 5.056 TCGA-AA-3685 CRC Stage I,II Nonhyper 32.866 TCGA-AA-3812 CRC Stage I,II Nonhyper 12.683 TCGA-AA-3814 CRC Stage I,II Nonhyper 7.712 TCGA-AA-3818 CRC Stage I,II Nonhyper 6.398

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TCGA-AA-3831 CRC Stage I,II Nonhyper 27.347 TCGA-AA-3837 CRC Stage I,II Nonhyper 3.925 TCGA-AA-3850 CRC Stage I,II Nonhyper 14.124 TCGA-AA-3852 CRC Stage I,II Nonhyper 5.49 TCGA-AA-3854 CRC Stage I,II Nonhyper 5.101 TCGA-AA-3856 CRC Stage I,II Nonhyper 5.247 TCGA-AA-3858 CRC Stage I,II Nonhyper 3.363 TCGA-AA-3866 CRC Stage I,II Nonhyper 7.902 TCGA-AA-3875 CRC Stage I,II Nonhyper 6.472 TCGA-AA-3939 CRC Stage I,II Nonhyper 28.623 TCGA-AA-3956 CRC Stage I,II Nonhyper 39.676 TCGA-AA-3975 CRC Stage I,II Nonhyper 7.482 TCGA-AA-3980 CRC Stage I,II Nonhyper 13.489 TCGA-AA-A004 CRC Stage I,II Nonhyper 12.708 TCGA-AA-A00Z CRC Stage I,II Nonhyper 5.55 TCGA-AA-A017 CRC Stage I,II Nonhyper 14.824 TCGA-AA-A024 CRC Stage I,II Nonhyper 15.46 TCGA-AA-A029 CRC Stage I,II Nonhyper 9.344 TCGA-AA-A02W CRC Stage I,II Nonhyper 12.006 TCGA-AA-A02Y CRC Stage I,II Nonhyper 40.213 TCGA-AY-4071 CRC Stage I,II Nonhyper 3.937 TCGA-AA-3710 CRC Stage I,II Hyper 30.885 TCGA-AA-3715 CRC Stage I,II Hyper 21.551 TCGA-AA-3864 CRC Stage I,II Hyper 34.182 TCGA-AA-3877 CRC Stage I,II Hyper 27.482 TCGA-AA-A00N CRC Stage I,II Hyper 42.666 TCGA-AA-A010 CRC Stage I,II Hyper 59.93

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eTable 7. Immune profile of LS polyps classified by mutational rate (hyper- versus non-hypermutant)

LS Non- LS Hyper- LS Hyper- LS Hypermutant hypermuta vs Non- vs Non- Gene Mean nt hypermuta hypermuta Mean nt FDR nt p-value CD4 42.268 47.382 0.8453 0.6574 IFNG 0.141 0.167 0.9375 0.8565 TBX21 0.693 0.918 0.7547 0.3808 CD8A 6.919 9.970 0.7547 0.4472 GZMB 1.342 1.435 0.8860 0.7219 PRF1 4.051 4.313 0.9375 0.8613 IL21 0.039 0.052 0.9375 0.9375 IL17A 0.081 0.083 0.9375 0.9242 RORC 37.285 43.126 0.8295 0.5372 IL23A 0.573 0.667 0.9375 0.9101 FOXP3 2.839 1.291 0.0466 0.0017 IL10 1.880 3.036 0.0651 0.0145 TGFB1 18.171 14.693 0.7204 0.2935 PTGS2 5.660 2.590 0.0789 0.0205 IL1B 4.935 4.907 0.8295 0.5530 IL18 33.313 71.735 0.0520 0.0058 IL6 0.446 0.233 0.7547 0.4226 IL12A 0.439 0.599 0.2647 0.0882 TNF 2.024 3.085 0.3795 0.1405 CTLA4 2.281 1.045 0.0495 0.0037 PDCD1 1.283 1.163 0.7547 0.3759 LAG3 2.654 2.925 0.8453 0.6361 CD274 3.039 3.752 0.7547 0.3989 IDO1 10.619 8.295 0.8453 0.6166 NOS2 27.165 18.278 0.1003 0.0297

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eTable 8. Predicted Class I and II HLA genotype of FAP and LS normal mucosa samples

Region A Region B Region C Region DQA Region DQB Region DRB Patie Sample Allele Allele Allele Allele Allele Allele Allele 1 Allele 2 Allele 1 Allele 2 Allele 1 Allele 2 nt ID ID 1 2 1 2 1 2 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*01 DQA1*01 DQB1*06 DQB1*05 DRB1*01 DRB1*15 1 1 A*01: A*11: B*39: B*52: C*12: C*12: :02 :02 :01 :01 :01 :02 01 01 01 01 02 02 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*01 DQA1*01 DQB1*06 DQB1*05 DRB1*01 DRB1*15 4 16 A*25: A*11: B*18: B*35: C*04: C*12: :04 :04 :13 :01 :01 :01 01 01 01 01 01 03 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*02 DQA1*01 DQB1*05 DQB1*02 DRB1*01 DRB1*07 5 26 A*29: A*24: B*56: B*51: C*02: C*01: :01 :02 :01 :01 :01 :01 02 02 01 01 02 02 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*01 DQA1*01 DQB1*06 DQB1*06 DRB1*13 DRB1*15 6 31 A*01: A*24: B*15: B*07: C*07: C*07: :02 :02 :13 :13 :02 :01 01 02 17 02 01 01 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*03 DQA1*02 DQB1*03 DQB1*02 DRB1*04 DRB1*07 3 4 A*24: A*02: B*18: B*07: C*05: C*07: :02 :01 :02 :01 :01 :01 02 01 01 02 01 02 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*02 DQA1*01 DQB1*06 DQB1*02 DRB1*07 DRB1*15 7 40 A*29: A*03: B*44: B*07: C*16: C*07: :01 :02 :02 :01 :01 :01 02 01 03 02 01 02 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*04 DQA1*01 DQB1*06 DQB1*03 DRB1*15 DRB1*08 8 49 A*34: A*02: B*45: B*53: C*04: C*16: :01 :02 :02 :09 :03 :04 02 01 01 01 01 01 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*01 DQA1*02 DQB1*05 DQB1*02 DRB1*16 DRB1*07 2 54 A*33: A*03: B*44: B*51: C*15: C*07: :02 :01 :02 :05 :01 :01 03 01 03 01 02 01 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*03 DQA1*05 DQB1*03 DQB1*03 DRB1*04 DRB1*11 9 60 A*24: A*02: B*18: B*44: C*05: C*12: :02 :01 :01 :01 :01 :04 02 01 01 02 01 03 FAP_ FAP_G HLA- HLA- HLA- HLA- HLA- HLA- DQA1*03 DQA1*01 DQB1*06 DQB1*03 DRB1*04 DRB1*15 10 62 A*24: A*02: B*15: B*15: C*03: C*03: :02 :02 :11 :02 :04 :01 02 01 07 07 04 04 LS_5 LS_EBL HLA- HLA- HLA- HLA- HLA- HLA- DQA1*05 DQA1*01 DQB1*03 DQB1*05 DRB1*01 DRB1*11 10 A*23: A*01: B*44: B*07: C*04: C*07: :01 :01 :01 :01 :01 :04 01 01 03 02 01 02

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eTable 9. List of Predicted Neoantigens

Chromosome Position Sample Gene Best.MT.Score Expression Allele MHC (TPM) Frequency 1 14109058 FAP_G13 PRDM2 39.5 15.95 0.195 MHC_I 1 16258928 FAP_G13 SPEN 359.7 10.97 0.196 MHC_I 1 166818356 FAP_G13 POGK 4.4 28.79 0.115 MHC_I 1 180053254 FAP_G13 CEP350 250.6 10.2 0.156 MHC_I 1 185089552 FAP_G13 TRMT1L 218 13.52 0.062 MHC_I 10 105495507 FAP_G13 SH3PXD2A 148.3 26.72 0.075 MHC_I 10 114917781 FAP_G13 TCF7L2 279.5 31.06 0.385 MHC_I 10 115612623 FAP_G13 DCLRE1A 415 10.15 0.176 MHC_I 11 46703602 FAP_G13 ARHGAP1 343.8 50.23 0.081 MHC_I 12 21626520 FAP_G13 RECQL 14.1 16.91 0.096 MHC_I 12 48084336 FAP_G13 RPAP3 20.4 17.27 0.099 MHC_I 12 59281595 FAP_G13 LRIG3 11.1 25.92 0.057 MHC_I 12 109522775 FAP_G13 USP30 98.4 14.55 0.111 MHC_I 13 24411739 FAP_G13 MIPEP 108.6 30.56 0.07 MHC_I 14 24878811 FAP_G13 NYNRIN 4.9 14.77 0.2 MHC_I 14 31637582 FAP_G13 HECTD1 96.9 37.33 0.061 MHC_I 14 31814322 FAP_G13 HEATR5A 247 13.62 0.103 MHC_I 14 90397941 FAP_G13 EFCAB11 470.6 17.84 0.125 MHC_I 15 25620790 FAP_G13 UBE3A 178 33.77 0.058 MHC_I 15 28474843 FAP_G13 HERC2 14.7 12.08 0.3 MHC_I 15 89836004 FAP_G13 FANCI 63.2 18.56 0.056 MHC_I 16 84600531 FAP_G13 COTL1 19.7 62.39 0.062 MHC_I 17 15978875 FAP_G13 NCOR1 77.9 35.98 0.052 MHC_I 17 16052812 FAP_G13 NCOR1 449.7 35.98 0.284 MHC_I 17 73515123 FAP_G13 TSEN54 3.6 28.04 0.105 MHC_I 18 44426713 FAP_G13 PIAS2 232.4 17.68 0.057 MHC_I 2 18736845 FAP_G13 RDH14 231.7 28.11 0.07 MHC_I

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2 27601679 FAP_G13 ZNF513 162.9 20.73 0.097 MHC_I 2 88892839 FAP_G13 EIF2AK3 430.9 21.62 0.2 MHC_I 2 203420129 FAP_G13 BMPR2 13.7 11.76 0.125 MHC_I 2 203420129 FAP_G13 BMPR2 13.7 11.76 0.088 MHC_I 2 203420129 FAP_G13 BMPR2 16.2 11.76 0.125 MHC_I 2 203420129 FAP_G13 BMPR2 16.2 11.76 0.088 MHC_I 22 43253147 FAP_G13 ARFGAP3 37.9 41.63 0.136 MHC_I 3 97686274 FAP_G13 MINA 16.1 13.28 0.069 MHC_I 3 193382704 FAP_G13 OPA1 4.4 40.16 0.09 MHC_I 3 194146150 FAP_G13 ATP13A3 9.3 38.68 0.078 MHC_I 4 110454749 FAP_G13 SEC24B 12.1 25.94 0.106 MHC_I 4 169195168 FAP_G13 DDX60 55.4 13.86 0.091 MHC_I 5 6746387 FAP_G13 PAPD7 41.5 14.95 0.167 MHC_I 5 55237518 FAP_G13 IL6ST 110.2 25.11 0.055 MHC_I 5 87501638 FAP_G13 TMEM161B 25.2 18.72 0.133 MHC_I 6 106967244 FAP_G13 AIM1 216.6 42.29 0.078 MHC_I 6 110530369 FAP_G13 CDC40 165.9 23.12 0.13 MHC_I 7 11030370 FAP_G13 PHF14 99.1 25.94 0.145 MHC_I 7 38812211 FAP_G13 VPS41 381.6 27.08 0.091 MHC_I 7 50514060 FAP_G13 FIGNL1 25.3 10.89 0.257 MHC_I 7 89856719 FAP_G13 STEAP2 94.1 12.33 0.25 MHC_I 7 100029007 FAP_G13 MEPCE 205.2 33.76 0.354 MHC_I 8 90993682 FAP_G13 NBN 498.4 32.04 0.07 MHC_I 9 94171750 FAP_G13 NFIL3 378.9 19.71 0.063 MHC_I 1 35790968 FAP_G14 ZMYM4 75.5 17.46 0.185 MHC_I 1 247014141 FAP_G14 AHCTF1 114.9 13.29 0.068 MHC_I 10 53458999 FAP_G14 CSTF2T 139.2 19.72 0.067 MHC_I 10 97916170 FAP_G14 ZNF518A 196.7 17.03 0.152 MHC_I 10 112661364 FAP_G14 BBIP1 137.7 12.76 0.136 MHC_I 10 114911552 FAP_G14 TCF7L2 33.4 34.08 0.174 MHC_I 10 120489818 FAP_G14 CACUL1 6.9 19.81 0.103 MHC_I

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11 16892700 FAP_G14 PLEKHA7 419.1 14.5 0.115 MHC_I 11 45935395 FAP_G14 PEX16 155.9 21.15 0.064 MHC_I 11 47376999 FAP_G14 SPI1 68.5 13.97 0.075 MHC_I 11 64597015 FAP_G14 CDC42BPG 144.6 18.07 0.07 MHC_I 11 71148862 FAP_G14 DHCR7 96.1 25.73 0.098 MHC_I 11 111915865 FAP_G14 DLAT 84.9 31.41 0.059 MHC_I 12 57553691 FAP_G14 LRP1 22.9 39.52 0.057 MHC_I 12 57553693 FAP_G14 LRP1 273.7 39.52 0.057 MHC_I 12 117583969 FAP_G14 FBXO21 4.7 27.69 0.054 MHC_I 13 20220724 FAP_G14 MPHOSPH8 173.9 31.7 0.09 MHC_I 14 50933311 FAP_G14 MAP4K5 15.6 22.13 0.093 MHC_I 14 74345900 FAP_G14 PTGR2 82.4 17.5 0.135 MHC_I 15 25584316 FAP_G14 UBE3A 40.5 35.9 0.098 MHC_I 15 30011997 FAP_G14 TJP1 40.9 22.67 0.083 MHC_I 15 34527447 FAP_G14 SLC12A6 168 13.77 0.1 MHC_I 15 82533696 FAP_G14 EFTUD1 477.3 32.27 0.069 MHC_I 16 50134245 FAP_G14 HEATR3 88.1 16.5 0.256 MHC_I 17 36966833 FAP_G14 CWC25 262.1 16.02 0.273 MHC_I 18 9211730 FAP_G14 ANKRD12 28.2 12.4 0.115 MHC_I 2 73996405 FAP_G14 DUSP11 393.4 29.42 0.072 MHC_I 20 44522683 FAP_G14 CTSA 308.3 235.47 0.169 MHC_I 20 47686754 FAP_G14 CSE1L 91.8 44.46 0.08 MHC_I 3 36872574 FAP_G14 TRANK1 143.1 16.57 0.068 MHC_I 3 39135424 FAP_G14 WDR48 50.8 37.22 0.085 MHC_I 3 97686274 FAP_G14 MINA 16.1 15.39 0.091 MHC_I 3 123451781 FAP_G14 MYLK 479.8 37.07 0.15 MHC_I 3 193382704 FAP_G14 OPA1 4.4 36.44 0.105 MHC_I 5 55237518 FAP_G14 IL6ST 110.2 29.05 0.056 MHC_I 5 87521593 FAP_G14 TMEM161B 138.7 18.6 0.114 MHC_I 7 89856719 FAP_G14 STEAP2 94.1 11.82 0.227 MHC_I 7 91503179 FAP_G14 MTERF 21.4 11.64 0.1 MHC_I

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8 90993682 FAP_G14 NBN 498.4 27.41 0.063 MHC_I 1 9305562 FAP_G15 H6PD 53 34.89 0.067 MHC_I 1 78187733 FAP_G15 USP33 18.6 41.87 0.051 MHC_I 11 14882799 FAP_G15 PDE3B 120.2 19.52 0.408 MHC_I 11 67934464 FAP_G15 SUV420H1 162.9 36.4 0.085 MHC_I 11 74053618 FAP_G15 PGM2L1 155 13.57 0.095 MHC_I 11 121475905 FAP_G15 SORL1 34.8 68.69 0.129 MHC_I 12 1702238 FAP_G15 FBXL14 360.2 24.29 0.057 MHC_I 12 57135291 FAP_G15 PRIM1 38.8 16.46 0.171 MHC_I 13 31725288 FAP_G15 HSPH1 253 44.27 0.08 MHC_I 14 23598945 FAP_G15 SLC7A8 232.4 53.34 0.055 MHC_I 14 92253887 FAP_G15 TC2N 125.3 53.54 0.065 MHC_I 16 14711479 FAP_G15 PARN 14.1 31.53 0.081 MHC_I 16 18569061 FAP_G15 NOMO2 137.1 50.77 0.2 MHC_I 16 23546280 FAP_G15 EARS2 190.2 19.75 0.525 MHC_I 16 57269044 FAP_G15 RSPRY1 268.9 30.37 0.111 MHC_I 19 12856300 FAP_G15 ASNA1 71 89.15 0.107 MHC_I 19 35174128 FAP_G15 ZNF302 51.8 25.12 0.122 MHC_I 2 11389837 FAP_G15 ROCK2 21.3 63.26 0.143 MHC_I 2 229890569 FAP_G15 PID1 16.5 43.38 0.064 MHC_I 2 230668773 FAP_G15 TRIP12 115.8 49.34 0.513 MHC_I 20 10393366 FAP_G15 MKKS 497.5 35.29 0.052 MHC_I 3 63981867 FAP_G15 ATXN7 39.7 11.12 0.143 MHC_I 3 97686274 FAP_G15 MINA 16.1 15.12 0.088 MHC_I 3 139346515 FAP_G15 NMNAT3 65.9 11.64 0.143 MHC_I 3 145799525 FAP_G15 PLOD2 119.9 48.11 0.081 MHC_I 3 184922464 FAP_G15 EHHADH 6.6 28.73 0.063 MHC_I 4 110454749 FAP_G15 SEC24B 12.1 28.84 0.173 MHC_I 4 153864507 FAP_G15 FHDC1 430.6 17.1 0.409 MHC_I 5 36117881 FAP_G15 LMBRD2 39.8 13.94 0.107 MHC_I 5 52161600 FAP_G15 ITGA1 5.2 12.31 0.222 MHC_I

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5 54555685 FAP_G15 DHX29 48.8 20.19 0.081 MHC_I 5 55237518 FAP_G15 IL6ST 110.2 22.74 0.059 MHC_I 5 72858434 FAP_G15 ANKRA2 111 32.07 0.053 MHC_I 6 41877149 FAP_G15 MED20 203.8 21.61 0.068 MHC_I 6 106967244 FAP_G15 AIM1 216.6 47.85 0.091 MHC_I 6 110530369 FAP_G15 CDC40 165.9 24.98 0.159 MHC_I 6 139264691 FAP_G15 REPS1 9.9 26.94 0.125 MHC_I 6 149916207 FAP_G15 KATNA1 109.8 16.21 0.078 MHC_I 7 94164724 FAP_G15 CASD1 345.6 27.21 0.061 MHC_I 7 138210057 FAP_G15 TRIM24 121.4 23.25 0.171 MHC_I 9 18143 FAP_G15 WASH1 10.6 13.99 0.667 MHC_I 9 26886129 FAP_G15 CAAP1 161.3 37.85 0.058 MHC_I 9 140247215 FAP_G15 EXD3 8.3 10.59 0.333 MHC_I X 74293781 FAP_G15 ABCB7 81.7 29.81 0.098 MHC_I X 119005930 FAP_G15 NDUFA1 46.8 630.54 0.261 MHC_I X 129290502 FAP_G15 AIFM1 97.4 67.64 0.052 MHC_I 1 54675779 FAP_G2 MRPL37 79.4 118.46 0.472 MHC_I 1 68948427 FAP_G2 DEPDC1 261.2 10.25 0.258 MHC_I 1 91405165 FAP_G2 ZNF644 328.3 30.02 0.079 MHC_I 1 229601235 FAP_G2 NUP133 361.3 25.53 0.068 MHC_I 1 247014141 FAP_G2 AHCTF1 322.9 12.41 0.077 MHC_I 10 79397185 FAP_G2 KCNMA1 19.5 13.34 0.079 MHC_I 10 86130816 FAP_G2 CCSER2 35.9 15.28 0.143 MHC_I 12 64828647 FAP_G2 XPOT 91.5 35.35 0.055 MHC_I 12 109921682 FAP_G2 UBE3B 23.8 22.01 0.054 MHC_I 13 26956961 FAP_G2 CDK8 248.4 22.23 0.344 MHC_I 14 23420864 FAP_G2 HAUS4 305.8 58.19 0.529 MHC_I 14 36018352 FAP_G2 RALGAPA1 256.6 18.59 0.143 MHC_I 16 4924668 FAP_G2 UBN1 42.2 20.31 0.075 MHC_I 16 22343403 FAP_G2 POLR3E 23.6 22.59 0.088 MHC_I 17 2371076 FAP_G2 METTL16 118.5 10.86 0.24 MHC_I

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17 70120292 FAP_G2 SOX9 204 108.13 0.084 MHC_I 2 100020923 FAP_G2 REV1 407.4 21.71 0.053 MHC_I 2 152316604 FAP_G2 RIF1 87.5 11.56 0.25 MHC_I 2 153004779 FAP_G2 STAM2 20.1 19.03 0.065 MHC_I 20 5559030 FAP_G2 GPCPD1 189.6 27.63 0.107 MHC_I 20 36687910 FAP_G2 RPRD1B 50.6 19.47 0.077 MHC_I 3 33626305 FAP_G2 CLASP2 138.9 13.32 0.075 MHC_I 3 33650077 FAP_G2 CLASP2 112 13.32 0.115 MHC_I 3 42602714 FAP_G2 SEC22C 464.7 18.05 0.132 MHC_I 3 81720070 FAP_G2 GBE1 36.3 18.15 0.119 MHC_I 4 22415377 FAP_G2 GPR125 51.6 41.27 0.052 MHC_I 4 107092270 FAP_G2 TBCK 197.3 17.11 0.063 MHC_I 4 129099754 FAP_G2 LARP1B 25.3 21.03 0.385 MHC_I 5 148904673 FAP_G2 CSNK1A1 80.4 146.13 0.51 MHC_I 6 106727570 FAP_G2 ATG5 135.2 34.6 0.071 MHC_I 6 111310240 FAP_G2 RPF2 24.9 45.73 0.115 MHC_I 7 99506230 FAP_G2 TRIM4 207.3 19.96 0.064 MHC_I 7 156589160 FAP_G2 LMBR1 180.4 21.28 0.169 MHC_I X 148582538 FAP_G2 IDS 24.1 28.43 0.223 MHC_I 1 91403063 FAP_G25 ZNF644 133.9 33.2 0.158 MHC_I 12 51385382 FAP_G25 SLC11A2 158.7 15.23 0.136 MHC_I 13 41654831 FAP_G25 WBP4 13.7 10.46 0.121 MHC_I 15 83208738 FAP_G25 RPS17L 265.2 3787.42 0.115 MHC_I 16 67477072 FAP_G25 ATP6V0D1 250.5 89.15 0.093 MHC_I 17 79077889 FAP_G25 BAIAP2 439.8 10.15 0.22 MHC_I 2 65480928 FAP_G25 ACTR2 339 72.64 0.065 MHC_I 2 160628445 FAP_G25 CD302 475.1 14.27 0.122 MHC_I 2 166615346 FAP_G25 GALNT3 62.9 46.85 0.079 MHC_I 3 125725303 FAP_G25 SLC41A3 11.3 16.44 0.063 MHC_I 4 159606334 FAP_G25 ETFDH 406.9 18.36 0.073 MHC_I 6 106696039 FAP_G25 ATG5 401.9 33.66 0.055 MHC_I

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1 204197289 FAP_G29 PLEKHA6 340.6 12.38 0.115 MHC_I 10 88197701 FAP_G29 WAPAL 67.1 10.33 0.077 MHC_I 10 95454638 FAP_G29 FRA10AC1 450.8 12.02 0.105 MHC_I 11 93471306 FAP_G29 TAF1D 172.4 31.49 0.109 MHC_I 13 25008997 FAP_G29 PARP4 15 20.17 0.092 MHC_I 14 65381187 FAP_G29 CHURC1 19.4 24.6 0.093 MHC_I 14 92251705 FAP_G29 TC2N 4.8 28.55 0.164 MHC_I 15 44055275 FAP_G29 PDIA3 80.1 395.96 0.061 MHC_I 2 232326652 FAP_G29 NCL 7.5 243.68 0.069 MHC_I 20 54974315 FAP_G29 CSTF1 15.6 17.14 0.108 MHC_I 22 37162188 FAP_G29 IFT27 79 36.29 0.114 MHC_I 22 46098591 FAP_G29 ATXN10 103.7 40.9 0.115 MHC_I 4 103189225 FAP_G29 SLC39A8 38.3 67.39 0.189 MHC_I 5 179046273 FAP_G29 HNRNPH1 417.8 247.53 0.054 MHC_I 8 24249828 FAP_G29 ADAMDEC1 204.9 74.51 0.1 MHC_I 9 131454204 FAP_G29 SET 32.2 191.54 0.053 MHC_I X 101408997 FAP_G29 BEX5 348 14.31 0.062 MHC_I 1 35480655 FAP_G3 ZMYM6 12.7 14.27 0.186 MHC_I 1 43829648 FAP_G3 ELOVL1 343.3 102.59 0.316 MHC_I 1 51048344 FAP_G3 FAF1 50.4 28.76 0.13 MHC_I 1 154523916 FAP_G3 UBE2Q1 24.3 45.07 0.241 MHC_I 11 67934464 FAP_G3 SUV420H1 162.9 31.98 0.074 MHC_I 11 68367959 FAP_G3 PPP6R3 19.8 42.02 0.075 MHC_I 14 36018352 FAP_G3 RALGAPA1 256.6 16.13 0.222 MHC_I 14 92471831 FAP_G3 TRIP11 363.9 11.94 0.12 MHC_I 14 93760617 FAP_G3 BTBD7 107.7 14.94 0.13 MHC_I 15 40854986 FAP_G3 C15orf57 48.4 31.43 0.058 MHC_I 15 64066970 FAP_G3 HERC1 273 10.49 0.176 MHC_I 15 64747205 FAP_G3 TRIP4 331 28.17 0.058 MHC_I 18 21523784 FAP_G3 LAMA3 25.2 12.24 0.514 MHC_I 18 32920554 FAP_G3 ZNF24 409.6 32.46 0.057 MHC_I

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19 55559835 FAP_G3 RDH13 67.4 20.65 0.075 MHC_I 3 43641915 FAP_G3 ANO10 19.6 23.31 0.07 MHC_I 3 133666227 FAP_G3 SLCO2A1 65 27.34 0.059 MHC_I 5 139903713 FAP_G3 ANKHD1 28.2 31.09 0.137 MHC_I 5 139903713 FAP_G3 ANKHD1- 28.2 14.92 0.137 MHC_I EIF4EBP3 6 170880560 FAP_G3 TBP 54 18.57 0.057 MHC_I 7 92761752 FAP_G3 SAMD9L 357.5 16.73 0.051 MHC_I 8 38123661 FAP_G3 PPAPDC1B 46.8 82.58 0.051 MHC_I 9 86617646 FAP_G3 RMI1 428.9 11.44 0.362 MHC_I X 100630169 FAP_G3 BTK 27.7 15.11 0.13 MHC_I 11 43350325 FAP_G39 API5 450 38.09 0.053 MHC_I 11 65655423 FAP_G39 FIBP 58.2 40.14 0.069 MHC_I 11 95564342 FAP_G39 CEP57 323.7 19.54 0.063 MHC_I 12 29496096 FAP_G39 ERGIC2 25.5 41.83 0.089 MHC_I 14 35050806 FAP_G39 SNX6 90.2 65.27 0.067 MHC_I 16 15091639 FAP_G39 PDXDC1 451.3 81.94 0.085 MHC_I 17 38243083 FAP_G39 THRA 22.6 18.51 0.096 MHC_I 2 136537955 FAP_G39 UBXN4 347.7 56.08 0.071 MHC_I 2 223489444 FAP_G39 FARSB 56.7 39.33 0.094 MHC_I 22 23915577 FAP_G39 IGLL1 11.3 211.7 0.333 MHC_I 3 58302694 FAP_G39 RPP14 56 16.42 0.108 MHC_I 3 193382704 FAP_G39 OPA1 7.7 19.71 0.094 MHC_I 4 24550502 FAP_G39 DHX15 196.4 76.38 0.078 MHC_I 5 14608915 FAP_G39 FAM105A 75.7 19.98 0.077 MHC_I 5 64100142 FAP_G39 CWC27 306.2 19.15 0.125 MHC_I 5 171638950 FAP_G39 UBTD2 38.5 13.4 0.233 MHC_I 6 160196216 FAP_G39 ACAT2 453.7 56.1 0.131 MHC_I X 70516490 FAP_G39 NONO 272.7 89.47 0.067 MHC_I 1 29365810 FAP_G47 EPB41 8.3 20.93 0.067 MHC_I 1 47173603 FAP_G47 EFCAB14 131.1 38.21 0.061 MHC_I 1 85397050 FAP_G47 MCOLN2 40.2 13.43 0.12 MHC_I

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1 146672923 FAP_G47 FMO5 51.1 22.88 0.075 MHC_I 1 209961769 FAP_G47 IRF6 375.2 23.88 0.118 MHC_I 10 93021137 FAP_G47 PCGF5 131.2 76.48 0.121 MHC_I 11 58384775 FAP_G47 ZFP91 230.2 33.5 0.104 MHC_I 11 82880952 FAP_G47 PCF11 15.6 19.52 0.178 MHC_I 12 21661479 FAP_G47 GOLT1B 11.8 34.61 0.068 MHC_I 12 44148162 FAP_G47 PUS7L 55.1 14.61 0.075 MHC_I 13 75876414 FAP_G47 TBC1D4 215.9 11.29 0.073 MHC_I 14 55643819 FAP_G47 DLGAP5 137.9 22.26 0.161 MHC_I 14 72128104 FAP_G47 SIPA1L1 20.7 12.29 0.185 MHC_I 15 59406800 FAP_G47 CCNB2 14.5 38.36 0.063 MHC_I 16 58608633 FAP_G47 CNOT1 36 29.13 0.143 MHC_I 16 67477072 FAP_G47 ATP6V0D1 44.1 59.57 0.224 MHC_I 17 29226335 FAP_G47 TEFM 47.1 34.94 0.057 MHC_I 18 260212 FAP_G47 THOC1 53.5 26.78 0.074 MHC_I 18 9570178 FAP_G47 PPP4R1 454.4 19.99 0.102 MHC_I 18 33691076 FAP_G47 SLC39A6 13.4 17.03 0.061 MHC_I 19 6389459 FAP_G47 GTF2F1 336.6 31.11 0.059 MHC_I 2 37487371 FAP_G47 PRKD3 16 13.93 0.091 MHC_I 2 70315174 FAP_G47 PCBP1 422.9 170.51 0.056 MHC_I 2 95787497 FAP_G47 MRPS5 79.3 55.5 0.053 MHC_I 2 159488390 FAP_G47 PKP4 21.5 21.12 0.057 MHC_I 3 88205388 FAP_G47 C3orf38 67.6 26.37 0.052 MHC_I 3 170108207 FAP_G47 SKIL 79.1 32.27 0.055 MHC_I 4 77065549 FAP_G47 NUP54 408.3 48.53 0.056 MHC_I 4 128814503 FAP_G47 PLK4 105.2 12.41 0.086 MHC_I 5 41934329 FAP_G47 FBXO4 190.2 23.58 0.061 MHC_I 5 54645466 FAP_G47 SKIV2L2 15.2 45.99 0.092 MHC_I 5 114860048 FAP_G47 FEM1C 432 17.96 0.063 MHC_I 6 31773903 FAP_G47 LSM2 3 65.64 0.079 MHC_I 7 156589130 FAP_G47 LMBR1 9.4 16 0.079 MHC_I

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1 8422751 FAP_G48 RERE 157.6 16.53 0.129 MHC_I 1 51005336 FAP_G48 FAF1 52.9 14 0.167 MHC_I 1 161133740 FAP_G48 USP21 470.4 11.96 0.188 MHC_I 10 32576151 FAP_G48 EPC1 305.2 19.73 0.055 MHC_I 11 2950399 FAP_G48 PHLDA2 92.4 23.01 0.051 MHC_I 11 58384775 FAP_G48 ZFP91 230.2 32.27 0.139 MHC_I 11 82880952 FAP_G48 PCF11 15.6 17.95 0.2 MHC_I 11 114578178 FAP_G48 NXPE2 202.8 18.1 0.154 MHC_I 12 105589066 FAP_G48 APPL2 51.9 33.1 0.075 MHC_I 12 122825968 FAP_G48 CLIP1 38.4 11.02 0.083 MHC_I 14 31917387 FAP_G48 DTD2 110.7 17.27 0.051 MHC_I 15 35274372 FAP_G48 ZNF770 389.1 17.88 0.087 MHC_I 16 15978045 FAP_G48 FOPNL 441.2 41.95 0.06 MHC_I 16 46695692 FAP_G48 VPS35 64.2 74.72 0.052 MHC_I 16 58608633 FAP_G48 CNOT1 36 27.16 0.077 MHC_I 16 67477072 FAP_G48 ATP6V0D1 44.1 78.5 0.101 MHC_I 16 68267962 FAP_G48 ESRP2 238.2 39.35 0.06 MHC_I 17 67260965 FAP_G48 ABCA5 70.1 15.75 0.055 MHC_I 18 260212 FAP_G48 THOC1 53.5 21.34 0.1 MHC_I 18 59757761 FAP_G48 PIGN 340.8 20.76 0.068 MHC_I 19 4054669 FAP_G48 ZBTB7A 293.1 21.11 0.086 MHC_I 19 33984213 FAP_G48 PEPD 187.2 32.07 0.058 MHC_I 19 55698881 FAP_G48 PTPRH 302.8 26.47 0.068 MHC_I 2 20455795 FAP_G48 PUM2 82.3 40.94 0.062 MHC_I 2 100011002 FAP_G48 EIF5B 295.7 21.04 0.114 MHC_I 7 92861785 FAP_G48 CCDC132 231.2 21.99 0.093 MHC_I 9 95992134 FAP_G48 WNK2 35.6 12.89 0.125 MHC_I 1 21220014 FAP_G5 EIF4G3 10 34.36 0.082 MHC_I 1 35919168 FAP_G5 KIAA0319L 11.3 38.26 0.082 MHC_I 1 52280223 FAP_G5 NRD1 409.3 70.68 0.091 MHC_I 1 154229586 FAP_G5 UBAP2L 92.5 50.77 0.067 MHC_I

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1 201983065 FAP_G5 ELF3 422.9 448.41 0.393 MHC_I 10 47919971 FAP_G5 FAM21B 167.9 18.08 0.107 MHC_I 10 75299276 FAP_G5 USP54 6.7 33.91 0.056 MHC_I 10 111883935 FAP_G5 ADD3 10.9 112.6 0.059 MHC_I 11 43465666 FAP_G5 TTC17 302.7 35.65 0.097 MHC_I 11 60670256 FAP_G5 PRPF19 133.9 118.1 0.405 MHC_I 12 50482355 FAP_G5 SMARCD1 163.5 28.35 0.108 MHC_I 12 62798030 FAP_G5 USP15 351.8 19.95 0.155 MHC_I 12 64875701 FAP_G5 TBK1 65 22.57 0.1 MHC_I 12 65141513 FAP_G5 GNS 95.3 53.32 0.115 MHC_I 12 110451041 FAP_G5 ANKRD13A 18.9 25.09 0.11 MHC_I 14 55817786 FAP_G5 FBXO34 138.2 59.19 0.06 MHC_I 15 31233717 FAP_G5 MTMR10 30.9 20.23 0.085 MHC_I 15 41046816 FAP_G5 RMDN3 48.1 40.05 0.06 MHC_I 15 64669047 FAP_G5 KIAA0101 113.3 22.14 0.061 MHC_I 16 72138457 FAP_G5 DHX38 120 32.13 0.129 MHC_I 17 12853004 FAP_G5 ARHGAP44 28.9 27.83 0.405 MHC_I 17 27409385 FAP_G5 MYO18A 361.3 35.03 0.104 MHC_I 17 40870508 FAP_G5 EZH1 44.2 15.82 0.188 MHC_I 18 44416349 FAP_G5 PIAS2 352.8 14.1 0.17 MHC_I 18 72913415 FAP_G5 ZADH2 195 25.12 0.065 MHC_I 19 804596 FAP_G5 PTBP1 13.7 152.43 0.336 MHC_I 19 10257082 FAP_G5 DNMT1 110.9 23.23 0.093 MHC_I 2 11356307 FAP_G5 ROCK2 70.1 64.11 0.107 MHC_I 2 44436421 FAP_G5 PPM1B 400.8 44.53 0.071 MHC_I 2 61441220 FAP_G5 USP34 67 22.81 0.268 MHC_I 2 174228145 FAP_G5 CDCA7 404.3 87.71 0.082 MHC_I 20 9318697 FAP_G5 PLCB4 178.4 74.35 0.053 MHC_I 21 34110493 FAP_G5 PAXBP1 21.8 25.96 0.068 MHC_I 3 38263085 FAP_G5 OXSR1 64.3 32.08 0.111 MHC_I 3 56702472 FAP_G5 FAM208A 60.6 22.72 0.065 MHC_I

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3 160134136 FAP_G5 SMC4 471.9 31.42 0.191 MHC_I 3 160148986 FAP_G5 SMC4 214.5 31.42 0.065 MHC_I 3 179094918 FAP_G5 MFN1 395.4 37.85 0.068 MHC_I 4 102117109 FAP_G5 PPP3CA 49.1 37.53 0.053 MHC_I 4 107133947 FAP_G5 TBCK 80.7 16.35 0.116 MHC_I 4 123271209 FAP_G5 KIAA1109 283.6 17.46 0.118 MHC_I 4 159816976 FAP_G5 FNIP2 225.5 20.14 0.063 MHC_I 5 60053357 FAP_G5 ELOVL7 3.5 20.86 0.107 MHC_I 5 68687681 FAP_G5 RAD17 146.1 25.05 0.148 MHC_I 5 134193047 FAP_G5 C5orf24 343.6 25.93 0.068 MHC_I 6 25529084 FAP_G5 LRRC16A 2.9 28.26 0.055 MHC_I 6 52268214 FAP_G5 PAQR8 22.3 88.16 0.284 MHC_I 6 109322505 FAP_G5 SESN1 48.9 32.18 0.061 MHC_I 7 99490177 FAP_G5 TRIM4 398.8 27.64 0.053 MHC_I 9 5811133 FAP_G5 ERMP1 21.1 34.68 0.136 MHC_I X 122755071 FAP_G5 THOC2 320.2 25.47 0.095 MHC_I 1 8422745 FAP_G53 RERE 392.8 28.14 0.085 MHC_I 1 86842011 FAP_G53 ODF2L 339.1 24.54 0.317 MHC_I 1 150131221 FAP_G53 PLEKHO1 162.4 15.06 0.102 MHC_I 1 172538276 FAP_G53 SUCO 333.8 18.09 0.222 MHC_I 1 172579236 FAP_G53 SUCO 68.8 18.09 0.074 MHC_I 1 222802633 FAP_G53 MIA3 455.2 17.34 0.167 MHC_I 10 15255510 FAP_G53 FAM171A1 94.8 27.48 0.065 MHC_I 10 24909895 FAP_G53 ARHGAP21 23.5 23.26 0.093 MHC_I 10 38343543 FAP_G53 ZNF33A 61 25.01 0.064 MHC_I 10 47000081 FAP_G53 GPRIN2 46 24.29 0.16 MHC_I 11 3794866 FAP_G53 NUP98 120.5 16.67 0.167 MHC_I 12 29496096 FAP_G53 ERGIC2 58.5 51.18 0.056 MHC_I 12 30833472 FAP_G53 IPO8 28.8 22.16 0.103 MHC_I 12 57648788 FAP_G53 R3HDM2 266 15.17 0.1 MHC_I 14 45675309 FAP_G53 MIS18BP1 327.5 12.88 0.083 MHC_I

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15 25584316 FAP_G53 UBE3A 11.1 31.53 0.076 MHC_I 15 45408409 FAP_G53 DUOXA2 81.9 65.2 0.435 MHC_I 15 59455377 FAP_G53 MYO1E 81.4 27.58 0.053 MHC_I 15 65472500 FAP_G53 CLPX 141.2 33.55 0.056 MHC_I 16 11873075 FAP_G53 ZC3H7A 321.1 18.73 0.094 MHC_I 16 74530385 FAP_G53 GLG1 171.6 21.91 0.105 MHC_I 17 5392612 FAP_G53 MIS12 378.7 16.04 0.058 MHC_I 17 5392614 FAP_G53 MIS12 71.3 16.04 0.056 MHC_I 17 60038270 FAP_G53 MED13 430.3 14.08 0.095 MHC_I 19 50985463 FAP_G53 EMC10 234.3 126.54 0.053 MHC_I 20 34241753 FAP_G53 RBM12 277.6 15.58 0.111 MHC_I 20 43615935 FAP_G53 STK4 212.7 11.71 0.107 MHC_I 22 50898397 FAP_G53 SBF1 137.1 25.18 0.13 MHC_I 3 49053638 FAP_G53 DALRD3 82.1 20.99 0.061 MHC_I 3 58256683 FAP_G53 ABHD6 40.2 22.25 0.154 MHC_I 3 125725917 FAP_G53 SLC41A3 207.3 26.16 0.057 MHC_I 3 127394887 FAP_G53 ABTB1 147.4 26.93 0.067 MHC_I 4 84393409 FAP_G53 FAM175A 377.8 10.76 0.071 MHC_I 6 17765056 FAP_G53 KIF13A 136.3 37.1 0.075 MHC_I 6 42937639 FAP_G53 PEX6 206.2 11.98 0.115 MHC_I 6 74354277 FAP_G53 SLC17A5 22.9 50.68 0.074 MHC_I 6 80878721 FAP_G53 BCKDHB 94.7 37.24 0.068 MHC_I 8 124266478 FAP_G53 ZHX1 435.1 20.2 0.069 MHC_I 1 27621110 FAP_G55 WDTC1 57.1 25.4 0.085 MHC_I 1 86842011 FAP_G55 ODF2L 339.1 27.75 0.2 MHC_I 1 150131221 FAP_G55 PLEKHO1 162.4 16.2 0.091 MHC_I 1 231044470 FAP_G55 TTC13 47.1 20.44 0.096 MHC_I 10 32120676 FAP_G55 ARHGAP12 138.4 33.42 0.083 MHC_I 11 3789861 FAP_G55 NUP98 67.5 18 0.086 MHC_I 12 29496096 FAP_G55 ERGIC2 58.5 46.28 0.065 MHC_I 12 64816983 FAP_G55 XPOT 203 22.7 0.146 MHC_I

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12 108941677 FAP_G55 SART3 377.4 14.26 0.143 MHC_I 14 36192335 FAP_G55 RALGAPA1 56.3 15.54 0.107 MHC_I 17 40476850 FAP_G55 STAT3 60.4 50.34 0.081 MHC_I 5 131039787 FAP_G55 FNIP1 81.3 10.33 0.176 MHC_I 5 133295258 FAP_G55 C5orf15 189 60.93 0.06 MHC_I 6 71236179 FAP_G55 FAM135A 239.3 24.08 0.118 MHC_I 6 74354277 FAP_G55 SLC17A5 22.9 58.57 0.086 MHC_I 7 92730738 FAP_G55 SAMD9 42.6 29.33 0.122 MHC_I 7 99490177 FAP_G55 TRIM4 150.3 21.62 0.058 MHC_I 9 95004492 FAP_G55 IARS 292 23.23 0.055 MHC_I 1 11155838 FAP_G6 EXOSC10 61.1 44.48 0.06 MHC_I 1 52280223 FAP_G6 NRD1 409.3 61.38 0.082 MHC_I 1 86842004 FAP_G6 ODF2L 278.1 30.54 0.12 MHC_I 1 119618996 FAP_G6 WARS2 309.5 12.55 0.2 MHC_I 1 145368619 FAP_G6 NBPF10 6.5 12.93 0.113 MHC_I 1 156697209 FAP_G6 ISG20L2 15.8 28.36 0.052 MHC_I 10 70725198 FAP_G6 DDX21 37.1 41.34 0.181 MHC_I 10 75290100 FAP_G6 USP54 12.6 31.75 0.081 MHC_I 11 10875015 FAP_G6 ZBED5 43.2 39.45 0.053 MHC_I 11 43465666 FAP_G6 TTC17 302.7 34.92 0.096 MHC_I 11 64594831 FAP_G6 CDC42BPG 170.8 22.24 0.053 MHC_I 11 70218481 FAP_G6 PPFIA1 382.7 27.18 0.068 MHC_I 12 27472325 FAP_G6 STK38L 313.1 33.16 0.092 MHC_I 12 62798030 FAP_G6 USP15 351.8 19.05 0.156 MHC_I 12 90020290 FAP_G6 ATP2B1 17.3 33.19 0.066 MHC_I 12 110451041 FAP_G6 ANKRD13A 18.9 45.15 0.072 MHC_I 16 11873075 FAP_G6 ZC3H7A 457.4 26.45 0.063 MHC_I 16 15178538 FAP_G6 RRN3 34.4 33.05 0.064 MHC_I 16 22343403 FAP_G6 POLR3E 28 20.02 0.088 MHC_I 16 72138457 FAP_G6 DHX38 120 27.24 0.111 MHC_I 16 75681968 FAP_G6 TERF2IP 414.7 41.8 0.088 MHC_I

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17 27409385 FAP_G6 MYO18A 361.3 37.19 0.085 MHC_I 17 79220034 FAP_G6 SLC38A10 33 54.85 0.095 MHC_I 19 19906229 FAP_G6 ZNF506 14.6 16 0.091 MHC_I 19 40392499 FAP_G6 FCGBP 84.6 322.08 0.065 MHC_I 2 11356307 FAP_G6 ROCK2 70.1 52.78 0.068 MHC_I 2 37347209 FAP_G6 EIF2AK2 289.8 18.37 0.055 MHC_I 2 44436421 FAP_G6 PPM1B 400.8 47 0.089 MHC_I 2 88888285 FAP_G6 EIF2AK3 93.1 30.09 0.061 MHC_I 20 2816762 FAP_G6 PCED1A 8.8 20.41 0.075 MHC_I 20 6060206 FAP_G6 FERMT1 7.8 62.98 0.056 MHC_I 3 9876962 FAP_G6 TTLL3 6.4 12.36 0.093 MHC_I 3 25647591 FAP_G6 TOP2B 7.3 59.03 0.127 MHC_I 3 38263085 FAP_G6 OXSR1 64.3 29.16 0.123 MHC_I 3 136287629 FAP_G6 STAG1 6.2 24.43 0.111 MHC_I 3 179094918 FAP_G6 MFN1 395.4 33.22 0.146 MHC_I 4 69816847 FAP_G6 UGT2A3 112.6 66.84 0.055 MHC_I 4 190873406 FAP_G6 FRG1 4.6 50.64 0.057 MHC_I 5 68408981 FAP_G6 SLC30A5 95.2 40.77 0.099 MHC_I 5 127474360 FAP_G6 SLC12A2 10.8 102.38 0.057 MHC_I 7 117292925 FAP_G6 CFTR 75.1 93.9 0.062 MHC_I 7 129813546 FAP_G6 TMEM209 474.6 15.89 0.143 MHC_I 9 5811133 FAP_G6 ERMP1 21.1 35.79 0.088 MHC_I 9 6887960 FAP_G6 KDM4C 88.5 21.83 0.231 MHC_I 9 72933855 FAP_G6 SMC5 441.7 30.06 0.113 MHC_I 9 140099512 FAP_G6 TMEM203 44.4 30.24 0.054 MHC_I X 122755071 FAP_G6 THOC2 320.2 26.38 0.086 MHC_I 1 58999868 FAP_G61 OMA1 5.6 29.73 0.069 MHC_I 1 246518356 FAP_G61 SMYD3 474.4 13.28 0.125 MHC_I 10 27409370 FAP_G61 YME1L1 190.9 84.12 0.113 MHC_I 11 62296734 FAP_G61 AHNAK 78.1 110.1 0.053 MHC_I 11 70218481 FAP_G61 PPFIA1 111 26.85 0.074 MHC_I

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11 85977144 FAP_G61 EED 426.8 24.13 0.113 MHC_I 11 96104236 FAP_G61 CCDC82 354.7 15.38 0.068 MHC_I 12 59271483 FAP_G61 LRIG3 354.5 30.65 0.085 MHC_I 12 116421103 FAP_G61 MED13L 183.4 18.33 0.125 MHC_I 13 40233534 FAP_G61 COG6 159.7 19.11 0.133 MHC_I 14 51387267 FAP_G61 PYGL 418.8 23.33 0.071 MHC_I 14 102452081 FAP_G61 DYNC1H1 9.3 45.02 0.077 MHC_I 15 59964846 FAP_G61 BNIP2 1.6 31.38 0.059 MHC_I 17 37682263 FAP_G61 CDK12 188.9 15.9 0.064 MHC_I 17 47679242 FAP_G61 SPOP 129.1 34.42 0.057 MHC_I 17 57153072 FAP_G61 TRIM37 415.8 13.29 0.118 MHC_I 17 63532654 FAP_G61 AXIN2 39 107.77 0.086 MHC_I 19 2076868 FAP_G61 MOB3A 56.8 12.67 0.097 MHC_I 19 4363452 FAP_G61 SH3GL1 163.9 38.04 0.096 MHC_I 19 4694711 FAP_G61 DPP9 229.7 25.26 0.051 MHC_I 19 40411811 FAP_G61 FCGBP 5.8 384.26 0.069 MHC_I 2 242572926 FAP_G61 THAP4 341 88.53 0.051 MHC_I 20 30785453 FAP_G61 PLAGL2 119.8 20.04 0.111 MHC_I 20 33329244 FAP_G61 NCOA6 217.4 16.53 0.058 MHC_I 20 61833730 FAP_G61 YTHDF1 39.6 29.45 0.273 MHC_I 3 44437977 FAP_G61 TCAIM 23.7 22.71 0.313 MHC_I 3 138290147 FAP_G61 CEP70 10.1 19.98 0.068 MHC_I 3 142281435 FAP_G61 ATR 245.6 12.26 0.217 MHC_I 3 145789075 FAP_G61 PLOD2 238.1 42.71 0.08 MHC_I 5 122154534 FAP_G61 SNX2 30.6 67.52 0.081 MHC_I 5 137726897 FAP_G61 KDM3B 46.6 29.83 0.137 MHC_I 6 33264397 FAP_G61 RGL2 16.8 17.06 0.063 MHC_I 6 101127558 FAP_G61 ASCC3 54.2 25.3 0.171 MHC_I 6 109772841 FAP_G61 MICAL1 108.9 37.69 0.085 MHC_I 7 99516985 FAP_G61 TRIM4 219.6 16.45 0.115 MHC_I 7 135261066 FAP_G61 NUP205 127.9 23.64 0.156 MHC_I

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7 150778661 FAP_G61 TMUB1 75.9 47.94 0.056 MHC_I 1 41536272 FAP_G67 SCMH1 100.8 16.06 0.095 MHC_I 1 146658499 FAP_G67 FMO5 4.4 16.67 0.073 MHC_I 12 12483767 FAP_G67 MANSC1 483 24.28 0.051 MHC_I 14 51375597 FAP_G67 PYGL 102 13.76 0.141 MHC_I 14 53250203 FAP_G67 GNPNAT1 157.5 38.84 0.167 MHC_I 17 73871103 FAP_G67 TRIM47 8.2 19.2 0.059 MHC_I 2 148712924 FAP_G67 ORC4 64 17.68 0.096 MHC_I 2 198263198 FAP_G67 SF3B1 114.7 99.71 0.438 MHC_I 3 45785155 FAP_G67 SACM1L 493.5 18.87 0.054 MHC_I 3 51993981 FAP_G67 PCBP4 381.3 18.22 0.063 MHC_I 3 69124582 FAP_G67 UBA3 277.6 55.82 0.051 MHC_I 6 110533440 FAP_G67 CDC40 12.1 15.29 0.143 MHC_I 7 129064718 FAP_G67 AHCYL2 31.8 19.08 0.119 MHC_I 9 84249101 FAP_G67 TLE1 220.5 16.53 0.063 MHC_I 9 131585027 FAP_G67 C9orf114 378.9 10.87 0.063 MHC_I X 118716593 FAP_G67 UBE2A 202 49.98 0.784 MHC_I 1 16271286 LS_EBL1 ZBTB17 190.3 12.83 0.282 MHC_I 10 27009239 LS_EBL1 PDSS1 156 25.5 0.093 MHC_I 11 67413234 LS_EBL1 ACY3 50.6 16.32 0.097 MHC_I 15 34659235 LS_EBL1 LPCAT4 197.2 72.96 0.081 MHC_I 15 35163023 LS_EBL1 AQR 52.6 11.17 0.114 MHC_I 15 35189805 LS_EBL1 AQR 136.4 11.17 0.08 MHC_I 15 65885839 LS_EBL1 VWA9 42.4 41.69 0.053 MHC_I 17 648188 LS_EBL1 GEMIN4 12.4 13.24 0.073 MHC_I 17 41168352 LS_EBL1 VAT1 52.5 16.61 0.082 MHC_I 17 42964009 LS_EBL1 EFTUD2 156.4 30.76 0.061 MHC_I 17 45662948 LS_EBL1 NPEPPS 122.2 33.65 0.182 MHC_I 17 45662950 LS_EBL1 NPEPPS 107.2 33.65 0.182 MHC_I 17 46675419 LS_EBL1 HOXB6 19.8 36.7 0.061 MHC_I 19 19766136 LS_EBL1 ATP13A1 298.4 18.82 0.067 MHC_I

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19 53270614 LS_EBL1 ZNF600 81.7 21.1 0.1 MHC_I 19 55710106 LS_EBL1 PTPRH 236.7 14.73 0.071 MHC_I 3 122271386 LS_EBL1 PARP9 191.7 15.53 0.2 MHC_I 5 41934329 LS_EBL1 FBXO4 263.7 10.97 0.104 MHC_I 5 175925969 LS_EBL1 FAF2 16.2 18.13 0.222 MHC_I 6 109308758 LS_EBL1 SESN1 195.2 41.7 0.052 MHC_I 7 1510770 LS_EBL1 INTS1 76.1 11.8 0.054 MHC_I 9 84226740 LS_EBL1 TLE1 365.2 20.69 0.2 MHC_I 9 91965713 LS_EBL1 SECISBP2 82.8 27.01 0.1 MHC_I 9 100447238 LS_EBL1 XPA 239.9 17.28 0.097 MHC_I X 2867517 LS_EBL1 ARSE 108.2 30.81 0.057 MHC_I X 107331187 LS_EBL1 PSMD10 111.2 56.16 0.052 MHC_I 1 6314643 LS_EBL11 GPR153 126.5 16.37 0.1 MHC_I 1 16458713 LS_EBL11 EPHA2 310.6 33.31 0.273 MHC_I 1 22155398 LS_EBL11 HSPG2 418.3 19.45 0.067 MHC_I 1 29319988 LS_EBL11 EPB41 8 28.65 0.119 MHC_I 1 35457949 LS_EBL11 ZMYM6 56.8 11.87 0.067 MHC_I 1 45268740 LS_EBL11 PLK3 116.7 10.03 0.278 MHC_I 1 60370607 LS_EBL11 CYP2J2 357.8 46.5 0.062 MHC_I 1 70716406 LS_EBL11 SRSF11 208.3 114.02 0.325 MHC_I 1 151400320 LS_EBL11 POGZ 232.5 28.91 0.14 MHC_I 1 153904888 LS_EBL11 DENND4B 495 15.89 0.098 MHC_I 1 161092043 LS_EBL11 DEDD 315.8 28.69 0.052 MHC_I 1 161145766 LS_EBL11 B4GALT3 430.5 29.41 0.208 MHC_I 1 207263776 LS_EBL11 C4BPB 332.7 18.59 0.269 MHC_I 10 124361540 LS_EBL11 DMBT1 143 119.07 0.28 MHC_I 11 290067 LS_EBL11 ATHL1 484.6 106.18 0.063 MHC_I 11 47857271 LS_EBL11 NUP160 451.6 19.97 0.156 MHC_I 11 66333833 LS_EBL11 CTSF 61.8 32.31 0.276 MHC_I 11 74081973 LS_EBL11 PGM2L1 286.6 11.4 0.25 MHC_I 11 86519164 LS_EBL11 PRSS23 265.8 43.57 0.072 MHC_I

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12 6666182 LS_EBL11 NOP2 390 29.32 0.06 MHC_I 12 115115392 LS_EBL11 TBX3 456.7 40.7 0.094 MHC_I 13 110838827 LS_EBL11 COL4A1 220.7 44.58 0.053 MHC_I 14 23608730 LS_EBL11 SLC7A8 395.4 29.19 0.246 MHC_I 14 24839301 LS_EBL11 NFATC4 49.5 11.05 0.172 MHC_I 14 88946246 LS_EBL11 PTPN21 185 13.15 0.121 MHC_I 14 105834860 LS_EBL11 PACS2 78.2 19.83 0.235 MHC_I 15 75137840 LS_EBL11 SCAMP2 88.5 165.4 0.236 MHC_I 16 57059431 LS_EBL11 NLRC5 21 16.72 0.143 MHC_I 16 67318291 LS_EBL11 PLEKHG4 246.8 43.67 0.076 MHC_I 16 74537509 LS_EBL11 GLG1 198.6 38.61 0.238 MHC_I 16 90020704 LS_EBL11 DEF8 62 36.06 0.108 MHC_I 17 27903134 LS_EBL11 GIT1 141.7 32.92 0.071 MHC_I 17 36061132 LS_EBL11 HNF1B 90.9 31.11 0.13 MHC_I 17 40266550 LS_EBL11 KAT2A 377.1 46.15 0.09 MHC_I 17 40457655 LS_EBL11 STAT5A 337.3 20.12 0.333 MHC_I 17 79653397 LS_EBL11 HGS 236.4 62.84 0.356 MHC_I 17 80405477 LS_EBL11 C17orf62 392.9 64.63 0.206 MHC_I 19 10202224 LS_EBL11 C19orf66 68.5 30.58 0.091 MHC_I 19 17322818 LS_EBL11 MYO9B 286.8 20.38 0.114 MHC_I 19 18280045 LS_EBL11 PIK3R2 185.7 38.56 0.167 MHC_I 19 46274305 LS_EBL11 DMPK 29.2 20.66 0.379 MHC_I 19 47996750 LS_EBL11 NAPA 102.2 95.31 0.13 MHC_I 19 56113688 LS_EBL11 ZNF524 51.5 39.64 0.202 MHC_I 2 27600985 LS_EBL11 ZNF513 24.3 27.65 0.33 MHC_I 2 86992166 LS_EBL11 RMND5A 153.1 34.79 0.059 MHC_I 2 88472847 LS_EBL11 THNSL2 451 25.68 0.19 MHC_I 2 103324746 LS_EBL11 SLC9A2 276.3 38.4 0.261 MHC_I 2 236649677 LS_EBL11 AGAP1 9.5 10.71 0.258 MHC_I 20 62904741 LS_EBL11 PCMTD2 354.1 46.09 0.054 MHC_I 22 22142997 LS_EBL11 MAPK1 470.4 47.06 0.053 MHC_I

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22 23524342 LS_EBL11 BCR 206.8 20.15 0.175 MHC_I 22 24176338 LS_EBL11 SMARCB1 490.3 72.96 0.051 MHC_I 22 37421079 LS_EBL11 MPST 308.8 140.14 0.231 MHC_I 22 44893294 LS_EBL11 LDOC1L 405.9 16.48 0.125 MHC_I 3 9807533 LS_EBL11 CAMK1 197.4 16.37 0.143 MHC_I 3 98251487 LS_EBL11 GPR15 48.9 17.47 0.162 MHC_I 3 127398960 LS_EBL11 ABTB1 194.7 52.2 0.289 MHC_I 3 186504995 LS_EBL11 EIF4A2 145 420.31 0.07 MHC_I 4 1991480 LS_EBL11 NELFA 407.9 31.3 0.115 MHC_I 4 56233791 LS_EBL11 SRD5A3 291.7 21.99 0.257 MHC_I 4 115597107 LS_EBL11 UGT8 43.5 46.33 0.406 MHC_I 4 159158777 LS_EBL11 TMEM144 53.2 22.7 0.151 MHC_I 5 141248235 LS_EBL11 PCDH1 32.3 43.57 0.085 MHC_I 5 154181850 LS_EBL11 LARP1 42.7 47.98 0.17 MHC_I 6 4128047 LS_EBL11 ECI2 423.6 100.98 0.201 MHC_I 6 27114400 LS_EBL11 HIST1H2BK 426 76.51 0.051 MHC_I 6 30888131 LS_EBL11 VARS2 96.3 19.22 0.375 MHC_I 6 112397206 LS_EBL11 TUBE1 155.1 12.52 0.172 MHC_I 6 126210494 LS_EBL11 NCOA7 410.1 87.75 0.538 MHC_I 7 98592387 LS_EBL11 TRRAP 238.6 10.46 0.383 MHC_I 7 150815308 LS_EBL11 AGAP3 412.7 27.6 0.24 MHC_I 8 21978233 LS_EBL11 HR 73.3 25.66 0.087 MHC_I 8 104413804 LS_EBL11 SLC25A32 137.2 13.22 0.391 MHC_I 8 125498537 LS_EBL11 RNF139 41.2 18.29 0.064 MHC_I 8 125568091 LS_EBL11 MTSS1 90.5 13.08 0.265 MHC_I 8 144391660 LS_EBL11 TOP1MT 31.7 45.48 0.071 MHC_I 8 144668451 LS_EBL11 EEF1D 423.3 405.35 0.116 MHC_I 8 145622567 LS_EBL11 CPSF1 253.4 68.73 0.288 MHC_I 9 5772989 LS_EBL11 KIAA1432 228.6 10.19 0.2 MHC_I 9 34241785 LS_EBL11 UBAP1 29.3 28.49 0.092 MHC_I 9 35846946 LS_EBL11 TMEM8B 94.7 14.51 0.25 MHC_I

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9 36222777 LS_EBL11 GNE 469 39.63 0.054 MHC_I 9 37442136 LS_EBL11 ZBTB5 37 11.39 0.094 MHC_I 9 100407441 LS_EBL11 NCBP1 441.8 20.27 0.053 MHC_I 9 112153825 LS_EBL11 PTPN3 338 25.18 0.123 MHC_I 9 132396373 LS_EBL11 NTMT1 293.1 39.47 0.089 MHC_I 9 135796795 LS_EBL11 TSC1 239.7 17.83 0.265 MHC_I X 40571440 LS_EBL11 MED14 93.4 24.19 0.107 MHC_I X 41428923 LS_EBL11 CASK 20.8 26.09 0.086 MHC_I X 71715059 LS_EBL11 HDAC8 179.3 14.61 0.25 MHC_I X 129270668 LS_EBL11 AIFM1 80.7 46.32 0.063 MHC_I 1 192993039 LS_EBL13 UCHL5 121.2 13.21 0.054 MHC_I 12 7362390 LS_EBL13 PEX5 27.9 17.97 0.063 MHC_I 15 23931544 LS_EBL13 NDN 86.2 14.55 0.097 MHC_I 19 17424837 LS_EBL13 DDA1 84 15.91 0.055 MHC_I 19 33137455 LS_EBL13 ANKRD27 304.8 16.18 0.158 MHC_I 19 50512555 LS_EBL13 VRK3 336.2 31.47 0.056 MHC_I 22 36537393 LS_EBL13 APOL3 34 13.06 0.061 MHC_I 22 50894811 LS_EBL13 SBF1 109.9 14.86 0.128 MHC_I 22 51009381 LS_EBL13 CPT1B 139.6 12.21 0.063 MHC_I 3 49463821 LS_EBL13 NICN1 457.1 10.01 0.154 MHC_I 3 127294066 LS_EBL13 TPRA1 364.1 27.26 0.051 MHC_I 6 151775768 LS_EBL13 C6orf211 154.7 15.03 0.114 MHC_I 9 100675749 LS_EBL13 C9orf156 181.8 12.64 0.214 MHC_I 11 6412879 LS_EBL18 SMPD1 209.6 14.9 0.286 MHC_I 11 68566774 LS_EBL18 CPT1A 193.3 23.55 0.12 MHC_I 14 24658649 LS_EBL18 TM9SF1 80.4 18.95 0.081 MHC_I 16 67477072 LS_EBL18 ATP6V0D1 54.9 100.79 0.16 MHC_I 2 28004495 LS_EBL18 RBKS 117 16.81 0.077 MHC_I 2 32117104 LS_EBL18 MEMO1 6.8 12.28 0.081 MHC_I 9 110249993 LS_EBL18 KLF4 27.4 60.56 0.086 MHC_I 1 150443672 LS_EBL20 RPRD2 104.2 15.97 0.137 MHC_I

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1 151261988 LS_EBL20 ZNF687 208 15.02 0.115 MHC_I 1 197070180 LS_EBL20 ASPM 108.5 11.87 0.176 MHC_I 1 214813895 LS_EBL20 CENPF 375.3 24.94 0.263 MHC_I 10 64893188 LS_EBL20 NRBF2 214.6 26.28 0.173 MHC_I 10 69669079 LS_EBL20 SIRT1 236.2 16.75 0.269 MHC_I 10 102116489 LS_EBL20 SCD 45.5 16.22 0.326 MHC_I 11 1502029 LS_EBL20 MOB2 295 42.17 0.068 MHC_I 11 47595290 LS_EBL20 KBTBD4 136.4 12.11 0.239 MHC_I 11 65367161 LS_EBL20 MAP3K11 393.8 41.19 0.414 MHC_I 11 67413258 LS_EBL20 ACY3 134.7 16.91 0.115 MHC_I 11 74336498 LS_EBL20 POLD3 112.6 16.78 0.172 MHC_I 12 7287957 LS_EBL20 CLSTN3 359.2 14.25 0.097 MHC_I 12 49170986 LS_EBL20 ADCY6 493.3 39.84 0.088 MHC_I 12 51389433 LS_EBL20 SLC11A2 180 31.42 0.082 MHC_I 12 57581052 LS_EBL20 LRP1 302.1 20.18 0.333 MHC_I 12 96131660 LS_EBL20 NTN4 22.8 29.41 0.052 MHC_I 12 113398998 LS_EBL20 OAS3 60.1 19.97 0.233 MHC_I 13 25832766 LS_EBL20 MTMR6 58.4 18.18 0.106 MHC_I 13 86368191 LS_EBL20 SLITRK6 249.5 23.57 0.147 MHC_I 14 32561374 LS_EBL20 ARHGAP5 473.7 27.82 0.154 MHC_I 14 50092499 LS_EBL20 DNAAF2 391.2 13.65 0.094 MHC_I 14 73425409 LS_EBL20 DCAF4 100.9 18.17 0.176 MHC_I 14 74192807 LS_EBL20 ELMSAN1 12 10.56 0.4 MHC_I 14 88904182 LS_EBL20 SPATA7 123.1 13.6 0.2 MHC_I 15 35149234 LS_EBL20 AQR 259.6 25.02 0.073 MHC_I 15 52506872 LS_EBL20 MYO5C 88.7 35.08 0.44 MHC_I 15 57565319 LS_EBL20 TCF12 186.3 39.23 0.426 MHC_I 15 78294061 LS_EBL20 TBC1D2B 22.6 31.67 0.076 MHC_I 16 2034824 LS_EBL20 GFER 44.5 23.79 0.053 MHC_I 16 2256513 LS_EBL20 MLST8 101 46.99 0.32 MHC_I 16 15178538 LS_EBL20 RRN3 34.4 33.48 0.078 MHC_I

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16 19455524 LS_EBL20 TMC5 24.9 25.07 0.271 MHC_I 16 29791468 LS_EBL20 ZG16 407.2 69.24 0.053 MHC_I 16 57685292 LS_EBL20 GPR56 246.9 90.15 0.065 MHC_I 16 87446394 LS_EBL20 ZCCHC14 359.9 13.17 0.407 MHC_I 17 16256369 LS_EBL20 CENPV 169.4 15.07 0.156 MHC_I 17 57644052 LS_EBL20 DHX40 73.9 40.49 0.056 MHC_I 17 60685402 LS_EBL20 TLK2 337.7 14.81 0.241 MHC_I 17 61908527 LS_EBL20 PSMC5 456.9 153.78 0.07 MHC_I 17 72951900 LS_EBL20 HID1 32.9 61.3 0.091 MHC_I 17 73565135 LS_EBL20 LLGL2 48.4 112.45 0.059 MHC_I 17 79077889 LS_EBL20 BAIAP2 439.8 13.45 0.135 MHC_I 18 77894507 LS_EBL20 ADNP2 461.9 13.53 0.217 MHC_I 19 45349844 LS_EBL20 PVRL2 156.7 75.21 0.355 MHC_I 19 53348448 LS_EBL20 ZNF468 252.2 14.91 0.2 MHC_I 2 15746146 LS_EBL20 DDX1 23.5 91.42 0.106 MHC_I 2 25042868 LS_EBL20 ADCY3 75.5 15.38 0.079 MHC_I 2 55906840 LS_EBL20 PNPT1 460.2 17.4 0.109 MHC_I 2 61552564 LS_EBL20 USP34 209.4 20.65 0.407 MHC_I 2 207018393 LS_EBL20 NDUFS1 33.3 58.97 0.086 MHC_I 2 223423144 LS_EBL20 SGPP2 158.5 32.56 0.096 MHC_I 2 228197140 LS_EBL20 MFF 297.6 54.4 0.07 MHC_I 20 3128351 LS_EBL20 FASTKD5 90.9 12.38 0.083 MHC_I 20 31041135 LS_EBL20 C20orf112 52.5 27.74 0.113 MHC_I 20 37580382 LS_EBL20 FAM83D 398.2 34.26 0.067 MHC_I 20 50273482 LS_EBL20 ATP9A 408.5 66.82 0.208 MHC_I 20 62575924 LS_EBL20 UCKL1 101 28.35 0.161 MHC_I 22 21150444 LS_EBL20 PI4KA 128.6 35.15 0.2 MHC_I 3 47125478 LS_EBL20 SETD2 451.1 19.77 0.053 MHC_I 3 49053904 LS_EBL20 DALRD3 275.8 27.63 0.102 MHC_I 3 50356434 LS_EBL20 HYAL2 74.1 40.71 0.234 MHC_I 3 53914055 LS_EBL20 ACTR8 180.2 14.39 0.163 MHC_I

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3 93598132 LS_EBL20 PROS1 87 23.97 0.125 MHC_I 3 101383533 LS_EBL20 ZBTB11 406.1 13.01 0.107 MHC_I 4 1987520 LS_EBL20 NELFA 201.8 23.28 0.416 MHC_I 4 48038104 LS_EBL20 NIPAL1 457 24.24 0.245 MHC_I 4 48559053 LS_EBL20 FRYL 341.4 59.31 0.116 MHC_I 4 123236709 LS_EBL20 KIAA1109 222.6 15.07 0.111 MHC_I 4 159642531 LS_EBL20 PPID 163.3 51.71 0.083 MHC_I 4 184432014 LS_EBL20 ING2 469.2 17.85 0.333 MHC_I 4 184614801 LS_EBL20 TRAPPC11 403.1 23.12 0.078 MHC_I 5 112200429 LS_EBL20 SRP19 46 30.93 0.244 MHC_I 5 114552595 LS_EBL20 PGGT1B 215.7 21.54 0.167 MHC_I 6 44102401 LS_EBL20 TMEM63B 35 35.92 0.265 MHC_I 6 160105934 LS_EBL20 SOD2 223.1 129.95 0.073 MHC_I 7 6845644 LS_EBL20 CCZ1B 170.4 46.5 0.115 MHC_I 7 130135262 LS_EBL20 MEST 93 54.73 0.126 MHC_I 8 21860740 LS_EBL20 XPO7 366 33.9 0.257 MHC_I 8 28633364 LS_EBL20 INTS9 134 17.55 0.143 MHC_I 8 38107309 LS_EBL20 DDHD2 15 16.41 0.2 MHC_I 8 90958486 LS_EBL20 NBN 376.7 31.73 0.071 MHC_I 8 101237499 LS_EBL20 SPAG1 103.4 22.07 0.096 MHC_I 8 145621703 LS_EBL20 CPSF1 417.4 36.35 0.175 MHC_I 9 91961803 LS_EBL20 SECISBP2 87 31.85 0.125 MHC_I 9 101900288 LS_EBL20 TGFBR1 128.6 22.01 0.349 MHC_I 9 104314450 LS_EBL20 RNF20 73.3 28.65 0.074 MHC_I 9 140353513 LS_EBL20 NSMF 114.5 21.5 0.143 MHC_I X 100268679 LS_EBL20 TRMT2B 246.9 18.45 0.182 MHC_I X 100268681 LS_EBL20 TRMT2B 450.6 18.45 0.182 MHC_I 1 85817249 LS_EBL23 DDAH1 69.4 60.41 0.087 MHC_I 1 115226910 LS_EBL23 AMPD1 15.2 12.96 0.111 MHC_I 10 123239442 LS_EBL23 FGFR2 135.2 23.41 0.083 MHC_I 11 64757200 LS_EBL23 BATF2 26.2 14.84 0.136 MHC_I

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11 124495763 LS_EBL23 TBRG1 17.2 11.52 0.087 MHC_I 17 58040212 LS_EBL23 RNFT1 157.7 23.35 0.056 MHC_I 2 190331199 LS_EBL23 WDR75 10.2 16.53 0.075 MHC_I 3 49928891 LS_EBL23 MST1R 138.1 18.14 0.066 MHC_I 5 153755936 LS_EBL23 GALNT10 387 18 0.125 MHC_I 1 169993620 LS_EBL26 KIFAP3 169.3 34.02 0.058 MHC_I 10 135106659 LS_EBL26 TUBGCP2 91 23.96 0.067 MHC_I 11 9812155 LS_EBL26 SBF2 16.6 15.4 0.073 MHC_I 12 9750654 LS_EBL26 KLRB1 150.2 72.48 0.063 MHC_I 14 34419843 LS_EBL26 EGLN3 124.4 36.89 0.1 MHC_I 16 56419902 LS_EBL26 AMFR 56 45.49 0.053 MHC_I 16 67477072 LS_EBL26 ATP6V0D1 54.7 135.75 0.123 MHC_I 19 19758056 LS_EBL26 ATP13A1 14.9 19.62 0.061 MHC_I 19 19767849 LS_EBL26 ATP13A1 269.2 19.62 0.068 MHC_I 2 220089170 LS_EBL26 ATG9A 15.7 30.87 0.059 MHC_I 20 20024245 LS_EBL26 CRNKL1 56.6 20.93 0.072 MHC_I 3 52588824 LS_EBL26 PBRM1 4.6 13.44 0.129 MHC_I 3 56694766 LS_EBL26 FAM208A 112 15.68 0.125 MHC_I 3 171443809 LS_EBL26 PLD1 489.9 27.27 0.061 MHC_I 4 42454006 LS_EBL26 ATP8A1 28.1 33.22 0.054 MHC_I 5 94872769 LS_EBL26 TTC37 82 40.76 0.057 MHC_I 8 48882502 LS_EBL26 MCM4 84.6 26.09 0.09 MHC_I 8 126056809 LS_EBL26 KIAA0196 221.9 31.27 0.059 MHC_I X 2861115 LS_EBL26 ARSE 14.1 67.12 0.062 MHC_I X 96013177 LS_EBL26 DIAPH2 196.1 11.77 0.207 MHC_I X 154741338 LS_EBL26 TMLHE 146.5 18.16 0.115 MHC_I 12 12629910 LS_EBL3 DUSP16 476.5 14.96 0.056 MHC_I 12 71139785 LS_EBL3 PTPRR 295.1 24.37 0.057 MHC_I 12 107371883 LS_EBL3 MTERFD3 312 13.77 0.129 MHC_I 14 92621581 LS_EBL3 CPSF2 28 15 0.123 MHC_I 16 28167413 LS_EBL3 XPO6 83.8 22.96 0.072 MHC_I

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16 28847378 LS_EBL3 ATXN2L 33.8 19.17 0.083 MHC_I 16 67477072 LS_EBL3 ATP6V0D1 20.7 145.32 0.057 MHC_I 17 15878187 LS_EBL3 ADORA2B 77.9 24.38 0.056 MHC_I 17 27182148 LS_EBL3 ERAL1 28.9 50.5 0.065 MHC_I 17 62290764 LS_EBL3 TEX2 22.3 10.91 0.107 MHC_I 18 47110043 LS_EBL3 LIPG 26 10.92 0.075 MHC_I 19 2767580 LS_EBL3 SGTA 418.4 40.23 0.056 MHC_I 19 41826329 LS_EBL3 CCDC97 330.6 11.33 0.167 MHC_I 19 42402722 LS_EBL3 ARHGEF1 354.7 22.61 0.08 MHC_I 2 27601679 LS_EBL3 ZNF513 45.9 20.01 0.103 MHC_I 2 86357778 LS_EBL3 PTCD3 174.5 18.13 0.069 MHC_I 2 97377608 LS_EBL3 LMAN2L 10.1 12.82 0.103 MHC_I 3 133375600 LS_EBL3 TOPBP1 40.1 10.85 0.217 MHC_I 4 152070653 LS_EBL3 SH3D19 283.6 35.35 0.06 MHC_I 4 184572187 LS_EBL3 RWDD4 142.6 20.02 0.051 MHC_I 5 36170455 LS_EBL3 SKP2 329.4 14.74 0.241 MHC_I 6 31762847 LS_EBL3 VARS 309.4 20.87 0.19 MHC_I 6 42994922 LS_EBL3 RRP36 157 41.04 0.07 MHC_I 6 131917102 LS_EBL3 MED23 63.8 11.37 0.133 MHC_I 7 99490177 LS_EBL3 TRIM4 266.4 15.06 0.062 MHC_I X 149814229 LS_EBL3 MTM1 209.8 18.06 0.063 MHC_I 12 6966847 LS_EBL5 USP5 15.7 20.45 0.103 MHC_I 12 50482355 LS_EBL5 SMARCD1 367.4 10.34 0.111 MHC_I 16 2025679 LS_EBL5 TBL3 256.9 10.17 0.111 MHC_I 17 36958403 LS_EBL5 CWC25 77.6 10.53 0.128 MHC_I 3 145828134 LS_EBL5 PLOD2 290.2 14.79 0.069 MHC_I 6 13306706 LS_EBL5 TBC1D7 68.1 23.93 0.062 MHC_I 10 103344393 LS_EBL7 POLL 168.2 16.33 0.111 MHC_I 12 72025969 LS_EBL7 ZFC3H1 33 18.41 0.2 MHC_I 12 107391764 LS_EBL7 CRY1 27.3 10.14 0.192 MHC_I 12 113436141 LS_EBL7 OAS2 71.9 10.66 0.286 MHC_I

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12 124233229 LS_EBL7 ATP6V0A2 242.8 11.16 0.243 MHC_I 14 93720040 LS_EBL7 BTBD7 40.4 15.48 0.091 MHC_I 15 35176905 LS_EBL7 AQR 184.6 21.2 0.059 MHC_I 15 77473399 LS_EBL7 PEAK1 407.2 14.76 0.176 MHC_I 16 15698092 LS_EBL7 KIAA0430 350.4 27.17 0.051 MHC_I 17 40441996 LS_EBL7 STAT5A 67.2 12.91 0.152 MHC_I 17 43192550 LS_EBL7 PLCD3 20.8 147.09 0.071 MHC_I 17 55027396 LS_EBL7 COIL 415.7 17.24 0.15 MHC_I 17 74739518 LS_EBL7 MFSD11 54.2 22.71 0.071 MHC_I 17 80888479 LS_EBL7 TBCD 187.5 21.36 0.068 MHC_I 19 4054678 LS_EBL7 ZBTB7A 145.3 40.83 0.074 MHC_I 2 42909652 LS_EBL7 MTA3 133.3 24.73 0.06 MHC_I 2 86849950 LS_EBL7 RNF103 6.5 68.34 0.053 MHC_I 2 176857119 LS_EBL7 KIAA1715 262.7 20.15 0.103 MHC_I 3 197023258 LS_EBL7 DLG1 69.6 38.2 0.052 MHC_I 4 187000145 LS_EBL7 TLR3 25.6 20.2 0.122 MHC_I 4 187629945 LS_EBL7 FAT1 377.8 37.68 0.093 MHC_I 5 205801 LS_EBL7 CCDC127 194.4 15.48 0.118 MHC_I 5 16794906 LS_EBL7 MYO10 376.1 25.5 0.061 MHC_I 6 17608468 LS_EBL7 FAM8A1 78.1 41.66 0.08 MHC_I 6 36294836 LS_EBL7 C6orf222 15.6 16.18 0.093 MHC_I 6 99347304 LS_EBL7 FBXL4 25.6 11.32 0.125 MHC_I 7 1514377 LS_EBL7 INTS1 92 31.23 0.052 MHC_I 7 2278515 LS_EBL7 FTSJ2 351.1 21.47 0.158 MHC_I 7 11022426 LS_EBL7 PHF14 313.9 16.3 0.194 MHC_I 8 87460494 LS_EBL7 WWP1 263.6 30.64 0.069 MHC_I 9 123538378 LS_EBL7 FBXW2 128.6 18.09 0.091 MHC_I 9 135202094 LS_EBL7 SETX 430.2 18.16 0.109 MHC_I X 129208564 LS_EBL7 ELF4 67.5 44.81 0.138 MHC_I 1 1231863 LS_EBL9 ACAP3 404.6 19.43 0.365 MHC_I 1 1455550 LS_EBL9 ATAD3A 234.8 33.73 0.211 MHC_I

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1 1571750 LS_EBL9 CDK11B 118.2 76.18 0.32 MHC_I 1 2235424 LS_EBL9 SKI 61.6 20.89 0.378 MHC_I 1 11855218 LS_EBL9 MTHFR 46.8 15.18 0.081 MHC_I 1 12343399 LS_EBL9 VPS13D 13.5 13.79 0.087 MHC_I 1 16043236 LS_EBL9 PLEKHM2 69.6 26.95 0.25 MHC_I 1 16456779 LS_EBL9 EPHA2 65.7 21.07 0.27 MHC_I 1 21100060 LS_EBL9 HP1BP3 230 89.2 0.053 MHC_I 1 22050473 LS_EBL9 USP48 273.7 39.19 0.075 MHC_I 1 27736317 LS_EBL9 WASF2 75 76.25 0.231 MHC_I 1 33245822 LS_EBL9 YARS 294.4 38.61 0.294 MHC_I 1 33408010 LS_EBL9 RNF19B 410.5 42.04 0.053 MHC_I 1 35457852 LS_EBL9 ZMYM6 422.8 12.81 0.063 MHC_I 1 44424161 LS_EBL9 IPO13 31.2 15.44 0.449 MHC_I 1 46485343 LS_EBL9 MAST2 404.7 39.35 0.217 MHC_I 1 109200117 LS_EBL9 HENMT1 286.3 27.94 0.087 MHC_I 1 117529557 LS_EBL9 PTGFRN 113.4 42.02 0.167 MHC_I 1 151149169 LS_EBL9 VPS72 7.3 38.61 0.071 MHC_I 1 151849494 LS_EBL9 THEM4 27 10.54 0.051 MHC_I 1 180849235 LS_EBL9 XPR1 9.5 12.11 0.063 MHC_I 1 208390403 LS_EBL9 PLXNA2 280.7 18.61 0.07 MHC_I 1 226016576 LS_EBL9 EPHX1 330 81.22 0.333 MHC_I 1 235298999 LS_EBL9 RBM34 321.1 45.51 0.069 MHC_I 1 236148745 LS_EBL9 NID1 64.9 21.02 0.053 MHC_I 1 236208941 LS_EBL9 NID1 42.6 21.02 0.154 MHC_I 10 24873775 LS_EBL9 ARHGAP21 11.3 33.44 0.272 MHC_I 10 69565358 LS_EBL9 DNAJC12 46.7 40.27 0.054 MHC_I 10 97919840 LS_EBL9 ZNF518A 59.8 19.13 0.176 MHC_I 10 115922769 LS_EBL9 C10orf118 106.8 26.83 0.067 MHC_I 10 120917400 LS_EBL9 SFXN4 172.2 38.6 0.056 MHC_I 10 121595149 LS_EBL9 MCMBP 279.2 36.27 0.061 MHC_I 11 721688 LS_EBL9 EPS8L2 51.2 146.22 0.279 MHC_I

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11 3380754 LS_EBL9 ZNF195 56.9 14.94 0.163 MHC_I 11 57188468 LS_EBL9 SLC43A3 438 14.3 0.091 MHC_I 11 61295413 LS_EBL9 SYT7 35.5 19.83 0.091 MHC_I 11 63667450 LS_EBL9 MARK2 70 43.13 0.136 MHC_I 11 64600378 LS_EBL9 CDC42BPG 10.4 25.31 0.317 MHC_I 11 64645826 LS_EBL9 EHD1 370.5 45.73 0.172 MHC_I 11 64863915 LS_EBL9 VPS51 25.2 63.65 0.068 MHC_I 11 65413964 LS_EBL9 SIPA1 19.8 17.15 0.081 MHC_I 11 67259691 LS_EBL9 PITPNM1 316.3 30.15 0.351 MHC_I 11 72425217 LS_EBL9 ARAP1 34.1 45.84 0.067 MHC_I 11 111594812 LS_EBL9 SIK2 49.6 16.13 0.133 MHC_I 11 118971735 LS_EBL9 DPAGT1 6.1 34.89 0.06 MHC_I 12 475171 LS_EBL9 KDM5A 15.4 14.58 0.12 MHC_I 12 6438503 LS_EBL9 TNFRSF1A 294.9 97.91 0.143 MHC_I 12 26580923 LS_EBL9 ITPR2 16.5 16.37 0.069 MHC_I 12 33049512 LS_EBL9 PKP2 5.2 81.59 0.069 MHC_I 12 56347514 LS_EBL9 DGKA 65.4 54.93 0.151 MHC_I 12 56817128 LS_EBL9 TIMELESS 98.7 23.41 0.07 MHC_I 12 62979217 LS_EBL9 MON2 88.3 14.84 0.079 MHC_I 12 122724459 LS_EBL9 VPS33A 438.5 22.27 0.061 MHC_I 13 26788166 LS_EBL9 RNF6 207 35.68 0.088 MHC_I 13 79940860 LS_EBL9 RBM26 241.4 24.89 0.123 MHC_I 14 20864059 LS_EBL9 TEP1 220.2 24.58 0.093 MHC_I 14 23549379 LS_EBL9 ACIN1 16.1 93.46 0.109 MHC_I 14 24885568 LS_EBL9 NYNRIN 6.2 21.19 0.405 MHC_I 14 61952305 LS_EBL9 PRKCH 298.7 12.06 0.1 MHC_I 14 69376696 LS_EBL9 ACTN1 324.9 68.29 0.051 MHC_I 14 75265068 LS_EBL9 YLPM1 482 17.5 0.23 MHC_I 14 75528445 LS_EBL9 ACYP1 141.4 30.51 0.176 MHC_I 14 95573991 LS_EBL9 DICER1 61.2 29.4 0.068 MHC_I 15 44856787 LS_EBL9 SPG11 299.7 33.07 0.056 MHC_I

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15 49325188 LS_EBL9 SECISBP2L 128.6 18.75 0.261 MHC_I 15 57523401 LS_EBL9 TCF12 62.2 155.93 0.273 MHC_I 15 59964846 LS_EBL9 BNIP2 38.6 26.96 0.081 MHC_I 15 64669047 LS_EBL9 KIAA0101 113.3 23.47 0.066 MHC_I 16 427044 LS_EBL9 TMEM8A 385.6 77.44 0.053 MHC_I 16 570188 LS_EBL9 RAB11FIP3 219.2 22.87 0.152 MHC_I 16 1867176 LS_EBL9 HAGH 22.2 41.18 0.053 MHC_I 16 2126131 LS_EBL9 TSC2 6.7 37.49 0.234 MHC_I 16 2147162 LS_EBL9 PKD1 408.6 20.29 0.107 MHC_I 16 11785542 LS_EBL9 TXNDC11 55 58.72 0.065 MHC_I 16 29856073 LS_EBL9 MVP 264.7 365.36 0.235 MHC_I 16 67227020 LS_EBL9 E2F4 41.8 85.09 0.078 MHC_I 16 89217537 LS_EBL9 ACSF3 287.7 20.39 0.158 MHC_I 17 3851056 LS_EBL9 ATP2A3 64.5 204.38 0.093 MHC_I 17 3967806 LS_EBL9 ZZEF1 126.9 33.84 0.069 MHC_I 17 4439660 LS_EBL9 SPNS2 18 14.22 0.128 MHC_I 17 4793023 LS_EBL9 MINK1 245.7 104.25 0.341 MHC_I 17 7287344 LS_EBL9 TNK1 23.3 16.45 0.294 MHC_I 17 7760107 LS_EBL9 LSMD1 73.5 85.56 0.069 MHC_I 17 8092505 LS_EBL9 C17orf59 145.4 12.72 0.174 MHC_I 17 29632041 LS_EBL9 EVI2B 74.3 37.61 0.083 MHC_I 17 30692357 LS_EBL9 ZNF207 81.1 132.34 0.262 MHC_I 17 34883510 LS_EBL9 MYO19 239.2 44.33 0.344 MHC_I 17 37881332 LS_EBL9 ERBB2 31.3 176.97 0.265 MHC_I 17 40257879 LS_EBL9 DHX58 7.7 10.02 0.1 MHC_I 17 40948220 LS_EBL9 WNK4 14.7 43.13 0.229 MHC_I 17 43531117 LS_EBL9 PLEKHM1 25.9 26.76 0.121 MHC_I 17 58035801 LS_EBL9 RNFT1 75.2 20.5 0.16 MHC_I 17 58541426 LS_EBL9 APPBP2 367.6 15.12 0.089 MHC_I 17 76134212 LS_EBL9 TMC8 6.2 12.49 0.102 MHC_I 18 5423410 LS_EBL9 EPB41L3 295.9 27.07 0.063 MHC_I

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19 625190 LS_EBL9 POLRMT 316.7 24.28 0.109 MHC_I 19 990868 LS_EBL9 WDR18 161 33.71 0.2 MHC_I 19 1255534 LS_EBL9 MIDN 239.2 50.87 0.098 MHC_I 19 1979174 LS_EBL9 CSNK1G2 382 44.56 0.242 MHC_I 19 4328730 LS_EBL9 STAP2 103.3 133.91 0.311 MHC_I 19 10202178 LS_EBL9 C19orf66 9.5 25.87 0.225 MHC_I 19 10439688 LS_EBL9 RAVER1 303.8 41.48 0.175 MHC_I 19 13051678 LS_EBL9 CALR 146.2 891.28 0.134 MHC_I 19 13216116 LS_EBL9 TRMT1 169.2 31.88 0.108 MHC_I 19 13247130 LS_EBL9 NACC1 83.7 36.3 0.244 MHC_I 19 14581010 LS_EBL9 PKN1 47.6 26.51 0.1 MHC_I 19 19459998 LS_EBL9 MAU2 12.5 26.73 0.288 MHC_I 19 33137391 LS_EBL9 ANKRD27 414.2 28.49 0.083 MHC_I 19 46375988 LS_EBL9 FOXA3 3.3 42.7 0.104 MHC_I 19 50059812 LS_EBL9 NOSIP 113.5 75.36 0.367 MHC_I 19 52448812 LS_EBL9 ZNF613 220.2 11.47 0.19 MHC_I 19 55789019 LS_EBL9 HSPBP1 60 42.31 0.057 MHC_I 2 10799303 LS_EBL9 NOL10 33 19.01 0.095 MHC_I 2 43452248 LS_EBL9 ZFP36L2 225.6 206.32 0.162 MHC_I 2 54101570 LS_EBL9 PSME4 27.2 18.72 0.094 MHC_I 2 55470668 LS_EBL9 MTIF2 185.7 55.73 0.057 MHC_I 2 61441772 LS_EBL9 USP34 403.2 25.92 0.163 MHC_I 2 75897272 LS_EBL9 GCFC2 309.6 11.01 0.235 MHC_I 2 120980180 LS_EBL9 TMEM185B 15.2 12.96 0.339 MHC_I 2 159490705 LS_EBL9 PKP4 221 37.38 0.052 MHC_I 2 170460570 LS_EBL9 PPIG 225.1 62.16 0.29 MHC_I 2 230675881 LS_EBL9 TRIP12 129.1 51.12 0.155 MHC_I 20 30897620 LS_EBL9 KIF3B 191.2 36.43 0.247 MHC_I 20 32247356 LS_EBL9 NECAB3 353.8 25.7 0.4 MHC_I 20 33623034 LS_EBL9 TRPC4AP 43.6 68.31 0.055 MHC_I 20 43243243 LS_EBL9 PKIG 304.3 64.79 0.157 MHC_I

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20 49509089 LS_EBL9 ADNP 51.6 39.08 0.097 MHC_I 21 34889364 LS_EBL9 GART 78.3 47.42 0.086 MHC_I 21 43711228 LS_EBL9 ABCG1 38.4 23.71 0.106 MHC_I 22 21984001 LS_EBL9 YDJC 19 18.86 0.471 MHC_I 22 22294047 LS_EBL9 PPM1F 80.6 12.47 0.175 MHC_I 22 36701983 LS_EBL9 MYH9 337.8 335.27 0.057 MHC_I 22 38894446 LS_EBL9 DDX17 37.6 220.77 0.241 MHC_I 22 50659306 LS_EBL9 TUBGCP6 12.5 22.16 0.061 MHC_I 22 50716563 LS_EBL9 PLXNB2 22 153.08 0.106 MHC_I 3 10123118 LS_EBL9 FANCD2 24.8 14.4 0.074 MHC_I 3 13363302 LS_EBL9 NUP210 84.3 22.46 0.26 MHC_I 3 110852822 LS_EBL9 PVRL3 57.5 42.45 0.211 MHC_I 3 110912202 LS_EBL9 PVRL3 364.6 42.45 0.232 MHC_I 3 113218377 LS_EBL9 SPICE1 414.9 11.34 0.079 MHC_I 3 131188575 LS_EBL9 MRPL3 407.3 101.53 0.248 MHC_I 3 148768078 LS_EBL9 HLTF 205.1 15.47 0.125 MHC_I 3 172115129 LS_EBL9 FNDC3B 280.4 32.87 0.056 MHC_I 3 183885810 LS_EBL9 DVL3 395.1 35.49 0.207 MHC_I 3 184294687 LS_EBL9 EPHB3 15.5 81.37 0.073 MHC_I 4 955618 LS_EBL9 DGKQ 468.5 34.7 0.338 MHC_I 4 2934900 LS_EBL9 MFSD10 337.5 40.13 0.194 MHC_I 4 48567607 LS_EBL9 FRYL 48.4 51.86 0.066 MHC_I 4 79793027 LS_EBL9 BMP2K 301.4 20.81 0.065 MHC_I 4 113353595 LS_EBL9 ALPK1 79 12.71 0.138 MHC_I 4 122723894 LS_EBL9 EXOSC9 99 22.91 0.128 MHC_I 4 187549341 LS_EBL9 FAT1 258.9 58.85 0.067 MHC_I 5 306758 LS_EBL9 PDCD6 243.8 182.19 0.324 MHC_I 5 10430040 LS_EBL9 6-Mar 5.2 39.52 0.297 MHC_I 5 36985591 LS_EBL9 NIPBL 198.9 22.28 0.091 MHC_I 5 60050576 LS_EBL9 ELOVL7 15.3 24.32 0.059 MHC_I 5 72851344 LS_EBL9 ANKRA2 216 16.43 0.104 MHC_I

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5 74041570 LS_EBL9 GFM2 185.9 24.57 0.122 MHC_I 5 76745613 LS_EBL9 WDR41 379 18.65 0.08 MHC_I 5 79933757 LS_EBL9 DHFR 374.1 73.04 0.065 MHC_I 5 95234316 LS_EBL9 ELL2 220.4 12.28 0.054 MHC_I 5 130721248 LS_EBL9 CDC42SE2 142.3 88.37 0.218 MHC_I 5 162870695 LS_EBL9 CCNG1 52.9 132.96 0.161 MHC_I 5 177569638 LS_EBL9 RMND5B 469 32.59 0.233 MHC_I 6 31926206 LS_EBL9 NELFE 12.9 84.3 0.41 MHC_I 6 34214562 LS_EBL9 C6orf1 15.6 18.21 0.053 MHC_I 6 39162413 LS_EBL9 KCNK5 329.9 23.33 0.152 MHC_I 6 42937639 LS_EBL9 PEX6 17.3 19.3 0.2 MHC_I 6 42946341 LS_EBL9 PEX6 254.2 19.3 0.109 MHC_I 6 43639557 LS_EBL9 MRPS18A 15.8 90.89 0.109 MHC_I 6 99374699 LS_EBL9 FBXL4 73.9 15.05 0.111 MHC_I 6 151766570 LS_EBL9 RMND1 32.5 21.64 0.091 MHC_I 7 17937003 LS_EBL9 SNX13 392.5 23.47 0.125 MHC_I 7 35053220 LS_EBL9 DPY19L1 51.2 17.98 0.091 MHC_I 7 45140880 LS_EBL9 TBRG4 374.1 78.71 0.312 MHC_I 7 72892029 LS_EBL9 BAZ1B 486.2 38.34 0.071 MHC_I 7 76112243 LS_EBL9 DTX2 7.6 26.95 0.133 MHC_I 7 100488847 LS_EBL9 ACHE 133.2 17.52 0.292 MHC_I 7 143002054 LS_EBL9 CASP2 133.5 31.36 0.333 MHC_I 7 150730730 LS_EBL9 ABCB8 72.8 11.68 0.253 MHC_I 8 22267579 LS_EBL9 SLC39A14 203.7 107.13 0.06 MHC_I 8 41794936 LS_EBL9 KAT6A 7.5 15.89 0.079 MHC_I 8 61765468 LS_EBL9 CHD7 56.4 10.04 0.286 MHC_I 8 62460647 LS_EBL9 ASPH 85 100.53 0.069 MHC_I 8 74529570 LS_EBL9 STAU2 12.9 24.13 0.075 MHC_I 8 134488056 LS_EBL9 ST3GAL1 229.3 12.92 0.138 MHC_I 8 141810636 LS_EBL9 PTK2 175.2 47.62 0.051 MHC_I 8 145111352 LS_EBL9 OPLAH 94.9 19.32 0.104 MHC_I

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9 152043 LS_EBL9 CBWD1 157 16.98 0.5 MHC_I 9 5732473 LS_EBL9 KIAA1432 257.1 11.98 0.3 MHC_I 9 5968945 LS_EBL9 KIAA2026 67.1 10.3 0.167 MHC_I 9 20365672 LS_EBL9 MLLT3 68.4 28.95 0.085 MHC_I 9 77455075 LS_EBL9 TRPM6 395.1 18.5 0.115 MHC_I 9 95030500 LS_EBL9 IARS 41.1 64.53 0.082 MHC_I 9 100437746 LS_EBL9 XPA 206.2 13.76 0.167 MHC_I 9 101589145 LS_EBL9 GALNT12 35.6 104.19 0.179 MHC_I 9 110248156 LS_EBL9 KLF4 43.7 143.31 0.062 MHC_I 9 124118368 LS_EBL9 STOM 21.3 19.91 0.091 MHC_I 9 130869309 LS_EBL9 SLC25A25 150.5 18.31 0.194 MHC_I 9 130984829 LS_EBL9 DNM1 274.8 13.42 0.567 MHC_I 9 134021644 LS_EBL9 NUP214 54.6 27.68 0.263 MHC_I 9 134090719 LS_EBL9 NUP214 365.9 27.68 0.051 MHC_I 9 134458025 LS_EBL9 RAPGEF1 404.6 29.09 0.055 MHC_I X 3544497 LS_EBL9 PRKX 87.5 20.22 0.058 MHC_I X 7252131 LS_EBL9 STS 412.2 14.83 0.178 MHC_I X 39932396 LS_EBL9 BCOR 13.2 17.63 0.073 MHC_I X 114864240 LS_EBL9 PLS3 35.3 26.96 0.089 MHC_I X 152959811 LS_EBL9 SLC6A8 30.3 110.6 0.454 MHC_I X 152981045 LS_EBL9 BCAP31 62.7 310.72 0.27 MHC_I 1 955728 LS_T1 AGRN 250.4 38.67 0.447 MHC_I 1 11182058 LS_T1 MTOR 103.6 17.92 0.079 MHC_I 1 46655596 LS_T1 POMGNT1 45.4 29.79 0.078 MHC_I 1 156252454 LS_T1 SMG5 5 21.54 0.267 MHC_I 1 162769548 LS_T1 HSD17B7 47.8 29.33 0.083 MHC_I 1 220162105 LS_T1 EPRS 95.9 43.79 0.083 MHC_I 10 88820730 LS_T1 GLUD1 291.4 68.66 0.109 MHC_I 11 3707282 LS_T1 NUP98 198.9 25.1 0.122 MHC_I 11 6629392 LS_T1 ILK 33.5 75.69 0.077 MHC_I 11 9983535 LS_T1 SBF2 283.7 10.46 0.435 MHC_I

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11 62496412 LS_T1 TTC9C 14.5 16.17 0.068 MHC_I 12 72036265 LS_T1 ZFC3H1 87.2 18.42 0.409 MHC_I 12 99042471 LS_T1 APAF1 50.9 10.78 0.407 MHC_I 12 121783822 LS_T1 ANAPC5 16 27.53 0.386 MHC_I 12 133249803 LS_T1 POLE 6.5 12 0.071 MHC_I 13 103266498 LS_T1 TPP2 9.3 13.7 0.071 MHC_I 13 103292625 LS_T1 TPP2 94.2 13.7 0.528 MHC_I 13 103330653 LS_T1 TPP2 40.7 13.7 0.339 MHC_I 13 114288254 LS_T1 TFDP1 28.4 22.41 0.456 MHC_I 14 69256455 LS_T1 ZFP36L1 200.2 16.07 0.366 MHC_I 14 77935551 LS_T1 AHSA1 29.2 109.17 0.082 MHC_I 16 1498451 LS_T1 CLCN7 100.6 25.12 0.253 MHC_I 16 2814014 LS_T1 SRRM2 188.9 56.56 0.073 MHC_I 16 9017115 LS_T1 USP7 308.8 31.69 0.08 MHC_I 16 29465368 LS_T1 BOLA2 73.3 158.48 0.138 MHC_I 16 31049934 LS_T1 STX4 124.9 26.6 0.235 MHC_I 16 57111659 LS_T1 NLRC5 85.6 36.72 0.072 MHC_I 16 74666475 LS_T1 RFWD3 80.8 12.54 0.275 MHC_I 17 4619810 LS_T1 ARRB2 6.3 20.19 0.239 MHC_I 17 15984038 LS_T1 NCOR1 315.1 35.91 0.211 MHC_I 17 78355358 LS_T1 RNF213 9.1 129.82 0.31 MHC_I 18 33800145 LS_T1 MOCOS 135.5 23.34 0.333 MHC_I 19 40883695 LS_T1 PLD3 53.8 26.69 0.118 MHC_I 19 45397092 LS_T1 TOMM40 325.4 14.96 0.435 MHC_I 2 32773057 LS_T1 BIRC6 433.3 27.91 0.074 MHC_I 2 46608779 LS_T1 EPAS1 130.3 19.56 0.081 MHC_I 2 99998635 LS_T1 EIF5B 472.8 49.13 0.476 MHC_I 2 128038115 LS_T1 ERCC3 27.1 20.07 0.348 MHC_I 2 169699563 LS_T1 NOSTRIN 159 13.17 0.148 MHC_I 20 2633947 LS_T1 NOP56 284.5 78.19 0.429 MHC_I 20 18516304 LS_T1 SEC23B 125 57.16 0.412 MHC_I

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20 25274828 LS_T1 PYGB 309.9 17.15 0.061 MHC_I 21 34924324 LS_T1 SON 47.2 56.53 0.5 MHC_I 22 24439373 LS_T1 CABIN1 136.2 28.94 0.422 MHC_I 22 41919266 LS_T1 ACO2 123.9 70.03 0.09 MHC_I 22 42606271 LS_T1 TCF20 59.7 13.03 0.286 MHC_I 3 9833114 LS_T1 TADA3 328.8 15.9 0.403 MHC_I 3 47036795 LS_T1 NBEAL2 13.9 15.11 0.154 MHC_I 3 69124637 LS_T1 UBA3 14.9 18.66 0.337 MHC_I 3 110837594 LS_T1 PVRL3 5.1 10.69 0.213 MHC_I 3 122414425 LS_T1 PARP14 109.6 73.63 0.073 MHC_I 3 133327489 LS_T1 TOPBP1 341.8 10.73 0.161 MHC_I 4 435858 LS_T1 ZNF721 97.8 14.19 0.44 MHC_I 5 102249702 LS_T1 PAM 126.5 27.57 0.368 MHC_I 5 131819674 LS_T1 IRF1 131.4 19.1 0.051 MHC_I 5 167943838 LS_T1 RARS 65 51.05 0.287 MHC_I 6 13321256 LS_T1 TBC1D7 19.2 15.97 0.204 MHC_I 6 33655905 LS_T1 ITPR3 1.9 37.11 0.086 MHC_I 6 80910738 LS_T1 BCKDHB 304.3 35 0.231 MHC_I 6 143806363 LS_T1 PEX3 172.7 10.34 0.429 MHC_I 7 100849626 LS_T1 PLOD3 147.7 30.92 0.392 MHC_I 8 118847729 LS_T1 EXT1 188.7 17.96 0.253 MHC_I 8 141407810 LS_T1 TRAPPC9 94.7 23.41 0.073 MHC_I 8 144941319 LS_T1 EPPK1 23.2 26.26 0.535 MHC_I X 76939958 LS_T1 ATRX 167.3 23.41 0.079 MHC_I 1 16462199 LS_T2 EPHA2 160.9 14.37 0.122 MHC_I 1 22965632 LS_T2 C1QA 141 20.92 0.06 MHC_I 1 32782323 LS_T2 HDAC1 28.6 68.91 0.524 MHC_I 1 59248285 LS_T2 JUN 161.1 28.32 0.188 MHC_I 1 89476705 LS_T2 GBP3 99.5 28.79 0.667 MHC_I 1 148010991 LS_T2 NBPF14 422.3 216.46 0.333 MHC_I 1 182822461 LS_T2 DHX9 395.6 96.95 0.17 MHC_I

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1 186329124 LS_T2 TPR 37.6 31.57 0.115 MHC_I 1 245021483 LS_T2 HNRNPU 64.2 58.32 0.5 MHC_I 10 89720812 LS_T2 PTEN 292 18.91 0.322 MHC_I 11 13736194 LS_T2 FAR1 37.1 11.35 0.397 MHC_I 11 34112143 LS_T2 CAPRIN1 26.1 79.47 0.097 MHC_I 11 130066291 LS_T2 ST14 26 95.8 0.319 MHC_I 12 6969641 LS_T2 USP5 249.7 33.3 0.082 MHC_I 12 31255384 LS_T2 DDX11 150.8 24.26 0.067 MHC_I 12 62783404 LS_T2 USP15 52.3 11.05 0.123 MHC_I 14 21875095 LS_T2 CHD8 70.7 10.77 0.115 MHC_I 14 50971538 LS_T2 MAP4K5 291.8 10.73 0.364 MHC_I 14 72128104 LS_T2 SIPA1L1 404.3 12.01 0.146 MHC_I 14 75367836 LS_T2 DLST 187.5 35.13 0.174 MHC_I 14 91948172 LS_T2 SMEK1 43.6 12.16 0.086 MHC_I 14 97299907 LS_T2 VRK1 66.7 37.96 0.128 MHC_I 15 28483285 LS_T2 HERC2 139.8 13.2 0.11 MHC_I 15 42525427 LS_T2 TMEM87A 21.1 36.19 0.079 MHC_I 16 18853054 LS_T2 SMG1 8.7 21.57 0.39 MHC_I 16 28123326 LS_T2 XPO6 97.2 15.66 0.227 MHC_I 16 47727378 LS_T2 PHKB 88.1 32.8 0.238 MHC_I 16 67477072 LS_T2 ATP6V0D1 134.8 18.22 0.149 MHC_I 16 69191061 LS_T2 CIRH1A 68.7 52.52 0.066 MHC_I 16 89337296 LS_T2 ANKRD11 393.1 30.62 0.444 MHC_I 17 7126528 LS_T2 ACADVL 9.6 223.5 0.21 MHC_I 17 7489372 LS_T2 MPDU1 8.3 38.46 0.103 MHC_I 17 7798765 LS_T2 CHD3 106.2 13.48 0.11 MHC_I 17 18781034 LS_T2 PRPSAP2 58.2 14.05 0.173 MHC_I 17 30226715 LS_T2 UTP6 6.7 26.21 0.174 MHC_I 17 38062171 LS_T2 GSDMB 66.9 19.48 0.071 MHC_I 17 40647674 LS_T2 ATP6V0A1 6.5 10.72 0.077 MHC_I 17 42429820 LS_T2 GRN 141.3 92.61 0.293 MHC_I

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17 45750506 LS_T2 KPNB1 10.2 120.22 0.069 MHC_I 17 65353445 LS_T2 PSMD12 316.2 19.88 0.224 MHC_I 17 65907184 LS_T2 BPTF 204.9 14.4 0.184 MHC_I 18 28672130 LS_T2 DSC2 104.8 35.01 0.077 MHC_I 18 46808503 LS_T2 DYM 156.6 20.47 0.2 MHC_I 19 2123363 LS_T2 AP3D1 479.1 13.6 0.464 MHC_I 19 5896999 LS_T2 NDUFA11 87.3 68.3 0.369 MHC_I 19 12849356 LS_T2 ASNA1 174.2 26.25 0.25 MHC_I 19 38782575 LS_T2 SPINT2 26.8 209.19 0.081 MHC_I 19 39959402 LS_T2 SUPT5H 6.7 27.54 0.056 MHC_I 19 40741918 LS_T2 AKT2 27.2 12.16 0.055 MHC_I 2 26332761 LS_T2 RAB10 284.7 12.69 0.172 MHC_I 2 48025788 LS_T2 MSH6 95.4 30.88 0.062 MHC_I 2 96942849 LS_T2 SNRNP200 383.9 65.81 0.07 MHC_I 2 150426516 LS_T2 MMADHC 56 43.77 0.056 MHC_I 2 206997717 LS_T2 NDUFS1 426.5 40.48 0.105 MHC_I 2 223787440 LS_T2 ACSL3 141.5 11.2 0.081 MHC_I 22 44547427 LS_T2 PARVB 14 34.31 0.192 MHC_I 3 37045935 LS_T2 MLH1 162.1 35.66 0.395 MHC_I 3 49051303 LS_T2 WDR6 160.8 17.19 0.278 MHC_I 3 195508858 LS_T2 MUC4 46.2 107.8 0.115 MHC_I 4 56290737 LS_T2 TMEM165 142.5 12.5 0.358 MHC_I 4 76587136 LS_T2 G3BP2 18.1 37.56 0.163 MHC_I 4 151727449 LS_T2 LRBA 413.8 19.05 0.213 MHC_I 4 187629070 LS_T2 FAT1 16.7 58.64 0.186 MHC_I 5 14508359 LS_T2 TRIO 429.3 15.61 0.311 MHC_I 5 36995756 LS_T2 NIPBL 22.5 18.22 0.139 MHC_I 5 67589610 LS_T2 PIK3R1 118.6 11.92 0.144 MHC_I 6 117869454 LS_T2 DCBLD1 233.5 11.49 0.189 MHC_I 7 98552779 LS_T2 TRRAP 16.1 10.55 0.375 MHC_I 7 100635071 LS_T2 MUC12 32.1 263.93 0.083 MHC_I

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8 48883248 LS_T2 MCM4 347.1 22 0.057 MHC_I 9 2119520 LS_T2 SMARCA2 145.8 16.53 0.053 MHC_I 9 34616038 LS_T2 DCTN3 172.5 18.53 0.136 MHC_I 9 79898557 LS_T2 VPS13A 4.7 36.23 0.079 MHC_I 9 131301957 LS_T2 GLE1 43.3 20.26 0.073 MHC_I 9 140137523 LS_T2 TUBB4B 45.1 592.62 0.173 MHC_I X 23724831 LS_T2 ACOT9 227.6 19.87 0.667 MHC_I X 70603863 LS_T2 TAF1 364.5 12.3 0.16 MHC_I 1 8716109 LS_T3 RERE 320 11.11 0.818 MHC_I 1 12378200 LS_T3 VPS13D 33.6 21.35 0.27 MHC_I 1 25573045 LS_T3 C1orf63 52.4 17.9 0.328 MHC_I 1 32852496 LS_T3 BSDC1 258.2 11.07 0.509 MHC_I 1 52704042 LS_T3 ZFYVE9 477.5 15.8 0.423 MHC_I 1 89279305 LS_T3 PKN2 150 25.89 0.429 MHC_I 1 97847999 LS_T3 DPYD 2.8 49.01 0.067 MHC_I 1 151318741 LS_T3 RFX5 53.7 21.85 0.852 MHC_I 1 202911182 LS_T3 ADIPOR1 45.9 11.55 0.103 MHC_I 1 225600231 LS_T3 LBR 54.4 22.13 0.108 MHC_I 10 27493433 LS_T3 ACBD5 27.8 38.81 0.506 MHC_I 10 97385138 LS_T3 ALDH18A1 24.6 32.56 0.091 MHC_I 10 104136818 LS_T3 GBF1 6 31.82 0.333 MHC_I 10 124922211 LS_T3 BUB3 4.1 56.06 0.412 MHC_I 11 429488 LS_T3 ANO9 138.1 22.82 1 MHC_I 11 1255051 LS_T3 MUC5B 113.9 386.77 0.277 MHC_I 11 1268355 LS_T3 MUC5B 11.8 386.77 0.109 MHC_I 11 17118740 LS_T3 PIK3C2A 278.8 13.23 0.362 MHC_I 11 57569589 LS_T3 CTNND1 35.1 35.88 0.183 MHC_I 11 64863791 LS_T3 VPS51 17.5 19.63 0.682 MHC_I 11 64897243 LS_T3 SYVN1 456.8 18.99 0.107 MHC_I 11 93428779 LS_T3 KIAA1731 8.3 18.18 0.127 MHC_I 11 104878041 LS_T3 CASP5 13 16.23 1 MHC_I

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11 126137948 LS_T3 SRPR 45.1 28.06 0.105 MHC_I 12 7047705 LS_T3 ATN1 39.1 21.41 0.455 MHC_I 12 48533655 LS_T3 PFKM 18.6 20.13 0.37 MHC_I 12 57648750 LS_T3 R3HDM2 46.9 20.64 0.444 MHC_I 12 67699482 LS_T3 CAND1 14.5 14.41 0.211 MHC_I 13 73357634 LS_T3 PIBF1 27.7 25.57 0.416 MHC_I 13 103309437 LS_T3 TPP2 122.1 26.6 0.333 MHC_I 14 23549379 LS_T3 ACIN1 35 125.87 0.295 MHC_I 14 24033048 LS_T3 AP1G2 140.6 23.91 0.464 MHC_I 14 24644781 LS_T3 REC8 173.6 16.38 0.053 MHC_I 14 75248388 LS_T3 YLPM1 19.5 22.98 0.417 MHC_I 14 78036776 LS_T3 SPTLC2 44.4 15.49 0.435 MHC_I 14 100826907 LS_T3 WARS 342.4 53.72 0.074 MHC_I 14 102445788 LS_T3 DYNC1H1 6.6 122.21 0.122 MHC_I 15 40226481 LS_T3 EIF2AK4 482.2 20.28 0.465 MHC_I 15 42054541 LS_T3 MGA 4.3 23.17 0.342 MHC_I 15 70976680 LS_T3 UACA 30.2 17.33 0.071 MHC_I 16 15758700 LS_T3 NDE1 29 29.99 0.45 MHC_I 16 30435660 LS_T3 DCTPP1 451 20.2 0.086 MHC_I 16 46695735 LS_T3 VPS35 7.3 27.63 0.059 MHC_I 16 88798170 LS_T3 PIEZO1 8.2 37.29 0.139 MHC_I 16 89718047 LS_T3 CHMP1A 78.1 10.31 0.269 MHC_I 17 1581895 LS_T3 PRPF8 57.4 103.76 0.064 MHC_I 17 7402719 LS_T3 POLR2A 18.4 64.33 0.211 MHC_I 17 7804292 LS_T3 CHD3 130.4 40.73 0.282 MHC_I 17 34036252 LS_T3 AP2B1 71 29.3 0.135 MHC_I 17 38179525 LS_T3 MED24 8.7 13.71 0.261 MHC_I 17 40932962 LS_T3 WNK4 192.8 15.82 0.421 MHC_I 17 40936532 LS_T3 WNK4 23.3 15.82 0.474 MHC_I 17 41603872 LS_T3 DHX8 77.7 23.92 0.625 MHC_I 17 48460506 LS_T3 LRRC59 437.7 51.39 0.353 MHC_I

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17 49067998 LS_T3 SPAG9 148.1 21.9 0.286 MHC_I 17 73518109 LS_T3 TSEN54 391.6 19.26 0.486 MHC_I 17 73566225 LS_T3 LLGL2 203 65.16 0.493 MHC_I 17 80049503 LS_T3 FASN 225.9 40.73 0.508 MHC_I 17 80195589 LS_T3 SLC16A3 175.7 17.32 0.195 MHC_I 18 39647473 LS_T3 PIK3C3 211.8 30.23 0.286 MHC_I 19 2132523 LS_T3 AP3D1 428.3 33.66 0.405 MHC_I 19 3982421 LS_T3 EEF2 133.9 276.46 0.355 MHC_I 19 7593075 LS_T3 MCOLN1 330 10.93 0.5 MHC_I 19 8609230 LS_T3 MYO1F 82.3 16.7 0.121 MHC_I 19 11098558 LS_T3 SMARCA4 32.9 89.28 0.306 MHC_I 19 11326559 LS_T3 DOCK6 13 12.67 0.172 MHC_I 19 11618364 LS_T3 ECSIT 3.1 11.85 0.348 MHC_I 19 12812612 LS_T3 TNPO2 153 11.33 0.416 MHC_I 19 21990979 LS_T3 ZNF43 468.8 15.26 0.714 MHC_I 19 38572578 LS_T3 SIPA1L3 88.5 10.94 0.467 MHC_I 19 40377134 LS_T3 FCGBP 93.9 1165.32 0.091 MHC_I 19 42409122 LS_T3 ARHGEF1 404.2 40.14 0.25 MHC_I 19 46278235 LS_T3 DMPK 24.6 13.1 0.15 MHC_I 19 54669235 LS_T3 TMC4 176 11.65 0.467 MHC_I 2 32706407 LS_T3 BIRC6 3.8 39.37 0.235 MHC_I 2 33813525 LS_T3 FAM98A 26.3 12.76 0.182 MHC_I 2 44145403 LS_T3 LRPPRC 46.7 58.23 0.376 MHC_I 2 46574154 LS_T3 EPAS1 91.3 21.65 0.12 MHC_I 2 54133991 LS_T3 PSME4 5.3 22.45 0.166 MHC_I 2 109087914 LS_T3 GCC2 218.5 41.24 0.315 MHC_I 2 152320541 LS_T3 RIF1 405.7 23.49 0.348 MHC_I 2 157369871 LS_T3 GPD2 7.2 14.1 0.326 MHC_I 2 170460581 LS_T3 PPIG 13.4 47.05 0.365 MHC_I 2 183829479 LS_T3 NCKAP1 38.9 31.75 0.183 MHC_I 2 233194613 LS_T3 DIS3L2 16.7 33.46 0.174 MHC_I

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20 2819288 LS_T3 PCED1A 30.6 16.99 0.051 MHC_I 20 3891287 LS_T3 PANK2 98.9 28.14 0.39 MHC_I 20 16486373 LS_T3 KIF16B 334.9 17.61 0.542 MHC_I 20 44520930 LS_T3 CTSA 16.5 73.52 0.211 MHC_I 20 49196293 LS_T3 PTPN1 16.2 11.4 0.162 MHC_I 20 56139237 LS_T3 PCK1 98 14.43 0.548 MHC_I 21 34619186 LS_T3 IFNAR2 86.8 13.42 0.103 MHC_I 21 34775857 LS_T3 IFNGR2 88.6 31.07 0.226 MHC_I 21 38525560 LS_T3 TTC3 14 42.4 0.229 MHC_I 21 47662805 LS_T3 MCM3AP 15.2 25.06 0.179 MHC_I 22 42032631 LS_T3 XRCC6 94.9 143.05 0.873 MHC_I 22 44392231 LS_T3 SAMM50 176.2 17.54 0.5 MHC_I 3 25657052 LS_T3 TOP2B 30 41.4 0.102 MHC_I 3 41266137 LS_T3 CTNNB1 442.9 209.94 0.752 MHC_I 3 45153647 LS_T3 CDCP1 79.8 21.17 0.469 MHC_I 3 47165283 LS_T3 SETD2 19.4 41.9 0.152 MHC_I 3 48459616 LS_T3 PLXNB1 54.8 15.81 0.458 MHC_I 3 48664386 LS_T3 SLC26A6 47.3 35.08 0.413 MHC_I 3 51718549 LS_T3 TEX264 43.5 11.08 0.452 MHC_I 3 52682395 LS_T3 PBRM1 95.9 17.25 0.106 MHC_I 3 58062841 LS_T3 FLNB 182.5 56.12 0.491 MHC_I 3 69126954 LS_T3 UBA3 24.8 15.84 0.063 MHC_I 3 134251733 LS_T3 CEP63 28.2 17.67 0.221 MHC_I 4 3201572 LS_T3 HTT 183.2 20.81 0.351 MHC_I 4 40439875 LS_T3 RBM47 28.9 12.15 0.224 MHC_I 4 48852045 LS_T3 OCIAD1 37.9 17.83 0.259 MHC_I 4 83785565 LS_T3 SEC31A 30.6 28.36 0.104 MHC_I 4 146059717 LS_T3 OTUD4 21.3 13.01 0.528 MHC_I 4 166231859 LS_T3 KLHL2 15.5 15.63 0.224 MHC_I 5 889726 LS_T3 BRD9 81.1 44.22 0.052 MHC_I 5 5463351 LS_T3 KIAA0947 22.3 16.55 0.494 MHC_I

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5 32404161 LS_T3 ZFR 25.7 18.13 0.211 MHC_I 5 36153056 LS_T3 SKP2 6.6 34.03 0.163 MHC_I 5 86672317 LS_T3 RASA1 289.4 21.95 0.5 MHC_I 5 96322302 LS_T3 LNPEP 127.6 18.91 0.174 MHC_I 5 102493987 LS_T3 PPIP5K2 380.3 15.96 0.489 MHC_I 5 145887465 LS_T3 TCERG1 148.5 71.6 0.173 MHC_I 5 157214668 LS_T3 CLINT1 38.2 39.64 0.057 MHC_I 6 25495373 LS_T3 LRRC16A 292.5 36.61 0.382 MHC_I 6 33273073 LS_T3 TAPBP 3.4 35.16 0.212 MHC_I 6 33384467 LS_T3 CUTA 45.9 30.71 0.07 MHC_I 6 41552550 LS_T3 FOXP4 28.8 11 0.276 MHC_I 6 88313235 LS_T3 ORC3 420.2 12.48 0.31 MHC_I 6 90432675 LS_T3 MDN1 148.4 20.22 0.444 MHC_I 6 128312479 LS_T3 PTPRK 123.4 23.48 0.552 MHC_I 6 131924228 LS_T3 MED23 214.3 16.61 0.297 MHC_I 7 1513920 LS_T3 INTS1 183.3 18.01 0.222 MHC_I 7 27187076 LS_T3 HOXA6 232.3 13.62 0.357 MHC_I 7 44664075 LS_T3 OGDH 82.5 41.52 0.231 MHC_I 7 65439343 LS_T3 GUSB 104.6 45.94 0.287 MHC_I 7 76134854 LS_T3 DTX2 24.7 31.88 0.488 MHC_I 7 91957188 LS_T3 ANKIB1 224.2 17.07 0.295 MHC_I 7 95750624 LS_T3 SLC25A13 382.3 16.68 0.333 MHC_I 7 97939854 LS_T3 BAIAP2L1 3.3 22.74 0.333 MHC_I 7 100867051 LS_T3 ZNHIT1 20.4 21.02 0.466 MHC_I 7 106924081 LS_T3 COG5 10.2 35.19 0.426 MHC_I 7 139829301 LS_T3 JHDM1D 57.2 16.49 0.443 MHC_I 7 140482927 LS_T3 BRAF 58.7 22.15 0.327 MHC_I 7 143078672 LS_T3 ZYX 98.1 25.8 0.321 MHC_I 8 23148931 LS_T3 R3HCC1 47.6 35.3 0.216 MHC_I 8 62475367 LS_T3 ASPH 2.9 44.96 0.323 MHC_I 8 68163617 LS_T3 ARFGEF1 89.3 22.72 0.072 MHC_I

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8 120220743 LS_T3 MAL2 403.9 15.98 0.579 MHC_I 8 124384893 LS_T3 ATAD2 5.5 36.35 0.158 MHC_I 8 144943007 LS_T3 EPPK1 52.5 37.51 0.525 MHC_I 9 35801960 LS_T3 NPR2 39.6 11.2 0.412 MHC_I 9 99113417 LS_T3 SLC35D2 32.2 10.42 0.326 MHC_I 9 130929153 LS_T3 CIZ1 83.8 27.39 0.31 MHC_I 9 131222859 LS_T3 ODF2 71.9 57.23 0.386 MHC_I 9 132581100 LS_T3 TOR1A 46.3 14.86 0.457 MHC_I 9 140075271 LS_T3 ANAPC2 89.4 13.92 0.409 MHC_I X 47072566 LS_T3 UBA1 81.3 191.54 0.496 MHC_I X 57405179 LS_T3 FAAH2 320.4 15.19 1 MHC_I X 152960039 LS_T3 SLC6A8 18.4 14.72 0.127 MHC_I 1 14109058 FAP_G13 PRDM2 38.89 15.95 0.195 MHC_II 1 78207400 FAP_G13 USP33 243.71 40.93 0.063 MHC_II 1 166818356 FAP_G13 POGK 7.07 28.79 0.115 MHC_II 1 185089552 FAP_G13 TRMT1L 29.14 13.52 0.062 MHC_II 10 105495507 FAP_G13 SH3PXD2A 41.2 26.72 0.075 MHC_II 10 114917781 FAP_G13 TCF7L2 197.45 31.06 0.385 MHC_II 10 126451032 FAP_G13 METTL10 15.21 11.28 0.156 MHC_II 11 18359735 FAP_G13 GTF2H1 154.13 26.13 0.083 MHC_II 11 33106641 FAP_G13 CSTF3 204.86 33.78 0.062 MHC_II 11 46703602 FAP_G13 ARHGAP1 41.42 50.23 0.081 MHC_II 12 6672818 FAP_G13 NOP2 210.57 22.13 0.051 MHC_II 12 21626520 FAP_G13 RECQL 416.67 16.91 0.096 MHC_II 12 48084336 FAP_G13 RPAP3 19.38 17.27 0.099 MHC_II 12 59281595 FAP_G13 LRIG3 3.78 25.92 0.057 MHC_II 12 109522775 FAP_G13 USP30 73.78 14.55 0.111 MHC_II 13 24411739 FAP_G13 MIPEP 25.03 30.56 0.07 MHC_II 13 37619398 FAP_G13 SUPT20H 307.64 23.24 0.088 MHC_II 14 24459558 FAP_G13 DHRS4L2 119.58 41.19 0.076 MHC_II 14 24878811 FAP_G13 NYNRIN 34.28 14.77 0.2 MHC_II

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14 31637582 FAP_G13 HECTD1 12.83 37.33 0.061 MHC_II 14 31814322 FAP_G13 HEATR5A 33.6 13.62 0.103 MHC_II 14 90397941 FAP_G13 EFCAB11 36.67 17.84 0.125 MHC_II 15 25620790 FAP_G13 UBE3A 3.55 33.77 0.058 MHC_II 15 28474843 FAP_G13 HERC2 104.1 12.08 0.3 MHC_II 15 89836004 FAP_G13 FANCI 147.48 18.56 0.056 MHC_II 16 53260373 FAP_G13 CHD9 174.7 12.97 0.316 MHC_II 16 84600531 FAP_G13 COTL1 16.85 62.39 0.062 MHC_II 17 15978875 FAP_G13 NCOR1 56.42 35.98 0.052 MHC_II 17 16052812 FAP_G13 NCOR1 28.71 35.98 0.284 MHC_II 17 73515123 FAP_G13 TSEN54 26.38 28.04 0.105 MHC_II 18 44426713 FAP_G13 PIAS2 20.11 17.68 0.057 MHC_II 19 15378305 FAP_G13 BRD4 196.32 16.67 0.084 MHC_II 2 18736845 FAP_G13 RDH14 239.44 28.11 0.07 MHC_II 2 27601679 FAP_G13 ZNF513 19.9 20.73 0.097 MHC_II 2 88892839 FAP_G13 EIF2AK3 34.72 21.62 0.2 MHC_II 2 203420129 FAP_G13 BMPR2 135.16 11.76 0.125 MHC_II 2 203420129 FAP_G13 BMPR2 135.16 11.76 0.088 MHC_II 2 203420129 FAP_G13 BMPR2 130.09 11.76 0.125 MHC_II 2 203420129 FAP_G13 BMPR2 130.09 11.76 0.088 MHC_II 22 43253147 FAP_G13 ARFGAP3 4.06 41.63 0.136 MHC_II 3 97686274 FAP_G13 MINA 71.31 13.28 0.069 MHC_II 3 193382704 FAP_G13 OPA1 38.66 40.16 0.09 MHC_II 3 194146150 FAP_G13 ATP13A3 8.49 38.68 0.078 MHC_II 4 42445639 FAP_G13 ATP8A1 40.94 32.05 0.083 MHC_II 4 110454749 FAP_G13 SEC24B 36.4 25.94 0.106 MHC_II 4 169195168 FAP_G13 DDX60 96.08 13.86 0.091 MHC_II 5 40798239 FAP_G13 PRKAA1 49.18 46.73 0.236 MHC_II 5 55237518 FAP_G13 IL6ST 284.27 25.11 0.055 MHC_II 5 87501638 FAP_G13 TMEM161B 14.06 18.72 0.133 MHC_II 5 180374756 FAP_G13 BTNL8 58.19 35.07 0.182 MHC_II

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6 106967244 FAP_G13 AIM1 82.38 42.29 0.078 MHC_II 6 110530369 FAP_G13 CDC40 251.98 23.12 0.13 MHC_II 7 11030370 FAP_G13 PHF14 462.35 25.94 0.145 MHC_II 7 38812211 FAP_G13 VPS41 112.42 27.08 0.091 MHC_II 7 50514060 FAP_G13 FIGNL1 63.47 10.89 0.257 MHC_II 7 89856719 FAP_G13 STEAP2 7.38 12.33 0.25 MHC_II 7 100029007 FAP_G13 MEPCE 27.13 33.76 0.354 MHC_II 7 108155329 FAP_G13 PNPLA8 8.59 17.9 0.075 MHC_II 8 41806778 FAP_G13 KAT6A 118.64 11.77 0.167 MHC_II 8 57224787 FAP_G13 SDR16C5 36.64 12.66 0.051 MHC_II 8 90993682 FAP_G13 NBN 185.84 32.04 0.07 MHC_II 8 104336991 FAP_G13 FZD6 426.49 22.3 0.107 MHC_II 9 94171750 FAP_G13 NFIL3 458.76 19.71 0.063 MHC_II X 48933235 FAP_G13 WDR45 363.43 36.36 0.589 MHC_II X 153649069 FAP_G13 TAZ 116.09 18.17 0.097 MHC_II 1 113232137 FAP_G14 MOV10 242.1 25.63 0.067 MHC_II 1 200017380 FAP_G14 NR5A2 88.16 20.44 0.169 MHC_II 1 204399080 FAP_G14 PIK3C2B 10.61 27.52 0.073 MHC_II 1 247014141 FAP_G14 AHCTF1 51.59 13.29 0.068 MHC_II 10 53458999 FAP_G14 CSTF2T 254.35 19.72 0.067 MHC_II 10 69565516 FAP_G14 DNAJC12 264.18 51.08 0.078 MHC_II 10 97916170 FAP_G14 ZNF518A 358.18 17.03 0.152 MHC_II 10 112661364 FAP_G14 BBIP1 37.9 12.76 0.136 MHC_II 10 114911552 FAP_G14 TCF7L2 8.84 34.08 0.174 MHC_II 11 16892700 FAP_G14 PLEKHA7 252.68 14.5 0.115 MHC_II 11 45935395 FAP_G14 PEX16 8.61 21.15 0.064 MHC_II 11 47376999 FAP_G14 SPI1 328.92 13.97 0.075 MHC_II 11 64597015 FAP_G14 CDC42BPG 25.73 18.07 0.07 MHC_II 11 71148862 FAP_G14 DHCR7 15.72 25.73 0.098 MHC_II 11 111915865 FAP_G14 DLAT 12.21 31.41 0.059 MHC_II 12 57553691 FAP_G14 LRP1 127.57 39.52 0.057 MHC_II

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12 57553693 FAP_G14 LRP1 38.31 39.52 0.057 MHC_II 12 117583969 FAP_G14 FBXO21 178.8 27.69 0.054 MHC_II 14 35262064 FAP_G14 BAZ1A 69.2 20.46 0.235 MHC_II 14 50933311 FAP_G14 MAP4K5 258.29 22.13 0.093 MHC_II 14 74345900 FAP_G14 PTGR2 73.78 17.5 0.135 MHC_II 15 25584316 FAP_G14 UBE3A 29.85 35.9 0.098 MHC_II 15 30011997 FAP_G14 TJP1 98.63 22.67 0.083 MHC_II 15 34527447 FAP_G14 SLC12A6 30.59 13.77 0.1 MHC_II 15 52524825 FAP_G14 MYO5C 21.5 32.53 0.067 MHC_II 15 63918192 FAP_G14 HERC1 58.12 10.35 0.068 MHC_II 15 66729114 FAP_G14 MAP2K1 20.1 37.36 0.111 MHC_II 15 82533696 FAP_G14 EFTUD1 36.46 32.27 0.069 MHC_II 16 10850578 FAP_G14 NUBP1 17.77 37.6 0.052 MHC_II 16 50134245 FAP_G14 HEATR3 18.9 16.5 0.256 MHC_II 17 34866606 FAP_G14 MYO19 31.27 22.81 0.06 MHC_II 17 36966833 FAP_G14 CWC25 59.58 16.02 0.273 MHC_II 17 48423632 FAP_G14 XYLT2 302.54 29.8 0.074 MHC_II 18 9211730 FAP_G14 ANKRD12 75.07 12.4 0.115 MHC_II 18 9557253 FAP_G14 PPP4R1 66.82 35.17 0.073 MHC_II 19 5832557 FAP_G14 FUT6 144.37 32.93 0.051 MHC_II 19 10662968 FAP_G14 ATG4D 13.83 21.75 0.099 MHC_II 2 54115918 FAP_G14 PSME4 14.06 21.23 0.066 MHC_II 2 73996405 FAP_G14 DUSP11 31.84 29.42 0.072 MHC_II 20 62195118 FAP_G14 HELZ2 17.88 10.53 0.12 MHC_II 3 97686274 FAP_G14 MINA 71.31 15.39 0.091 MHC_II 3 101383533 FAP_G14 ZBTB11 52.11 12.47 0.115 MHC_II 3 123451781 FAP_G14 MYLK 187.43 37.07 0.15 MHC_II 3 182575785 FAP_G14 ATP11B 473.81 44.71 0.098 MHC_II 3 193382704 FAP_G14 OPA1 38.66 36.44 0.105 MHC_II 5 55237518 FAP_G14 IL6ST 284.27 29.05 0.056 MHC_II 5 87521593 FAP_G14 TMEM161B 127.73 18.6 0.114 MHC_II

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6 82459438 FAP_G14 FAM46A 246.98 20.98 0.115 MHC_II 6 99347304 FAP_G14 FBXL4 26.09 14.68 0.073 MHC_II 7 89856719 FAP_G14 STEAP2 7.38 11.82 0.227 MHC_II 7 91503179 FAP_G14 MTERF 9.62 11.64 0.1 MHC_II 8 90993682 FAP_G14 NBN 185.84 27.41 0.063 MHC_II 8 144808528 FAP_G14 FAM83H 24.42 30.45 0.057 MHC_II 1 9305562 FAP_G15 H6PD 239.44 34.89 0.067 MHC_II 1 78187733 FAP_G15 USP33 26.8 41.87 0.051 MHC_II 1 150970159 FAP_G15 FAM63A 163.87 27.83 0.067 MHC_II 10 103432680 FAP_G15 FBXW4 24.18 52.22 0.052 MHC_II 11 232991 FAP_G15 SIRT3 20.43 17.71 0.08 MHC_II 11 14882799 FAP_G15 PDE3B 387.89 19.52 0.408 MHC_II 11 121475905 FAP_G15 SORL1 52.04 68.69 0.129 MHC_II 12 1702238 FAP_G15 FBXL14 11.07 24.29 0.057 MHC_II 12 57135291 FAP_G15 PRIM1 105.19 16.46 0.171 MHC_II 12 88436652 FAP_G15 C12orf29 141.06 13.53 0.077 MHC_II 12 100502184 FAP_G15 UHRF1BP1L 108.15 10.2 0.238 MHC_II 12 102159871 FAP_G15 GNPTAB 98.37 61.1 0.054 MHC_II 12 118814506 FAP_G15 SUDS3 51.81 37.27 0.087 MHC_II 13 31725288 FAP_G15 HSPH1 330.81 44.27 0.08 MHC_II 14 23598945 FAP_G15 SLC7A8 35.35 53.34 0.055 MHC_II 14 92253887 FAP_G15 TC2N 7.54 53.54 0.065 MHC_II 16 14711479 FAP_G15 PARN 26.36 31.53 0.081 MHC_II 16 18569061 FAP_G15 NOMO2 80.86 50.77 0.2 MHC_II 16 23546280 FAP_G15 EARS2 178.22 19.75 0.525 MHC_II 16 57269044 FAP_G15 RSPRY1 13.29 30.37 0.111 MHC_II 17 2139867 FAP_G15 SMG6 9.37 15.08 0.082 MHC_II 19 11453495 FAP_G15 TMEM205 42.45 98.76 0.12 MHC_II 19 12856300 FAP_G15 ASNA1 21.69 89.15 0.107 MHC_II 19 35174128 FAP_G15 ZNF302 71.19 25.12 0.122 MHC_II 2 11389837 FAP_G15 ROCK2 49.77 63.26 0.143 MHC_II

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2 229890569 FAP_G15 PID1 246.43 43.38 0.064 MHC_II 2 230668773 FAP_G15 TRIP12 26.62 49.34 0.513 MHC_II 2 242157717 FAP_G15 ANO7 35.26 34.7 0.053 MHC_II 3 63981867 FAP_G15 ATXN7 39.52 11.12 0.143 MHC_II 3 97686274 FAP_G15 MINA 71.31 15.12 0.088 MHC_II 3 100091451 FAP_G15 TOMM70A 24.89 60.81 0.082 MHC_II 3 126178529 FAP_G15 ZXDC 27.82 15.66 0.114 MHC_II 3 139346515 FAP_G15 NMNAT3 12.56 11.64 0.143 MHC_II 3 145799525 FAP_G15 PLOD2 70.12 48.11 0.081 MHC_II 3 184922464 FAP_G15 EHHADH 53.8 28.73 0.063 MHC_II 4 110454749 FAP_G15 SEC24B 36.4 28.84 0.173 MHC_II 4 129028341 FAP_G15 LARP1B 233.59 23.45 0.157 MHC_II 4 153864507 FAP_G15 FHDC1 49.05 17.1 0.409 MHC_II 5 36117881 FAP_G15 LMBRD2 9.73 13.94 0.107 MHC_II 5 52161600 FAP_G15 ITGA1 231.8 12.31 0.222 MHC_II 5 54555685 FAP_G15 DHX29 78.7 20.19 0.081 MHC_II 5 55237518 FAP_G15 IL6ST 284.27 22.74 0.059 MHC_II 5 72858434 FAP_G15 ANKRA2 16.85 32.07 0.053 MHC_II 6 33289004 FAP_G15 DAXX 42.06 38.14 0.059 MHC_II 6 33289005 FAP_G15 DAXX 41.9 38.14 0.059 MHC_II 6 41877149 FAP_G15 MED20 27.3 21.61 0.068 MHC_II 6 83891512 FAP_G15 PGM3 93.88 29.17 0.054 MHC_II 6 106967244 FAP_G15 AIM1 82.38 47.85 0.091 MHC_II 6 110530369 FAP_G15 CDC40 251.98 24.98 0.159 MHC_II 6 139264691 FAP_G15 REPS1 20.15 26.94 0.125 MHC_II 6 149916207 FAP_G15 KATNA1 286.41 16.21 0.078 MHC_II 7 94164724 FAP_G15 CASD1 49.79 27.21 0.061 MHC_II 7 138210057 FAP_G15 TRIM24 62.16 23.25 0.171 MHC_II 8 30469841 FAP_G15 GTF2E2 218.92 38.84 0.052 MHC_II 9 18143 FAP_G15 WASH1 62.64 13.99 0.667 MHC_II 9 26886129 FAP_G15 CAAP1 162.99 37.85 0.058 MHC_II

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9 33469518 FAP_G15 NOL6 15.66 14.05 0.064 MHC_II 9 140247215 FAP_G15 EXD3 5.78 10.59 0.333 MHC_II X 74293781 FAP_G15 ABCB7 4.49 29.81 0.098 MHC_II X 119005930 FAP_G15 NDUFA1 3.84 630.54 0.261 MHC_II X 129290502 FAP_G15 AIFM1 48.49 67.64 0.052 MHC_II 1 35321023 FAP_G2 SMIM12 82.42 15.42 0.06 MHC_II 1 54675779 FAP_G2 MRPL37 77.87 118.46 0.472 MHC_II 1 68948427 FAP_G2 DEPDC1 128 10.25 0.258 MHC_II 1 91405165 FAP_G2 ZNF644 52.8 30.02 0.079 MHC_II 1 163318806 FAP_G2 NUF2 349.64 14.53 0.111 MHC_II 1 229601235 FAP_G2 NUP133 25.9 25.53 0.068 MHC_II 1 247014141 FAP_G2 AHCTF1 51.59 12.41 0.077 MHC_II 10 79397185 FAP_G2 KCNMA1 157.48 13.34 0.079 MHC_II 10 86130816 FAP_G2 CCSER2 35.78 15.28 0.143 MHC_II 10 123721542 FAP_G2 NSMCE4A 93.5 66.2 0.294 MHC_II 12 27183115 FAP_G2 MED21 198.73 30.94 0.135 MHC_II 12 57466593 FAP_G2 TMEM194A 98.01 10.58 0.094 MHC_II 12 64828647 FAP_G2 XPOT 8.02 35.35 0.055 MHC_II 12 69127236 FAP_G2 NUP107 10.8 29.78 0.197 MHC_II 12 109921682 FAP_G2 UBE3B 10.03 22.01 0.054 MHC_II 13 26956961 FAP_G2 CDK8 48.64 22.23 0.344 MHC_II 14 23420864 FAP_G2 HAUS4 8.16 58.19 0.529 MHC_II 14 36018352 FAP_G2 RALGAPA1 10.65 18.59 0.143 MHC_II 14 93730184 FAP_G2 BTBD7 32.37 19.33 0.137 MHC_II 15 62256915 FAP_G2 VPS13C 30.7 21.81 0.095 MHC_II 16 4924668 FAP_G2 UBN1 6.91 20.31 0.075 MHC_II 16 18896453 FAP_G2 SMG1 234.51 29.03 0.121 MHC_II 16 22343403 FAP_G2 POLR3E 14.65 22.59 0.088 MHC_II 16 67654615 FAP_G2 CTCF 78.71 36.96 0.392 MHC_II 16 67765377 FAP_G2 RANBP10 226.58 16.07 0.125 MHC_II 17 2371076 FAP_G2 METTL16 23.09 10.86 0.24 MHC_II

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17 70120292 FAP_G2 SOX9 192.53 108.13 0.084 MHC_II 18 46904984 FAP_G2 DYM 32.11 25.2 0.082 MHC_II 19 51537237 FAP_G2 KLK12 18.34 46.81 0.059 MHC_II 2 100020923 FAP_G2 REV1 29.54 21.71 0.053 MHC_II 2 152316604 FAP_G2 RIF1 95.8 11.56 0.25 MHC_II 2 153004779 FAP_G2 STAM2 39.48 19.03 0.065 MHC_II 2 200137130 FAP_G2 SATB2 29.91 47.34 0.057 MHC_II 20 2816762 FAP_G2 PCED1A 151.17 23.16 0.224 MHC_II 20 5559030 FAP_G2 GPCPD1 323.57 27.63 0.107 MHC_II 3 33626305 FAP_G2 CLASP2 35.13 13.32 0.075 MHC_II 3 33650077 FAP_G2 CLASP2 28.04 13.32 0.115 MHC_II 3 42602714 FAP_G2 SEC22C 47.03 18.05 0.132 MHC_II 3 81720070 FAP_G2 GBE1 23.63 18.15 0.119 MHC_II 4 22415377 FAP_G2 GPR125 8.33 41.27 0.052 MHC_II 4 49030709 FAP_G2 CWH43 174.77 25.45 0.08 MHC_II 4 129099754 FAP_G2 LARP1B 345.79 21.03 0.385 MHC_II 5 94872769 FAP_G2 TTC37 10.15 40.26 0.053 MHC_II 5 132161715 FAP_G2 SHROOM1 27.43 42.76 0.056 MHC_II 5 148904673 FAP_G2 CSNK1A1 14.49 146.13 0.51 MHC_II 5 162911199 FAP_G2 HMMR 21.68 23.16 0.071 MHC_II 6 111310240 FAP_G2 RPF2 39.98 45.73 0.115 MHC_II 6 157521938 FAP_G2 ARID1B 62.54 16.9 0.059 MHC_II 7 99506230 FAP_G2 TRIM4 48.49 19.96 0.064 MHC_II 7 156589160 FAP_G2 LMBR1 9.8 21.28 0.169 MHC_II 8 38645095 FAP_G2 TACC1 50.81 41.97 0.118 MHC_II 8 98656927 FAP_G2 MTDH 22.72 42.57 0.053 MHC_II 8 145745966 FAP_G2 LRRC14 30.69 12.77 0.167 MHC_II 9 95064054 FAP_G2 NOL8 52.44 22.11 0.053 MHC_II X 100297083 FAP_G2 TRMT2B 162.27 21.28 0.078 MHC_II X 100880075 FAP_G2 ARMCX3 12.67 46.16 0.075 MHC_II X 148582538 FAP_G2 IDS 343.21 28.43 0.223 MHC_II

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1 39377044 FAP_G25 RHBDL2 23.43 43.83 0.056 MHC_II 1 45110738 FAP_G25 RNF220 181.83 24.37 0.063 MHC_II 1 91403063 FAP_G25 ZNF644 24.11 33.2 0.158 MHC_II 10 27497188 FAP_G25 ACBD5 16.37 18.5 0.081 MHC_II 11 64534502 FAP_G25 SF1 110.4 49.1 0.055 MHC_II 12 51385382 FAP_G25 SLC11A2 9.6 15.23 0.136 MHC_II 15 49429376 FAP_G25 COPS2 71.32 32.4 0.091 MHC_II 15 55526991 FAP_G25 RAB27A 85.68 39.35 0.069 MHC_II 15 83208738 FAP_G25 RPS17L 18.73 3787.42 0.115 MHC_II 15 91485796 FAP_G25 UNC45A 235.81 17.98 0.125 MHC_II 16 67477072 FAP_G25 ATP6V0D1 24.08 89.15 0.093 MHC_II 17 79077889 FAP_G25 BAIAP2 282.09 10.15 0.22 MHC_II 18 29125877 FAP_G25 DSG2 25.9 59.37 0.137 MHC_II 19 45281268 FAP_G25 CBLC 62.79 39.82 0.103 MHC_II 2 65480928 FAP_G25 ACTR2 58.73 72.64 0.065 MHC_II 2 148705769 FAP_G25 ORC4 171.11 20.62 0.135 MHC_II 2 160628445 FAP_G25 CD302 58.12 14.27 0.122 MHC_II 2 166615346 FAP_G25 GALNT3 292.19 46.85 0.079 MHC_II 3 125725303 FAP_G25 SLC41A3 33.19 16.44 0.063 MHC_II 3 136664927 FAP_G25 NCK1 19.4 31.44 0.06 MHC_II 4 159606334 FAP_G25 ETFDH 167.23 18.36 0.073 MHC_II 5 96512898 FAP_G25 RIOK2 40.28 13.3 0.073 MHC_II 5 138386631 FAP_G25 SIL1 342.03 40.81 0.057 MHC_II 5 141248154 FAP_G25 PCDH1 239.37 15.19 0.214 MHC_II 6 31112664 FAP_G25 CCHCR1 109.23 22.03 0.062 MHC_II 6 106696039 FAP_G25 ATG5 12.36 33.66 0.055 MHC_II 1 87026013 FAP_G29 CLCA4 127.04 148.2 0.079 MHC_II 10 88197701 FAP_G29 WAPAL 313.67 10.33 0.077 MHC_II 10 95454638 FAP_G29 FRA10AC1 39.13 12.02 0.105 MHC_II 12 27110626 FAP_G29 FGFR1OP2 16.18 19.51 0.057 MHC_II 14 92251705 FAP_G29 TC2N 144.97 28.55 0.164 MHC_II

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15 44055275 FAP_G29 PDIA3 105.26 395.96 0.061 MHC_II 17 28819761 FAP_G29 GOSR1 369.15 18.08 0.318 MHC_II 2 187365006 FAP_G29 ZC3H15 307.2 65.89 0.116 MHC_II 22 46098591 FAP_G29 ATXN10 364.95 40.9 0.115 MHC_II 3 136664927 FAP_G29 NCK1 163.97 23.2 0.099 MHC_II 3 180328073 FAP_G29 TTC14 50.2 15.5 0.171 MHC_II 4 103189225 FAP_G29 SLC39A8 77.15 67.39 0.189 MHC_II 4 146044645 FAP_G29 ABCE1 56.01 20.92 0.146 MHC_II 5 54675005 FAP_G29 SKIV2L2 114.4 20.64 0.167 MHC_II 5 179046273 FAP_G29 HNRNPH1 32.17 247.53 0.054 MHC_II 6 76412560 FAP_G29 SENP6 68.65 12.43 0.135 MHC_II X 101408997 FAP_G29 BEX5 27.52 14.31 0.062 MHC_II 1 35480655 FAP_G3 ZMYM6 441.75 14.27 0.186 MHC_II 1 43829648 FAP_G3 ELOVL1 89.84 102.59 0.316 MHC_II 1 51048344 FAP_G3 FAF1 13.39 28.76 0.13 MHC_II 1 154523916 FAP_G3 UBE2Q1 10.88 45.07 0.241 MHC_II 1 180010325 FAP_G3 CEP350 30.32 10.02 0.176 MHC_II 11 65337966 FAP_G3 SSSCA1 437.68 49.71 0.343 MHC_II 11 68367959 FAP_G3 PPP6R3 66.01 42.02 0.075 MHC_II 14 20852771 FAP_G3 TEP1 46.42 15 0.231 MHC_II 14 36018352 FAP_G3 RALGAPA1 10.65 16.13 0.222 MHC_II 14 74179453 FAP_G3 PNMA1 163.95 13.63 0.083 MHC_II 14 92471831 FAP_G3 TRIP11 391.22 11.94 0.12 MHC_II 14 93760617 FAP_G3 BTBD7 33.68 14.94 0.13 MHC_II 15 40854986 FAP_G3 C15orf57 229.94 31.43 0.058 MHC_II 15 51028847 FAP_G3 SPPL2A 46.98 41.25 0.063 MHC_II 15 64066970 FAP_G3 HERC1 151.98 10.49 0.176 MHC_II 15 64747205 FAP_G3 TRIP4 72.69 28.17 0.058 MHC_II 17 5456709 FAP_G3 NLRP1 62.76 14.62 0.115 MHC_II 17 7466865 FAP_G3 SENP3 53.35 32.92 0.345 MHC_II 18 21523784 FAP_G3 LAMA3 48.1 12.24 0.514 MHC_II

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18 32825609 FAP_G3 ZNF397 139.01 22.24 0.075 MHC_II 18 32920554 FAP_G3 ZNF24 481.1 32.46 0.057 MHC_II 19 55559835 FAP_G3 RDH13 10.12 20.65 0.075 MHC_II 3 43641915 FAP_G3 ANO10 138.45 23.31 0.07 MHC_II 3 113627925 FAP_G3 GRAMD1C 85.79 10.49 0.188 MHC_II 3 133666227 FAP_G3 SLCO2A1 6.44 27.34 0.059 MHC_II 5 139903713 FAP_G3 ANKHD1 22.56 31.09 0.137 MHC_II 5 139903713 FAP_G3 ANKHD1- 22.56 14.92 0.137 MHC_II EIF4EBP3 6 170880560 FAP_G3 TBP 2.61 18.57 0.057 MHC_II 8 38123661 FAP_G3 PPAPDC1B 71.45 82.58 0.051 MHC_II 9 8341758 FAP_G3 PTPRD 107.96 28.7 0.053 MHC_II 9 86617646 FAP_G3 RMI1 132.29 11.44 0.362 MHC_II X 100630169 FAP_G3 BTK 13.8 15.11 0.13 MHC_II 11 43350325 FAP_G39 API5 168.45 38.09 0.053 MHC_II 11 65655423 FAP_G39 FIBP 21.66 40.14 0.069 MHC_II 12 29496096 FAP_G39 ERGIC2 101.04 41.83 0.089 MHC_II 14 35050806 FAP_G39 SNX6 141.23 65.27 0.067 MHC_II 15 59961170 FAP_G39 BNIP2 111.17 17.6 0.103 MHC_II 16 15091639 FAP_G39 PDXDC1 50.42 81.94 0.085 MHC_II 16 89960161 FAP_G39 TCF25 93.27 63.79 0.107 MHC_II 17 38243083 FAP_G39 THRA 65.96 18.51 0.096 MHC_II 19 18391846 FAP_G39 JUND 14.34 62.94 0.053 MHC_II 2 183703146 FAP_G39 FRZB 207.48 19.01 0.06 MHC_II 2 191161637 FAP_G39 HIBCH 335.21 78.7 0.065 MHC_II 2 223489444 FAP_G39 FARSB 475.17 39.33 0.094 MHC_II 22 23915577 FAP_G39 IGLL1 27.88 211.7 0.333 MHC_II 3 58302694 FAP_G39 RPP14 66.18 16.42 0.108 MHC_II 3 129155643 FAP_G39 MBD4 307.36 20.43 0.175 MHC_II 3 193382704 FAP_G39 OPA1 36.82 19.71 0.094 MHC_II 3 195250490 FAP_G39 PPP1R2 376.33 31.13 0.053 MHC_II 5 64100142 FAP_G39 CWC27 187.77 19.15 0.125 MHC_II

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5 171638950 FAP_G39 UBTD2 447.28 13.4 0.233 MHC_II 6 160196216 FAP_G39 ACAT2 199.73 56.1 0.131 MHC_II 8 24250842 FAP_G39 ADAMDEC1 161.3 124.35 0.08 MHC_II X 70516490 FAP_G39 NONO 102.2 89.47 0.067 MHC_II 1 29365810 FAP_G47 EPB41 67.65 20.93 0.067 MHC_II 1 47173603 FAP_G47 EFCAB14 136.11 38.21 0.061 MHC_II 1 85397050 FAP_G47 MCOLN2 175.41 13.43 0.12 MHC_II 1 146672923 FAP_G47 FMO5 232.21 22.88 0.075 MHC_II 10 93021137 FAP_G47 PCGF5 11.67 76.48 0.121 MHC_II 10 105344440 FAP_G47 NEURL 322.22 12.1 0.5 MHC_II 11 58384775 FAP_G47 ZFP91 475.62 33.5 0.104 MHC_II 11 82880952 FAP_G47 PCF11 237.77 19.52 0.178 MHC_II 12 21661479 FAP_G47 GOLT1B 121.36 34.61 0.068 MHC_II 12 44148162 FAP_G47 PUS7L 56.16 14.61 0.075 MHC_II 12 69650513 FAP_G47 CPSF6 98.65 25.35 0.167 MHC_II 13 75876414 FAP_G47 TBC1D4 168.95 11.29 0.073 MHC_II 14 55643819 FAP_G47 DLGAP5 330.46 22.26 0.161 MHC_II 14 72128104 FAP_G47 SIPA1L1 170.94 12.29 0.185 MHC_II 14 104026258 FAP_G47 BAG5 197.93 15.28 0.087 MHC_II 15 59406800 FAP_G47 CCNB2 108.21 38.36 0.063 MHC_II 16 50120248 FAP_G47 HEATR3 167.01 22.17 0.101 MHC_II 16 58608633 FAP_G47 CNOT1 129.54 29.13 0.143 MHC_II 16 67477072 FAP_G47 ATP6V0D1 56.73 59.57 0.224 MHC_II 17 29226335 FAP_G47 TEFM 83.79 34.94 0.057 MHC_II 18 260212 FAP_G47 THOC1 40.37 26.78 0.074 MHC_II 18 19283545 FAP_G47 ABHD3 92.33 70.39 0.053 MHC_II 18 33691076 FAP_G47 SLC39A6 116.41 17.03 0.061 MHC_II 2 37487371 FAP_G47 PRKD3 6.93 13.93 0.091 MHC_II 2 70315174 FAP_G47 PCBP1 164.78 170.51 0.056 MHC_II 2 71592563 FAP_G47 ZNF638 107.47 38.18 0.17 MHC_II 2 95787497 FAP_G47 MRPS5 142.05 55.5 0.053 MHC_II

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2 148715877 FAP_G47 ORC4 249.11 37.31 0.051 MHC_II 2 159488390 FAP_G47 PKP4 208.45 21.12 0.057 MHC_II 20 5560674 FAP_G47 GPCPD1 43.63 37.79 0.098 MHC_II 3 88205388 FAP_G47 C3orf38 23.86 26.37 0.052 MHC_II 3 170108207 FAP_G47 SKIL 80.73 32.27 0.055 MHC_II 4 77065549 FAP_G47 NUP54 82.42 48.53 0.056 MHC_II 4 114378536 FAP_G47 CAMK2D 339.44 26.59 0.056 MHC_II 4 128814503 FAP_G47 PLK4 137.55 12.41 0.086 MHC_II 5 41934329 FAP_G47 FBXO4 431.99 23.58 0.061 MHC_II 5 54645466 FAP_G47 SKIV2L2 297.27 45.99 0.092 MHC_II 5 114860048 FAP_G47 FEM1C 30.04 17.96 0.063 MHC_II 7 86826041 FAP_G47 TMEM243 139.06 41.75 0.051 MHC_II 7 112424712 FAP_G47 TMEM168 35.23 39.57 0.052 MHC_II 7 156589130 FAP_G47 LMBR1 181.16 16 0.079 MHC_II 9 130331099 FAP_G47 FAM129B 104.28 70.06 0.051 MHC_II X 129270623 FAP_G47 AIFM1 107.8 39.2 0.075 MHC_II 1 47024412 FAP_G48 MKNK1 41.95 12.28 0.07 MHC_II 1 47024413 FAP_G48 MKNK1 42.83 12.28 0.07 MHC_II 1 51005336 FAP_G48 FAF1 84.89 14 0.167 MHC_II 10 32576151 FAP_G48 EPC1 39.31 19.73 0.055 MHC_II 11 2950399 FAP_G48 PHLDA2 191.88 23.01 0.051 MHC_II 11 58384775 FAP_G48 ZFP91 475.62 32.27 0.139 MHC_II 11 82880952 FAP_G48 PCF11 237.77 17.95 0.2 MHC_II 11 114578178 FAP_G48 NXPE2 134.48 18.1 0.154 MHC_II 12 6729762 FAP_G48 LPAR5 101.23 13.8 0.081 MHC_II 12 10783652 FAP_G48 STYK1 23.42 15.56 0.111 MHC_II 12 69650513 FAP_G48 CPSF6 98.65 21.85 0.111 MHC_II 12 105589066 FAP_G48 APPL2 93.9 33.1 0.075 MHC_II 12 122825968 FAP_G48 CLIP1 88.79 11.02 0.083 MHC_II 12 133353236 FAP_G48 GOLGA3 392.76 14 0.051 MHC_II 14 31917387 FAP_G48 DTD2 303.82 17.27 0.051 MHC_II

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15 35274372 FAP_G48 ZNF770 253.21 17.88 0.087 MHC_II 16 2263739 FAP_G48 PGP 227.21 13.27 0.074 MHC_II 16 15978045 FAP_G48 FOPNL 16.98 41.95 0.06 MHC_II 16 46695692 FAP_G48 VPS35 22.97 74.72 0.052 MHC_II 16 50120248 FAP_G48 HEATR3 167.01 21.89 0.117 MHC_II 16 58608633 FAP_G48 CNOT1 129.54 27.16 0.077 MHC_II 16 67477072 FAP_G48 ATP6V0D1 56.73 78.5 0.101 MHC_II 16 68267962 FAP_G48 ESRP2 213.97 39.35 0.06 MHC_II 17 38567938 FAP_G48 TOP2A 110.35 23.53 0.073 MHC_II 17 67260965 FAP_G48 ABCA5 102.32 15.75 0.055 MHC_II 18 260212 FAP_G48 THOC1 40.37 21.34 0.1 MHC_II 18 59757761 FAP_G48 PIGN 325.2 20.76 0.068 MHC_II 19 4054669 FAP_G48 ZBTB7A 10.79 21.11 0.086 MHC_II 19 9525024 FAP_G48 ZNF266 120.5 14.37 0.068 MHC_II 19 33984213 FAP_G48 PEPD 52.01 32.07 0.058 MHC_II 2 20455795 FAP_G48 PUM2 50.38 40.94 0.062 MHC_II 2 47403651 FAP_G48 CALM2 11.94 1934.99 0.25 MHC_II 2 74688604 FAP_G48 MOGS 38.8 27.5 0.052 MHC_II 2 100011002 FAP_G48 EIF5B 355.37 21.04 0.114 MHC_II 2 148715877 FAP_G48 ORC4 249.11 36.37 0.08 MHC_II 2 176857119 FAP_G48 KIAA1715 67.73 10.58 0.118 MHC_II 20 5560674 FAP_G48 GPCPD1 43.63 25.26 0.069 MHC_II 21 34132173 FAP_G48 PAXBP1 217.33 22.77 0.119 MHC_II 21 34892778 FAP_G48 GART 161.83 31.86 0.093 MHC_II 4 99808294 FAP_G48 EIF4E 90.95 64.03 0.063 MHC_II 7 92085807 FAP_G48 GATAD1 174.01 17.58 0.061 MHC_II 9 95992134 FAP_G48 WNK2 19.26 12.89 0.125 MHC_II 1 21220014 FAP_G5 EIF4G3 151.42 34.36 0.082 MHC_II 1 35919168 FAP_G5 KIAA0319L 51.93 38.26 0.082 MHC_II 1 52280223 FAP_G5 NRD1 295.52 70.68 0.091 MHC_II 1 154229586 FAP_G5 UBAP2L 31.94 50.77 0.067 MHC_II

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1 201983065 FAP_G5 ELF3 26.84 448.41 0.393 MHC_II 10 47919971 FAP_G5 FAM21B 29.04 18.08 0.107 MHC_II 10 75299276 FAP_G5 USP54 69.66 33.91 0.056 MHC_II 11 43465666 FAP_G5 TTC17 263.56 35.65 0.097 MHC_II 11 60670256 FAP_G5 PRPF19 77.53 118.1 0.405 MHC_II 12 30789957 FAP_G5 IPO8 230.75 35.91 0.051 MHC_II 12 50482355 FAP_G5 SMARCD1 103.65 28.35 0.108 MHC_II 12 62798030 FAP_G5 USP15 289.35 19.95 0.155 MHC_II 12 65141513 FAP_G5 GNS 220.56 53.32 0.115 MHC_II 12 107371383 FAP_G5 MTERFD3 85.19 19.53 0.292 MHC_II 12 110451041 FAP_G5 ANKRD13A 174.57 25.09 0.11 MHC_II 12 124104224 FAP_G5 DDX55 271.15 18.19 0.476 MHC_II 14 32561020 FAP_G5 ARHGAP5 188.41 28.35 0.132 MHC_II 14 50074402 FAP_G5 LRR1 226.46 28.08 0.15 MHC_II 14 55817786 FAP_G5 FBXO34 21.82 59.19 0.06 MHC_II 15 31233717 FAP_G5 MTMR10 50.78 20.23 0.085 MHC_II 15 41046816 FAP_G5 RMDN3 473.65 40.05 0.06 MHC_II 15 64669047 FAP_G5 KIAA0101 271.81 22.14 0.061 MHC_II 16 1498438 FAP_G5 CLCN7 233.91 18.96 0.073 MHC_II 16 67943066 FAP_G5 PSKH1 369.73 29.78 0.053 MHC_II 16 72138457 FAP_G5 DHX38 267.95 32.13 0.129 MHC_II 17 12853004 FAP_G5 ARHGAP44 60.08 27.83 0.405 MHC_II 17 27438740 FAP_G5 MYO18A 70.5 35.03 0.196 MHC_II 17 40870508 FAP_G5 EZH1 88.06 15.82 0.188 MHC_II 17 62528008 FAP_G5 CEP95 226.26 19.18 0.147 MHC_II 18 18539865 FAP_G5 ROCK1 23.84 21.97 0.164 MHC_II 18 72913415 FAP_G5 ZADH2 247.85 25.12 0.065 MHC_II 19 804596 FAP_G5 PTBP1 37.78 152.43 0.336 MHC_II 19 10257082 FAP_G5 DNMT1 25.73 23.23 0.093 MHC_II 2 11356307 FAP_G5 ROCK2 433.54 64.11 0.107 MHC_II 2 39213243 FAP_G5 SOS1 251.79 14.79 0.18 MHC_II

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2 54122754 FAP_G5 PSME4 331.5 30.28 0.078 MHC_II 2 61441220 FAP_G5 USP34 130.87 22.81 0.268 MHC_II 2 113331215 FAP_G5 POLR1B 295.26 22.01 0.14 MHC_II 2 174228145 FAP_G5 CDCA7 166.03 87.71 0.082 MHC_II 2 191161637 FAP_G5 HIBCH 490.12 37.95 0.052 MHC_II 2 231307748 FAP_G5 SP100 353.99 38.38 0.1 MHC_II 20 9318697 FAP_G5 PLCB4 105.97 74.35 0.053 MHC_II 21 34110493 FAP_G5 PAXBP1 64.5 25.96 0.068 MHC_II 3 9412837 FAP_G5 THUMPD3 47.74 31.51 0.091 MHC_II 3 38263085 FAP_G5 OXSR1 391.59 32.08 0.111 MHC_II 3 47719691 FAP_G5 SMARCC1 138.02 51.58 0.057 MHC_II 3 49200321 FAP_G5 CCDC71 88.91 19.01 0.064 MHC_II 3 56702472 FAP_G5 FAM208A 26.54 22.72 0.065 MHC_II 3 101383533 FAP_G5 ZBTB11 224.73 15.67 0.143 MHC_II 3 107798852 FAP_G5 CD47 94.27 39.38 0.065 MHC_II 3 122437236 FAP_G5 PARP14 418.89 21.79 0.164 MHC_II 3 160148986 FAP_G5 SMC4 104 31.42 0.065 MHC_II 3 182810260 FAP_G5 MCCC1 317.81 36.17 0.108 MHC_II 4 56724578 FAP_G5 EXOC1 176.12 47.24 0.053 MHC_II 4 90035281 FAP_G5 TIGD2 199.99 11.44 0.222 MHC_II 4 102117109 FAP_G5 PPP3CA 105.62 37.53 0.053 MHC_II 4 107133947 FAP_G5 TBCK 92.85 16.35 0.116 MHC_II 4 159816976 FAP_G5 FNIP2 469.6 20.14 0.063 MHC_II 5 60053357 FAP_G5 ELOVL7 12.78 20.86 0.107 MHC_II 5 68687681 FAP_G5 RAD17 142.77 25.05 0.148 MHC_II 6 25529084 FAP_G5 LRRC16A 45.69 28.26 0.055 MHC_II 6 52268214 FAP_G5 PAQR8 105.87 88.16 0.284 MHC_II 6 109322505 FAP_G5 SESN1 34.5 32.18 0.061 MHC_II 7 99490177 FAP_G5 TRIM4 264.36 27.64 0.053 MHC_II 7 112424712 FAP_G5 TMEM168 17.79 52.53 0.065 MHC_II 7 127970910 FAP_G5 RBM28 53.45 24.6 0.059 MHC_II

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8 90967511 FAP_G5 NBN 276.99 31.11 0.183 MHC_II 9 5811133 FAP_G5 ERMP1 155.28 34.68 0.136 MHC_II X 122755071 FAP_G5 THOC2 180.38 25.47 0.095 MHC_II 1 31766071 FAP_G53 SNRNP40 183.75 27.8 0.094 MHC_II 1 91405165 FAP_G53 ZNF644 170.39 31.75 0.104 MHC_II 1 172579236 FAP_G53 SUCO 212.1 18.09 0.074 MHC_II 1 222802633 FAP_G53 MIA3 190.42 17.34 0.167 MHC_II 10 15255510 FAP_G53 FAM171A1 305.51 27.48 0.065 MHC_II 10 24909895 FAP_G53 ARHGAP21 56.63 23.26 0.093 MHC_II 10 38343543 FAP_G53 ZNF33A 135.69 25.01 0.064 MHC_II 10 47000081 FAP_G53 GPRIN2 146.91 24.29 0.16 MHC_II 10 88227154 FAP_G53 WAPAL 211.64 18.29 0.056 MHC_II 10 126454016 FAP_G53 METTL10 126.87 11.67 0.092 MHC_II 11 3794866 FAP_G53 NUP98 485.93 16.67 0.167 MHC_II 11 77413469 FAP_G53 RSF1 483.67 10.75 0.115 MHC_II 12 29496096 FAP_G53 ERGIC2 116.98 51.18 0.056 MHC_II 12 30833472 FAP_G53 IPO8 111.14 22.16 0.103 MHC_II 12 57648788 FAP_G53 R3HDM2 98.83 15.17 0.1 MHC_II 14 45675309 FAP_G53 MIS18BP1 264.12 12.88 0.083 MHC_II 15 25584316 FAP_G53 UBE3A 72.79 31.53 0.076 MHC_II 15 45408409 FAP_G53 DUOXA2 14.89 65.2 0.435 MHC_II 15 59455377 FAP_G53 MYO1E 70.4 27.58 0.053 MHC_II 15 65472500 FAP_G53 CLPX 197.02 33.55 0.056 MHC_II 16 11873075 FAP_G53 ZC3H7A 115.75 18.73 0.094 MHC_II 16 74530385 FAP_G53 GLG1 403.95 21.91 0.105 MHC_II 17 5392612 FAP_G53 MIS12 200.43 16.04 0.058 MHC_II 17 5392614 FAP_G53 MIS12 38.16 16.04 0.056 MHC_II 17 60038270 FAP_G53 MED13 298.56 14.08 0.095 MHC_II 19 50985463 FAP_G53 EMC10 207.2 126.54 0.053 MHC_II 19 55610399 FAP_G53 PPP1R12C 304.1 37.36 0.116 MHC_II 2 88876108 FAP_G53 EIF2AK3 140 17.3 0.07 MHC_II

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20 34241753 FAP_G53 RBM12 39.49 15.58 0.111 MHC_II 20 43615935 FAP_G53 STK4 305.43 11.71 0.107 MHC_II 22 50898397 FAP_G53 SBF1 22.89 25.18 0.13 MHC_II 3 49053638 FAP_G53 DALRD3 460.19 20.99 0.061 MHC_II 3 58256683 FAP_G53 ABHD6 228.83 22.25 0.154 MHC_II 3 125725917 FAP_G53 SLC41A3 57.07 26.16 0.057 MHC_II 3 127394887 FAP_G53 ABTB1 72.41 26.93 0.067 MHC_II 4 84393409 FAP_G53 FAM175A 127.97 10.76 0.071 MHC_II 4 146044645 FAP_G53 ABCE1 47.06 27.31 0.111 MHC_II 5 143537991 FAP_G53 YIPF5 153.13 39.58 0.063 MHC_II 5 157162895 FAP_G53 THG1L 44.9 25.64 0.135 MHC_II 6 17765056 FAP_G53 KIF13A 217.82 37.1 0.075 MHC_II 6 42937639 FAP_G53 PEX6 77.14 11.98 0.115 MHC_II 6 74354277 FAP_G53 SLC17A5 109.19 50.68 0.074 MHC_II 6 80878721 FAP_G53 BCKDHB 168.56 37.24 0.068 MHC_II 7 1588176 FAP_G53 TMEM184A 22.95 15.21 0.071 MHC_II 8 124266478 FAP_G53 ZHX1 133.1 20.2 0.069 MHC_II 9 123538378 FAP_G53 FBXW2 199.72 14.43 0.073 MHC_II 1 27621110 FAP_G55 WDTC1 101.39 25.4 0.085 MHC_II 1 144923722 FAP_G55 PDE4DIP 378.62 19.86 0.052 MHC_II 1 231044470 FAP_G55 TTC13 57.62 20.44 0.096 MHC_II 10 32120676 FAP_G55 ARHGAP12 55.21 33.42 0.083 MHC_II 11 68029126 FAP_G55 C11orf24 236.21 31.36 0.055 MHC_II 12 432248 FAP_G55 KDM5A 137.65 10.25 0.227 MHC_II 12 27183115 FAP_G55 MED21 242.45 26.36 0.1 MHC_II 12 29496096 FAP_G55 ERGIC2 116.98 46.28 0.065 MHC_II 12 64816983 FAP_G55 XPOT 171.27 22.7 0.146 MHC_II 12 67663535 FAP_G55 CAND1 214.41 39.35 0.108 MHC_II 12 108941677 FAP_G55 SART3 353.67 14.26 0.143 MHC_II 14 36192335 FAP_G55 RALGAPA1 42.5 15.54 0.107 MHC_II 17 40476850 FAP_G55 STAT3 20.96 50.34 0.081 MHC_II

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2 54122754 FAP_G55 PSME4 281 15.49 0.115 MHC_II 20 45853164 FAP_G55 ZMYND8 262.65 18.87 0.078 MHC_II 22 41833246 FAP_G55 TOB2 128.56 26.09 0.085 MHC_II 3 194152560 FAP_G55 ATP13A3 267.99 38.31 0.076 MHC_II 5 131039787 FAP_G55 FNIP1 114.73 10.33 0.176 MHC_II 5 133295258 FAP_G55 C5orf15 206.77 60.93 0.06 MHC_II 6 74354277 FAP_G55 SLC17A5 109.19 58.57 0.086 MHC_II 6 168272981 FAP_G55 MLLT4 130.32 72.52 0.053 MHC_II 7 92730738 FAP_G55 SAMD9 172.22 29.33 0.122 MHC_II 7 99490177 FAP_G55 TRIM4 264.36 21.62 0.058 MHC_II 7 108112925 FAP_G55 PNPLA8 459.09 21.98 0.12 MHC_II 9 95004492 FAP_G55 IARS 27.17 23.23 0.055 MHC_II X 118979205 FAP_G55 UPF3B 211.22 13.32 0.167 MHC_II 1 11155838 FAP_G6 EXOSC10 244.88 44.48 0.06 MHC_II 1 52280223 FAP_G6 NRD1 295.52 61.38 0.082 MHC_II 1 70705133 FAP_G6 SRSF11 136.81 110.15 0.055 MHC_II 1 86842004 FAP_G6 ODF2L 68.73 30.54 0.12 MHC_II 1 145368619 FAP_G6 NBPF10 105.45 12.93 0.113 MHC_II 10 70725198 FAP_G6 DDX21 129.46 41.34 0.181 MHC_II 10 75290100 FAP_G6 USP54 435.41 31.75 0.081 MHC_II 10 99969326 FAP_G6 R3HCC1L 191.32 19.37 0.158 MHC_II 11 10875015 FAP_G6 ZBED5 336.44 39.45 0.053 MHC_II 11 43465666 FAP_G6 TTC17 263.56 34.92 0.096 MHC_II 11 64594831 FAP_G6 CDC42BPG 34.17 22.24 0.053 MHC_II 11 70218481 FAP_G6 PPFIA1 89.3 27.18 0.068 MHC_II 12 51389433 FAP_G6 SLC11A2 107.64 43.79 0.089 MHC_II 12 62798030 FAP_G6 USP15 289.35 19.05 0.156 MHC_II 12 64816983 FAP_G6 XPOT 225.75 31 0.095 MHC_II 12 90020290 FAP_G6 ATP2B1 149.34 33.19 0.066 MHC_II 12 110451041 FAP_G6 ANKRD13A 174.57 45.15 0.072 MHC_II 13 97986624 FAP_G6 MBNL2 138.85 29.65 0.098 MHC_II

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15 49304896 FAP_G6 SECISBP2L 150.25 18.29 0.133 MHC_II 16 11873075 FAP_G6 ZC3H7A 115.75 26.45 0.063 MHC_II 16 15178538 FAP_G6 RRN3 37.67 33.05 0.064 MHC_II 16 22343403 FAP_G6 POLR3E 134.96 20.02 0.088 MHC_II 16 72138457 FAP_G6 DHX38 267.95 27.24 0.111 MHC_II 17 27438740 FAP_G6 MYO18A 70.5 37.19 0.2 MHC_II 18 18539865 FAP_G6 ROCK1 23.84 21.94 0.109 MHC_II 19 7702069 FAP_G6 STXBP2 44.73 99.84 0.1 MHC_II 19 19906229 FAP_G6 ZNF506 92.66 16 0.091 MHC_II 19 40392499 FAP_G6 FCGBP 31.36 322.08 0.065 MHC_II 2 11356307 FAP_G6 ROCK2 433.54 52.78 0.068 MHC_II 2 37486763 FAP_G6 PRKD3 107.4 15.43 0.077 MHC_II 2 39213243 FAP_G6 SOS1 251.79 16.72 0.098 MHC_II 2 86357778 FAP_G6 PTCD3 323.66 27.07 0.061 MHC_II 2 88888285 FAP_G6 EIF2AK3 268.94 30.09 0.061 MHC_II 2 158152993 FAP_G6 GALNT5 327.08 78.27 0.095 MHC_II 20 6060206 FAP_G6 FERMT1 46.37 62.98 0.056 MHC_II 3 9876962 FAP_G6 TTLL3 77.41 12.36 0.093 MHC_II 3 25647591 FAP_G6 TOP2B 136.86 59.03 0.127 MHC_II 3 38263085 FAP_G6 OXSR1 391.59 29.16 0.123 MHC_II 3 136287629 FAP_G6 STAG1 50.71 24.43 0.111 MHC_II 4 69816847 FAP_G6 UGT2A3 65.62 66.84 0.055 MHC_II 4 190873406 FAP_G6 FRG1 190.98 50.64 0.057 MHC_II 5 68408981 FAP_G6 SLC30A5 340.12 40.77 0.099 MHC_II 5 127474360 FAP_G6 SLC12A2 153.86 102.38 0.057 MHC_II 6 13632610 FAP_G6 RANBP9 79.97 26.14 0.091 MHC_II 6 114181549 FAP_G6 MARCKS 203.29 129.49 0.061 MHC_II 7 91724401 FAP_G6 AKAP9 392.07 53.21 0.056 MHC_II 7 117292925 FAP_G6 CFTR 14.08 93.9 0.062 MHC_II 9 5811133 FAP_G6 ERMP1 155.28 35.79 0.088 MHC_II 9 6887960 FAP_G6 KDM4C 401.16 21.83 0.231 MHC_II

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9 32544122 FAP_G6 TOPORS 333.59 15.13 0.333 MHC_II 9 72933855 FAP_G6 SMC5 225.75 30.06 0.113 MHC_II 9 140099512 FAP_G6 TMEM203 24.25 30.24 0.054 MHC_II X 2408462 FAP_G6 ZBED1 60.64 28.78 0.053 MHC_II X 122755071 FAP_G6 THOC2 180.38 26.38 0.086 MHC_II 1 19644274 FAP_G61 PQLC2 184.02 10.01 0.333 MHC_II 1 40312897 FAP_G61 TRIT1 430.81 24.64 0.113 MHC_II 1 58999868 FAP_G61 OMA1 35.42 29.73 0.069 MHC_II 10 27409370 FAP_G61 YME1L1 61.53 84.12 0.113 MHC_II 10 112055084 FAP_G61 SMNDC1 436.24 32.06 0.118 MHC_II 10 114912131 FAP_G61 TCF7L2 192.54 42.84 0.096 MHC_II 11 70218481 FAP_G61 PPFIA1 85.6 26.85 0.074 MHC_II 11 96104236 FAP_G61 CCDC82 95.92 15.38 0.068 MHC_II 12 59271483 FAP_G61 LRIG3 419.96 30.65 0.085 MHC_II 12 116421103 FAP_G61 MED13L 198.46 18.33 0.125 MHC_II 13 39616313 FAP_G61 NHLRC3 294.29 28.46 0.065 MHC_II 13 40233534 FAP_G61 COG6 56.62 19.11 0.133 MHC_II 13 48985899 FAP_G61 LPAR6 156.89 22.77 0.094 MHC_II 14 58832276 FAP_G61 ARID4A 366.25 11.61 0.088 MHC_II 14 95566244 FAP_G61 DICER1 482.9 26.07 0.068 MHC_II 14 102452081 FAP_G61 DYNC1H1 97.81 45.02 0.077 MHC_II 15 59964846 FAP_G61 BNIP2 106.69 31.38 0.059 MHC_II 17 7219486 FAP_G61 NEURL4 49.54 10.7 0.114 MHC_II 17 37682263 FAP_G61 CDK12 56.34 15.9 0.064 MHC_II 17 47679242 FAP_G61 SPOP 218.46 34.42 0.057 MHC_II 17 57153072 FAP_G61 TRIM37 58.11 13.29 0.118 MHC_II 17 63532654 FAP_G61 AXIN2 356.33 107.77 0.086 MHC_II 19 2076868 FAP_G61 MOB3A 83.2 12.67 0.097 MHC_II 19 4363452 FAP_G61 SH3GL1 52.09 38.04 0.096 MHC_II 19 4694711 FAP_G61 DPP9 65.82 25.26 0.051 MHC_II 19 40411811 FAP_G61 FCGBP 91.04 384.26 0.069 MHC_II

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2 10729751 FAP_G61 NOL10 125.11 22.94 0.088 MHC_II 2 109365413 FAP_G61 RANBP2 247.25 41.19 0.15 MHC_II 2 160257175 FAP_G61 BAZ2B 124.93 16.61 0.2 MHC_II 20 30785453 FAP_G61 PLAGL2 134.4 20.04 0.111 MHC_II 20 33329244 FAP_G61 NCOA6 83.84 16.53 0.058 MHC_II 20 61833730 FAP_G61 YTHDF1 15.77 29.45 0.273 MHC_II 21 33065618 FAP_G61 SCAF4 297.18 16.92 0.088 MHC_II 21 33067133 FAP_G61 SCAF4 395.84 16.92 0.064 MHC_II 3 44437977 FAP_G61 TCAIM 135.36 22.71 0.313 MHC_II 3 49719861 FAP_G61 APEH 98.59 92.46 0.115 MHC_II 3 52263205 FAP_G61 TWF2 101.7 32.51 0.183 MHC_II 3 113672641 FAP_G61 ZDHHC23 301.57 21.74 0.111 MHC_II 3 133339107 FAP_G61 TOPBP1 150.92 20.59 0.053 MHC_II 3 138290147 FAP_G61 CEP70 42.02 19.98 0.068 MHC_II 3 142281435 FAP_G61 ATR 123.87 12.26 0.217 MHC_II 3 145789075 FAP_G61 PLOD2 136.27 42.71 0.08 MHC_II 4 48636444 FAP_G61 FRYL 123.36 50.84 0.119 MHC_II 5 122154534 FAP_G61 SNX2 44.76 67.52 0.081 MHC_II 5 137726897 FAP_G61 KDM3B 60.09 29.83 0.137 MHC_II 6 33264397 FAP_G61 RGL2 36.88 17.06 0.063 MHC_II 6 101127558 FAP_G61 ASCC3 65.46 25.3 0.171 MHC_II 6 109772841 FAP_G61 MICAL1 62.22 37.69 0.085 MHC_II 7 73666763 FAP_G61 RFC2 260.69 20.5 0.138 MHC_II 7 99516985 FAP_G61 TRIM4 470.03 16.45 0.115 MHC_II 7 135261066 FAP_G61 NUP205 157.98 23.64 0.156 MHC_II 7 150778661 FAP_G61 TMUB1 16.32 47.94 0.056 MHC_II 9 77377526 FAP_G61 TRPM6 16.47 13.39 0.097 MHC_II X 53617968 FAP_G61 HUWE1 178.23 24.24 0.111 MHC_II 1 41536272 FAP_G67 SCMH1 21.17 16.06 0.095 MHC_II 1 146658499 FAP_G67 FMO5 70.46 16.67 0.073 MHC_II 10 95276744 FAP_G67 CEP55 32.23 25.57 0.071 MHC_II

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10 99215538 FAP_G67 ZDHHC16 37.44 30.12 0.059 MHC_II 12 12483767 FAP_G67 MANSC1 383.6 24.28 0.051 MHC_II 12 49316809 FAP_G67 FKBP11 15.46 68.65 0.176 MHC_II 12 115115392 FAP_G67 TBX3 18.14 14.76 0.106 MHC_II 14 51375597 FAP_G67 PYGL 421.96 13.76 0.141 MHC_II 14 53250203 FAP_G67 GNPNAT1 20.73 38.84 0.167 MHC_II 17 73871103 FAP_G67 TRIM47 78.71 19.2 0.059 MHC_II 19 2434036 FAP_G67 LMNB2 17.17 31.16 0.061 MHC_II 2 148712924 FAP_G67 ORC4 23.91 17.68 0.096 MHC_II 2 198263198 FAP_G67 SF3B1 95.79 99.71 0.438 MHC_II 22 20939438 FAP_G67 MED15 74.1 19.13 0.069 MHC_II 3 45785155 FAP_G67 SACM1L 22.36 18.87 0.054 MHC_II 3 51993981 FAP_G67 PCBP4 32.77 18.22 0.063 MHC_II 3 69124582 FAP_G67 UBA3 17.72 55.82 0.051 MHC_II 5 77409625 FAP_G67 AP3B1 351.77 19.84 0.06 MHC_II 6 110533440 FAP_G67 CDC40 47.07 15.29 0.143 MHC_II 7 129064718 FAP_G67 AHCYL2 72.47 19.08 0.119 MHC_II 9 84249101 FAP_G67 TLE1 26.84 16.53 0.063 MHC_II X 118716593 FAP_G67 UBE2A 123.48 49.98 0.784 MHC_II 1 16271286 LS_EBL1 ZBTB17 120.34 12.83 0.282 MHC_II 10 27009239 LS_EBL1 PDSS1 34.73 25.5 0.093 MHC_II 10 70056661 LS_EBL1 PBLD 237.87 55.53 0.051 MHC_II 11 67413234 LS_EBL1 ACY3 220.61 16.32 0.097 MHC_II 15 34659235 LS_EBL1 LPCAT4 69.14 72.96 0.081 MHC_II 15 35163023 LS_EBL1 AQR 67.19 11.17 0.114 MHC_II 15 65885839 LS_EBL1 VWA9 76.83 41.69 0.053 MHC_II 17 648188 LS_EBL1 GEMIN4 200.08 13.24 0.073 MHC_II 17 41168352 LS_EBL1 VAT1 92.4 16.61 0.082 MHC_II 17 45662948 LS_EBL1 NPEPPS 138.42 33.65 0.182 MHC_II 17 45662950 LS_EBL1 NPEPPS 133.55 33.65 0.182 MHC_II 17 46675419 LS_EBL1 HOXB6 164.81 36.7 0.061 MHC_II

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19 19766136 LS_EBL1 ATP13A1 106.83 18.82 0.067 MHC_II 19 53270614 LS_EBL1 ZNF600 412.07 21.1 0.1 MHC_II 2 73989808 LS_EBL1 DUSP11 213.27 28.22 0.07 MHC_II 3 120360492 LS_EBL1 HGD 197.16 19.44 0.07 MHC_II 3 122271386 LS_EBL1 PARP9 494.64 15.53 0.2 MHC_II 4 83785674 LS_EBL1 SEC31A 473.34 48.43 0.089 MHC_II 5 175925969 LS_EBL1 FAF2 27.34 18.13 0.222 MHC_II 6 109308758 LS_EBL1 SESN1 41.23 41.7 0.052 MHC_II 7 1510770 LS_EBL1 INTS1 104.33 11.8 0.054 MHC_II 9 91965713 LS_EBL1 SECISBP2 97.5 27.01 0.1 MHC_II X 2867517 LS_EBL1 ARSE 154.37 30.81 0.057 MHC_II X 107331187 LS_EBL1 PSMD10 326.39 56.16 0.052 MHC_II 1 6314643 LS_EBL11 GPR153 137.14 16.37 0.1 MHC_II 1 16057710 LS_EBL11 PLEKHM2 76.42 26.06 0.2 MHC_II 1 16458713 LS_EBL11 EPHA2 36.17 33.31 0.273 MHC_II 1 22155398 LS_EBL11 HSPG2 193.57 19.45 0.067 MHC_II 1 28120091 LS_EBL11 STX12 115.02 38.36 0.079 MHC_II 1 29319988 LS_EBL11 EPB41 13.62 28.65 0.119 MHC_II 1 32052488 LS_EBL11 TINAGL1 225.86 121.58 0.289 MHC_II 1 33251967 LS_EBL11 YARS 148.5 33.54 0.096 MHC_II 1 35457949 LS_EBL11 ZMYM6 422.19 11.87 0.067 MHC_II 1 40035652 LS_EBL11 PABPC4 172.16 63.6 0.089 MHC_II 1 45268740 LS_EBL11 PLK3 30.36 10.03 0.278 MHC_II 1 45269329 LS_EBL11 PLK3 48.76 10.03 0.088 MHC_II 1 54394090 LS_EBL11 HSPB11 197.34 45.33 0.065 MHC_II 1 60370607 LS_EBL11 CYP2J2 231.36 46.5 0.062 MHC_II 1 90401061 LS_EBL11 LRRC8D 226.07 17.92 0.06 MHC_II 1 114948225 LS_EBL11 TRIM33 207.28 11.75 0.094 MHC_II 1 151400320 LS_EBL11 POGZ 125.49 28.91 0.14 MHC_II 1 153904888 LS_EBL11 DENND4B 42.07 15.89 0.098 MHC_II 1 155171818 LS_EBL11 THBS3 60.19 17.59 0.087 MHC_II

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1 155233110 LS_EBL11 CLK2 113.54 39.25 0.077 MHC_II 1 161092043 LS_EBL11 DEDD 66.2 28.69 0.052 MHC_II 1 161145766 LS_EBL11 B4GALT3 53.23 29.41 0.208 MHC_II 1 207263776 LS_EBL11 C4BPB 321.69 18.59 0.269 MHC_II 1 225611624 LS_EBL11 LBR 340.49 53.7 0.057 MHC_II 10 24909487 LS_EBL11 ARHGAP21 348.75 31.13 0.268 MHC_II 10 25241473 LS_EBL11 PRTFDC1 105.98 14.51 0.098 MHC_II 10 43089907 LS_EBL11 ZNF33B 60.73 19.82 0.089 MHC_II 10 99225818 LS_EBL11 MMS19 156.19 36.1 0.057 MHC_II 10 100144755 LS_EBL11 PYROXD2 80.45 13.64 0.091 MHC_II 10 124361540 LS_EBL11 DMBT1 53.34 119.07 0.28 MHC_II 11 290067 LS_EBL11 ATHL1 81.58 106.18 0.063 MHC_II 11 408728 LS_EBL11 SIGIRR 363.9 98.83 0.25 MHC_II 11 824427 LS_EBL11 PNPLA2 76.85 79.87 0.057 MHC_II 11 6503444 LS_EBL11 TIMM10B 72.42 28.77 0.319 MHC_II 11 46702069 LS_EBL11 ARHGAP1 36.71 48.35 0.089 MHC_II 11 47788722 LS_EBL11 FNBP4 24.23 31.17 0.2 MHC_II 11 47857271 LS_EBL11 NUP160 79.97 19.97 0.156 MHC_II 11 60899372 LS_EBL11 VPS37C 280.87 18.2 0.241 MHC_II 11 62415354 LS_EBL11 INTS5 13.84 15.81 0.349 MHC_II 11 64789244 LS_EBL11 ARL2 51.21 115.43 0.074 MHC_II 11 66102383 LS_EBL11 RIN1 78.98 14.52 0.107 MHC_II 11 66333833 LS_EBL11 CTSF 36.53 32.31 0.276 MHC_II 11 67206339 LS_EBL11 CORO1B 90.3 157.49 0.205 MHC_II 11 68377486 LS_EBL11 PPP6R3 68.27 38.98 0.059 MHC_II 11 71726538 LS_EBL11 NUMA1 94.94 114.81 0.113 MHC_II 11 74081973 LS_EBL11 PGM2L1 25.2 11.4 0.25 MHC_II 11 76062172 LS_EBL11 PRKRIR 493.35 53.48 0.057 MHC_II 11 86519164 LS_EBL11 PRSS23 41.12 43.57 0.072 MHC_II 11 118923405 LS_EBL11 HYOU1 86.28 51.89 0.204 MHC_II 11 125450086 LS_EBL11 EI24 31.75 106.38 0.281 MHC_II 12 6730093 LS_EBL11 LPAR5 61.63 19.43 0.1 MHC_II

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12 7310205 LS_EBL11 CLSTN3 87.24 15.04 0.083 MHC_II 12 46321475 LS_EBL11 SCAF11 205.25 25.23 0.083 MHC_II 12 57422573 LS_EBL11 MYO1A 434.22 57.51 0.082 MHC_II 12 64815055 LS_EBL11 XPOT 37.21 29.98 0.056 MHC_II 12 104376924 LS_EBL11 TDG 90.15 23.94 0.127 MHC_II 12 115115392 LS_EBL11 TBX3 224.27 40.7 0.094 MHC_II 12 118490118 LS_EBL11 WSB2 166.1 50.94 0.073 MHC_II 12 118597978 LS_EBL11 TAOK3 29.87 27.98 0.051 MHC_II 12 122848582 LS_EBL11 CLIP1 185.73 16.42 0.091 MHC_II 12 124810805 LS_EBL11 NCOR2 284.63 27.11 0.322 MHC_II 13 77581590 LS_EBL11 FBXL3 129.61 32 0.252 MHC_II 13 113750733 LS_EBL11 MCF2L 139.42 18.97 0.257 MHC_II 14 21868763 LS_EBL11 CHD8 43 14.47 0.258 MHC_II 14 23608730 LS_EBL11 SLC7A8 63.63 29.19 0.246 MHC_II 14 88946246 LS_EBL11 PTPN21 45.23 13.15 0.121 MHC_II 14 102974193 LS_EBL11 ANKRD9 41.68 20.54 0.393 MHC_II 14 103410815 LS_EBL11 CDC42BPB 41.97 44.1 0.086 MHC_II 14 105834860 LS_EBL11 PACS2 55.13 19.83 0.235 MHC_II 15 67073523 LS_EBL11 SMAD6 176.89 13.42 0.397 MHC_II 15 75137840 LS_EBL11 SCAMP2 72.27 165.4 0.236 MHC_II 15 85327072 LS_EBL11 ZNF592 112.25 12.64 0.367 MHC_II 16 1774657 LS_EBL11 MAPK8IP3 422.3 31.6 0.132 MHC_II 16 15728763 LS_EBL11 KIAA0430 106.05 27.62 0.07 MHC_II 16 30594011 LS_EBL11 ZNF785 110.97 10.06 0.162 MHC_II 16 30764825 LS_EBL11 PHKG2 33.02 15.74 0.107 MHC_II 16 55565859 LS_EBL11 LPCAT2 225.88 14.71 0.13 MHC_II 16 57059431 LS_EBL11 NLRC5 17.04 16.72 0.143 MHC_II 16 67318291 LS_EBL11 PLEKHG4 36.41 43.67 0.076 MHC_II 16 70505232 LS_EBL11 FUK 68.15 19.63 0.196 MHC_II 16 74537509 LS_EBL11 GLG1 118.98 38.61 0.238 MHC_II 16 74725195 LS_EBL11 MLKL 69.27 25.34 0.11 MHC_II

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16 88790327 LS_EBL11 PIEZO1 80.82 30.57 0.111 MHC_II 16 90020704 LS_EBL11 DEF8 140.64 36.06 0.108 MHC_II 17 649105 LS_EBL11 GEMIN4 70.41 15.82 0.167 MHC_II 17 18150001 LS_EBL11 FLII 187.37 69.27 0.079 MHC_II 17 27903134 LS_EBL11 GIT1 60.16 32.92 0.071 MHC_II 17 30774035 LS_EBL11 PSMD11 35.63 33.99 0.127 MHC_II 17 36061132 LS_EBL11 HNF1B 10.85 31.11 0.13 MHC_II 17 40266550 LS_EBL11 KAT2A 163.32 46.15 0.09 MHC_II 17 40457655 LS_EBL11 STAT5A 89.68 20.12 0.333 MHC_II 17 40765726 LS_EBL11 TUBG1 104.51 18.73 0.063 MHC_II 17 43198386 LS_EBL11 PLCD3 37.86 70.21 0.17 MHC_II 17 47684665 LS_EBL11 SPOP 95.46 35.7 0.057 MHC_II 17 79653397 LS_EBL11 HGS 47.23 62.84 0.356 MHC_II 17 80405477 LS_EBL11 C17orf62 27.86 64.63 0.206 MHC_II 17 80529628 LS_EBL11 FOXK2 42.58 16.01 0.282 MHC_II 18 9570178 LS_EBL11 PPP4R1 232.29 28.69 0.075 MHC_II 18 10546355 LS_EBL11 NAPG 95.71 20.47 0.149 MHC_II 19 2810473 LS_EBL11 THOP1 156.79 18.47 0.115 MHC_II 19 5832434 LS_EBL11 FUT6 87.37 40.23 0.13 MHC_II 19 7677237 LS_EBL11 CAMSAP3 87.38 20.15 0.253 MHC_II 19 10202224 LS_EBL11 C19orf66 14.38 30.58 0.091 MHC_II 19 10244896 LS_EBL11 DNMT1 79.37 16.14 0.121 MHC_II 19 10602587 LS_EBL11 KEAP1 166.41 53.63 0.37 MHC_II 19 11135016 LS_EBL11 SMARCA4 64.28 34.61 0.233 MHC_II 19 14023169 LS_EBL11 CC2D1A 187.57 37.35 0.141 MHC_II 19 15512067 LS_EBL11 AKAP8L 46.84 30.44 0.314 MHC_II 19 16652753 LS_EBL11 CHERP 221.82 21.73 0.094 MHC_II 19 17322818 LS_EBL11 MYO9B 42.72 20.38 0.114 MHC_II 19 18280045 LS_EBL11 PIK3R2 46.69 38.56 0.167 MHC_II 19 37004945 LS_EBL11 ZNF260 322.35 10.88 0.115 MHC_II 19 39412285 LS_EBL11 SARS2 106.97 20.69 0.178 MHC_II

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19 46274305 LS_EBL11 DMPK 13.66 20.66 0.379 MHC_II 19 47197212 LS_EBL11 PRKD2 41.54 26.95 0.06 MHC_II 19 47773684 LS_EBL11 CCDC9 292.29 18.71 0.075 MHC_II 19 53270953 LS_EBL11 ZNF600 57.76 24.79 0.095 MHC_II 19 56113688 LS_EBL11 ZNF524 35.45 39.64 0.202 MHC_II 19 56151940 LS_EBL11 ZNF580 313.14 14.02 0.143 MHC_II 2 9650119 LS_EBL11 ADAM17 70.52 12.65 0.119 MHC_II 2 25966873 LS_EBL11 ASXL2 35.52 10.17 0.346 MHC_II 2 27600985 LS_EBL11 ZNF513 18.98 27.65 0.33 MHC_II 2 32842934 LS_EBL11 BIRC6 442.19 13.47 0.081 MHC_II 2 74720325 LS_EBL11 TTC31 90.38 20.77 0.213 MHC_II 2 86992166 LS_EBL11 RMND5A 49.33 34.79 0.059 MHC_II 2 88472847 LS_EBL11 THNSL2 160.89 25.68 0.19 MHC_II 2 96970563 LS_EBL11 SNRNP200 49.25 67.9 0.329 MHC_II 2 103324746 LS_EBL11 SLC9A2 156.6 38.4 0.261 MHC_II 2 128346068 LS_EBL11 MYO7B 157.74 50.64 0.07 MHC_II 2 158115261 LS_EBL11 GALNT5 239.69 20.38 0.117 MHC_II 2 158617517 LS_EBL11 ACVR1 172 13.19 0.176 MHC_II 2 159535161 LS_EBL11 PKP4 167.65 29.95 0.083 MHC_II 2 176803073 LS_EBL11 KIAA1715 277.37 10.19 0.118 MHC_II 2 191797488 LS_EBL11 GLS 131.21 35.71 0.065 MHC_II 2 236649677 LS_EBL11 AGAP1 17.4 10.71 0.258 MHC_II 20 48808408 LS_EBL11 CEBPB 110.25 20.22 0.069 MHC_II 20 62904741 LS_EBL11 PCMTD2 170.58 46.09 0.054 MHC_II 21 37571525 LS_EBL11 DOPEY2 429.02 15.57 0.174 MHC_II 21 45389078 LS_EBL11 AGPAT3 187.22 33.42 0.076 MHC_II 22 21098990 LS_EBL11 PI4KA 74.65 31.17 0.137 MHC_II 22 22142997 LS_EBL11 MAPK1 44.94 47.06 0.053 MHC_II 22 23524342 LS_EBL11 BCR 44.9 20.15 0.175 MHC_II 22 24176338 LS_EBL11 SMARCB1 142.28 72.96 0.051 MHC_II 22 30741038 LS_EBL11 SF3A1 130.31 34.02 0.152 MHC_II

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22 32112237 LS_EBL11 PRR14L 236.96 10.65 0.2 MHC_II 22 37154359 LS_EBL11 IFT27 356.22 31.82 0.095 MHC_II 22 37421079 LS_EBL11 MPST 20.42 140.14 0.231 MHC_II 22 38690510 LS_EBL11 CSNK1E 40.2 64.93 0.382 MHC_II 22 50280342 LS_EBL11 ZBED4 89.07 12.11 0.225 MHC_II 22 50665222 LS_EBL11 TUBGCP6 179.99 20.18 0.071 MHC_II 22 50727457 LS_EBL11 PLXNB2 19.41 95.53 0.268 MHC_II 3 5024901 LS_EBL11 BHLHE40 263.97 69.15 0.065 MHC_II 3 9807533 LS_EBL11 CAMK1 35.96 16.37 0.143 MHC_II 3 11831999 LS_EBL11 TAMM41 102.74 12.82 0.16 MHC_II 3 36872961 LS_EBL11 TRANK1 112.12 11.61 0.135 MHC_II 3 42602720 LS_EBL11 SEC22C 82.7 15.66 0.118 MHC_II 3 47454515 LS_EBL11 PTPN23 70.88 17.79 0.129 MHC_II 3 53215570 LS_EBL11 PRKCD 115.95 55.5 0.066 MHC_II 3 98251487 LS_EBL11 GPR15 57.82 17.47 0.162 MHC_II 3 127335729 LS_EBL11 MCM2 131.23 14.5 0.348 MHC_II 3 127398960 LS_EBL11 ABTB1 85.08 52.2 0.289 MHC_II 3 186504995 LS_EBL11 EIF4A2 28.15 420.31 0.07 MHC_II 4 1991480 LS_EBL11 NELFA 104.71 31.3 0.115 MHC_II 4 6588879 LS_EBL11 MAN2B2 59.27 29.84 0.118 MHC_II 4 56233791 LS_EBL11 SRD5A3 60.21 21.99 0.257 MHC_II 4 71888128 LS_EBL11 DCK 102.62 24.13 0.069 MHC_II 4 84194682 LS_EBL11 COQ2 45.37 24.52 0.307 MHC_II 4 115597107 LS_EBL11 UGT8 475.7 46.33 0.406 MHC_II 4 148554112 LS_EBL11 TMEM184C 37.28 26.45 0.076 MHC_II 4 159158777 LS_EBL11 TMEM144 100.22 22.7 0.151 MHC_II 4 170618575 LS_EBL11 CLCN3 34.37 57.19 0.161 MHC_II 4 170625194 LS_EBL11 CLCN3 20.76 57.19 0.057 MHC_II 5 138643409 LS_EBL11 MATR3 77.45 107.61 0.068 MHC_II 5 141248235 LS_EBL11 PCDH1 71.83 43.57 0.085 MHC_II 5 154181850 LS_EBL11 LARP1 62.77 47.98 0.17 MHC_II

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5 176863182 LS_EBL11 GRK6 74.98 35.13 0.053 MHC_II 5 179193128 LS_EBL11 MAML1 22.7 19.43 0.083 MHC_II 6 4128047 LS_EBL11 ECI2 60.88 100.98 0.201 MHC_II 6 7246716 LS_EBL11 RREB1 20.66 14.62 0.15 MHC_II 6 27114400 LS_EBL11 HIST1H2BK 42.74 76.51 0.051 MHC_II 6 30888131 LS_EBL11 VARS2 136.47 19.22 0.375 MHC_II 6 31378531 LS_EBL11 MICA 192.49 25.01 0.056 MHC_II 6 31608178 LS_EBL11 BAG6 41.77 82.77 0.059 MHC_II 6 33163446 LS_EBL11 RXRB 70.83 35.44 0.169 MHC_II 6 42637958 LS_EBL11 UBR2 116.76 20.63 0.271 MHC_II 6 42713106 LS_EBL11 TBCC 69 29.63 0.071 MHC_II 6 112397206 LS_EBL11 TUBE1 35.6 12.52 0.172 MHC_II 6 116288819 LS_EBL11 FRK 73.39 10.86 0.129 MHC_II 6 126210494 LS_EBL11 NCOA7 495.98 87.75 0.538 MHC_II 6 131277326 LS_EBL11 EPB41L2 304.79 88.23 0.054 MHC_II 6 138752775 LS_EBL11 NHSL1 22.45 18.25 0.133 MHC_II 7 11022426 LS_EBL11 PHF14 285.71 23.28 0.167 MHC_II 7 26225198 LS_EBL11 NFE2L3 112.4 32.38 0.077 MHC_II 7 27856620 LS_EBL11 TAX1BP1 173.81 86.35 0.108 MHC_II 7 98592387 LS_EBL11 TRRAP 36.9 10.46 0.383 MHC_II 7 127725768 LS_EBL11 SND1 118.22 94.94 0.367 MHC_II 7 135612041 LS_EBL11 LUZP6 119.49 34.57 0.153 MHC_II 7 144072739 LS_EBL11 ARHGEF5 52.51 34.94 0.167 MHC_II 7 150815308 LS_EBL11 AGAP3 56.88 27.6 0.24 MHC_II 7 150840854 LS_EBL11 AGAP3 44.5 27.6 0.315 MHC_II 8 21978233 LS_EBL11 HR 102.96 25.66 0.087 MHC_II 8 22472943 LS_EBL11 KIAA1967 201.46 43.95 0.153 MHC_II 8 54897048 LS_EBL11 TCEA1 319.62 79.3 0.064 MHC_II 8 104413804 LS_EBL11 SLC25A32 75.26 13.22 0.391 MHC_II 8 125498537 LS_EBL11 RNF139 71.17 18.29 0.064 MHC_II 8 125568091 LS_EBL11 MTSS1 66.82 13.08 0.265 MHC_II

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8 144391660 LS_EBL11 TOP1MT 10.66 45.48 0.071 MHC_II 8 144668451 LS_EBL11 EEF1D 16.15 405.35 0.116 MHC_II 8 144809362 LS_EBL11 FAM83H 15.12 32.7 0.088 MHC_II 8 145583012 LS_EBL11 SLC52A2 25.53 54.47 0.174 MHC_II 8 145622567 LS_EBL11 CPSF1 83.85 68.73 0.288 MHC_II 9 5772989 LS_EBL11 KIAA1432 65.67 10.19 0.2 MHC_II 9 26842592 LS_EBL11 CAAP1 104.58 34.88 0.142 MHC_II 9 34241785 LS_EBL11 UBAP1 22.95 28.49 0.092 MHC_II 9 35751663 LS_EBL11 RGP1 219.87 22.21 0.069 MHC_II 9 35846946 LS_EBL11 TMEM8B 62.13 14.51 0.25 MHC_II 9 36222777 LS_EBL11 GNE 25.95 39.63 0.054 MHC_II 9 37442136 LS_EBL11 ZBTB5 18.58 11.39 0.094 MHC_II 9 79118205 LS_EBL11 GCNT1 200.42 43.16 0.093 MHC_II 9 100407441 LS_EBL11 NCBP1 29.24 20.27 0.053 MHC_II 9 112153825 LS_EBL11 PTPN3 136.46 25.18 0.123 MHC_II 9 132396373 LS_EBL11 NTMT1 32.52 39.47 0.089 MHC_II 9 132401692 LS_EBL11 ASB6 132.76 13.29 0.143 MHC_II 9 135772951 LS_EBL11 TSC1 381.51 17.83 0.186 MHC_II 9 135796795 LS_EBL11 TSC1 143.77 17.83 0.265 MHC_II 9 140327677 LS_EBL11 NOXA1 80.61 45.09 0.159 MHC_II X 40571440 LS_EBL11 MED14 150.93 24.19 0.107 MHC_II X 41428923 LS_EBL11 CASK 94.05 26.09 0.086 MHC_II X 53565299 LS_EBL11 HUWE1 120.25 19.69 0.053 MHC_II X 71715059 LS_EBL11 HDAC8 58.48 14.61 0.25 MHC_II X 129270668 LS_EBL11 AIFM1 39.75 46.32 0.063 MHC_II 1 35656965 LS_EBL13 SFPQ 17.1 38.71 0.066 MHC_II 1 192993039 LS_EBL13 UCHL5 79.44 13.21 0.054 MHC_II 10 32594774 LS_EBL13 EPC1 100.22 12.84 0.143 MHC_II 10 74310955 LS_EBL13 MICU1 215.05 31.86 0.065 MHC_II 11 47767738 LS_EBL13 FNBP4 160.28 10.96 0.188 MHC_II 11 66307005 LS_EBL13 ZDHHC24 205.66 14.87 0.087 MHC_II

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12 7362390 LS_EBL13 PEX5 184 17.97 0.063 MHC_II 12 56713198 LS_EBL13 PAN2 38.1 11.36 0.077 MHC_II 14 92249463 LS_EBL13 TC2N 50.93 15.73 0.063 MHC_II 14 103396555 LS_EBL13 AMN 5.18 206.39 0.113 MHC_II 15 23931544 LS_EBL13 NDN 37.88 14.55 0.097 MHC_II 16 2580432 LS_EBL13 AMDHD2 11.69 13.78 0.116 MHC_II 17 63532654 LS_EBL13 AXIN2 7.88 10.92 0.194 MHC_II 19 4048037 LS_EBL13 ZBTB7A 155.17 13.92 0.12 MHC_II 19 4174816 LS_EBL13 SIRT6 461.31 45.31 0.103 MHC_II 19 5844049 LS_EBL13 FUT3 29.94 176.74 0.093 MHC_II 19 10479061 LS_EBL13 TYK2 26.96 21.46 0.07 MHC_II 19 17424837 LS_EBL13 DDA1 223.08 15.91 0.055 MHC_II 19 33137455 LS_EBL13 ANKRD27 40.15 16.18 0.158 MHC_II 19 50512555 LS_EBL13 VRK3 254.01 31.47 0.056 MHC_II 19 55748077 LS_EBL13 PPP6R1 69.21 19.45 0.062 MHC_II 19 56600074 LS_EBL13 ZNF787 29.03 21.96 0.059 MHC_II 2 27248479 LS_EBL13 MAPRE3 326.34 17.58 0.125 MHC_II 2 43452252 LS_EBL13 ZFP36L2 54.42 74.45 0.059 MHC_II 22 29754717 LS_EBL13 AP1B1 6.94 43.8 0.057 MHC_II 22 36537393 LS_EBL13 APOL3 41.87 13.06 0.061 MHC_II 22 50894811 LS_EBL13 SBF1 47.45 14.86 0.128 MHC_II 22 51009381 LS_EBL13 CPT1B 24.8 12.21 0.063 MHC_II 3 33454225 LS_EBL13 UBP1 287.54 24.37 0.056 MHC_II 3 49463821 LS_EBL13 NICN1 100.43 10.01 0.154 MHC_II 3 127294066 LS_EBL13 TPRA1 9.78 27.26 0.051 MHC_II 4 89053735 LS_EBL13 ABCG2 39.44 15.21 0.065 MHC_II 5 80600766 LS_EBL13 ZCCHC9 425.86 16.57 0.053 MHC_II 5 132161651 LS_EBL13 SHROOM1 41.7 16.69 0.15 MHC_II 6 129963123 LS_EBL13 ARHGAP18 263.25 15.45 0.065 MHC_II 7 150439604 LS_EBL13 GIMAP5 84.74 10.48 0.066 MHC_II 9 74365148 LS_EBL13 TMEM2 255.73 20.4 0.063 MHC_II

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9 100675749 LS_EBL13 C9orf156 85.67 12.64 0.214 MHC_II X 153760416 LS_EBL13 G6PD 204.29 17.94 0.074 MHC_II 11 6412879 LS_EBL18 SMPD1 123.04 14.9 0.286 MHC_II 11 22848809 LS_EBL18 SVIP 425.58 19.31 0.055 MHC_II 11 68566774 LS_EBL18 CPT1A 82.48 23.55 0.12 MHC_II 14 24658649 LS_EBL18 TM9SF1 18.02 18.95 0.081 MHC_II 14 54416869 LS_EBL18 BMP4 98.01 11.66 0.056 MHC_II 16 67477072 LS_EBL18 ATP6V0D1 19.77 100.79 0.16 MHC_II 2 28004495 LS_EBL18 RBKS 268.41 16.81 0.077 MHC_II 2 32117104 LS_EBL18 MEMO1 124.93 12.28 0.081 MHC_II 3 120369640 LS_EBL18 HGD 87.29 14.78 0.057 MHC_II 9 110249993 LS_EBL18 KLF4 43.46 60.56 0.086 MHC_II 1 116206406 LS_EBL20 VANGL1 163.88 12.71 0.229 MHC_II 1 150443672 LS_EBL20 RPRD2 142.87 15.97 0.137 MHC_II 1 151261988 LS_EBL20 ZNF687 339.82 15.02 0.115 MHC_II 1 156170092 LS_EBL20 SLC25A44 497.79 19.22 0.407 MHC_II 1 197070180 LS_EBL20 ASPM 28.48 11.87 0.176 MHC_II 1 214813895 LS_EBL20 CENPF 60.12 24.94 0.263 MHC_II 10 69669079 LS_EBL20 SIRT1 104.16 16.75 0.269 MHC_II 10 99126217 LS_EBL20 RRP12 162.91 11.56 0.467 MHC_II 10 102116489 LS_EBL20 SCD 481.22 16.22 0.326 MHC_II 11 1502029 LS_EBL20 MOB2 195.87 42.17 0.068 MHC_II 11 47595290 LS_EBL20 KBTBD4 40.03 12.11 0.239 MHC_II 11 65367161 LS_EBL20 MAP3K11 115.18 41.19 0.414 MHC_II 11 67413258 LS_EBL20 ACY3 199.91 16.91 0.115 MHC_II 11 72408974 LS_EBL20 ARAP1 156.5 41.6 0.068 MHC_II 11 113610024 LS_EBL20 ZW10 61.85 20.24 0.066 MHC_II 11 128354759 LS_EBL20 ETS1 182.27 32.14 0.059 MHC_II 12 6672264 LS_EBL20 NOP2 200 27.72 0.188 MHC_II 12 7287957 LS_EBL20 CLSTN3 37.69 14.25 0.097 MHC_II 12 49170986 LS_EBL20 ADCY6 274.66 39.84 0.088 MHC_II

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12 51389433 LS_EBL20 SLC11A2 91.15 31.42 0.082 MHC_II 12 57581052 LS_EBL20 LRP1 289.69 20.18 0.333 MHC_II 12 96131660 LS_EBL20 NTN4 60.42 29.41 0.052 MHC_II 12 113398998 LS_EBL20 OAS3 21.95 19.97 0.233 MHC_II 13 25832766 LS_EBL20 MTMR6 14.85 18.18 0.106 MHC_II 13 113140351 LS_EBL20 TUBGCP3 240.28 13.8 0.209 MHC_II 13 113173318 LS_EBL20 TUBGCP3 239.95 13.8 0.237 MHC_II 14 32561374 LS_EBL20 ARHGAP5 208.13 27.82 0.154 MHC_II 14 73425409 LS_EBL20 DCAF4 229.16 18.17 0.176 MHC_II 14 74192807 LS_EBL20 ELMSAN1 80.52 10.56 0.4 MHC_II 14 88904182 LS_EBL20 SPATA7 46.59 13.6 0.2 MHC_II 15 35149234 LS_EBL20 AQR 466.69 25.02 0.073 MHC_II 15 78294061 LS_EBL20 TBC1D2B 15.18 31.67 0.076 MHC_II 16 2034824 LS_EBL20 GFER 27.42 23.79 0.053 MHC_II 16 2256513 LS_EBL20 MLST8 139.42 46.99 0.32 MHC_II 16 15128407 LS_EBL20 PDXDC1 67.04 180.99 0.057 MHC_II 16 15178538 LS_EBL20 RRN3 37.67 33.48 0.078 MHC_II 16 20926901 LS_EBL20 LYRM1 37.94 31.62 0.121 MHC_II 16 29791468 LS_EBL20 ZG16 446.46 69.24 0.053 MHC_II 16 30581294 LS_EBL20 ZNF688 234.95 13.47 0.088 MHC_II 16 57685292 LS_EBL20 GPR56 420.7 90.15 0.065 MHC_II 16 87446394 LS_EBL20 ZCCHC14 121.86 13.17 0.407 MHC_II 17 16256369 LS_EBL20 CENPV 52.4 15.07 0.156 MHC_II 17 57644052 LS_EBL20 DHX40 331.05 40.49 0.056 MHC_II 17 60685402 LS_EBL20 TLK2 107.84 14.81 0.241 MHC_II 17 61908527 LS_EBL20 PSMC5 296.94 153.78 0.07 MHC_II 17 72951900 LS_EBL20 HID1 114.74 61.3 0.091 MHC_II 17 73565135 LS_EBL20 LLGL2 40.83 112.45 0.059 MHC_II 17 78323684 LS_EBL20 RNF213 148.31 21.44 0.089 MHC_II 17 80040467 LS_EBL20 FASN 292.45 17.98 0.065 MHC_II 19 4432036 LS_EBL20 CHAF1A 26.05 12.85 0.111 MHC_II

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19 4816993 LS_EBL20 TICAM1 255.4 12.43 0.121 MHC_II 19 6222149 LS_EBL20 MLLT1 492.05 22.49 0.051 MHC_II 19 10434209 LS_EBL20 RAVER1 342.22 32.08 0.065 MHC_II 19 40318227 LS_EBL20 DYRK1B 269.11 14.42 0.105 MHC_II 19 45349844 LS_EBL20 PVRL2 98.05 75.21 0.355 MHC_II 19 48637292 LS_EBL20 LIG1 179.24 30.64 0.087 MHC_II 19 50909526 LS_EBL20 POLD1 362.67 15.15 0.367 MHC_II 19 53348448 LS_EBL20 ZNF468 100.03 14.91 0.2 MHC_II 2 15746146 LS_EBL20 DDX1 423.08 91.42 0.106 MHC_II 2 24920565 LS_EBL20 NCOA1 69.88 14.51 0.259 MHC_II 2 25042868 LS_EBL20 ADCY3 15.31 15.38 0.079 MHC_II 2 55906840 LS_EBL20 PNPT1 278.67 17.4 0.109 MHC_II 2 61552564 LS_EBL20 USP34 95.96 20.65 0.407 MHC_II 2 106498117 LS_EBL20 NCK2 64.85 39.84 0.069 MHC_II 2 128757642 LS_EBL20 SAP130 130.08 18.42 0.176 MHC_II 2 207018393 LS_EBL20 NDUFS1 33 58.97 0.086 MHC_II 2 223423144 LS_EBL20 SGPP2 90.51 32.56 0.096 MHC_II 2 228197140 LS_EBL20 MFF 353.62 54.4 0.07 MHC_II 20 3128351 LS_EBL20 FASTKD5 46.42 12.38 0.083 MHC_II 20 3765999 LS_EBL20 CENPB 69.98 40.12 0.18 MHC_II 20 31041135 LS_EBL20 C20orf112 48.54 27.74 0.113 MHC_II 20 37580382 LS_EBL20 FAM83D 30.45 34.26 0.067 MHC_II 20 50273482 LS_EBL20 ATP9A 47.3 66.82 0.208 MHC_II 20 62196829 LS_EBL20 HELZ2 45.88 10.11 0.308 MHC_II 20 62575924 LS_EBL20 UCKL1 146.42 28.35 0.161 MHC_II 22 21150444 LS_EBL20 PI4KA 233.41 35.15 0.2 MHC_II 22 41895859 LS_EBL20 ACO2 141.28 130.8 0.078 MHC_II 3 14199816 LS_EBL20 XPC 173.54 23.61 0.145 MHC_II 3 50356434 LS_EBL20 HYAL2 387.03 40.71 0.234 MHC_II 3 93598132 LS_EBL20 PROS1 97.12 23.97 0.125 MHC_II 3 101383533 LS_EBL20 ZBTB11 224.73 13.01 0.107 MHC_II

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3 128350879 LS_EBL20 RPN1 178.64 255.94 0.061 MHC_II 3 196214359 LS_EBL20 RNF168 355.89 15.34 0.097 MHC_II 4 1987520 LS_EBL20 NELFA 153.81 23.28 0.416 MHC_II 4 48038104 LS_EBL20 NIPAL1 185.91 24.24 0.245 MHC_II 4 48559053 LS_EBL20 FRYL 125.28 59.31 0.116 MHC_II 4 89602464 LS_EBL20 HERC3 406.73 13.84 0.086 MHC_II 4 119686023 LS_EBL20 SEC24D 136.76 32.17 0.053 MHC_II 4 123236709 LS_EBL20 KIAA1109 119.1 15.07 0.111 MHC_II 4 159642531 LS_EBL20 PPID 183.07 51.71 0.083 MHC_II 4 184432014 LS_EBL20 ING2 113.57 17.85 0.333 MHC_II 4 184614801 LS_EBL20 TRAPPC11 47.13 23.12 0.078 MHC_II 5 77523337 LS_EBL20 AP3B1 5.78 54.18 0.141 MHC_II 5 95761546 LS_EBL20 PCSK1 184.57 26.33 0.167 MHC_II 5 112200429 LS_EBL20 SRP19 68.3 30.93 0.244 MHC_II 5 114552595 LS_EBL20 PGGT1B 59.88 21.54 0.167 MHC_II 5 115782326 LS_EBL20 SEMA6A 133.3 10.88 0.063 MHC_II 5 122881512 LS_EBL20 CSNK1G3 204.82 24.12 0.302 MHC_II 6 44102401 LS_EBL20 TMEM63B 37.42 35.92 0.265 MHC_II 6 138754503 LS_EBL20 NHSL1 372.94 20.06 0.12 MHC_II 7 6845644 LS_EBL20 CCZ1B 23.99 46.5 0.115 MHC_II 7 36489287 LS_EBL20 ANLN 395.72 28.08 0.114 MHC_II 7 111161406 LS_EBL20 IMMP2L 174.97 14.73 0.091 MHC_II 7 130135262 LS_EBL20 MEST 31.18 54.73 0.126 MHC_II 8 21860740 LS_EBL20 XPO7 37.27 33.9 0.257 MHC_II 8 22451332 LS_EBL20 PDLIM2 226.06 10.55 0.069 MHC_II 8 28633364 LS_EBL20 INTS9 92.75 17.55 0.143 MHC_II 8 38107309 LS_EBL20 DDHD2 47.44 16.41 0.2 MHC_II 8 38205365 LS_EBL20 WHSC1L1 256.04 27.19 0.065 MHC_II 8 90958486 LS_EBL20 NBN 62.67 31.73 0.071 MHC_II 8 145621703 LS_EBL20 CPSF1 42.29 36.35 0.175 MHC_II 8 145947222 LS_EBL20 ZNF251 203.92 10.19 0.133 MHC_II

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9 33472026 LS_EBL20 NOL6 44.42 15.97 0.139 MHC_II 9 88918076 LS_EBL20 ZCCHC6 93.9 16.56 0.083 MHC_II 9 91961803 LS_EBL20 SECISBP2 465.36 31.85 0.125 MHC_II 9 101900288 LS_EBL20 TGFBR1 178.32 22.01 0.349 MHC_II 9 104314450 LS_EBL20 RNF20 285.21 28.65 0.074 MHC_II 9 140353513 LS_EBL20 NSMF 266.28 21.5 0.143 MHC_II X 100268679 LS_EBL20 TRMT2B 206.21 18.45 0.182 MHC_II X 100268681 LS_EBL20 TRMT2B 175.87 18.45 0.182 MHC_II 1 115226910 LS_EBL23 AMPD1 51.81 12.96 0.111 MHC_II 10 123239442 LS_EBL23 FGFR2 7.27 23.41 0.083 MHC_II 10 123721611 LS_EBL23 NSMCE4A 276.93 48.13 0.429 MHC_II 11 64757200 LS_EBL23 BATF2 9.05 14.84 0.136 MHC_II 11 124495763 LS_EBL23 TBRG1 15.12 11.52 0.087 MHC_II 14 102661425 LS_EBL23 WDR20 183.23 13.77 0.192 MHC_II 17 40490761 LS_EBL23 STAT3 243.14 36.08 0.052 MHC_II 17 58040212 LS_EBL23 RNFT1 15.25 23.35 0.056 MHC_II 19 51010849 LS_EBL23 JOSD2 13.39 24.89 0.121 MHC_II 2 190331199 LS_EBL23 WDR75 4.83 16.53 0.075 MHC_II 21 38524256 LS_EBL23 TTC3 234.53 29.27 0.196 MHC_II 3 49928891 LS_EBL23 MST1R 32.01 18.14 0.066 MHC_II 4 89060973 LS_EBL23 ABCG2 122.52 17.68 0.065 MHC_II 5 153755936 LS_EBL23 GALNT10 30.14 18 0.125 MHC_II 7 99506228 LS_EBL23 TRIM4 63.68 17.95 0.077 MHC_II 1 100207793 LS_EBL26 FRRS1 334.21 12.82 0.25 MHC_II 1 169993620 LS_EBL26 KIFAP3 18.24 34.02 0.058 MHC_II 1 208212977 LS_EBL26 PLXNA2 264.2 14.71 0.081 MHC_II 10 59976001 LS_EBL26 IPMK 245.52 10.72 0.22 MHC_II 10 64967560 LS_EBL26 JMJD1C 38.99 17.01 0.064 MHC_II 10 135106659 LS_EBL26 TUBGCP2 33.1 23.96 0.067 MHC_II 11 9812155 LS_EBL26 SBF2 75.99 15.4 0.073 MHC_II 12 9750654 LS_EBL26 KLRB1 468.63 72.48 0.063 MHC_II

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12 48095339 LS_EBL26 RPAP3 391.2 16.03 0.068 MHC_II 12 115115385 LS_EBL26 TBX3 110.41 22.76 0.283 MHC_II 14 34419843 LS_EBL26 EGLN3 200.21 36.89 0.1 MHC_II 16 56419902 LS_EBL26 AMFR 164.13 45.49 0.053 MHC_II 16 67477072 LS_EBL26 ATP6V0D1 23.68 135.75 0.123 MHC_II 18 5291099 LS_EBL26 ZBTB14 197.51 12.21 0.071 MHC_II 19 19758056 LS_EBL26 ATP13A1 33.21 19.62 0.061 MHC_II 19 19767849 LS_EBL26 ATP13A1 47.13 19.62 0.068 MHC_II 2 37078169 LS_EBL26 STRN 235.65 10.01 0.065 MHC_II 2 220089170 LS_EBL26 ATG9A 107.56 30.87 0.059 MHC_II 20 20024245 LS_EBL26 CRNKL1 112.84 20.93 0.072 MHC_II 21 38437997 LS_EBL26 PIGP 409.17 45.62 0.09 MHC_II 22 29092932 LS_EBL26 CHEK2 214.22 13.15 0.107 MHC_II 3 36893298 LS_EBL26 TRANK1 125.94 16.98 0.25 MHC_II 3 52588824 LS_EBL26 PBRM1 181.21 13.44 0.129 MHC_II 3 56694766 LS_EBL26 FAM208A 80.08 15.68 0.125 MHC_II 3 132166250 LS_EBL26 DNAJC13 181.69 21.36 0.1 MHC_II 3 141692955 LS_EBL26 TFDP2 29.97 10.39 0.103 MHC_II 3 171443809 LS_EBL26 PLD1 47.32 27.27 0.061 MHC_II 3 180675619 LS_EBL26 FXR1 81.43 18.15 0.068 MHC_II 3 182810260 LS_EBL26 MCCC1 34.36 35.5 0.131 MHC_II 4 42454006 LS_EBL26 ATP8A1 41.33 33.22 0.054 MHC_II 5 94872769 LS_EBL26 TTC37 16.26 40.76 0.057 MHC_II 6 43020177 LS_EBL26 CUL7 40.32 11 0.15 MHC_II 7 16685134 LS_EBL26 ANKMY2 116.86 28.34 0.081 MHC_II 8 126056809 LS_EBL26 KIAA0196 126.92 31.27 0.059 MHC_II X 62875440 LS_EBL26 ARHGEF9 8.67 10.18 0.075 MHC_II X 96013177 LS_EBL26 DIAPH2 75.93 11.77 0.207 MHC_II X 154741338 LS_EBL26 TMLHE 202.89 18.16 0.115 MHC_II 1 44126021 LS_EBL3 KDM4A 193.09 23.63 0.074 MHC_II 10 15256263 LS_EBL3 FAM171A1 274.52 19.68 0.078 MHC_II

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10 81036968 LS_EBL3 ZMIZ1 204.39 11.75 0.111 MHC_II 12 7048134 LS_EBL3 ATN1 79.73 16.12 0.061 MHC_II 12 71139785 LS_EBL3 PTPRR 83.82 24.37 0.057 MHC_II 12 107371883 LS_EBL3 MTERFD3 230.63 13.77 0.129 MHC_II 14 92621581 LS_EBL3 CPSF2 252.93 15 0.123 MHC_II 16 28847378 LS_EBL3 ATXN2L 18.26 19.17 0.083 MHC_II 16 56531665 LS_EBL3 BBS2 321.76 20.4 0.065 MHC_II 16 67477072 LS_EBL3 ATP6V0D1 32.62 145.32 0.057 MHC_II 17 15878187 LS_EBL3 ADORA2B 52.19 24.38 0.056 MHC_II 17 27182148 LS_EBL3 ERAL1 107.33 50.5 0.065 MHC_II 18 47110043 LS_EBL3 LIPG 484.46 10.92 0.075 MHC_II 19 886032 LS_EBL3 MED16 161.44 20.64 0.188 MHC_II 19 42402722 LS_EBL3 ARHGEF1 72.6 22.61 0.08 MHC_II 2 27601679 LS_EBL3 ZNF513 150.46 20.01 0.103 MHC_II 2 97377608 LS_EBL3 LMAN2L 226.58 12.82 0.103 MHC_II 3 133375600 LS_EBL3 TOPBP1 139.44 10.85 0.217 MHC_II 4 152070653 LS_EBL3 SH3D19 263.29 35.35 0.06 MHC_II 4 184572187 LS_EBL3 RWDD4 324.86 20.02 0.051 MHC_II 4 190881969 LS_EBL3 FRG1 264.76 58.36 0.062 MHC_II 5 36170455 LS_EBL3 SKP2 78.26 14.74 0.241 MHC_II 5 143538021 LS_EBL3 YIPF5 26.97 33.12 0.115 MHC_II 6 31762847 LS_EBL3 VARS 217.87 20.87 0.19 MHC_II 6 131917102 LS_EBL3 MED23 367.79 11.37 0.133 MHC_II 8 52773435 LS_EBL3 PCMTD1 156.04 19.68 0.051 MHC_II 8 68139407 LS_EBL3 ARFGEF1 66.62 12.03 0.15 MHC_II 9 115449822 LS_EBL3 INIP 450.75 18.67 0.058 MHC_II X 149814229 LS_EBL3 MTM1 96.76 18.06 0.063 MHC_II 1 182827981 LS_EBL5 DHX9 236.85 28.77 0.068 MHC_II 1 220978440 LS_EBL5 1-Mar 28.43 24.17 0.054 MHC_II 10 104857062 LS_EBL5 NT5C2 111.55 21.58 0.073 MHC_II 12 6966847 LS_EBL5 USP5 64.69 20.45 0.103 MHC_II

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16 2025679 LS_EBL5 TBL3 13.49 10.17 0.111 MHC_II 17 36958403 LS_EBL5 CWC25 26.37 10.53 0.128 MHC_II 18 47500759 LS_EBL5 MYO5B 241.53 23.19 0.063 MHC_II 19 40947803 LS_EBL5 SERTAD3 48.34 25.84 0.064 MHC_II 2 114218256 LS_EBL5 CBWD2 182.5 29.31 0.071 MHC_II 2 201749994 LS_EBL5 PPIL3 219.04 32.94 0.333 MHC_II 3 145828134 LS_EBL5 PLOD2 144.73 14.79 0.069 MHC_II 3 169566007 LS_EBL5 LRRC31 96.75 27.36 0.056 MHC_II 6 13306706 LS_EBL5 TBC1D7 54.43 23.93 0.062 MHC_II 9 100895361 LS_EBL5 CORO2A 175.96 14.8 0.083 MHC_II 1 21181546 LS_EBL7 EIF4G3 114.88 36.83 0.113 MHC_II 1 42654475 LS_EBL7 FOXJ3 154.34 27.37 0.066 MHC_II 10 103344393 LS_EBL7 POLL 173.19 16.33 0.111 MHC_II 11 57080249 LS_EBL7 TNKS1BP1 94.38 33.65 0.059 MHC_II 11 108412459 LS_EBL7 EXPH5 259.52 12.22 0.25 MHC_II 12 21629850 LS_EBL7 RECQL 52.17 13.31 0.125 MHC_II 12 72025969 LS_EBL7 ZFC3H1 119.86 18.41 0.2 MHC_II 12 107391764 LS_EBL7 CRY1 137.09 10.14 0.192 MHC_II 12 113436141 LS_EBL7 OAS2 103.14 10.66 0.286 MHC_II 12 124233229 LS_EBL7 ATP6V0A2 98.21 11.16 0.243 MHC_II 14 93720040 LS_EBL7 BTBD7 164.54 15.48 0.091 MHC_II 15 35176905 LS_EBL7 AQR 211.45 21.2 0.059 MHC_II 15 52901139 LS_EBL7 FAM214A 447.26 21.59 0.08 MHC_II 15 77473399 LS_EBL7 PEAK1 57.97 14.76 0.176 MHC_II 16 15698092 LS_EBL7 KIAA0430 163.66 27.17 0.051 MHC_II 17 43192550 LS_EBL7 PLCD3 83.72 147.09 0.071 MHC_II 17 55027396 LS_EBL7 COIL 406.42 17.24 0.15 MHC_II 17 74739518 LS_EBL7 MFSD11 124.82 22.71 0.071 MHC_II 17 80888479 LS_EBL7 TBCD 60.35 21.36 0.068 MHC_II 18 12794281 LS_EBL7 PTPN2 84.13 31.17 0.139 MHC_II 19 4054678 LS_EBL7 ZBTB7A 105.82 40.83 0.074 MHC_II

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19 10602527 LS_EBL7 KEAP1 91.57 46.78 0.063 MHC_II 2 42909652 LS_EBL7 MTA3 115.87 24.73 0.06 MHC_II 2 86849950 LS_EBL7 RNF103 52.35 68.34 0.053 MHC_II 2 176857119 LS_EBL7 KIAA1715 109.67 20.15 0.103 MHC_II 20 30914609 LS_EBL7 KIF3B 170.03 34.71 0.095 MHC_II 3 197023258 LS_EBL7 DLG1 154.58 38.2 0.052 MHC_II 4 89326751 LS_EBL7 HERC6 174.68 11.19 0.192 MHC_II 4 187000145 LS_EBL7 TLR3 136.22 20.2 0.122 MHC_II 4 187629945 LS_EBL7 FAT1 147.41 37.68 0.093 MHC_II 5 205801 LS_EBL7 CCDC127 239.66 15.48 0.118 MHC_II 5 16794906 LS_EBL7 MYO10 96.34 25.5 0.061 MHC_II 5 80600740 LS_EBL7 ZCCHC9 102.43 25.68 0.085 MHC_II 6 17608468 LS_EBL7 FAM8A1 137.23 41.66 0.08 MHC_II 6 34574585 LS_EBL7 C6orf106 321.45 42.14 0.053 MHC_II 6 36294836 LS_EBL7 C6orf222 123.74 16.18 0.093 MHC_II 6 99347304 LS_EBL7 FBXL4 111.78 11.32 0.125 MHC_II 6 139101021 LS_EBL7 CCDC28A 162.96 24 0.062 MHC_II 7 1514377 LS_EBL7 INTS1 74.38 31.23 0.052 MHC_II 7 2278515 LS_EBL7 FTSJ2 451.03 21.47 0.158 MHC_II 7 92140905 LS_EBL7 PEX1 105.03 20.46 0.105 MHC_II 8 87460494 LS_EBL7 WWP1 197.69 30.64 0.069 MHC_II 9 123538378 LS_EBL7 FBXW2 129.86 18.09 0.091 MHC_II 9 135202094 LS_EBL7 SETX 453.08 18.16 0.109 MHC_II X 129208564 LS_EBL7 ELF4 328.99 44.81 0.138 MHC_II 1 977467 LS_EBL9 AGRN 141.95 28.78 0.135 MHC_II 1 1231863 LS_EBL9 ACAP3 201.04 19.43 0.365 MHC_II 1 1271642 LS_EBL9 DVL1 17.48 54.3 0.286 MHC_II 1 1455550 LS_EBL9 ATAD3A 74.32 33.73 0.211 MHC_II 1 1571750 LS_EBL9 CDK11B 12.05 76.18 0.32 MHC_II 1 2235424 LS_EBL9 SKI 93.72 20.89 0.378 MHC_II 1 11854035 LS_EBL9 MTHFR 286.29 15.18 0.082 MHC_II

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1 11855218 LS_EBL9 MTHFR 20.69 15.18 0.081 MHC_II 1 12343399 LS_EBL9 VPS13D 20.66 13.79 0.087 MHC_II 1 16043236 LS_EBL9 PLEKHM2 5.61 26.95 0.25 MHC_II 1 16456779 LS_EBL9 EPHA2 23.31 21.07 0.27 MHC_II 1 16475182 LS_EBL9 EPHA2 44.35 21.07 0.13 MHC_II 1 17349144 LS_EBL9 SDHB 71.17 211.43 0.374 MHC_II 1 21100060 LS_EBL9 HP1BP3 12.35 89.2 0.053 MHC_II 1 22050473 LS_EBL9 USP48 9.49 39.19 0.075 MHC_II 1 22056218 LS_EBL9 USP48 14.93 39.19 0.063 MHC_II 1 22078035 LS_EBL9 USP48 43.25 39.19 0.055 MHC_II 1 22149931 LS_EBL9 HSPG2 22.19 27.75 0.059 MHC_II 1 24297760 LS_EBL9 SRSF10 248.25 108.75 0.333 MHC_II 1 27736317 LS_EBL9 WASF2 7.1 76.25 0.231 MHC_II 1 33245822 LS_EBL9 YARS 91.97 38.61 0.294 MHC_II 1 33408010 LS_EBL9 RNF19B 12.01 42.04 0.053 MHC_II 1 44424161 LS_EBL9 IPO13 14.04 15.44 0.449 MHC_II 1 46485343 LS_EBL9 MAST2 4.23 39.35 0.217 MHC_II 1 51436084 LS_EBL9 CDKN2C 10.52 16.91 0.113 MHC_II 1 62350067 LS_EBL9 INADL 7.32 29.41 0.129 MHC_II 1 78479071 LS_EBL9 DNAJB4 10.5 13.42 0.349 MHC_II 1 109200117 LS_EBL9 HENMT1 13.38 27.94 0.087 MHC_II 1 117529557 LS_EBL9 PTGFRN 43.82 42.02 0.167 MHC_II 1 146631149 LS_EBL9 PRKAB2 16.01 18.76 0.111 MHC_II 1 151149169 LS_EBL9 VPS72 150.8 38.61 0.071 MHC_II 1 151849494 LS_EBL9 THEM4 17.25 10.54 0.051 MHC_II 1 161180395 LS_EBL9 NDUFS2 34.85 146.51 0.341 MHC_II 1 166815941 LS_EBL9 POGK 97.56 33.72 0.052 MHC_II 1 180849235 LS_EBL9 XPR1 14.84 12.11 0.063 MHC_II 1 208390403 LS_EBL9 PLXNA2 43.74 18.61 0.07 MHC_II 1 211749518 LS_EBL9 SLC30A1 5.21 22.76 0.227 MHC_II 1 226016576 LS_EBL9 EPHX1 400.35 81.22 0.333 MHC_II

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1 235298999 LS_EBL9 RBM34 11.16 45.51 0.069 MHC_II 1 236148745 LS_EBL9 NID1 76.39 21.02 0.053 MHC_II 1 236208941 LS_EBL9 NID1 14.21 21.02 0.154 MHC_II 10 24873399 LS_EBL9 ARHGAP21 15.57 33.44 0.092 MHC_II 10 24873775 LS_EBL9 ARHGAP21 39.88 33.44 0.272 MHC_II 10 69565358 LS_EBL9 DNAJC12 272.98 40.27 0.054 MHC_II 10 97192222 LS_EBL9 SORBS1 111.92 21.15 0.118 MHC_II 10 97919840 LS_EBL9 ZNF518A 7.43 19.13 0.176 MHC_II 10 104157133 LS_EBL9 NFKB2 3.63 25.01 0.08 MHC_II 10 112337669 LS_EBL9 SMC3 33.05 49.66 0.102 MHC_II 10 112724670 LS_EBL9 SHOC2 14.18 34.66 0.167 MHC_II 10 115608814 LS_EBL9 DCLRE1A 119.02 10.72 0.107 MHC_II 10 120917400 LS_EBL9 SFXN4 17.63 38.6 0.056 MHC_II 10 121595149 LS_EBL9 MCMBP 24.11 36.27 0.061 MHC_II 10 129903635 LS_EBL9 MKI67 40.76 32.6 0.062 MHC_II 10 129905485 LS_EBL9 MKI67 67.33 32.6 0.133 MHC_II 11 721688 LS_EBL9 EPS8L2 22.84 146.22 0.279 MHC_II 11 3380754 LS_EBL9 ZNF195 10.92 14.94 0.163 MHC_II 11 9864229 LS_EBL9 SBF2 11.66 21.67 0.108 MHC_II 11 46818415 LS_EBL9 CKAP5 11.46 39.79 0.114 MHC_II 11 57188468 LS_EBL9 SLC43A3 8.66 14.3 0.091 MHC_II 11 61096912 LS_EBL9 DDB1 103.9 114.89 0.14 MHC_II 11 61544854 LS_EBL9 MYRF 43.62 31.56 0.265 MHC_II 11 62482788 LS_EBL9 HNRNPUL2 263.36 56.88 0.058 MHC_II 11 63667450 LS_EBL9 MARK2 96.21 43.13 0.136 MHC_II 11 64025966 LS_EBL9 PLCB3 16.26 55.67 0.337 MHC_II 11 64600378 LS_EBL9 CDC42BPG 71.44 25.31 0.317 MHC_II 11 64645826 LS_EBL9 EHD1 7.29 45.73 0.172 MHC_II 11 64863915 LS_EBL9 VPS51 55.27 63.65 0.068 MHC_II 11 65413964 LS_EBL9 SIPA1 12.32 17.15 0.081 MHC_II 11 65836146 LS_EBL9 SF3B2 46.82 128.48 0.08 MHC_II

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11 67259691 LS_EBL9 PITPNM1 25.15 30.15 0.351 MHC_II 11 94918428 LS_EBL9 SESN3 122.52 23.02 0.095 MHC_II 11 102248421 LS_EBL9 BIRC2 27.97 46.36 0.051 MHC_II 11 111594812 LS_EBL9 SIK2 252.7 16.13 0.133 MHC_II 11 114578217 LS_EBL9 NXPE2 49.29 23.83 0.125 MHC_II 11 118925327 LS_EBL9 HYOU1 9.2 76.89 0.104 MHC_II 11 118971735 LS_EBL9 DPAGT1 8.97 34.89 0.06 MHC_II 11 119003698 LS_EBL9 HINFP 28.68 18.2 0.111 MHC_II 11 128844190 LS_EBL9 ARHGAP32 26.5 33.27 0.088 MHC_II 12 442679 LS_EBL9 KDM5A 17.95 14.58 0.098 MHC_II 12 475171 LS_EBL9 KDM5A 34.5 14.58 0.12 MHC_II 12 6438503 LS_EBL9 TNFRSF1A 13.66 97.91 0.143 MHC_II 12 12673821 LS_EBL9 DUSP16 10.8 31.79 0.065 MHC_II 12 26580923 LS_EBL9 ITPR2 8.64 16.37 0.069 MHC_II 12 31448226 LS_EBL9 FAM60A 6.12 44.49 0.095 MHC_II 12 33049512 LS_EBL9 PKP2 5.53 81.59 0.069 MHC_II 12 52306904 LS_EBL9 ACVRL1 208.68 92.09 0.283 MHC_II 12 53467129 LS_EBL9 SPRYD3 137.57 40.38 0.101 MHC_II 12 56347514 LS_EBL9 DGKA 64.32 54.93 0.151 MHC_II 12 56817128 LS_EBL9 TIMELESS 20.67 23.41 0.07 MHC_II 12 58162792 LS_EBL9 METTL1 98.1 20.94 0.1 MHC_II 12 62979217 LS_EBL9 MON2 8.77 14.84 0.079 MHC_II 12 64202861 LS_EBL9 TMEM5 27.73 20.26 0.214 MHC_II 12 69260684 LS_EBL9 CPM 37.27 21.54 0.065 MHC_II 12 75889439 LS_EBL9 GLIPR1 342.78 11.17 0.1 MHC_II 12 120608090 LS_EBL9 GCN1L1 36.12 37.98 0.051 MHC_II 12 122724459 LS_EBL9 VPS33A 275.74 22.27 0.061 MHC_II 12 123800204 LS_EBL9 SBNO1 36.21 15.6 0.254 MHC_II 13 26788166 LS_EBL9 RNF6 86.2 35.68 0.088 MHC_II 13 28537278 LS_EBL9 CDX2 134.74 103.94 0.172 MHC_II 13 41134954 LS_EBL9 FOXO1 7.67 12.75 0.159 MHC_II

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13 42306241 LS_EBL9 VWA8 55.84 15.57 0.1 MHC_II 13 43462513 LS_EBL9 EPSTI1 4.03 14.75 0.068 MHC_II 13 77589604 LS_EBL9 FBXL3 28.09 32.68 0.093 MHC_II 13 79940860 LS_EBL9 RBM26 21.84 24.89 0.123 MHC_II 14 20864059 LS_EBL9 TEP1 5.81 24.58 0.093 MHC_II 14 23549379 LS_EBL9 ACIN1 6.02 93.46 0.109 MHC_II 14 24761878 LS_EBL9 DHRS1 35.66 38.48 0.067 MHC_II 14 24884470 LS_EBL9 NYNRIN 19.61 21.19 0.329 MHC_II 14 24885568 LS_EBL9 NYNRIN 14.71 21.19 0.405 MHC_II 14 45675309 LS_EBL9 MIS18BP1 20.49 15.85 0.087 MHC_II 14 51233032 LS_EBL9 NIN 159.27 15.75 0.211 MHC_II 14 55817461 LS_EBL9 FBXO34 10.28 67.89 0.069 MHC_II 14 61952305 LS_EBL9 PRKCH 5.55 12.06 0.1 MHC_II 14 69376696 LS_EBL9 ACTN1 24.53 68.29 0.051 MHC_II 14 75265068 LS_EBL9 YLPM1 280.06 17.5 0.23 MHC_II 14 75528445 LS_EBL9 ACYP1 135.87 30.51 0.176 MHC_II 14 91760521 LS_EBL9 CCDC88C 8.8 21.07 0.106 MHC_II 14 95573991 LS_EBL9 DICER1 32.43 29.4 0.068 MHC_II 15 35275295 LS_EBL9 ZNF770 11.24 23.27 0.052 MHC_II 15 40512918 LS_EBL9 BUB1B 14.43 16.53 0.1 MHC_II 15 44856787 LS_EBL9 SPG11 9.63 33.07 0.056 MHC_II 15 49325188 LS_EBL9 SECISBP2L 96.37 18.75 0.261 MHC_II 15 52515757 LS_EBL9 MYO5C 243.04 45.99 0.076 MHC_II 15 59964846 LS_EBL9 BNIP2 18.25 26.96 0.081 MHC_II 15 63948040 LS_EBL9 HERC1 11.92 14.37 0.081 MHC_II 15 64669047 LS_EBL9 KIAA0101 72.89 23.47 0.066 MHC_II 15 70971963 LS_EBL9 UACA 182.77 21.4 0.066 MHC_II 16 427044 LS_EBL9 TMEM8A 27.37 77.44 0.053 MHC_II 16 570188 LS_EBL9 RAB11FIP3 37.16 22.87 0.152 MHC_II 16 711894 LS_EBL9 WDR90 29.81 10.21 0.2 MHC_II 16 1867176 LS_EBL9 HAGH 15.57 41.18 0.053 MHC_II

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16 2126131 LS_EBL9 TSC2 8.04 37.49 0.234 MHC_II 16 2147162 LS_EBL9 PKD1 22.93 20.29 0.107 MHC_II 16 3828120 LS_EBL9 CREBBP 79.82 20.92 0.214 MHC_II 16 4659804 LS_EBL9 UBALD1 10.08 12.93 0.3 MHC_II 16 11785542 LS_EBL9 TXNDC11 15.3 58.72 0.065 MHC_II 16 24583471 LS_EBL9 RBBP6 108.53 24.71 0.325 MHC_II 16 29856073 LS_EBL9 MVP 95.6 365.36 0.235 MHC_II 16 67227020 LS_EBL9 E2F4 39.59 85.09 0.078 MHC_II 16 70531851 LS_EBL9 COG4 10.47 47.03 0.096 MHC_II 16 89217537 LS_EBL9 ACSF3 3.88 20.39 0.158 MHC_II 16 90001977 LS_EBL9 TUBB3 21.77 10.02 0.226 MHC_II 17 3851056 LS_EBL9 ATP2A3 18.86 204.38 0.093 MHC_II 17 3967806 LS_EBL9 ZZEF1 11.07 33.84 0.069 MHC_II 17 3977491 LS_EBL9 ZZEF1 8.14 33.84 0.07 MHC_II 17 4439660 LS_EBL9 SPNS2 35.94 14.22 0.128 MHC_II 17 4793023 LS_EBL9 MINK1 171.21 104.25 0.341 MHC_II 17 5292210 LS_EBL9 NUP88 249.78 38.33 0.059 MHC_II 17 7287344 LS_EBL9 TNK1 12.99 16.45 0.294 MHC_II 17 7760107 LS_EBL9 LSMD1 7.04 85.56 0.069 MHC_II 17 7798765 LS_EBL9 CHD3 262.86 36.2 0.157 MHC_II 17 8092505 LS_EBL9 C17orf59 13.84 12.72 0.174 MHC_II 17 17719648 LS_EBL9 SREBF1 24.7 34.24 0.169 MHC_II 17 26495598 LS_EBL9 NLK 23.66 12.13 0.233 MHC_II 17 29632041 LS_EBL9 EVI2B 4.79 37.61 0.083 MHC_II 17 30692357 LS_EBL9 ZNF207 193.85 132.34 0.262 MHC_II 17 34883510 LS_EBL9 MYO19 20.4 44.33 0.344 MHC_II 17 37881332 LS_EBL9 ERBB2 9.99 176.97 0.265 MHC_II 17 39981827 LS_EBL9 NT5C3B 64.61 34.03 0.067 MHC_II 17 40257879 LS_EBL9 DHX58 5.12 10.02 0.1 MHC_II 17 40948220 LS_EBL9 WNK4 7.34 43.13 0.229 MHC_II 17 42170688 LS_EBL9 HDAC5 11.15 17.79 0.107 MHC_II

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17 43531117 LS_EBL9 PLEKHM1 21.99 26.76 0.121 MHC_II 17 58035801 LS_EBL9 RNFT1 16.34 20.5 0.16 MHC_II 17 58541426 LS_EBL9 APPBP2 20.03 15.12 0.089 MHC_II 17 76134212 LS_EBL9 TMC8 2.86 12.49 0.102 MHC_II 17 79990681 LS_EBL9 RAC3 187.17 19.68 0.079 MHC_II 17 80042545 LS_EBL9 FASN 37.3 31.76 0.081 MHC_II 18 210479 LS_EBL9 USP14 44.91 27.92 0.052 MHC_II 18 5423410 LS_EBL9 EPB41L3 17.44 27.07 0.063 MHC_II 18 12325093 LS_EBL9 TUBB6 37.21 21.15 0.14 MHC_II 18 18625344 LS_EBL9 ROCK1 169.04 26.31 0.059 MHC_II 18 29412058 LS_EBL9 TRAPPC8 77.26 19.6 0.085 MHC_II 19 625190 LS_EBL9 POLRMT 45.67 24.28 0.109 MHC_II 19 990868 LS_EBL9 WDR18 37.67 33.71 0.2 MHC_II 19 1255534 LS_EBL9 MIDN 3.65 50.87 0.098 MHC_II 19 1828066 LS_EBL9 REXO1 10.09 18.48 0.429 MHC_II 19 1979174 LS_EBL9 CSNK1G2 103.68 44.56 0.242 MHC_II 19 4328730 LS_EBL9 STAP2 65.52 133.91 0.311 MHC_II 19 7747413 LS_EBL9 TRAPPC5 14.85 74.7 0.288 MHC_II 19 9721589 LS_EBL9 ZNF561 65.15 14.17 0.107 MHC_II 19 10202178 LS_EBL9 C19orf66 11.28 25.87 0.225 MHC_II 19 10439688 LS_EBL9 RAVER1 34.75 41.48 0.175 MHC_II 19 10662583 LS_EBL9 ATG4D 116.71 27.62 0.153 MHC_II 19 11144026 LS_EBL9 SMARCA4 140.67 51.18 0.142 MHC_II 19 13051678 LS_EBL9 CALR 79.65 891.28 0.134 MHC_II 19 13216116 LS_EBL9 TRMT1 34.18 31.88 0.108 MHC_II 19 13247130 LS_EBL9 NACC1 11.8 36.3 0.244 MHC_II 19 14581010 LS_EBL9 PKN1 323.9 26.51 0.1 MHC_II 19 23544208 LS_EBL9 ZNF91 9.82 28.94 0.064 MHC_II 19 33095294 LS_EBL9 ANKRD27 23.68 28.49 0.15 MHC_II 19 33137391 LS_EBL9 ANKRD27 11.75 28.49 0.083 MHC_II 19 35232224 LS_EBL9 ZNF181 14.09 12.12 0.176 MHC_II

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19 35769607 LS_EBL9 USF2 435.1 90.22 0.068 MHC_II 19 40411811 LS_EBL9 FCGBP 26.79 208.35 0.102 MHC_II 19 45496046 LS_EBL9 CLPTM1 228.65 87 0.301 MHC_II 19 46375988 LS_EBL9 FOXA3 9.7 42.7 0.104 MHC_II 19 49134196 LS_EBL9 DBP 22.47 13.29 0.333 MHC_II 19 50059812 LS_EBL9 NOSIP 21.83 75.36 0.367 MHC_II 19 50155915 LS_EBL9 SCAF1 27.77 18.74 0.111 MHC_II 19 50166696 LS_EBL9 IRF3 21.4 67.78 0.079 MHC_II 19 52448812 LS_EBL9 ZNF613 220.2 11.47 0.19 MHC_II 19 54631554 LS_EBL9 PRPF31 38.18 45.11 0.25 MHC_II 19 54969678 LS_EBL9 LENG8 4.81 96.25 0.092 MHC_II 19 55789019 LS_EBL9 HSPBP1 8.66 42.31 0.057 MHC_II 19 56156449 LS_EBL9 ZNF581 146.29 17.03 0.292 MHC_II 2 10799303 LS_EBL9 NOL10 10.72 19.01 0.095 MHC_II 2 15534390 LS_EBL9 NBAS 4.38 15.5 0.241 MHC_II 2 43452248 LS_EBL9 ZFP36L2 18.01 206.32 0.162 MHC_II 2 46808174 LS_EBL9 RHOQ 3.67 19.66 0.088 MHC_II 2 48026462 LS_EBL9 MSH6 10.25 30.73 0.085 MHC_II 2 54101570 LS_EBL9 PSME4 14.64 18.72 0.094 MHC_II 2 55470668 LS_EBL9 MTIF2 4.43 55.73 0.057 MHC_II 2 55863406 LS_EBL9 PNPT1 13.28 22.56 0.136 MHC_II 2 61441772 LS_EBL9 USP34 4.67 25.92 0.163 MHC_II 2 75897272 LS_EBL9 GCFC2 96.16 11.01 0.235 MHC_II 2 95943250 LS_EBL9 PROM2 27.51 27.12 0.094 MHC_II 2 96955545 LS_EBL9 SNRNP200 64.46 98.75 0.055 MHC_II 2 112863638 LS_EBL9 TMEM87B 61.86 38.03 0.091 MHC_II 2 120979753 LS_EBL9 TMEM185B 8.04 12.96 0.065 MHC_II 2 120980180 LS_EBL9 TMEM185B 9.19 12.96 0.339 MHC_II 2 159490705 LS_EBL9 PKP4 43.9 37.38 0.052 MHC_II 2 160735816 LS_EBL9 LY75 15.35 29.84 0.053 MHC_II 2 170460570 LS_EBL9 PPIG 67.2 62.16 0.29 MHC_II

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2 230675881 LS_EBL9 TRIP12 181.13 51.12 0.155 MHC_II 2 235950297 LS_EBL9 SH3BP4 15.42 28.09 0.391 MHC_II 20 18118652 LS_EBL9 PET117 33.93 18.49 0.344 MHC_II 20 20592041 LS_EBL9 RALGAPA2 8.04 35.04 0.09 MHC_II 20 30897620 LS_EBL9 KIF3B 11.19 36.43 0.247 MHC_II 20 32247356 LS_EBL9 NECAB3 388.68 25.7 0.4 MHC_II 20 33623034 LS_EBL9 TRPC4AP 23.22 68.31 0.055 MHC_II 20 34451002 LS_EBL9 PHF20 84.58 13.24 0.222 MHC_II 20 43243243 LS_EBL9 PKIG 290.83 64.79 0.157 MHC_II 20 49509089 LS_EBL9 ADNP 22.23 39.08 0.097 MHC_II 20 62192460 LS_EBL9 HELZ2 154.48 10.41 0.056 MHC_II 21 34117929 LS_EBL9 PAXBP1 28.13 27.45 0.056 MHC_II 21 34889364 LS_EBL9 GART 10.06 47.42 0.086 MHC_II 21 37612076 LS_EBL9 DOPEY2 11.48 23.16 0.125 MHC_II 21 42817982 LS_EBL9 MX1 5.28 24.68 0.065 MHC_II 21 43711228 LS_EBL9 ABCG1 10.52 23.71 0.106 MHC_II 22 21333587 LS_EBL9 AIFM3 24.34 35.25 0.089 MHC_II 22 21984001 LS_EBL9 YDJC 74.52 18.86 0.471 MHC_II 22 22294047 LS_EBL9 PPM1F 11.28 12.47 0.175 MHC_II 22 23634785 LS_EBL9 BCR 5.77 24.86 0.296 MHC_II 22 36701983 LS_EBL9 MYH9 8.73 335.27 0.057 MHC_II 22 38894446 LS_EBL9 DDX17 5.3 220.77 0.241 MHC_II 22 50217295 LS_EBL9 BRD1 425.96 20.64 0.063 MHC_II 22 50659306 LS_EBL9 TUBGCP6 43.9 22.16 0.061 MHC_II 22 50716563 LS_EBL9 PLXNB2 11.08 153.08 0.106 MHC_II 22 51063643 LS_EBL9 ARSA 151.61 30.06 0.053 MHC_II 3 10123118 LS_EBL9 FANCD2 14.65 14.4 0.074 MHC_II 3 13363302 LS_EBL9 NUP210 15.33 22.46 0.26 MHC_II 3 45136908 LS_EBL9 CDCP1 31.1 39.75 0.074 MHC_II 3 50009556 LS_EBL9 RBM6 15.02 61.45 0.065 MHC_II 3 58120468 LS_EBL9 FLNB 68.75 171.3 0.077 MHC_II

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3 69077385 LS_EBL9 TMF1 422.17 26.57 0.093 MHC_II 3 81586108 LS_EBL9 GBE1 33.54 12.26 0.132 MHC_II 3 98300326 LS_EBL9 CPOX 42.32 23.5 0.053 MHC_II 3 107938267 LS_EBL9 IFT57 20.09 32.58 0.063 MHC_II 3 110852822 LS_EBL9 PVRL3 70.21 42.45 0.211 MHC_II 3 113218377 LS_EBL9 SPICE1 22.28 11.34 0.079 MHC_II 3 121417268 LS_EBL9 GOLGB1 43.04 52.1 0.065 MHC_II 3 127965882 LS_EBL9 EEFSEC 6.09 17.53 0.395 MHC_II 3 131188575 LS_EBL9 MRPL3 373.75 101.53 0.248 MHC_II 3 148768078 LS_EBL9 HLTF 111.14 15.47 0.125 MHC_II 3 169587433 LS_EBL9 LRRC31 72.6 41.43 0.056 MHC_II 3 172115129 LS_EBL9 FNDC3B 6.96 32.87 0.056 MHC_II 3 183885810 LS_EBL9 DVL3 8.5 35.49 0.207 MHC_II 3 184294687 LS_EBL9 EPHB3 338.91 81.37 0.073 MHC_II 4 955618 LS_EBL9 DGKQ 17.02 34.7 0.338 MHC_II 4 960297 LS_EBL9 DGKQ 20.61 34.7 0.161 MHC_II 4 2934900 LS_EBL9 MFSD10 22.89 40.13 0.194 MHC_II 4 48567607 LS_EBL9 FRYL 30.06 51.86 0.066 MHC_II 4 79793027 LS_EBL9 BMP2K 72.5 20.81 0.065 MHC_II 4 113353595 LS_EBL9 ALPK1 9.28 12.71 0.138 MHC_II 4 122723894 LS_EBL9 EXOSC9 5.69 22.91 0.128 MHC_II 4 146071684 LS_EBL9 OTUD4 37.79 21.96 0.061 MHC_II 4 149075933 LS_EBL9 NR3C2 252.56 41.31 0.071 MHC_II 4 156850771 LS_EBL9 CTSO 147.17 30.12 0.059 MHC_II 4 187549341 LS_EBL9 FAT1 76.87 58.85 0.067 MHC_II 5 306758 LS_EBL9 PDCD6 55.31 182.19 0.324 MHC_II 5 10430040 LS_EBL9 6-Mar 27.85 39.52 0.297 MHC_II 5 14488280 LS_EBL9 TRIO 181.52 24.1 0.226 MHC_II 5 16465696 LS_EBL9 ZNF622 8.34 54.44 0.103 MHC_II 5 33461120 LS_EBL9 TARS 26.38 73.35 0.059 MHC_II 5 36985591 LS_EBL9 NIPBL 7.76 22.28 0.091 MHC_II

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5 60050576 LS_EBL9 ELOVL7 40.01 24.32 0.059 MHC_II 5 71533860 LS_EBL9 MRPS27 29.08 57.35 0.077 MHC_II 5 72851344 LS_EBL9 ANKRA2 12.51 16.43 0.104 MHC_II 5 74041570 LS_EBL9 GFM2 180.49 24.57 0.122 MHC_II 5 74685424 LS_EBL9 COL4A3BP 242.69 19.47 0.118 MHC_II 5 76745613 LS_EBL9 WDR41 39.61 18.65 0.08 MHC_II 5 79933757 LS_EBL9 DHFR 52.66 73.04 0.065 MHC_II 5 95226836 LS_EBL9 ELL2 7.76 12.28 0.1 MHC_II 5 95234316 LS_EBL9 ELL2 68.3 12.28 0.054 MHC_II 5 96512898 LS_EBL9 RIOK2 23.51 17.26 0.054 MHC_II 5 130721248 LS_EBL9 CDC42SE2 121.49 88.37 0.218 MHC_II 5 140957846 LS_EBL9 DIAPH1 459.2 50.12 0.062 MHC_II 5 156746887 LS_EBL9 CYFIP2 17.62 20.05 0.267 MHC_II 5 162870695 LS_EBL9 CCNG1 20.34 132.96 0.161 MHC_II 5 176942036 LS_EBL9 DDX41 16.31 73.15 0.053 MHC_II 5 177569638 LS_EBL9 RMND5B 11.2 32.59 0.233 MHC_II 6 30154180 LS_EBL9 TRIM26 83.53 46.44 0.066 MHC_II 6 31516168 LS_EBL9 NFKBIL1 12.25 21.26 0.138 MHC_II 6 31595663 LS_EBL9 PRRC2A 20.64 63.91 0.234 MHC_II 6 31852720 LS_EBL9 EHMT2 5.46 27.11 0.098 MHC_II 6 31926206 LS_EBL9 NELFE 5.79 84.3 0.41 MHC_II 6 34214562 LS_EBL9 C6orf1 125.77 18.21 0.053 MHC_II 6 39162413 LS_EBL9 KCNK5 10.08 23.33 0.152 MHC_II 6 42797450 LS_EBL9 GLTSCR1L 90.09 13.57 0.2 MHC_II 6 42937639 LS_EBL9 PEX6 8.22 19.3 0.2 MHC_II 6 42946341 LS_EBL9 PEX6 8.38 19.3 0.109 MHC_II 6 43639557 LS_EBL9 MRPS18A 24.95 90.89 0.109 MHC_II 6 44358024 LS_EBL9 CDC5L 12.12 24.3 0.067 MHC_II 6 99374699 LS_EBL9 FBXL4 78.76 15.05 0.111 MHC_II 6 116599823 LS_EBL9 TSPYL1 121.48 44.41 0.062 MHC_II 6 151766570 LS_EBL9 RMND1 2.84 21.64 0.091 MHC_II

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6 153311172 LS_EBL9 MTRF1L 205.2 23.52 0.172 MHC_II 7 17931170 LS_EBL9 SNX13 14.57 23.47 0.083 MHC_II 7 17937003 LS_EBL9 SNX13 35.63 23.47 0.125 MHC_II 7 34977669 LS_EBL9 DPY19L1 4.63 17.98 0.068 MHC_II 7 35053220 LS_EBL9 DPY19L1 6.61 17.98 0.091 MHC_II 7 44112783 LS_EBL9 POLM 257.73 17.08 0.081 MHC_II 7 45140880 LS_EBL9 TBRG4 3.53 78.71 0.312 MHC_II 7 50534962 LS_EBL9 DDC 147.18 50.65 0.057 MHC_II 7 51095806 LS_EBL9 COBL 119.2 24.04 0.207 MHC_II 7 72892029 LS_EBL9 BAZ1B 59.8 38.34 0.071 MHC_II 7 76112243 LS_EBL9 DTX2 3.8 26.95 0.133 MHC_II 7 92765181 LS_EBL9 SAMD9L 52.32 13.34 0.068 MHC_II 7 92883212 LS_EBL9 CCDC132 14.54 15.11 0.261 MHC_II 7 100488847 LS_EBL9 ACHE 44.92 17.52 0.292 MHC_II 7 100642161 LS_EBL9 MUC12 29.42 525.87 0.848 MHC_II 7 102106398 LS_EBL9 LRWD1 19.46 13.28 0.28 MHC_II 7 111161406 LS_EBL9 IMMP2L 17.52 10.06 0.078 MHC_II 7 124499075 LS_EBL9 POT1 31.57 10.93 0.125 MHC_II 7 143002054 LS_EBL9 CASP2 15.09 31.36 0.333 MHC_II 7 150730730 LS_EBL9 ABCB8 3.23 11.68 0.253 MHC_II 7 157174982 LS_EBL9 DNAJB6 156.52 95.14 0.306 MHC_II 8 22267579 LS_EBL9 SLC39A14 5.43 107.13 0.06 MHC_II 8 30510988 LS_EBL9 GTF2E2 100.86 29.19 0.229 MHC_II 8 41794936 LS_EBL9 KAT6A 177.26 15.89 0.079 MHC_II 8 59508137 LS_EBL9 NSMAF 16.89 25.75 0.1 MHC_II 8 61765468 LS_EBL9 CHD7 10.46 10.04 0.286 MHC_II 8 62460647 LS_EBL9 ASPH 52.01 100.53 0.069 MHC_II 8 68163640 LS_EBL9 ARFGEF1 37.86 35 0.078 MHC_II 8 74529570 LS_EBL9 STAU2 41.23 24.13 0.075 MHC_II 8 82591413 LS_EBL9 IMPA1 95.76 24.23 0.086 MHC_II 8 125506080 LS_EBL9 TATDN1 12.1 31.79 0.094 MHC_II

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8 134488056 LS_EBL9 ST3GAL1 15.07 12.92 0.138 MHC_II 8 141810636 LS_EBL9 PTK2 32.06 47.62 0.051 MHC_II 8 145111352 LS_EBL9 OPLAH 55.33 19.32 0.104 MHC_II 8 145623823 LS_EBL9 CPSF1 36.34 55.01 0.291 MHC_II 9 152043 LS_EBL9 CBWD1 8.98 16.98 0.5 MHC_II 9 5732473 LS_EBL9 KIAA1432 10.64 11.98 0.3 MHC_II 9 5968945 LS_EBL9 KIAA2026 26.97 10.3 0.167 MHC_II 9 19346207 LS_EBL9 DENND4C 5.11 29.02 0.065 MHC_II 9 20365672 LS_EBL9 MLLT3 47.43 28.95 0.085 MHC_II 9 74332933 LS_EBL9 TMEM2 30.84 53.23 0.056 MHC_II 9 77455075 LS_EBL9 TRPM6 13.44 18.5 0.115 MHC_II 9 95030500 LS_EBL9 IARS 41.91 64.53 0.082 MHC_II 9 100437746 LS_EBL9 XPA 81.41 13.76 0.167 MHC_II 9 101589145 LS_EBL9 GALNT12 10.13 104.19 0.179 MHC_II 9 110248156 LS_EBL9 KLF4 100.85 143.31 0.062 MHC_II 9 116021054 LS_EBL9 SLC31A1 21.5 32.13 0.291 MHC_II 9 119461106 LS_EBL9 TRIM32 13.78 11.61 0.273 MHC_II 9 124118368 LS_EBL9 STOM 39.88 19.91 0.091 MHC_II 9 125923305 LS_EBL9 STRBP 4.68 22.45 0.055 MHC_II 9 130869309 LS_EBL9 SLC25A25 6.75 18.31 0.194 MHC_II 9 130984829 LS_EBL9 DNM1 10.54 13.42 0.567 MHC_II 9 134021644 LS_EBL9 NUP214 40.64 27.68 0.263 MHC_II 9 134090719 LS_EBL9 NUP214 16.27 27.68 0.051 MHC_II 9 134458025 LS_EBL9 RAPGEF1 7.07 29.09 0.055 MHC_II 9 135173640 LS_EBL9 SETX 52.42 21.19 0.083 MHC_II X 3544497 LS_EBL9 PRKX 15.47 20.22 0.058 MHC_II X 7252131 LS_EBL9 STS 18.41 14.83 0.178 MHC_II X 39923638 LS_EBL9 BCOR 12.15 17.63 0.159 MHC_II X 39932396 LS_EBL9 BCOR 23.46 17.63 0.073 MHC_II X 54043077 LS_EBL9 PHF8 178.11 16.67 0.095 MHC_II X 76937083 LS_EBL9 ATRX 199.55 17.23 0.167 MHC_II

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X 100667661 LS_EBL9 HNRNPH2 13.4 49.82 0.051 MHC_II X 106890852 LS_EBL9 PRPS1 8.98 23.03 0.103 MHC_II X 114864240 LS_EBL9 PLS3 58.51 26.96 0.089 MHC_II X 131516211 LS_EBL9 MBNL3 50.08 11.86 0.111 MHC_II X 152959811 LS_EBL9 SLC6A8 15.72 110.6 0.454 MHC_II X 152981045 LS_EBL9 BCAP31 4.65 310.72 0.27 MHC_II 1 11182058 LS_T1 MTOR 201.94 17.92 0.079 MHC_II 1 39854317 LS_T1 MACF1 278.75 38.27 0.133 MHC_II 1 46655596 LS_T1 POMGNT1 405.24 29.79 0.078 MHC_II 1 156252454 LS_T1 SMG5 15.26 21.54 0.267 MHC_II 1 162769548 LS_T1 HSD17B7 107.45 29.33 0.083 MHC_II 1 220162105 LS_T1 EPRS 92.03 43.79 0.083 MHC_II 10 89692979 LS_T1 PTEN 133.67 17.81 0.474 MHC_II 10 89717719 LS_T1 PTEN 296.41 17.81 0.299 MHC_II 11 6629392 LS_T1 ILK 63.4 75.69 0.077 MHC_II 11 9983535 LS_T1 SBF2 80.84 10.46 0.435 MHC_II 11 62496412 LS_T1 TTC9C 92.64 16.17 0.068 MHC_II 12 46321734 LS_T1 SCAF11 389.93 10.91 0.111 MHC_II 12 72036265 LS_T1 ZFC3H1 380.95 18.42 0.409 MHC_II 12 99042471 LS_T1 APAF1 195.59 10.78 0.407 MHC_II 12 121783822 LS_T1 ANAPC5 35.94 27.53 0.386 MHC_II 12 133249803 LS_T1 POLE 66.36 12 0.071 MHC_II 13 103266498 LS_T1 TPP2 40.17 13.7 0.071 MHC_II 13 103292625 LS_T1 TPP2 167.98 13.7 0.528 MHC_II 13 114288254 LS_T1 TFDP1 59.59 22.41 0.456 MHC_II 14 64612875 LS_T1 SYNE2 92.95 31.28 0.58 MHC_II 14 69256455 LS_T1 ZFP36L1 64.92 16.07 0.366 MHC_II 14 77935551 LS_T1 AHSA1 353.2 109.17 0.082 MHC_II 14 102505502 LS_T1 DYNC1H1 159.17 137.77 0.276 MHC_II 16 29465368 LS_T1 BOLA2 81.38 158.48 0.138 MHC_II 16 31049934 LS_T1 STX4 111.82 26.6 0.235 MHC_II

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16 53515728 LS_T1 RBL2 37.96 10.88 0.19 MHC_II 16 70400156 LS_T1 DDX19A 248.98 21.85 0.4 MHC_II 16 74666475 LS_T1 RFWD3 71.09 12.54 0.275 MHC_II 16 89620217 LS_T1 SPG7 234.16 32.2 0.066 MHC_II 16 90001221 LS_T1 TUBB3 473.83 87.55 0.432 MHC_II 17 4619810 LS_T1 ARRB2 38.55 20.19 0.239 MHC_II 17 15984038 LS_T1 NCOR1 162.44 35.91 0.211 MHC_II 17 49077049 LS_T1 SPAG9 478.33 13.72 0.291 MHC_II 17 78355358 LS_T1 RNF213 275.32 129.82 0.31 MHC_II 18 33800145 LS_T1 MOCOS 116.01 23.34 0.333 MHC_II 19 40883695 LS_T1 PLD3 148.54 26.69 0.118 MHC_II 19 45397092 LS_T1 TOMM40 247.28 14.96 0.435 MHC_II 2 32773057 LS_T1 BIRC6 200.5 27.91 0.074 MHC_II 2 46608779 LS_T1 EPAS1 58.82 19.56 0.081 MHC_II 2 99998635 LS_T1 EIF5B 472.88 49.13 0.476 MHC_II 2 128038115 LS_T1 ERCC3 119.24 20.07 0.348 MHC_II 2 169699563 LS_T1 NOSTRIN 215.1 13.17 0.148 MHC_II 20 2633947 LS_T1 NOP56 94.76 78.19 0.429 MHC_II 21 34924324 LS_T1 SON 255.17 56.53 0.5 MHC_II 22 24439373 LS_T1 CABIN1 111.5 28.94 0.422 MHC_II 22 42606271 LS_T1 TCF20 414.79 13.03 0.286 MHC_II 3 9833114 LS_T1 TADA3 149.53 15.9 0.403 MHC_II 3 47036795 LS_T1 NBEAL2 43.64 15.11 0.154 MHC_II 3 69124637 LS_T1 UBA3 126.22 18.66 0.337 MHC_II 3 110837594 LS_T1 PVRL3 24.85 10.69 0.213 MHC_II 3 122414425 LS_T1 PARP14 295.92 73.63 0.073 MHC_II 3 145824354 LS_T1 PLOD2 246.26 27.68 0.325 MHC_II 3 172046826 LS_T1 FNDC3B 123.93 26.71 0.056 MHC_II 4 435858 LS_T1 ZNF721 31.27 14.19 0.44 MHC_II 4 186185626 LS_T1 SNX25 374.27 13.65 0.38 MHC_II 5 102249702 LS_T1 PAM 203.57 27.57 0.368 MHC_II

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5 131819674 LS_T1 IRF1 143.77 19.1 0.051 MHC_II 5 141488586 LS_T1 NDFIP1 76.85 18.93 0.286 MHC_II 6 13321256 LS_T1 TBC1D7 39.03 15.97 0.204 MHC_II 6 29910371 LS_T1 HLA-A 462.68 2109.74 0.234 MHC_II 6 33655905 LS_T1 ITPR3 52.29 37.11 0.086 MHC_II 6 131186705 LS_T1 EPB41L2 152.58 111.27 0.538 MHC_II 6 143806363 LS_T1 PEX3 196.69 10.34 0.429 MHC_II 6 151247260 LS_T1 MTHFD1L 121.29 33.76 0.362 MHC_II 7 50605671 LS_T1 DDC 431.07 24.32 0.484 MHC_II 8 118847729 LS_T1 EXT1 184.49 17.96 0.253 MHC_II 8 120793409 LS_T1 TAF2 55.39 16.26 0.122 MHC_II 8 141407810 LS_T1 TRAPPC9 51.75 23.41 0.073 MHC_II 8 144941319 LS_T1 EPPK1 297.62 26.26 0.535 MHC_II 9 35711038 LS_T1 TLN1 53.96 38.24 0.204 MHC_II 9 106896829 LS_T1 SMC2 348.21 10.51 0.386 MHC_II 1 16462199 LS_T2 EPHA2 114.72 14.37 0.122 MHC_II 1 22965632 LS_T2 C1QA 81.11 20.92 0.06 MHC_II 1 31764761 LS_T2 SNRNP40 121.8 26.5 0.059 MHC_II 1 32782323 LS_T2 HDAC1 74.1 68.91 0.524 MHC_II 1 59248285 LS_T2 JUN 88.67 28.32 0.188 MHC_II 1 89476705 LS_T2 GBP3 213.66 28.79 0.667 MHC_II 1 150460476 LS_T2 TARS2 311.66 17.82 0.2 MHC_II 1 154904847 LS_T2 PMVK 169.23 12.88 0.588 MHC_II 1 186329124 LS_T2 TPR 137.41 31.57 0.115 MHC_II 1 245021483 LS_T2 HNRNPU 100.79 58.32 0.5 MHC_II 10 89720812 LS_T2 PTEN 77.38 18.91 0.322 MHC_II 11 1262542 LS_T2 MUC5B 65.09 96.14 0.103 MHC_II 11 13736194 LS_T2 FAR1 60.04 11.35 0.397 MHC_II 11 34112143 LS_T2 CAPRIN1 16.74 79.47 0.097 MHC_II 11 130066291 LS_T2 ST14 92.8 95.8 0.319 MHC_II 12 6969641 LS_T2 USP5 248.4 33.3 0.082 MHC_II

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12 14689518 LS_T2 PLBD1 168.49 17.62 0.485 MHC_II 12 31255383 LS_T2 DDX11 314.69 24.26 0.067 MHC_II 12 31255384 LS_T2 DDX11 178.23 24.26 0.067 MHC_II 12 57585199 LS_T2 LRP1 207.79 41.4 0.07 MHC_II 12 62783404 LS_T2 USP15 80.91 11.05 0.123 MHC_II 12 99074151 LS_T2 APAF1 133.78 10.42 0.254 MHC_II 12 112460437 LS_T2 ERP29 123.15 27.43 0.174 MHC_II 14 21869077 LS_T2 CHD8 69.54 10.77 0.123 MHC_II 14 21875095 LS_T2 CHD8 73.37 10.77 0.115 MHC_II 14 50971538 LS_T2 MAP4K5 134.53 10.73 0.364 MHC_II 14 72128104 LS_T2 SIPA1L1 381.27 12.01 0.146 MHC_II 14 75367836 LS_T2 DLST 81.81 35.13 0.174 MHC_II 14 91948172 LS_T2 SMEK1 321.78 12.16 0.086 MHC_II 14 97299907 LS_T2 VRK1 226.56 37.96 0.128 MHC_II 14 103418907 LS_T2 CDC42BPB 134.78 13.33 0.125 MHC_II 15 28483285 LS_T2 HERC2 306.5 13.2 0.11 MHC_II 15 28508208 LS_T2 HERC2 203.28 13.2 0.237 MHC_II 15 42525427 LS_T2 TMEM87A 85.95 36.19 0.079 MHC_II 15 70961111 LS_T2 UACA 119.53 11.39 0.057 MHC_II 15 73547088 LS_T2 NEO1 222.85 22.92 0.435 MHC_II 16 11984967 LS_T2 GSPT1 220.4 27.65 0.433 MHC_II 16 18853054 LS_T2 SMG1 19.25 21.57 0.39 MHC_II 16 28123326 LS_T2 XPO6 27.84 15.66 0.227 MHC_II 16 28845462 LS_T2 ATXN2L 361.06 11.21 0.103 MHC_II 16 47727378 LS_T2 PHKB 113.43 32.8 0.238 MHC_II 16 67477072 LS_T2 ATP6V0D1 37.55 18.22 0.149 MHC_II 16 69191061 LS_T2 CIRH1A 18.33 52.52 0.066 MHC_II 16 89337296 LS_T2 ANKRD11 326.06 30.62 0.444 MHC_II 17 7126528 LS_T2 ACADVL 63.32 223.5 0.21 MHC_II 17 17717028 LS_T2 SREBF1 253.49 11 0.115 MHC_II 17 18151059 LS_T2 FLII 25.28 23.68 0.306 MHC_II

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17 18781034 LS_T2 PRPSAP2 139.42 14.05 0.173 MHC_II 17 26901809 LS_T2 ALDOC 475.25 35.33 0.472 MHC_II 17 28749817 LS_T2 CPD 338.43 18.07 0.177 MHC_II 17 30226715 LS_T2 UTP6 22.16 26.21 0.174 MHC_II 17 38062171 LS_T2 GSDMB 67.68 19.48 0.071 MHC_II 17 40647674 LS_T2 ATP6V0A1 20.56 10.72 0.077 MHC_II 17 42429820 LS_T2 GRN 72.72 92.61 0.293 MHC_II 17 45750506 LS_T2 KPNB1 144.42 120.22 0.069 MHC_II 17 65353445 LS_T2 PSMD12 46.06 19.88 0.224 MHC_II 17 65907184 LS_T2 BPTF 436.23 14.4 0.184 MHC_II 17 74063409 LS_T2 SRP68 181.91 23.01 0.205 MHC_II 18 28672130 LS_T2 DSC2 306.83 35.01 0.077 MHC_II 18 46808503 LS_T2 DYM 71.61 20.47 0.2 MHC_II 19 2123363 LS_T2 AP3D1 38.23 13.6 0.464 MHC_II 19 4475560 LS_T2 HDGFRP2 414.48 15.71 0.192 MHC_II 19 5896999 LS_T2 NDUFA11 42.71 68.3 0.369 MHC_II 19 12849356 LS_T2 ASNA1 88.33 26.25 0.25 MHC_II 19 17387672 LS_T2 BABAM1 184.46 25.54 0.077 MHC_II 19 38782575 LS_T2 SPINT2 112.99 209.19 0.081 MHC_II 19 39959402 LS_T2 SUPT5H 33.04 27.54 0.056 MHC_II 19 40741918 LS_T2 AKT2 53.99 12.16 0.055 MHC_II 19 47700504 LS_T2 SAE1 307.01 27.34 0.252 MHC_II 2 48025788 LS_T2 MSH6 109.4 30.88 0.062 MHC_II 2 48025790 LS_T2 MSH6 123.47 30.88 0.073 MHC_II 2 96942849 LS_T2 SNRNP200 487.48 65.81 0.07 MHC_II 2 150426516 LS_T2 MMADHC 63.23 43.77 0.056 MHC_II 2 206997717 LS_T2 NDUFS1 87.03 40.48 0.105 MHC_II 2 223787440 LS_T2 ACSL3 66.07 11.2 0.081 MHC_II 20 30154065 LS_T2 HM13 398.83 44.86 0.092 MHC_II 20 35526856 LS_T2 SAMHD1 22.82 34.84 0.051 MHC_II 22 44547427 LS_T2 PARVB 223.91 34.31 0.192 MHC_II

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3 37045935 LS_T2 MLH1 119.22 35.66 0.395 MHC_II 3 49050009 LS_T2 WDR6 41.23 17.19 0.138 MHC_II 3 49051303 LS_T2 WDR6 19.39 17.19 0.278 MHC_II 3 195508858 LS_T2 MUC4 102.22 107.8 0.115 MHC_II 4 2514283 LS_T2 RNF4 159.43 17.94 0.269 MHC_II 4 56290737 LS_T2 TMEM165 365.88 12.5 0.358 MHC_II 4 76587136 LS_T2 G3BP2 65.1 37.56 0.163 MHC_II 4 119678889 LS_T2 SEC24D 446.44 25.68 0.057 MHC_II 4 144469241 LS_T2 SMARCA5 275.3 21.93 0.164 MHC_II 4 151727449 LS_T2 LRBA 120.07 19.05 0.213 MHC_II 4 187629070 LS_T2 FAT1 39.18 58.64 0.186 MHC_II 5 14508359 LS_T2 TRIO 113.68 15.61 0.311 MHC_II 5 16818245 LS_T2 MYO10 61 14.47 0.231 MHC_II 5 36995756 LS_T2 NIPBL 344.69 18.22 0.139 MHC_II 5 52229780 LS_T2 ITGA1 198.88 18.52 0.071 MHC_II 5 70892139 LS_T2 MCCC2 133.01 55.28 0.245 MHC_II 5 74655855 LS_T2 HMGCR 498.79 23.71 0.308 MHC_II 6 27835006 LS_T2 HIST1H1B 200.97 131.59 0.253 MHC_II 6 117869454 LS_T2 DCBLD1 389.53 11.49 0.189 MHC_II 6 135300334 LS_T2 HBS1L 108.95 10.07 0.13 MHC_II 7 98552779 LS_T2 TRRAP 51.5 10.55 0.375 MHC_II 7 99262879 LS_T2 CYP3A5 448.81 14.15 0.333 MHC_II 7 100635071 LS_T2 MUC12 94.57 263.93 0.083 MHC_II 7 100635072 LS_T2 MUC12 472.7 263.93 0.082 MHC_II 8 48883248 LS_T2 MCM4 340.42 22 0.057 MHC_II 8 95539270 LS_T2 KIAA1429 113.92 13.45 0.111 MHC_II 9 34616038 LS_T2 DCTN3 134.52 18.53 0.136 MHC_II 9 79898557 LS_T2 VPS13A 21.78 36.23 0.079 MHC_II 9 100845146 LS_T2 NANS 252.11 68.55 0.295 MHC_II 9 131301957 LS_T2 GLE1 104.71 20.26 0.073 MHC_II 9 139313089 LS_T2 PMPCA 78.06 34.03 0.088 MHC_II

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9 139403486 LS_T2 NOTCH1 440.31 11.07 0.079 MHC_II 9 140137523 LS_T2 TUBB4B 77.05 592.62 0.173 MHC_II X 23724831 LS_T2 ACOT9 17.76 19.87 0.667 MHC_II X 41060361 LS_T2 USP9X 146.49 47.95 0.066 MHC_II X 77126322 LS_T2 MAGT1 83.51 19.04 0.081 MHC_II 1 1254701 LS_T3 CPSF3L 84.71 13.71 0.437 MHC_II 1 1277511 LS_T3 DVL1 113.53 15.08 0.487 MHC_II 1 8674712 LS_T3 RERE 235.88 11.11 0.077 MHC_II 1 8716109 LS_T3 RERE 477.33 11.11 0.818 MHC_II 1 9809959 LS_T3 CLSTN1 444.81 36.51 0.122 MHC_II 1 10331618 LS_T3 KIF1B 117.44 22.22 0.393 MHC_II 1 12378200 LS_T3 VPS13D 46.5 21.35 0.27 MHC_II 1 14108560 LS_T3 PRDM2 20.74 12.95 0.165 MHC_II 1 16767342 LS_T3 NECAP2 66.61 25.01 0.458 MHC_II 1 16778470 LS_T3 NECAP2 13.18 25.01 0.277 MHC_II 1 19415317 LS_T3 UBR4 37.34 45.06 0.412 MHC_II 1 19561641 LS_T3 EMC1 46.75 14.42 0.069 MHC_II 1 22078094 LS_T3 USP48 239.21 21.81 0.371 MHC_II 1 25573045 LS_T3 C1orf63 17.92 17.9 0.328 MHC_II 1 33415211 LS_T3 RNF19B 35.02 16.86 0.269 MHC_II 1 35657978 LS_T3 SFPQ 206.17 177.46 0.333 MHC_II 1 44056907 LS_T3 PTPRF 32.83 28.73 0.733 MHC_II 1 52704042 LS_T3 ZFYVE9 296.04 15.8 0.423 MHC_II 1 89279305 LS_T3 PKN2 182.9 25.89 0.429 MHC_II 1 97847999 LS_T3 DPYD 139.97 49.01 0.067 MHC_II 1 151318741 LS_T3 RFX5 33.78 21.85 0.852 MHC_II 1 151553496 LS_T3 TUFT1 173.39 18.23 0.623 MHC_II 1 154192379 LS_T3 C1orf43 6.98 25.35 0.129 MHC_II 1 156563821 LS_T3 APOA1BP 141.8 26.83 0.382 MHC_II 1 202911182 LS_T3 ADIPOR1 14.4 11.55 0.103 MHC_II 1 211840478 LS_T3 NEK2 21.51 17.85 0.477 MHC_II

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1 225600231 LS_T3 LBR 14.05 22.13 0.108 MHC_II 1 228645493 LS_T3 HIST3H2A 403.32 110.69 0.313 MHC_II 1 243328698 LS_T3 CEP170 135.01 16.35 0.143 MHC_II 10 1042148 LS_T3 GTPBP4 84.99 42.67 0.431 MHC_II 10 27493433 LS_T3 ACBD5 46.98 38.81 0.506 MHC_II 10 47945421 LS_T3 FAM21B 49.64 74.45 1 MHC_II 10 70737392 LS_T3 DDX21 5.99 62.82 0.063 MHC_II 10 75301218 LS_T3 USP54 44.02 13.28 0.353 MHC_II 10 95275293 LS_T3 CEP55 275.15 13.2 0.2 MHC_II 10 97385138 LS_T3 ALDH18A1 10.69 32.56 0.091 MHC_II 10 104136818 LS_T3 GBF1 22 31.82 0.333 MHC_II 10 115885658 LS_T3 C10orf118 56.67 19.87 0.55 MHC_II 10 120879897 LS_T3 FAM45A 14.78 25.56 0.286 MHC_II 10 122650240 LS_T3 WDR11 50.27 24.34 0.058 MHC_II 10 124922211 LS_T3 BUB3 74.03 56.06 0.412 MHC_II 11 429488 LS_T3 ANO9 373.59 22.82 1 MHC_II 11 1255051 LS_T3 MUC5B 107.56 386.77 0.277 MHC_II 11 1268355 LS_T3 MUC5B 11.64 386.77 0.109 MHC_II 11 17118740 LS_T3 PIK3C2A 18.89 13.23 0.362 MHC_II 11 30352754 LS_T3 ARL14EP 30.92 10.13 0.389 MHC_II 11 57569589 LS_T3 CTNND1 9.8 35.88 0.183 MHC_II 11 64537812 LS_T3 SF1 243.09 43.26 0.355 MHC_II 11 64863791 LS_T3 VPS51 6.5 19.63 0.682 MHC_II 11 64875769 LS_T3 VPS51 25.36 19.63 0.42 MHC_II 11 64897243 LS_T3 SYVN1 127.13 18.99 0.107 MHC_II 11 65299094 LS_T3 SCYL1 254.72 15.5 0.346 MHC_II 11 66276808 LS_T3 DPP3 215.59 24.91 0.423 MHC_II 11 67196682 LS_T3 RPS6KB2 101.45 24.44 0.082 MHC_II 11 77412076 LS_T3 RSF1 18.57 26.77 0.469 MHC_II 11 85438195 LS_T3 SYTL2 262.35 16.46 0.136 MHC_II 11 93428779 LS_T3 KIAA1731 9.08 18.18 0.127 MHC_II

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11 104878041 LS_T3 CASP5 20.03 16.23 1 MHC_II 11 117057325 LS_T3 SIDT2 83.28 17.94 0.266 MHC_II 11 126137948 LS_T3 SRPR 120.15 28.06 0.105 MHC_II 11 128840184 LS_T3 ARHGAP32 222.87 35.39 0.151 MHC_II 12 7047705 LS_T3 ATN1 12.71 21.41 0.455 MHC_II 12 11992182 LS_T3 ETV6 79.18 11.38 0.364 MHC_II 12 46125019 LS_T3 ARID2 317.81 15.75 0.375 MHC_II 12 48533655 LS_T3 PFKM 26.83 20.13 0.37 MHC_II 12 57492342 LS_T3 STAT6 305.65 33.06 0.279 MHC_II 12 57648750 LS_T3 R3HDM2 21.99 20.64 0.444 MHC_II 12 58142979 LS_T3 CDK4 160.24 96.77 0.403 MHC_II 12 67699482 LS_T3 CAND1 10.52 14.41 0.211 MHC_II 12 108145300 LS_T3 PRDM4 23.51 14.35 0.421 MHC_II 13 33091955 LS_T3 N4BP2L2 91.78 30.74 0.129 MHC_II 13 34395375 LS_T3 RFC3 317.75 14.82 0.37 MHC_II 13 38138663 LS_T3 POSTN 47.67 70.92 0.085 MHC_II 13 51517523 LS_T3 RNASEH2B 28.86 27.58 0.098 MHC_II 13 60385030 LS_T3 DIAPH3 153.7 19.48 0.31 MHC_II 13 73357634 LS_T3 PIBF1 11.41 25.57 0.416 MHC_II 13 77780907 LS_T3 MYCBP2 20.69 20.11 0.366 MHC_II 13 103298739 LS_T3 TPP2 49.91 26.6 0.519 MHC_II 13 103309437 LS_T3 TPP2 28.68 26.6 0.333 MHC_II 13 111935522 LS_T3 ARHGEF7 236.68 18.12 0.369 MHC_II 13 115064415 LS_T3 UPF3A 399.44 23.6 0.235 MHC_II 14 23393255 LS_T3 PRMT5 86.71 31.1 0.471 MHC_II 14 23531665 LS_T3 ACIN1 109.05 125.87 0.364 MHC_II 14 23549379 LS_T3 ACIN1 47.38 125.87 0.295 MHC_II 14 24033048 LS_T3 AP1G2 102.67 23.91 0.464 MHC_II 14 24644781 LS_T3 REC8 30.81 16.38 0.053 MHC_II 14 35872925 LS_T3 NFKBIA 110.71 89.98 0.118 MHC_II 14 50606707 LS_T3 SOS2 25.79 16.07 0.316 MHC_II

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14 55647931 LS_T3 DLGAP5 367.57 18.49 0.094 MHC_II 14 69521773 LS_T3 DCAF5 128.56 10.47 0.442 MHC_II 14 75248388 LS_T3 YLPM1 52.85 22.98 0.417 MHC_II 14 75278342 LS_T3 YLPM1 146.48 22.98 0.09 MHC_II 14 76639909 LS_T3 GPATCH2L 13.73 19.51 0.294 MHC_II 14 78036776 LS_T3 SPTLC2 9.66 15.49 0.435 MHC_II 14 91947951 LS_T3 SMEK1 379.53 17.23 0.318 MHC_II 14 92472032 LS_T3 TRIP11 175.21 22.78 0.061 MHC_II 14 99961885 LS_T3 CCNK 14.99 18.88 0.211 MHC_II 14 100826907 LS_T3 WARS 56.74 53.72 0.074 MHC_II 14 102445788 LS_T3 DYNC1H1 8.12 122.21 0.122 MHC_II 15 28501429 LS_T3 HERC2 46.82 43.74 0.073 MHC_II 15 31229400 LS_T3 FAN1 65.86 10.86 0.375 MHC_II 15 40226481 LS_T3 EIF2AK4 156.27 20.28 0.465 MHC_II 15 42054541 LS_T3 MGA 8.97 23.17 0.342 MHC_II 15 51755618 LS_T3 DMXL2 15.6 11.16 0.176 MHC_II 15 52503953 LS_T3 MYO5C 159.6 35.12 0.061 MHC_II 15 64686218 LS_T3 TRIP4 204.72 25.51 0.127 MHC_II 15 70976680 LS_T3 UACA 391.88 17.33 0.071 MHC_II 15 93527672 LS_T3 CHD2 211.05 265.31 0.485 MHC_II 16 15758700 LS_T3 NDE1 76.37 29.99 0.45 MHC_II 16 28157446 LS_T3 XPO6 51.33 27.93 0.295 MHC_II 16 30435660 LS_T3 DCTPP1 172.1 20.2 0.086 MHC_II 16 46695735 LS_T3 VPS35 23.82 27.63 0.059 MHC_II 16 57503884 LS_T3 POLR2C 31.21 20.56 0.419 MHC_II 16 57786443 LS_T3 KATNB1 39.54 17.96 0.304 MHC_II 16 58585148 LS_T3 CNOT1 175.67 73.6 0.352 MHC_II 16 58756055 LS_T3 GOT2 97.39 13.49 0.488 MHC_II 16 70590109 LS_T3 SF3B3 203.61 28.62 0.434 MHC_II 16 74976691 LS_T3 WDR59 21.7 20.56 0.444 MHC_II 16 88798170 LS_T3 PIEZO1 258.65 37.29 0.139 MHC_II

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16 89718047 LS_T3 CHMP1A 63.3 10.31 0.269 MHC_II 17 1373747 LS_T3 MYO1C 9.71 57.35 0.126 MHC_II 17 1581895 LS_T3 PRPF8 9.03 103.76 0.064 MHC_II 17 1586913 LS_T3 PRPF8 268.97 103.76 0.413 MHC_II 17 7402719 LS_T3 POLR2A 47.56 64.33 0.211 MHC_II 17 7804292 LS_T3 CHD3 30.41 40.73 0.282 MHC_II 17 20108296 LS_T3 SPECC1 30.07 24.45 0.314 MHC_II 17 27445433 LS_T3 MYO18A 81.94 23 0.379 MHC_II 17 33319589 LS_T3 LIG3 127.13 12.98 0.542 MHC_II 17 34036252 LS_T3 AP2B1 14.55 29.3 0.135 MHC_II 17 37682329 LS_T3 CDK12 125.71 23.57 0.428 MHC_II 17 38179525 LS_T3 MED24 9.71 13.71 0.261 MHC_II 17 40932962 LS_T3 WNK4 38.87 15.82 0.421 MHC_II 17 40936532 LS_T3 WNK4 264.29 15.82 0.474 MHC_II 17 41603872 LS_T3 DHX8 30.13 23.92 0.625 MHC_II 17 44249467 LS_T3 KANSL1 21.54 20.12 0.342 MHC_II 17 48460506 LS_T3 LRRC59 195.42 51.39 0.353 MHC_II 17 49067998 LS_T3 SPAG9 259.97 21.9 0.286 MHC_II 17 58262903 LS_T3 USP32 214.19 10.02 0.379 MHC_II 17 62559011 LS_T3 SMURF2 82.44 14.83 0.275 MHC_II 17 73518109 LS_T3 TSEN54 106.81 19.26 0.486 MHC_II 17 73566225 LS_T3 LLGL2 119.91 65.16 0.493 MHC_II 17 76799557 LS_T3 USP36 292.34 12.27 0.347 MHC_II 17 80049503 LS_T3 FASN 118.55 40.73 0.508 MHC_II 17 80195589 LS_T3 SLC16A3 30.57 17.32 0.195 MHC_II 18 18625344 LS_T3 ROCK1 232.31 23.44 0.063 MHC_II 18 39647473 LS_T3 PIK3C3 72.31 30.23 0.286 MHC_II 18 45374927 LS_T3 SMAD2 349.85 21.36 0.075 MHC_II 18 61060776 LS_T3 VPS4B 21.18 15.58 0.303 MHC_II 19 799415 LS_T3 PTBP1 95.95 47.86 0.093 MHC_II 19 1429980 LS_T3 DAZAP1 73.93 33.5 0.457 MHC_II

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19 2132523 LS_T3 AP3D1 27.29 33.66 0.405 MHC_II 19 3982421 LS_T3 EEF2 57.59 276.46 0.355 MHC_II 19 5600224 LS_T3 SAFB2 25.44 52.02 0.098 MHC_II 19 7593075 LS_T3 MCOLN1 54.19 10.93 0.5 MHC_II 19 7687493 LS_T3 XAB2 333 12.26 0.319 MHC_II 19 8008521 LS_T3 TIMM44 142.75 24.09 0.167 MHC_II 19 8609230 LS_T3 MYO1F 80.68 16.7 0.121 MHC_II 19 10940882 LS_T3 DNM2 456.42 211.98 0.177 MHC_II 19 11098558 LS_T3 SMARCA4 63.74 89.28 0.306 MHC_II 19 11326559 LS_T3 DOCK6 30.3 12.67 0.172 MHC_II 19 11618364 LS_T3 ECSIT 229.12 11.85 0.348 MHC_II 19 12812612 LS_T3 TNPO2 91.33 11.33 0.416 MHC_II 19 18976409 LS_T3 UPF1 90.77 19.11 0.426 MHC_II 19 19039063 LS_T3 DDX49 249.54 47.87 0.231 MHC_II 19 38572578 LS_T3 SIPA1L3 4.6 10.94 0.467 MHC_II 19 40377134 LS_T3 FCGBP 105.49 1165.32 0.091 MHC_II 19 42409122 LS_T3 ARHGEF1 8.25 40.14 0.25 MHC_II 19 42410689 LS_T3 ARHGEF1 113.09 40.14 0.208 MHC_II 19 46025991 LS_T3 VASP 212.48 50.69 0.064 MHC_II 19 46278235 LS_T3 DMPK 84.36 13.1 0.15 MHC_II 19 46334766 LS_T3 SYMPK 22.55 32.81 0.452 MHC_II 19 49674847 LS_T3 TRPM4 233.98 34.3 0.366 MHC_II 19 49685917 LS_T3 TRPM4 17.61 34.3 0.27 MHC_II 19 49699776 LS_T3 TRPM4 5.61 34.3 0.5 MHC_II 19 54669235 LS_T3 TMC4 168.56 11.65 0.467 MHC_II 19 58772964 LS_T3 ZNF544 32.31 17.23 0.375 MHC_II 2 32706407 LS_T3 BIRC6 5.16 39.37 0.235 MHC_II 2 33813525 LS_T3 FAM98A 26.14 12.76 0.182 MHC_II 2 44128579 LS_T3 LRPPRC 89.56 58.23 0.311 MHC_II 2 44145403 LS_T3 LRPPRC 365.52 58.23 0.376 MHC_II 2 46574154 LS_T3 EPAS1 7.72 21.65 0.12 MHC_II

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2 54133991 LS_T3 PSME4 15.12 22.45 0.166 MHC_II 2 98611950 LS_T3 TMEM131 29.5 14.22 0.607 MHC_II 2 109087914 LS_T3 GCC2 29.12 41.24 0.315 MHC_II 2 152320541 LS_T3 RIF1 37.03 23.49 0.348 MHC_II 2 157369871 LS_T3 GPD2 94.49 14.1 0.326 MHC_II 2 159517885 LS_T3 PKP4 142.73 23.19 0.132 MHC_II 2 169716102 LS_T3 NOSTRIN 165.66 28.01 0.108 MHC_II 2 170460581 LS_T3 PPIG 13.64 47.05 0.365 MHC_II 2 174062782 LS_T3 ZAK 181.25 16.85 0.384 MHC_II 2 178077589 LS_T3 HNRNPA3 97.63 109.13 0.255 MHC_II 2 183829479 LS_T3 NCKAP1 181.02 31.75 0.183 MHC_II 2 209215633 LS_T3 PIKFYVE 19.09 19.58 0.373 MHC_II 2 216199708 LS_T3 ATIC 254.29 76.43 0.427 MHC_II 2 233194613 LS_T3 DIS3L2 15.19 33.46 0.174 MHC_II 2 242431044 LS_T3 FARP2 127.35 24.03 0.514 MHC_II 20 2635515 LS_T3 NOP56 67.49 89.52 0.064 MHC_II 20 2819288 LS_T3 PCED1A 216.29 16.99 0.051 MHC_II 20 3891287 LS_T3 PANK2 394.34 28.14 0.39 MHC_II 20 16486373 LS_T3 KIF16B 37.78 17.61 0.542 MHC_II 20 23334911 LS_T3 NXT1 261.58 13 0.341 MHC_II 20 44520930 LS_T3 CTSA 321.2 73.52 0.211 MHC_II 20 45875072 LS_T3 ZMYND8 105.88 22.66 0.114 MHC_II 20 47858504 LS_T3 DDX27 298.5 24.31 0.135 MHC_II 20 49196293 LS_T3 PTPN1 7.53 11.4 0.162 MHC_II 20 56139237 LS_T3 PCK1 109.57 14.43 0.548 MHC_II 20 61542747 LS_T3 DIDO1 10.49 39.42 0.5 MHC_II 21 34619186 LS_T3 IFNAR2 133.22 13.42 0.103 MHC_II 21 34660554 LS_T3 IL10RB 117.82 21.55 0.324 MHC_II 21 38525560 LS_T3 TTC3 270.13 42.4 0.229 MHC_II 21 42807869 LS_T3 MX1 32.47 19.85 0.341 MHC_II 21 47662805 LS_T3 MCM3AP 26.7 25.06 0.179 MHC_II

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21 47845883 LS_T3 PCNT 229.28 40.66 0.087 MHC_II 22 19381935 LS_T3 HIRA 42.67 16.13 0.876 MHC_II 22 22160309 LS_T3 MAPK1 23.25 17.22 0.657 MHC_II 22 32211085 LS_T3 DEPDC5 226.1 23.77 0.08 MHC_II 22 39125567 LS_T3 GTPBP1 24.59 11.87 0.163 MHC_II 22 39138313 LS_T3 SUN2 130.65 10.51 0.5 MHC_II 22 42032631 LS_T3 XRCC6 147.55 143.05 0.873 MHC_II 22 44392231 LS_T3 SAMM50 70.73 17.54 0.5 MHC_II 3 10312029 LS_T3 TATDN2 321.7 13.84 0.288 MHC_II 3 25657052 LS_T3 TOP2B 285.72 41.4 0.102 MHC_II 3 33648152 LS_T3 CLASP2 12.26 14.41 0.407 MHC_II 3 36897975 LS_T3 TRANK1 39.98 10.24 0.333 MHC_II 3 37107426 LS_T3 LRRFIP2 299.11 21.73 0.463 MHC_II 3 41266137 LS_T3 CTNNB1 18.36 209.94 0.752 MHC_II 3 44879832 LS_T3 KIF15 15.68 10.32 0.4 MHC_II 3 45153647 LS_T3 CDCP1 146.65 21.17 0.469 MHC_II 3 47045314 LS_T3 NBEAL2 202.29 45.77 0.407 MHC_II 3 47165283 LS_T3 SETD2 9.68 41.9 0.152 MHC_II 3 48459616 LS_T3 PLXNB1 42.31 15.81 0.458 MHC_II 3 48664386 LS_T3 SLC26A6 148.5 35.08 0.413 MHC_II 3 51671237 LS_T3 RAD54L2 96.07 15 0.333 MHC_II 3 51718549 LS_T3 TEX264 90.07 11.08 0.452 MHC_II 3 52682395 LS_T3 PBRM1 253.37 17.25 0.106 MHC_II 3 58062841 LS_T3 FLNB 48.62 56.12 0.491 MHC_II 3 63981203 LS_T3 ATXN7 80.77 19.75 0.063 MHC_II 3 69126954 LS_T3 UBA3 109.64 15.84 0.063 MHC_II 3 122880782 LS_T3 PDIA5 383.07 36.12 0.125 MHC_II 3 127788492 LS_T3 SEC61A1 382.22 52.46 0.418 MHC_II 3 128339333 LS_T3 RPN1 246.79 127.5 0.051 MHC_II 3 134251733 LS_T3 CEP63 50.95 17.67 0.221 MHC_II 3 155301374 LS_T3 PLCH1 357.61 11.48 0.417 MHC_II

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3 184033630 LS_T3 EIF4G1 139.58 160.32 0.56 MHC_II 3 184714222 LS_T3 VPS8 83.5 21.14 0.393 MHC_II 4 3201572 LS_T3 HTT 29.58 20.81 0.351 MHC_II 4 40439875 LS_T3 RBM47 12 12.15 0.224 MHC_II 4 48604083 LS_T3 FRYL 189.71 60.73 0.163 MHC_II 4 48852045 LS_T3 OCIAD1 36.89 17.83 0.259 MHC_II 4 83785565 LS_T3 SEC31A 10.34 28.36 0.104 MHC_II 4 113566025 LS_T3 LARP7 72.66 21.69 0.567 MHC_II 4 123097025 LS_T3 KIAA1109 274.7 27.32 0.29 MHC_II 4 146059717 LS_T3 OTUD4 8.47 13.01 0.528 MHC_II 4 166231859 LS_T3 KLHL2 13.61 15.63 0.224 MHC_II 4 185340664 LS_T3 IRF2 66.35 14.1 0.544 MHC_II 5 889726 LS_T3 BRD9 18.97 44.22 0.052 MHC_II 5 908485 LS_T3 TRIP13 40.23 16.52 0.203 MHC_II 5 5463351 LS_T3 KIAA0947 9.47 16.55 0.494 MHC_II 5 14297299 LS_T3 TRIO 64.51 67.46 0.072 MHC_II 5 32404161 LS_T3 ZFR 16.48 18.13 0.211 MHC_II 5 36153056 LS_T3 SKP2 11.42 34.03 0.163 MHC_II 5 74651022 LS_T3 HMGCR 8.02 10.42 0.222 MHC_II 5 86672317 LS_T3 RASA1 113.98 21.95 0.5 MHC_II 5 96322302 LS_T3 LNPEP 293.84 18.91 0.174 MHC_II 5 102295655 LS_T3 PAM 31.22 14.57 0.339 MHC_II 5 102493987 LS_T3 PPIP5K2 136.21 15.96 0.489 MHC_II 5 130498366 LS_T3 HINT1 71.23 173.15 0.377 MHC_II 5 130778140 LS_T3 RAPGEF6 134.22 27.45 0.235 MHC_II 5 130808408 LS_T3 RAPGEF6 66.63 27.45 0.411 MHC_II 5 157214668 LS_T3 CLINT1 476.47 39.64 0.057 MHC_II 5 175995721 LS_T3 CDHR2 26.27 16.75 0.163 MHC_II 5 180668595 LS_T3 GNB2L1 128.1 430.97 0.37 MHC_II 6 31604005 LS_T3 PRRC2A 239.08 35.14 0.191 MHC_II 6 33177896 LS_T3 RING1 17.57 10.86 0.2 MHC_II

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6 33273073 LS_T3 TAPBP 11.12 35.16 0.212 MHC_II 6 33384467 LS_T3 CUTA 98.96 30.71 0.07 MHC_II 6 41552550 LS_T3 FOXP4 126.9 11 0.276 MHC_II 6 88313235 LS_T3 ORC3 213.8 12.48 0.31 MHC_II 6 90432675 LS_T3 MDN1 150.14 20.22 0.444 MHC_II 6 128312479 LS_T3 PTPRK 253.68 23.48 0.552 MHC_II 6 128561239 LS_T3 PTPRK 203.33 23.48 0.333 MHC_II 6 131924228 LS_T3 MED23 14.1 16.61 0.297 MHC_II 6 151281537 LS_T3 MTHFD1L 38.08 34.45 0.417 MHC_II 7 1513920 LS_T3 INTS1 178.82 18.01 0.222 MHC_II 7 6085736 LS_T3 EIF2AK1 20.62 31.76 0.405 MHC_II 7 27187076 LS_T3 HOXA6 15.82 13.62 0.357 MHC_II 7 44664075 LS_T3 OGDH 50.5 41.52 0.231 MHC_II 7 65439343 LS_T3 GUSB 80.19 45.94 0.287 MHC_II 7 76134854 LS_T3 DTX2 43.58 31.88 0.488 MHC_II 7 91730195 LS_T3 AKAP9 28.7 71.16 0.412 MHC_II 7 91957188 LS_T3 ANKIB1 54.59 17.07 0.295 MHC_II 7 95750624 LS_T3 SLC25A13 17.47 16.68 0.333 MHC_II 7 97939854 LS_T3 BAIAP2L1 19.65 22.74 0.333 MHC_II 7 99693064 LS_T3 MCM7 43.93 94.07 0.486 MHC_II 7 99869587 LS_T3 GATS 359.06 14.76 0.516 MHC_II 7 100867051 LS_T3 ZNHIT1 8.68 21.02 0.466 MHC_II 7 106924081 LS_T3 COG5 4.65 35.19 0.426 MHC_II 7 132659981 LS_T3 CHCHD3 327.72 46.97 0.469 MHC_II 7 139829301 LS_T3 JHDM1D 303.34 16.49 0.443 MHC_II 7 140482927 LS_T3 BRAF 40.4 22.15 0.327 MHC_II 7 143078672 LS_T3 ZYX 7.53 25.8 0.321 MHC_II 8 23148931 LS_T3 R3HCC1 41.2 35.3 0.216 MHC_II 8 37553561 LS_T3 ZNF703 18.28 12.47 0.56 MHC_II 8 55060097 LS_T3 MRPL15 199.36 11.81 0.227 MHC_II 8 62475367 LS_T3 ASPH 221.69 44.96 0.323 MHC_II 8 68163617 LS_T3 ARFGEF1 67.77 22.72 0.072 MHC_II

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8 120220743 LS_T3 MAL2 22.59 15.98 0.579 MHC_II 8 124384893 LS_T3 ATAD2 8.63 36.35 0.158 MHC_II 8 144943007 LS_T3 EPPK1 247.39 37.51 0.525 MHC_II 9 5742971 LS_T3 KIAA1432 80.29 15.78 0.117 MHC_II 9 35801960 LS_T3 NPR2 56.65 11.2 0.412 MHC_II 9 95947849 LS_T3 WNK2 180.87 58.95 0.516 MHC_II 9 99113417 LS_T3 SLC35D2 12.82 10.42 0.326 MHC_II 9 130929153 LS_T3 CIZ1 61.3 27.39 0.31 MHC_II 9 131222859 LS_T3 ODF2 27.45 57.23 0.386 MHC_II 9 132581100 LS_T3 TOR1A 105.92 14.86 0.457 MHC_II 9 140075271 LS_T3 ANAPC2 31.98 13.92 0.409 MHC_II X 10535266 LS_T3 MID1 436.67 35.53 0.52 MHC_II X 47072566 LS_T3 UBA1 47.23 191.54 0.496 MHC_II X 53627138 LS_T3 HUWE1 17.6 54.43 0.051 MHC_II X 57405179 LS_T3 FAAH2 92.59 15.19 1 MHC_II X 69719838 LS_T3 DLG3 165.6 24.8 0.319 MHC_II X 152960039 LS_T3 SLC6A8 246.7 14.72 0.127 MHC_II

Predicted neoantigens with binding affinity <500nM, allele frequency>5% and mRNA expression>10 transcripts per million (TPM).

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eTable 10. Pathways analysis of MHC I and II neoantigens

Ingenuity Canonical Group -log(p-value) Ratio Genes MHC Pathways Transcriptional Regulatory FAP 2.76E+00 1.25E-01 SET,TRIM24,RIF1,SKIL,STAT3 MHC_I Network in Embryonic Stem Cells Transcriptional Regulatory LS Hyper 2.68E-01 2.50E-02 KAT6A MHC_I Network in Embryonic Stem Polyp Cells Transcriptional Regulatory LS Tumor 3.48E-01 2.50E-02 RIF1 MHC_I Network in Embryonic Stem Cells Estrogen Receptor Signaling FAP 2.14 0.0625 MED13,CDK8,MED20,SPEN,TBP,NCOR1,GTF2F1, MHC_I MED13L

Estrogen Receptor Signaling LS 0.24 0.00781 MED23 MHC_I Nonhyper Polyp Estrogen Receptor Signaling LS Hyper 0.351 0.0234 MAPK1,TRRAP,MED14 MHC_I Polyp Estrogen Receptor Signaling LS Tumor 3.91 0.0703 TAF1,MED23,POLR2A,ERCC3,TRRAP,NCOR1,PC MHC_I K1,MED24,SMARCA4

DNA damage-induced 14-3- FAP 2.11 0.158 RAD17,CCNB2,ATR MHC_I 3σ Signaling DNA damage-induced 14-3- LS Tumor 0.608 0.0526 AKT2 MHC_I 3σ Signaling tRNA Charging FAP 2.03 0.105 WARS2,EARS2,IARS,FARSB MHC_I

tRNA Charging LS 0.649 0.0263 VARS MHC_I Nonhyper Polyp tRNA Charging LS Hyper 1.45 0.0789 YARS,VARS2,IARS MHC_I Polyp tRNA Charging LS Tumor 1.73 0.0789 WARS,RARS,EPRS MHC_I

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Protein Ubiquitination FAP 1.97 0.0472 USP21,UBE2A,UBE2Q1,MED20,USP15,HSPH1,UB MHC_I Pathway E3B,USP54,USP30,USP33,USP34,UBE3A

Protein Ubiquitination LS 1.56 0.0197 PSMD10,USP5,UCHL5,AMFR,SKP2 MHC_I Pathway Nonhyper Polyp Protein Ubiquitination LS Tumor 1.77 0.0341 ANAPC2,USP7,USP15,USP5,PSMD12,BIRC6,ANA MHC_I Pathway PC5,UBA1,SKP2

D-myo-inositol-5-phosphate FAP 1.67 0.0516 PPFIA1,SET,PLCB4,PTPRH,DUSP11,PPP4R1,PPP MHC_I Metabolism 3CA,SACM1L

D-myo-inositol-5-phosphate LS 1.07 0.0194 PLCD3,PTPRH,DUSP16 MHC_I Metabolism Nonhyper Polyp D-myo-inositol-5-phosphate LS Hyper 0.242 0.0194 MTMR6,SGPP2,PPM1F MHC_I Metabolism Polyp D-myo-inositol-5-phosphate LS Tumor 0.395 0.0194 PTPN1,RASA1,PTEN MHC_I Metabolism Cell Cycle: G2/M DNA FAP 1.65 0.0816 TOP2B,TRIP12,CCNB2,ATR MHC_I Damage Checkpoint Regulation Cell Cycle: G2/M DNA LS 0.554 0.0204 SKP2 MHC_I Damage Checkpoint Nonhyper Regulation Polyp Cell Cycle: G2/M DNA LS Hyper 0.213 0.0204 TRIP12 MHC_I Damage Checkpoint Polyp Regulation Cell Cycle: G2/M DNA LS Tumor 0.787 0.0408 TOP2B,SKP2 MHC_I Damage Checkpoint Regulation ATM Signaling FAP 1.53 0.0633 HERC2,RAD17,CCNB2,ATR,NBN MHC_I

ATM Signaling LS 0.386 0.0127 TOPBP1 MHC_I Nonhyper Polyp

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ATM Signaling LS Hyper 1.19 0.0506 FANCD2,TRRAP,TLK2,NBN MHC_I Polyp ATM Signaling LS Tumor 2.2 0.0633 HERC2,USP7,JUN,TOPBP1,TRRAP MHC_I

Wnt/β-catenin Signaling FAP 1.52 0.0482 AXIN2,APPL2,CSNK1A1,TLE1,BMPR2,SOX9,TCF7 MHC_I L2,LRP1

Wnt/β-catenin Signaling LS Hyper 0.67 0.0301 TGFBR1,CSNK1G2,MARK2,DVL3,LRP1 MHC_I Polyp Wnt/β-catenin Signaling LS Tumor 0.974 0.0296 AKT2,JUN,HDAC1,ILK,CTNNB1 MHC_I

D-myo-inositol (1,4,5,6)- FAP 1.5 0.0511 PPFIA1,SET,PTPRH,DUSP11,PPP4R1,PPP3CA,SA MHC_I Tetrakisphosphate CM1L Biosynthesis D-myo-inositol (1,4,5,6)- LS 0.635 0.0146 PTPRH,DUSP16 MHC_I Tetrakisphosphate Nonhyper Biosynthesis Polyp D-myo-inositol (1,4,5,6)- LS Hyper 0.31 0.0219 MTMR6,SGPP2,PPM1F MHC_I Tetrakisphosphate Polyp Biosynthesis D-myo-inositol (1,4,5,6)- LS Tumor 0.481 0.0219 PTPN1,RASA1,PTEN MHC_I Tetrakisphosphate Biosynthesis D-myo-inositol (3,4,5,6)- FAP 1.5 0.0511 PPFIA1,SET,PTPRH,DUSP11,PPP4R1,PPP3CA,SA MHC_I tetrakisphosphate CM1L Biosynthesis D-myo-inositol (3,4,5,6)- LS 0.635 0.0146 PTPRH,DUSP16 MHC_I tetrakisphosphate Nonhyper Biosynthesis Polyp D-myo-inositol (3,4,5,6)- LS Hyper 0.31 0.0219 MTMR6,SGPP2,PPM1F MHC_I tetrakisphosphate Polyp Biosynthesis D-myo-inositol (3,4,5,6)- LS Tumor 0.481 0.0219 PTPN1,RASA1,PTEN MHC_I tetrakisphosphate Biosynthesis Isoleucine Degradation I FAP 1.44 0.143 ACAT2,EHHADH MHC_I Telomere Extension by FAP 1.38 0.133 TERF2IP,NBN MHC_I Telomerase

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Telomere Extension by LS Hyper 0.599 0.0667 NBN MHC_I Telomerase Polyp Telomere Extension by LS Tumor 0.698 0.0667 XRCC6 MHC_I Telomerase Glutaryl-CoA Degradation FAP 1.38 0.133 ACAT2,EHHADH MHC_I RhoA Signaling FAP 1.31 0.05 ROCK2,ACTR2,BAIAP2,ARHGAP12,MYLK,ARHGA MHC_I P1

RhoA Signaling LS 0.72 0.0167 ARHGEF1,PLD1 MHC_I Nonhyper Polyp RhoA Signaling LS Hyper 1.09 0.0417 PTK2,ARHGAP5,BAIAP2,PI4KA,PKN1 MHC_I Polyp 3-phosphoinositide FAP 1.31 0.0464 PPFIA1,SET,PTPRH,DUSP11,PPP4R1,PPP3CA,SA MHC_I Degradation CM1L

3-phosphoinositide LS 1.1 0.0199 PTPRH,MTM1,DUSP16 MHC_I Degradation Nonhyper Polyp 3-phosphoinositide LS Hyper 0.256 0.0199 MTMR6,SGPP2,PPM1F MHC_I Degradation Polyp 3-phosphoinositide LS Tumor 0.413 0.0199 PTPN1,RASA1,PTEN MHC_I Degradation Cell Cycle Control of FAP 1.3 0.0789 TOP2B,PRIM1,ORC4 MHC_I Chromosomal Replication Cell Cycle Control of LS 0.649 0.0263 MCM4 MHC_I Chromosomal Replication Nonhyper Polyp Cell Cycle Control of LS Tumor 2.55 0.1 TOP2B,ORC3,POLE,MCM4 MHC_I Chromosomal Replication Role of BRCA1 in DNA FAP 1.03 0.0513 ABRAXAS1,ATR,SMARCD1,NBN MHC_I Damage Response Role of BRCA1 in DNA LS 1.82 0.0385 PBRM1,TOPBP1,SMARCD1 MHC_I Damage Response Nonhyper Polyp Role of BRCA1 in DNA LS Hyper 1.77 0.0641 E2F4,FANCD2,SMARCB1,HLTF,NBN MHC_I Damage Response Polyp

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Role of BRCA1 in DNA LS Tumor 2.98 0.0769 PBRM1,SMARCA2,TOPBP1,MSH6,SMARCA4,MLH MHC_I Damage Response 1

autophagy FAP 0.976 0.0577 ATG5,CTSA,VPS41 MHC_I autophagy LS 0.532 0.0192 ATG9A MHC_I Nonhyper Polyp autophagy LS Hyper 0.581 0.0385 VPS33A,CTSF MHC_I Polyp autophagy LS Tumor 1.34 0.0556 CTSA,MTOR,PIK3C3 MHC_I Leptin Signaling in Obesity FAP 0.946 0.0476 PLCB4,PDIA3,PDE3B,STAT3 MHC_I

Leptin Signaling in Obesity LS 0.967 0.0238 PLCD3,FGFR2 MHC_I Nonhyper Polyp Leptin Signaling in Obesity LS Hyper 1.11 0.0476 MAPK1,ADCY3,ADCY6,PIK3R2 MHC_I Polyp Leptin Signaling in Obesity LS Tumor 1.43 0.0471 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I

NF-κB Activation by Viruses FAP 0.919 0.0465 TBP,ITGA1,EIF2AK2,PRKD3 MHC_I

NF-κB Activation by Viruses LS 0.359 0.0116 FGFR2 MHC_I Nonhyper Polyp NF-κB Activation by Viruses LS Hyper 0.643 0.0349 MAPK1,PRKCH,PIK3R2 MHC_I Polyp NF-κB Activation by Viruses LS Tumor 1.4 0.046 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Protein Kinase A Signaling FAP 0.899 0.0319 ROCK2,PLCB4,PTPRH,ADD3,PDIA3,PDE3B,DUSP MHC_I 11,MYLK,PYGL,PRKD3,PPP3CA,TCF7L2

Protein Kinase A Signaling LS 0.616 0.0106 PLCD3,PTPRH,PTPRR,DUSP16 MHC_I Nonhyper Polyp

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Protein Kinase A Signaling LS Hyper 0.729 0.0266 PTK2,TGFBR1,MAPK1,ITPR2,ADCY3,ADCY6,PRK MHC_I Polyp CH,PTPN3,NFATC4,PTPN21

Protein Kinase A Signaling LS Tumor 1.58 0.0289 BRAF,ANAPC2,FLNB,PHKB,PTPRK,PTPN1,ITPR3, MHC_I ANAPC5,PYGB,CTNNB1,PTEN

Gap Junction Signaling FAP 0.799 0.0361 PLCB4,PDIA3,TJP1,CSNK1A1,PRKD3,PPP3CA MHC_I

Gap Junction Signaling LS 0.518 0.012 PLCD3,FGFR2 MHC_I Nonhyper Polyp Gap Junction Signaling LS Hyper 1.39 0.0422 MAPK1,CSNK1G2,ITPR2,ADCY3,ADCY6,PRKCH,P MHC_I Polyp IK3R2

Gap Junction Signaling LS Tumor 2.46 0.0479 AKT2,PIK3C2A,TUBB4B,PIK3C3,PIK3R1,ITPR3,CT MHC_I NNB1,NPR2

Pyridoxal 5'-phosphate FAP 0.781 0.0469 CDK8,CSNK1A1,EIF2AK2 MHC_I Salvage Pathway Pyridoxal 5'-phosphate LS Hyper 2.12 0.0781 PRKX,DMPK,MAPK1,PRKCH,PKN1 MHC_I Salvage Pathway Polyp Pyridoxal 5'-phosphate LS Tumor 1.16 0.0469 BRAF,AKT2,DMPK MHC_I Salvage Pathway TR/RXR Activation FAP 0.773 0.0408 PDE3B,NCOA6,NCOR1,THRA MHC_I

TR/RXR Activation LS 0.318 0.0102 FGFR2 MHC_I Nonhyper Polyp TR/RXR Activation LS Tumor 4.83 0.0918 SLC16A3,AKT2,MTOR,PIK3C2A,PIK3C3,PIK3R1,F MHC_I ASN,NCOR1,PCK1

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Mouse Embryonic Stem Cell FAP 0.7 0.0381 IL6ST,BMPR2,STAT3,TCF7L2 MHC_I Pluripotency Mouse Embryonic Stem Cell LS 0.297 0.00952 FGFR2 MHC_I Pluripotency Nonhyper Polyp Mouse Embryonic Stem Cell LS Hyper 0.486 0.0286 MAPK1,DVL3,PIK3R2 MHC_I Pluripotency Polyp Mouse Embryonic Stem Cell LS Tumor 1.7 0.0476 AKT2,PIK3C2A,PIK3C3,PIK3R1,CTNNB1 MHC_I Pluripotency Epithelial Adherens Junction FAP 0.686 0.035 ACTR2,BAIAP2,BMPR2,TCF7L2,CLIP1 MHC_I Signaling Epithelial Adherens Junction LS Hyper 1.69 0.049 RAPGEF1,MYH9,TGFBR1,NECTIN3,BAIAP2,ACTN MHC_I Signaling Polyp 1,NECTIN2

Epithelial Adherens Junction LS Tumor 2.88 0.0559 AKT2,TUBB4B,NECTIN3,ZYX,CLINT1,CTNNB1,CT MHC_I Signaling NND1,PTEN

Stearate Biosynthesis I FAP 0.66 0.05 ZADH2,ELOVL1 MHC_I (Animals) Stearate Biosynthesis I LS 0.629 0.025 LPCAT4 MHC_I (Animals) Nonhyper Polyp Stearate Biosynthesis I LS Hyper 0.749 0.05 SRD5A3,THEM4 MHC_I (Animals) Polyp Stearate Biosynthesis I LS Tumor 1.68 0.075 ACSL3,FASN,ACOT9 MHC_I (Animals) RAR Activation FAP 0.641 0.0321 TRIM24,RDH14,NCOR1,SMARCD1,RDH13,PRKD3 MHC_I

RAR Activation LS 0.889 0.016 PBRM1,STAT5A,SMARCD1 MHC_I Nonhyper Polyp RAR Activation LS Hyper 1.99 0.0481 STAT5A,MAPK1,SMARCB1,ADCY3,ADCY6,PRKCH MHC_I Polyp ,PIK3R2,HLTF,PSMC5

RAR Activation LS Tumor 2.72 0.0481 PBRM1,AKT2,JUN,SMARCA2,ERCC3,PIK3R1,NCO MHC_I

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R1,SMARCA4,PTEN

Cleavage and Polyadenylation FAP 0.631 0.0833 CSTF1 MHC_I of Pre-mRNA Cleavage and Polyadenylation LS 1.11 0.0833 CPSF2 MHC_I of Pre-mRNA Nonhyper Polyp Cleavage and Polyadenylation LS Hyper 0.684 0.0833 CPSF1 MHC_I of Pre-mRNA Polyp Role of NFAT in Cardiac FAP 0.627 0.0317 IL6ST,PLCB4,PDIA3,CSNK1A1,PRKD3,PPP3CA MHC_I Hypertrophy

Role of NFAT in Cardiac LS 0.445 0.0106 PLCD3,FGFR2 MHC_I Hypertrophy Nonhyper Polyp Role of NFAT in Cardiac LS Hyper 2.44 0.0529 TGFBR1,CAMK1,MAPK1,HDAC8,ITPR2,ADCY3,AD MHC_I Hypertrophy Polyp CY6,PRKCH,PIK3R2,NFATC4

Role of NFAT in Cardiac LS Tumor 1.63 0.0368 AKT2,PIK3C2A,PIK3C3,PIK3R1,HDAC1,ITPR3,CAB MHC_I Hypertrophy IN1

Cholesterol Biosynthesis I FAP 0.601 0.0769 DHCR7 MHC_I Cholesterol Biosynthesis I LS Tumor 1.82 0.154 HSD17B7,LBR MHC_I Cholesterol Biosynthesis II FAP 0.601 0.0769 DHCR7 MHC_I (via 24,25-dihydrolanosterol) Cholesterol Biosynthesis II LS Tumor 1.82 0.154 HSD17B7,LBR MHC_I (via 24,25-dihydrolanosterol) Cholesterol Biosynthesis III FAP 0.601 0.0769 DHCR7 MHC_I (via Desmosterol) Cholesterol Biosynthesis III LS Tumor 1.82 0.154 HSD17B7,LBR MHC_I (via Desmosterol) Gαq Signaling FAP 0.574 0.0316 ROCK2,BTK,PLCB4,PRKD3,PPP3CA MHC_I

Gαq Signaling LS 0.547 0.0127 FGFR2,PLD1 MHC_I Nonhyper Polyp

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Gαq Signaling LS Hyper 0.729 0.0316 MAPK1,ITPR2,PRKCH,PIK3R2,NFATC4 MHC_I Polyp Gαq Signaling LS Tumor 1.51 0.0377 AKT2,PLD3,PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I

Role of NANOG in FAP 0.569 0.0333 IL6ST,RIF1,BMPR2,STAT3 MHC_I Mammalian Embryonic Stem Cell Pluripotency Role of NANOG in LS 0.258 0.00833 FGFR2 MHC_I Mammalian Embryonic Stem Nonhyper Cell Pluripotency Polyp Role of NANOG in LS Tumor 2.05 0.05 AKT2,RIF1,PIK3C2A,PIK3C3,PIK3R1,CTNNB1 MHC_I Mammalian Embryonic Stem Cell Pluripotency IL-3 Signaling FAP 0.562 0.0361 STAT3,PRKD3,PPP3CA MHC_I

IL-3 Signaling LS 0.975 0.0241 STAT5A,FGFR2 MHC_I Nonhyper Polyp IL-3 Signaling LS Hyper 1.67 0.0602 RAPGEF1,STAT5A,MAPK1,PRKCH,PIK3R2 MHC_I Polyp IL-3 Signaling LS Tumor 2.11 0.0602 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Thrombin Signaling FAP 0.559 0.03 ROCK2,PLCB4,PDIA3,TBP,MYLK,PRKD3 MHC_I

Thrombin Signaling LS 0.827 0.015 PLCD3,FGFR2,ARHGEF1 MHC_I Nonhyper Polyp Thrombin Signaling LS Hyper 1.41 0.04 PTK2,CAMK1,MAPK1,ITPR2,ADCY3,ADCY6,PRKC MHC_I Polyp H,PIK3R2

Thrombin Signaling LS Tumor 1.1 0.0299 AKT2,PIK3C2A,PIK3C3,PIK3R1,ITPR3,ARHGEF1 MHC_I

PI3K Signaling in B FAP 0.538 0.0323 BTK,PLCB4,PDIA3,PPP3CA MHC_I Lymphocytes PI3K Signaling in B LS 0.248 0.00806 PLCD3 MHC_I Lymphocytes Nonhyper

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Polyp PI3K Signaling in B LS Hyper 0.669 0.0323 MAPK1,ITPR2,PIK3R2,NFATC4 MHC_I Lymphocytes Polyp PI3K Signaling in B LS Tumor 1.41 0.0397 AKT2,JUN,PIK3R1,ITPR3,PTEN MHC_I Lymphocytes Assembly of RNA Polymerase FAP 0.522 0.04 TBP,GTF2F1 MHC_I II Complex Assembly of RNA Polymerase LS Tumor 1.42 0.06 TAF1,POLR2A,ERCC3 MHC_I II Complex PPARα/RXRα Activation FAP 0.522 0.0301 PLCB4,PDIA3,NCOA6,BMPR2,NCOR1 MHC_I

PPARα/RXRα Activation LS 1 0.0181 PLCD3,MED23,CPT1B MHC_I Nonhyper Polyp PPARα/RXRα Activation LS Hyper 0.405 0.0241 TGFBR1,MAPK1,ADCY3,ADCY6 MHC_I Polyp PPARα/RXRα Activation LS Tumor 2.44 0.0476 CAND1,MED23,JUN,GPD2,FASN,NCOR1,MED24,A MHC_I DIPOR1

Acute Myeloid Leukemia FAP 0.5 0.0333 STAT3,SPI1,TCF7L2 MHC_I Signaling Acute Myeloid Leukemia LS 0.917 0.0222 STAT5A,FGFR2 MHC_I Signaling Nonhyper Polyp Acute Myeloid Leukemia LS Hyper 0.605 0.0333 STAT5A,MAPK1,PIK3R2 MHC_I Signaling Polyp Acute Myeloid Leukemia LS Tumor 2.61 0.0652 BRAF,AKT2,MTOR,PIK3C2A,PIK3C3,PIK3R1 MHC_I Signaling p70S6K Signaling FAP 0.496 0.0308 BTK,PLCB4,PDIA3,PRKD3 MHC_I

p70S6K Signaling LS 1.25 0.0231 PLCD3,FGFR2,PLD1 MHC_I Nonhyper Polyp p70S6K Signaling LS Hyper 0.622 0.0308 MAPK1,PRKCH,PIK3R2,BCAP31 MHC_I Polyp p70S6K Signaling LS Tumor 1.88 0.0458 AKT2,MTOR,PIK3C2A,EEF2,PIK3C3,PIK3R1 MHC_I

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EIF2 Signaling FAP 0.492 0.0283 PTBP1,EIF5B,EIF4G3,EIF2AK2,RPS17,EIF2AK3 MHC_I

EIF2 Signaling LS Tumor 1.41 0.033 EIF2AK4,AKT2,WARS,PIK3C2A,PIK3C3,PIK3R1,EI MHC_I F5B

Phagosome Maturation FAP 0.47 0.0299 DYNC1H1,CTSA,VPS41,ATP6V0D1 MHC_I

Phagosome Maturation LS 0.649 0.0149 ATP6V0A2,ATP6V0D1 MHC_I Nonhyper Polyp Phagosome Maturation LS Hyper 0.593 0.0299 CALR,VPS33A,NAPA,CTSF MHC_I Polyp Phagosome Maturation LS Tumor 1.77 0.0435 DYNC1H1,CTSA,TUBB4B,PIK3C3,ATP6V0D1,ATP6 MHC_I V0A1

Salvage Pathways of FAP 0.468 0.0319 CDK8,CSNK1A1,EIF2AK2 MHC_I Pyrimidine Ribonucleotides Salvage Pathways of LS Hyper 2.03 0.0638 PRKX,DMPK,MAPK1,PRKCH,UCKL1,PKN1 MHC_I Pyrimidine Ribonucleotides Polyp Salvage Pathways of LS Tumor 1.29 0.0426 BRAF,AKT2,DMPK,PCK1 MHC_I Pyrimidine Ribonucleotides DNA Methylation and FAP 0.446 0.05 DNMT1 MHC_I Transcriptional Repression Signaling DNA Methylation and LS Tumor 1.46 0.1 CHD3,HDAC1 MHC_I Transcriptional Repression Signaling CNTF Signaling FAP 0.42 0.0333 IL6ST,STAT3 MHC_I CNTF Signaling LS 0.481 0.0167 FGFR2 MHC_I Nonhyper Polyp CNTF Signaling LS Hyper 0.496 0.0333 MAPK1,PIK3R2 MHC_I Polyp CNTF Signaling LS Tumor 1.92 0.0667 MTOR,PIK3C2A,PIK3C3,PIK3R1 MHC_I

UVA-Induced MAPK Signaling FAP 0.418 0.0297 PLCB4,PDIA3,PARP4 MHC_I

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UVA-Induced MAPK Signaling LS 2.33 0.0396 PLCD3,FGFR2,SMPD1,PARP9 MHC_I Nonhyper Polyp UVA-Induced MAPK Signaling LS Hyper 0.237 0.0198 MAPK1,PIK3R2 MHC_I Polyp UVA-Induced MAPK Signaling LS Tumor 2.33 0.0571 MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1,PARP14 MHC_I

Lipid Antigen Presentation by FAP 0.384 0.0417 PDIA3 MHC_I CD1 Lipid Antigen Presentation by LS Hyper 0.43 0.0417 CALR MHC_I CD1 Polyp Lipid Antigen Presentation by LS Tumor 1.31 0.0833 AP1G2,AP2B1 MHC_I CD1 Role of JAK1, JAK2 and TYK2 FAP 0.384 0.0417 STAT3 MHC_I in Interferon Signaling Role of JAK1, JAK2 and TYK2 LS Tumor 1.31 0.0833 IFNGR2,IFNAR2 MHC_I in Interferon Signaling Thrombopoietin Signaling FAP 0.378 0.0308 STAT3,PRKD3 MHC_I Thrombopoietin Signaling LS 1.16 0.0308 STAT5A,FGFR2 MHC_I Nonhyper Polyp Thrombopoietin Signaling LS Hyper 1.44 0.0615 STAT5A,MAPK1,PRKCH,PIK3R2 MHC_I Polyp Thrombopoietin Signaling LS Tumor 1.81 0.0615 JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

T Cell Receptor Signaling FAP 0.373 0.0278 BTK,PTPRH,PPP3CA MHC_I T Cell Receptor Signaling LS 0.791 0.0185 PTPRH,FGFR2 MHC_I Nonhyper Polyp T Cell Receptor Signaling LS Hyper 0.466 0.0278 MAPK1,PIK3R2,NFATC4 MHC_I Polyp T Cell Receptor Signaling LS Tumor 1.65 0.0463 JUN,PIK3C2A,PIK3C3,PIK3R1,RASA1 MHC_I

Remodeling of Epithelial FAP 0.37 0.0303 ACTR2,CLIP1 MHC_I Adherens Junctions Remodeling of Epithelial LS Hyper 0.877 0.0455 DNM1,HGS,ACTN1 MHC_I Adherens Junctions Polyp

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Remodeling of Epithelial LS Tumor 1.78 0.0606 TUBB4B,ZYX,CTNNB1,CTNND1 MHC_I Adherens Junctions Neuropathic Pain Signaling In FAP 0.344 0.0265 PLCB4,PDIA3,PRKD3 MHC_I Dorsal Horn Neurons Neuropathic Pain Signaling In LS 0.76 0.0177 PLCD3,FGFR2 MHC_I Dorsal Horn Neurons Nonhyper Polyp Neuropathic Pain Signaling In LS Hyper 1.18 0.0442 CAMK1,MAPK1,ITPR2,PRKCH,PIK3R2 MHC_I Dorsal Horn Neurons Polyp Neuropathic Pain Signaling In LS Tumor 1.05 0.0351 PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I Dorsal Horn Neurons HGF Signaling FAP 0.339 0.0263 ELF3,STAT3,PRKD3 MHC_I HGF Signaling LS 0.754 0.0175 ELF4,FGFR2 MHC_I Nonhyper Polyp HGF Signaling LS Hyper 1.65 0.0526 PTK2,RAPGEF1,MAP3K11,MAPK1,PRKCH,PIK3R2 MHC_I Polyp

HGF Signaling LS Tumor 1.57 0.0439 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

GM-CSF Signaling FAP 0.32 0.0274 STAT3,PPP3CA MHC_I GM-CSF Signaling LS 0.413 0.0137 FGFR2 MHC_I Nonhyper Polyp GM-CSF Signaling LS Hyper 0.388 0.0274 MAPK1,PIK3R2 MHC_I Polyp GM-CSF Signaling LS Tumor 1.64 0.0548 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Tight Junction Signaling FAP 0.305 0.0241 EPB41,CSTF1,TJP1,MYLK MHC_I

Tight Junction Signaling LS Hyper 2.86 0.0602 EPB41,MYH9,TGFBR1,TNFRSF1A,NECTIN3,MARK MHC_I Polyp 2,CPSF1,CASK,NAPA,NECTIN2

Tight Junction Signaling LS Tumor 1.43 0.0361 AKT2,JUN,NECTIN3,STX4,CTNNB1,PTEN MHC_I

14-3-3-mediated Signaling FAP 0.267 0.0233 PLCB4,PDIA3,PRKD3 MHC_I

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14-3-3-mediated Signaling LS 0.673 0.0155 PLCD3,FGFR2 MHC_I Nonhyper Polyp 14-3-3-mediated Signaling LS Hyper 1.42 0.0465 TSC1,MAPK1,TNFRSF1A,TSC2,PRKCH,PIK3R2 MHC_I Polyp

14-3-3-mediated Signaling LS Tumor 1.89 0.0462 AKT2,JUN,PIK3C2A,TUBB4B,PIK3C3,PIK3R1 MHC_I

Prolactin Signaling FAP 0.262 0.0241 STAT3,PRKD3 MHC_I Prolactin Signaling LS 0.975 0.0241 STAT5A,FGFR2 MHC_I Nonhyper Polyp Prolactin Signaling LS Hyper 1.12 0.0482 STAT5A,MAPK1,PRKCH,PIK3R2 MHC_I Polyp Prolactin Signaling LS Tumor 2.11 0.0602 JUN,PIK3C2A,PIK3C3,PIK3R1,IRF1 MHC_I

JAK/Stat Signaling FAP 0.262 0.0241 PIAS2,STAT3 MHC_I JAK/Stat Signaling LS 0.975 0.0241 STAT5A,FGFR2 MHC_I Nonhyper Polyp JAK/Stat Signaling LS Hyper 0.672 0.0361 STAT5A,MAPK1,PIK3R2 MHC_I Polyp JAK/Stat Signaling LS Tumor 3.64 0.0843 AKT2,MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1,PTPN1 MHC_I

P2Y Purigenic Receptor FAP 0.259 0.0229 PLCB4,PDIA3,PRKD3 MHC_I Signaling Pathway P2Y Purigenic Receptor LS 0.663 0.0153 PLCD3,FGFR2 MHC_I Signaling Pathway Nonhyper Polyp P2Y Purigenic Receptor LS Hyper 0.969 0.0382 MAPK1,ADCY3,ADCY6,PRKCH,PIK3R2 MHC_I Signaling Pathway Polyp P2Y Purigenic Receptor LS Tumor 1.33 0.0379 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I Signaling Pathway Role of NFAT in Regulation of FAP 0.252 0.0222 BTK,PLCB4,CSNK1A1,PPP3CA MHC_I the Immune Response

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Role of NFAT in Regulation of LS Hyper 0.58 0.0278 MAPK1,CSNK1G2,ITPR2,PIK3R2,NFATC4 MHC_I the Immune Response Polyp Role of NFAT in Regulation of LS Tumor 1.74 0.0387 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3,CABIN1 MHC_I the Immune Response

PDGF Signaling FAP 0.229 0.0222 STAT3,EIF2AK2 MHC_I PDGF Signaling LS 0.344 0.0111 FGFR2 MHC_I Nonhyper Polyp PDGF Signaling LS Hyper 0.287 0.0222 MAPK1,PIK3R2 MHC_I Polyp PDGF Signaling LS Tumor 1.97 0.0556 JUN,PIK3C2A,PIK3C3,PIK3R1,RASA1 MHC_I

IL-9 Signaling FAP 0.199 0.0222 STAT3 MHC_I IL-9 Signaling LS 1.44 0.0444 STAT5A,FGFR2 MHC_I Nonhyper Polyp IL-9 Signaling LS Hyper 0.672 0.0444 STAT5A,PIK3R2 MHC_I Polyp IL-9 Signaling LS Tumor 1.54 0.0667 PIK3C2A,PIK3C3,PIK3R1 MHC_I

Glucocorticoid Receptor LS 0.914 0.0141 PBRM1,STAT5A,FGFR2,SMARCD1 MHC_I Signaling Nonhyper Polyp Glucocorticoid Receptor LS Hyper 0.745 0.0282 STAT5A,TGFBR1,MAPK1,SMARCB1,PIK3R2,NFAT MHC_I Signaling Polyp C4,HLTF,MED14

Glucocorticoid Receptor LS Tumor 3.46 0.0456 PBRM1,AKT2,PIK3C2A,PIK3R1,PCK1,SMARCA4,J MHC_I Signaling UN,POLR2A,TAF1,SMARCA2,ERCC3,PIK3C3,NCO R1

Neuregulin Signaling LS 0.359 0.0116 STAT5A MHC_I Nonhyper Polyp Neuregulin Signaling LS Hyper 1.61 0.0581 STAT5A,MAPK1,PRKCH,ERBB2,PIK3R2 MHC_I Polyp

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Neuregulin Signaling LS Tumor 1.41 0.0465 AKT2,MTOR,PIK3R1,PTEN MHC_I

Actin Cytoskeleton Signaling LS 0.734 0.0135 DIAPH2,FGFR2,ARHGEF1 MHC_I Nonhyper Polyp Actin Cytoskeleton Signaling LS Hyper 1.19 0.036 PTK2,MYH9,WASF2,MAPK1,BAIAP2,PIK3R2,GIT1, MHC_I Polyp ACTN1

Actin Cytoskeleton Signaling LS Tumor 0.957 0.0271 PIK3C2A,PIK3C3,PIK3R1,TRIO,ARHGEF1,NCKAP1 MHC_I

Huntington's Disease LS Hyper 1.05 0.0336 DNM1,MAPK1,HDAC8,CASP2,PSME4,PRKCH,PIK3 MHC_I Signaling Polyp R2,NAPA

Huntington's Disease LS Tumor 5.51 0.0625 AKT2,PIK3C2A,PIK3R1,HDAC1,APAF1,MTOR,JUN, MHC_I Signaling POLR2A,PIK3C3,HTT,PSME4,TCERG1,NCOR1,RA SA1,CASP5

p53 Signaling LS 0.772 0.018 TOPBP1,FGFR2 MHC_I Nonhyper Polyp p53 Signaling LS Hyper 0.446 0.027 CCNG1,SIRT1,PIK3R2 MHC_I Polyp p53 Signaling LS Tumor 5.23 0.0901 AKT2,JUN,PIK3C2A,TOPBP1,PIK3C3,PIK3R1,HDA MHC_I C1,APAF1,CTNNB1,PTEN

Erythropoietin Signaling LS 1.01 0.0253 STAT5A,FGFR2 MHC_I Nonhyper Polyp Erythropoietin Signaling LS Hyper 1.19 0.0506 STAT5A,MAPK1,PRKCH,PIK3R2 MHC_I Polyp Erythropoietin Signaling LS Tumor 2.15 0.0617 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Fcγ Receptor-mediated LS 0.334 0.0108 PLD1 MHC_I Phagocytosis in Macrophages Nonhyper

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and Monocytes Polyp Fcγ Receptor-mediated LS Hyper 0.579 0.0323 MAPK1,PRKCH,PIK3R2 MHC_I Phagocytosis in Macrophages Polyp and Monocytes Fcγ Receptor-mediated LS Tumor 1.31 0.043 AKT2,PLD3,PIK3R1,PTEN MHC_I Phagocytosis in Macrophages and Monocytes IL-8 Signaling LS 0.425 0.0102 FGFR2,PLD1 MHC_I Nonhyper Polyp IL-8 Signaling LS Hyper 0.285 0.0204 PTK2,MAPK1,PRKCH,PIK3R2 MHC_I Polyp IL-8 Signaling LS Tumor 2.58 0.0459 BRAF,AKT2,ARRB2,MTOR,PLD3,JUN,PIK3C2A,PIK MHC_I 3C3,PIK3R1

IL-12 Signaling and LS 0.604 0.0139 FGFR2,MST1R MHC_I Production in Macrophages Nonhyper Polyp IL-12 Signaling and LS Hyper 0.282 0.0208 MAPK1,PRKCH,PIK3R2 MHC_I Production in Macrophages Polyp IL-12 Signaling and LS Tumor 1.69 0.0417 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,IRF1 MHC_I Production in Macrophages Role of Pattern Recognition LS 1.24 0.0229 OAS2,FGFR2,TLR3 MHC_I Receptors in Recognition of Nonhyper Bacteria and Viruses Polyp Role of Pattern Recognition LS Hyper 0.615 0.0305 MAPK1,PRKCH,PIK3R2,OAS3 MHC_I Receptors in Recognition of Polyp Bacteria and Viruses Role of Pattern Recognition LS Tumor 0.887 0.0305 PIK3C2A,PIK3C3,PIK3R1,C1QA MHC_I Receptors in Recognition of Bacteria and Viruses FcγRIIB Signaling in B LS 0.525 0.0189 FGFR2 MHC_I Lymphocytes Nonhyper Polyp FcγRIIB Signaling in B LS Tumor 1.36 0.0566 PIK3C2A,PIK3C3,PIK3R1 MHC_I Lymphocytes LPS-stimulated MAPK LS 0.359 0.0116 FGFR2 MHC_I Signaling Nonhyper

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Polyp LPS-stimulated MAPK LS Hyper 0.643 0.0349 MAPK1,PRKCH,PIK3R2 MHC_I Signaling Polyp LPS-stimulated MAPK LS Tumor 1.4 0.046 JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I Signaling CD40 Signaling LS 0.395 0.013 FGFR2 MHC_I Nonhyper Polyp CD40 Signaling LS Hyper 0.361 0.026 MAPK1,PIK3R2 MHC_I Polyp CD40 Signaling LS Tumor 1.55 0.0513 JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

CXCR4 Signaling LS Hyper 1.41 0.0427 PTK2,MAPK1,ITPR2,ADCY3,ADCY6,PRKCH,PIK3R MHC_I Polyp 2

CXCR4 Signaling LS Tumor 1.45 0.0366 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I

CD28 Signaling in T Helper LS 0.244 0.00794 FGFR2 MHC_I Cells Nonhyper Polyp CD28 Signaling in T Helper LS Hyper 0.361 0.0238 ITPR2,PIK3R2,NFATC4 MHC_I Cells Polyp CD28 Signaling in T Helper LS Tumor 1.94 0.0472 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I Cells IL-15 Signaling LS 1.04 0.0263 STAT5A,FGFR2 MHC_I Nonhyper Polyp IL-15 Signaling LS Hyper 1.24 0.0526 PTK2,STAT5A,MAPK1,PIK3R2 MHC_I Polyp IL-15 Signaling LS Tumor 1.58 0.0526 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Virus Entry via Endocytic LS 0.305 0.0098 FGFR2 MHC_I Pathways Nonhyper Polyp Virus Entry via Endocytic LS Hyper 0.508 0.0294 DNM1,PRKCH,PIK3R2 MHC_I Pathways Polyp

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Virus Entry via Endocytic LS Tumor 2.39 0.0588 FLNB,AP1G2,PIK3C2A,PIK3C3,PIK3R1,AP2B1 MHC_I Pathways Reelin Signaling in Neurons LS 0.902 0.0217 FGFR2,ARHGEF1 MHC_I Nonhyper Polyp Reelin Signaling in Neurons LS Hyper 0.277 0.0217 MAP3K11,PIK3R2 MHC_I Polyp Reelin Signaling in Neurons LS Tumor 1.32 0.0435 PIK3C2A,PIK3C3,PIK3R1,ARHGEF1 MHC_I

Endothelin-1 Signaling LS 0.909 0.0164 PLCD3,FGFR2,PLD1 MHC_I Nonhyper Polyp Endothelin-1 Signaling LS Hyper 1.2 0.0383 MAPK1,ITPR2,CASP2,ADCY3,ADCY6,PRKCH,PIK3 MHC_I Polyp R2

Endothelin-1 Signaling LS Tumor 2.18 0.043 BRAF,PLD3,JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3,C MHC_I ASP5

Relaxin Signaling LS 0.199 0.00671 FGFR2 MHC_I Nonhyper Polyp Relaxin Signaling LS Hyper 0.495 0.0268 MAPK1,ADCY3,ADCY6,PIK3R2 MHC_I Polyp Relaxin Signaling LS Tumor 2.14 0.0464 BRAF,AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,NPR2 MHC_I

Renin-Angiotensin Signaling LS 0.26 0.0084 FGFR2 MHC_I Nonhyper Polyp Renin-Angiotensin Signaling LS Hyper 2.1 0.0588 PTK2,MAPK1,ITPR2,ADCY3,ADCY6,PRKCH,PIK3R MHC_I Polyp 2

Renin-Angiotensin Signaling LS Tumor 1.47 0.0413 JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I

iCOS-iCOSL Signaling in T LS 0.265 0.00855 FGFR2 MHC_I Helper Cells Nonhyper Polyp

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iCOS-iCOSL Signaling in T LS Hyper 0.41 0.0256 ITPR2,PIK3R2,NFATC4 MHC_I Helper Cells Polyp iCOS-iCOSL Signaling in T LS Tumor 2.09 0.0508 AKT2,PIK3C2A,PIK3C3,PIK3R1,ITPR3,PTEN MHC_I Helper Cells Molecular Mechanisms of LS 0.352 0.00815 ZBTB17,FGFR2,ARHGEF1 MHC_I Cancer Nonhyper Polyp Molecular Mechanisms of LS Hyper 1.28 0.0326 PTK2,RAPGEF1,E2F4,TGFBR1,MAPK1,FANCD2,A MHC_I Cancer Polyp DCY3,ADCY6,PRKCH,PIK3R2,LRP1,NBN

Molecular Mechanisms of LS Tumor 2.03 0.0324 BRAF,AKT2,JUN,TFDP1,PIK3C2A,PIK3C3,PIK3R1, MHC_I Cancer APAF1,ARHGEF1,CTNNB1,RASA1,CTNND1

FLT3 Signaling in LS 0.984 0.0244 STAT5A,FGFR2 MHC_I Hematopoietic Progenitor Nonhyper Cells Polyp FLT3 Signaling in LS Hyper 0.683 0.0366 STAT5A,MAPK1,PIK3R2 MHC_I Hematopoietic Progenitor Polyp Cells FLT3 Signaling in LS Tumor 2.13 0.061 AKT2,MTOR,PIK3C2A,PIK3C3,PIK3R1 MHC_I Hematopoietic Progenitor Cells GNRH Signaling LS Hyper 2.51 0.063 PTK2,DNM1,MAP3K11,MAPK1,ITPR2,ADCY3,ADC MHC_I Polyp Y6,PRKCH

GNRH Signaling LS Tumor 0.25 0.0157 JUN,ITPR3 MHC_I Germ Cell-Sertoli Cell LS Hyper 2.27 0.0533 PTK2,TGFBR1,MAP3K11,MAPK1,TNFRSF1A,NECT MHC_I Junction Signaling Polyp IN3,PIK3R2,ACTN1,NECTIN2

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Germ Cell-Sertoli Cell LS Tumor 3.67 0.0592 PIK3C2A,TUBB4B,PIK3C3,PIK3R1,NECTIN3,ILK,ZY MHC_I Junction Signaling X,CLINT1,CTNNB1,CTNND1

Glioma Signaling LS 0.285 0.00917 FGFR2 MHC_I Nonhyper Polyp Glioma Signaling LS Hyper 1.23 0.0459 E2F4,CAMK1,MAPK1,PRKCH,PIK3R2 MHC_I Polyp Glioma Signaling LS Tumor 2.88 0.0631 AKT2,MTOR,TFDP1,PIK3C2A,PIK3C3,PIK3R1,PTE MHC_I N

Type II Diabetes Mellitus LS 0.694 0.016 FGFR2,SMPD1 MHC_I Signaling Nonhyper Polyp Type II Diabetes Mellitus LS Hyper 0.661 0.032 MAPK1,TNFRSF1A,PRKCH,PIK3R2 MHC_I Signaling Polyp Type II Diabetes Mellitus LS Tumor 2.57 0.0556 AKT2,ACSL3,MTOR,PIK3C2A,PIK3C3,PIK3R1,ADIP MHC_I Signaling OR1

Non-Small Cell Lung Cancer LS 0.395 0.013 FGFR2 MHC_I Signaling Nonhyper Polyp Non-Small Cell Lung Cancer LS Hyper 1.22 0.0519 MAPK1,ITPR2,ERBB2,PIK3R2 MHC_I Signaling Polyp Non-Small Cell Lung Cancer LS Tumor 3.01 0.0779 AKT2,TFDP1,PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I Signaling Production of Nitric Oxide and LS Hyper 0.512 0.026 MAP3K11,MAPK1,TNFRSF1A,PRKCH,PIK3R2 MHC_I Reactive Oxygen Species in Polyp Macrophages Production of Nitric Oxide and LS Tumor 1.6 0.0363 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,IFNGR2,IRF1 MHC_I Reactive Oxygen Species in Macrophages Gα12/13 Signaling LS 0.668 0.0154 FGFR2,ARHGEF1 MHC_I Nonhyper Polyp Gα12/13 Signaling LS Hyper 0.342 0.0231 PTK2,MAPK1,PIK3R2 MHC_I

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Polyp Gα12/13 Signaling LS Tumor 3.13 0.0611 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,ARHGEF1,CT MHC_I NNB1,RASA1

Colorectal Cancer Metastasis LS 0.318 0.00826 FGFR2,TLR3 MHC_I Signaling Nonhyper Polyp Colorectal Cancer Metastasis LS Hyper 1.02 0.0331 E2F4,TGFBR1,MAPK1,TNFRSF1A,ADCY3,ADCY6, MHC_I Signaling Polyp PIK3R2,LRP1

Colorectal Cancer Metastasis LS Tumor 1.98 0.037 BRAF,AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,MSH6,C MHC_I Signaling TNNB1,MLH1

Pancreatic Adenocarcinoma LS 0.731 0.0169 FGFR2,PLD1 MHC_I Signaling Nonhyper Polyp Pancreatic Adenocarcinoma LS Hyper 1.12 0.0424 E2F4,TGFBR1,MAPK1,ERBB2,PIK3R2 MHC_I Signaling Polyp Pancreatic Adenocarcinoma LS Tumor 2.09 0.0508 AKT2,PLD3,TFDP1,PIK3C2A,PIK3C3,PIK3R1 MHC_I Signaling Sphingosine-1-phosphate LS 1.32 0.0246 PLCD3,FGFR2,SMPD1 MHC_I Signaling Nonhyper Polyp Sphingosine-1-phosphate LS Hyper 1.52 0.0492 PTK2,MAPK1,CASP2,ADCY3,ADCY6,PIK3R2 MHC_I Signaling Polyp Sphingosine-1-phosphate LS Tumor 1.43 0.0403 AKT2,PIK3C2A,PIK3C3,PIK3R1,CASP5 MHC_I Signaling Systemic Lupus LS 0.372 0.00922 EFTUD2,FGFR2 MHC_I Erythematosus Signaling Nonhyper Polyp Systemic Lupus LS Tumor 1.8 0.0369 AKT2,MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1,PRPF8, MHC_I Erythematosus Signaling SNRNP200

AMPK Signaling LS 2.07 0.0266 PBRM1,CPT1A,CPT1B,FGFR2,SMARCD1 MHC_I Nonhyper Polyp

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AMPK Signaling LS Hyper 1.54 0.0426 TSC1,MAPK1,SMARCB1,SIRT1,TSC2,PIK3R2,MLS MHC_I Polyp T8,HLTF

AMPK Signaling LS Tumor 3.66 0.0545 PBRM1,AKT2,MTOR,PIK3C2A,EEF2,SMARCA2,PIK MHC_I 3C3,PIK3R1,FASN,SMARCA4,PFKM

PAK Signaling LS 0.311 0.01 FGFR2 MHC_I Nonhyper Polyp PAK Signaling LS Hyper 1.36 0.05 PTK2,MAPK1,EPHB3,PIK3R2,GIT1 MHC_I Polyp PAK Signaling LS Tumor 0.734 0.03 PIK3C2A,PIK3C3,PIK3R1 MHC_I

Hereditary Breast Cancer LS 1.18 0.0216 PBRM1,FGFR2,SMARCD1 MHC_I Signaling Nonhyper Polyp Hereditary Breast Cancer LS Hyper 1.29 0.0432 HDAC8,FANCD2,SMARCB1,PIK3R2,HLTF,NBN MHC_I Signaling Polyp Hereditary Breast Cancer LS Tumor 5.9 0.0851 PBRM1,AKT2,POLR2A,PIK3C2A,SMARCA2,PIK3C MHC_I Signaling 3,PIK3R1,HDAC1,MSH6,SMARCA4,MLH1,PTEN

Rac Signaling LS 0.743 0.0172 FGFR2,PLD1 MHC_I Nonhyper Polyp Rac Signaling LS Hyper 1.62 0.0517 PTK2,MAP3K11,MAPK1,BAIAP2,PIK3R2,PI4KA MHC_I Polyp

Rac Signaling LS Tumor 1.54 0.0431 JUN,PIK3C2A,PIK3C3,PIK3R1,NCKAP1 MHC_I

Ovarian Cancer Signaling LS 0.21 0.00699 FGFR2 MHC_I Nonhyper Polyp

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Ovarian Cancer Signaling LS Tumor 5.03 0.0769 BRAF,AKT2,MTOR,TFDP1,PIK3C2A,PIK3C3,PIK3R MHC_I 1,MSH6,CTNNB1,MLH1,PTEN

HER-2 Signaling in Breast LS 0.351 0.0114 FGFR2 MHC_I Cancer Nonhyper Polyp HER-2 Signaling in Breast LS Hyper 1.57 0.0568 TSC1,TSC2,PRKCH,ERBB2,PIK3R2 MHC_I Cancer Polyp HER-2 Signaling in Breast LS Tumor 1.38 0.0455 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I Cancer Breast Cancer Regulation by LS 0.409 0.0099 FGFR2,ARHGEF1 MHC_I Stathmin1 Nonhyper Polyp Breast Cancer Regulation by LS Hyper 1.38 0.0396 E2F4,CAMK1,MAPK1,ITPR2,ADCY3,ADCY6,PRKC MHC_I Stathmin1 Polyp H,PIK3R2

Breast Cancer Regulation by LS Tumor 1.1 0.0297 PIK3C2A,TUBB4B,PIK3C3,PIK3R1,ITPR3,ARHGEF MHC_I Stathmin1 1

RANK Signaling in LS 0.314 0.0101 FGFR2 MHC_I Osteoclasts Nonhyper Polyp RANK Signaling in LS Hyper 0.53 0.0303 MAP3K11,MAPK1,PIK3R2 MHC_I Osteoclasts Polyp RANK Signaling in LS Tumor 1.78 0.05 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I Osteoclasts Glioblastoma Multiforme LS 0.547 0.0127 PLCD3,FGFR2 MHC_I Signaling Nonhyper Polyp Glioblastoma Multiforme LS Hyper 1.08 0.038 TSC1,E2F4,MAPK1,ITPR2,TSC2,PIK3R2 MHC_I Signaling Polyp Glioblastoma Multiforme LS Tumor 2.59 0.0503 AKT2,MTOR,PIK3C2A,PIK3C3,PIK3R1,ITPR3,CTN MHC_I Signaling NB1,PTEN

Nur77 Signaling in T LS Tumor 1.36 0.0566 HDAC1,APAF1,CABIN1 MHC_I Lymphocytes

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IL-17A Signaling in Airway LS 0.395 0.013 FGFR2 MHC_I Cells Nonhyper Polyp IL-17A Signaling in Airway LS Hyper 0.361 0.026 MAPK1,PIK3R2 MHC_I Cells Polyp IL-17A Signaling in Airway LS Tumor 2.98 0.0769 AKT2,PIK3C2A,PIK3C3,PIK3R1,MUC5B,PTEN MHC_I Cells NGF Signaling LS 0.743 0.0172 FGFR2,SMPD1 MHC_I Nonhyper Polyp NGF Signaling LS Hyper 0.416 0.0259 MAP3K11,MAPK1,PIK3R2 MHC_I Polyp NGF Signaling LS Tumor 1.5 0.042 AKT2,PIK3C2A,PIK3C3,PIK3R1,TRIO MHC_I

Sertoli Cell-Sertoli Cell LS Hyper 1.31 0.0405 EPB41,MAP3K11,MAPK1,TNFRSF1A,NECTIN3,AC MHC_I Junction Signaling Polyp TN1,NECTIN2

Sertoli Cell-Sertoli Cell LS Tumor 2.37 0.0462 AKT2,JUN,TUBB4B,NECTIN3,ILK,CLINT1,CTNNB1, MHC_I Junction Signaling PTEN

Telomerase Signaling LS 0.791 0.0185 ELF4,FGFR2 MHC_I Nonhyper Polyp Telomerase Signaling LS Hyper 0.815 0.037 MAPK1,HDAC8,TEP1,PIK3R2 MHC_I Polyp Telomerase Signaling LS Tumor 1.65 0.0463 AKT2,PIK3C2A,PIK3C3,PIK3R1,HDAC1 MHC_I

eNOS Signaling LS 0.201 0.00676 FGFR2 MHC_I Nonhyper Polyp eNOS Signaling LS Hyper 1.18 0.0405 NOSIP,ITPR2,ADCY3,ADCY6,PRKCH,PIK3R2 MHC_I Polyp eNOS Signaling LS Tumor 1.49 0.0373 AKT2,PIK3C2A,PIK3C3,PIK3R1,ITPR3,NOSTRIN MHC_I

VEGF Family Ligand- LS 0.351 0.0114 FGFR2 MHC_I Receptor Interactions Nonhyper

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Polyp VEGF Family Ligand- LS Hyper 0.624 0.0341 MAPK1,PRKCH,PIK3R2 MHC_I Receptor Interactions Polyp VEGF Family Ligand- LS Tumor 1.38 0.0455 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I Receptor Interactions Ephrin A Signaling LS 0.481 0.0167 FGFR2 MHC_I Nonhyper Polyp Ephrin A Signaling LS Hyper 0.968 0.05 PTK2,PIK3R2,EPHA2 MHC_I Polyp Ephrin A Signaling LS Tumor 1.92 0.0667 PIK3C2A,PIK3C3,PIK3R1,EPHA2 MHC_I

ErbB Signaling LS 0.321 0.0103 FGFR2 MHC_I Nonhyper Polyp ErbB Signaling LS Hyper 0.936 0.0412 MAPK1,PRKCH,ERBB2,PIK3R2 MHC_I Polyp ErbB Signaling LS Tumor 1.84 0.0515 MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

ErbB2-ErbB3 Signaling LS 1.12 0.0294 STAT5A,FGFR2 MHC_I Nonhyper Polyp ErbB2-ErbB3 Signaling LS Hyper 1.38 0.0588 STAT5A,MAPK1,ERBB2,PIK3R2 MHC_I Polyp ErbB2-ErbB3 Signaling LS Tumor 2.48 0.0735 JUN,PIK3C2A,PIK3C3,PIK3R1,PTEN MHC_I

PEDF Signaling LS 0.366 0.0119 FGFR2 MHC_I Nonhyper Polyp PEDF Signaling LS Hyper 2.26 0.0714 HNF1B,SOD2,WASF2,MAPK1,PIK3R2,TCF12 MHC_I Polyp PEDF Signaling LS Tumor 1.4 0.046 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I

UVB-Induced MAPK Signaling LS 0.447 0.0152 FGFR2 MHC_I Nonhyper Polyp

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UVB-Induced MAPK Signaling LS Hyper 0.877 0.0455 MAPK1,PRKCH,PIK3R2 MHC_I Polyp UVB-Induced MAPK Signaling LS Tumor 2.53 0.0758 MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

EGF Signaling LS 0.437 0.0147 FGFR2 MHC_I Nonhyper Polyp EGF Signaling LS Hyper 0.849 0.0441 MAPK1,ITPR2,PIK3R2 MHC_I Polyp EGF Signaling LS Tumor 5.15 0.118 AKT2,MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3, MHC_I RASA1

SAPK/JNK Signaling LS 0.302 0.00971 FGFR2 MHC_I Nonhyper Polyp SAPK/JNK Signaling LS Hyper 0.501 0.0291 MINK1,MAP3K11,PIK3R2 MHC_I Polyp SAPK/JNK Signaling LS Tumor 1.73 0.0485 JUN,PIK3C2A,PIK3C3,PIK3R1,MAP4K5 MHC_I

Nitric Oxide Signaling in the LS 0.288 0.00926 FGFR2 MHC_I Cardiovascular System Nonhyper Polyp Nitric Oxide Signaling in the LS Hyper 1.25 0.0463 MAPK1,ITPR2,ATP2A3,PRKCH,PIK3R2 MHC_I Cardiovascular System Polyp Nitric Oxide Signaling in the LS Tumor 1.65 0.0463 AKT2,PIK3C2A,PIK3C3,PIK3R1,ITPR3 MHC_I Cardiovascular System FGF Signaling LS 0.344 0.0111 FGFR2 MHC_I Nonhyper Polyp FGF Signaling LS Hyper 0.287 0.0222 MAPK1,PIK3R2 MHC_I Polyp FGF Signaling LS Tumor 1.35 0.0444 AKT2,PIK3C2A,PIK3C3,PIK3R1 MHC_I

B Cell Receptor Signaling LS Hyper 0.568 0.0275 PTK2,MAP3K11,MAPK1,PIK3R2,NFATC4 MHC_I Polyp

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B Cell Receptor Signaling LS Tumor 1.67 0.0374 AKT2,MTOR,JUN,PIK3C2A,PIK3C3,PIK3R1,PTEN MHC_I

Insulin Receptor Signaling LS 0.221 0.0073 FGFR2 MHC_I Nonhyper Polyp Insulin Receptor Signaling LS Hyper 0.909 0.0365 TSC1,RAPGEF1,MAPK1,TSC2,PIK3R2 MHC_I Polyp Insulin Receptor Signaling LS Tumor 3 0.0584 AKT2,MTOR,PIK3C2A,PIK3C3,PIK3R1,PTPN1,STX MHC_I 4,PTEN

Integrin Signaling LS Hyper 1.28 0.0377 PTK2,ARHGAP5,RAPGEF1,MAP3K11,MAPK1,PIK3 MHC_I Polyp R2,GIT1,ACTN1

Integrin Signaling LS Tumor 2.36 0.0425 BRAF,PARVB,AKT2,PIK3C2A,PIK3C3,PIK3R1,ILK,Z MHC_I YX,PTEN

IGF-1 Signaling LS 0.294 0.00943 FGFR2 MHC_I Nonhyper Polyp IGF-1 Signaling LS Hyper 0.479 0.0283 PTK2,MAPK1,PIK3R2 MHC_I Polyp IGF-1 Signaling LS Tumor 2.31 0.0566 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,RASA1 MHC_I

NF-κB Signaling LS 0.481 0.0113 FGFR2,TLR3 MHC_I Nonhyper Polyp NF-κB Signaling LS Tumor 1.31 0.0337 BRAF,AKT2,PIK3C2A,PIK3C3,PIK3R1,HDAC1 MHC_I

IL-6 Signaling LS 0.242 0.00787 FGFR2 MHC_I Nonhyper Polyp IL-6 Signaling LS Hyper 0.356 0.0236 MAPK1,TNFRSF1A,PIK3R2 MHC_I Polyp IL-6 Signaling LS Tumor 1.38 0.0391 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Th1 Pathway LS 0.235 0.00769 FGFR2 MHC_I

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Nonhyper Polyp Th1 Pathway LS Tumor 1.36 0.0385 PIK3C2A,PIK3C3,PIK3R1,IFNGR2,IRF1 MHC_I

Calcium Signaling LS Hyper 2.25 0.0529 CALR,MYH9,CAMK1,MAPK1,HDAC8,ITPR2,ATP2A MHC_I Polyp 3,ASPH,NFATC4

Calcium Signaling LS Tumor 0.607 0.0234 HDAC1,ITPR3,ASPH,CABIN1 MHC_I

Ceramide Signaling LS 0.894 0.0215 FGFR2,SMPD1 MHC_I Nonhyper Polyp Ceramide Signaling LS Hyper 0.272 0.0215 TNFRSF1A,PIK3R2 MHC_I Polyp Ceramide Signaling LS Tumor 1.91 0.0538 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Lymphotoxin β Receptor LS 0.442 0.0149 FGFR2 MHC_I Signaling Nonhyper Polyp Lymphotoxin β Receptor LS Hyper 0.434 0.0299 MAPK1,PIK3R2 MHC_I Signaling Polyp Lymphotoxin β Receptor LS Tumor 2.51 0.0746 AKT2,PIK3C2A,PIK3C3,PIK3R1,APAF1 MHC_I Signaling IL-17 Signaling LS 0.362 0.0118 FGFR2 MHC_I Nonhyper Polyp IL-17 Signaling LS Hyper 0.313 0.0235 MAPK1,PIK3R2 MHC_I Polyp IL-17 Signaling LS Tumor 2.79 0.0706 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,MUC5B MHC_I

CTLA4 Signaling in Cytotoxic LS 0.318 0.0102 FGFR2 MHC_I T Lymphocytes Nonhyper Polyp CTLA4 Signaling in Cytotoxic LS Tumor 2.47 0.0612 AKT2,AP1G2,PIK3C2A,PIK3C3,PIK3R1,AP2B1 MHC_I T Lymphocytes IL-15 Production LS 0.782 0.037 MST1R MHC_I Nonhyper Polyp

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IL-15 Production LS Hyper 1.03 0.0741 PTK2,MAP3K11 MHC_I Polyp IL-15 Production LS Tumor 0.467 0.0357 IRF1 MHC_I HIF1α Signaling LS 0.76 0.0177 EGLN3,FGFR2 MHC_I Nonhyper Polyp HIF1α Signaling LS Tumor 1.54 0.0431 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Angiopoietin Signaling LS 1.04 0.0263 STAT5A,FGFR2 MHC_I Nonhyper Polyp Angiopoietin Signaling LS Hyper 0.748 0.0395 PTK2,STAT5A,PIK3R2 MHC_I Polyp Angiopoietin Signaling LS Tumor 2.25 0.0649 AKT2,PIK3C2A,PIK3C3,PIK3R1,RASA1 MHC_I

Docosahexaenoic Acid (DHA) LS 0.532 0.0192 FGFR2 MHC_I Signaling Nonhyper Polyp Docosahexaenoic Acid (DHA) LS Hyper 0.197 0.0192 PIK3R2 MHC_I Signaling Polyp Docosahexaenoic Acid (DHA) LS Tumor 3 0.0962 AKT2,PIK3C2A,PIK3C3,PIK3R1,APAF1 MHC_I Signaling HMGB1 Signaling LS 0.233 0.00763 FGFR2 MHC_I Nonhyper Polyp HMGB1 Signaling LS Hyper 0.969 0.0382 MAPK1,TNFRSF1A,KAT6A,PIK3R2,KAT2A MHC_I Polyp HMGB1 Signaling LS Tumor 1.88 0.0458 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,IFNGR2 MHC_I

Polyamine Regulation in LS Hyper 0.46 0.0455 PSME4 MHC_I Colon Cancer Polyp Polyamine Regulation in LS Tumor 1.38 0.0909 PSME4,CTNNB1 MHC_I Colon Cancer Antiproliferative Role of LS 0.417 0.0139 FGFR2 MHC_I Somatostatin Receptor 2 Nonhyper Polyp Antiproliferative Role of LS Hyper 0.395 0.0278 MAPK1,PIK3R2 MHC_I Somatostatin Receptor 2 Polyp

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Antiproliferative Role of LS Tumor 2.37 0.0694 BRAF,PIK3C2A,PIK3C3,PIK3R1,NPR2 MHC_I Somatostatin Receptor 2 Melanoma Signaling LS 0.512 0.0182 FGFR2 MHC_I Nonhyper Polyp Melanoma Signaling LS Hyper 0.547 0.0364 MAPK1,PIK3R2 MHC_I Polyp Melanoma Signaling LS Tumor 3.81 0.109 BRAF,AKT2,PIK3C2A,PIK3C3,PIK3R1,PTEN MHC_I

Prostate Cancer Signaling LS 0.337 0.0109 FGFR2 MHC_I Nonhyper Polyp Prostate Cancer Signaling LS Hyper 0.277 0.0217 MAPK1,PIK3R2 MHC_I Polyp Prostate Cancer Signaling LS Tumor 4.11 0.0851 AKT2,MTOR,TFDP1,PIK3C2A,PIK3C3,PIK3R1,CTN MHC_I NB1,PTEN

Renal Cell Carcinoma LS 1.01 0.0253 EGLN3,FGFR2 MHC_I Signaling Nonhyper Polyp Renal Cell Carcinoma LS Hyper 0.715 0.038 RAPGEF1,MAPK1,PIK3R2 MHC_I Signaling Polyp Renal Cell Carcinoma LS Tumor 2.15 0.0617 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I Signaling Small Cell Lung Cancer LS 0.967 0.0238 FGFR2,SKP2 MHC_I Signaling Nonhyper Polyp Small Cell Lung Cancer LS Hyper 0.319 0.0238 PTK2,PIK3R2 MHC_I Signaling Polyp Small Cell Lung Cancer LS Tumor 4.43 0.0941 AKT2,TFDP1,PIK3C2A,PIK3C3,PIK3R1,APAF1,SKP MHC_I Signaling 2,PTEN

Endometrial Cancer Signaling LS 0.458 0.0156 FGFR2 MHC_I Nonhyper Polyp Endometrial Cancer Signaling LS Hyper 0.906 0.0469 MAPK1,ERBB2,PIK3R2 MHC_I Polyp

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Endometrial Cancer Signaling LS Tumor 5.35 0.125 AKT2,PIK3C2A,PIK3C3,PIK3R1,ILK,CTNNB1,MLH1, MHC_I PTEN

Chronic Myeloid Leukemia LS 0.823 0.0194 STAT5A,FGFR2 MHC_I Signaling Nonhyper Polyp Chronic Myeloid Leukemia LS Hyper 1.84 0.0583 STAT5A,E2F4,TGFBR1,MAPK1,HDAC8,PIK3R2 MHC_I Signaling Polyp

Chronic Myeloid Leukemia LS Tumor 2.37 0.0583 AKT2,TFDP1,PIK3C2A,PIK3C3,PIK3R1,HDAC1 MHC_I Signaling Myc Mediated Apoptosis LS 0.427 0.0143 FGFR2 MHC_I Signaling Nonhyper Polyp Myc Mediated Apoptosis LS Tumor 2.42 0.0714 AKT2,PIK3C2A,PIK3C3,PIK3R1,APAF1 MHC_I Signaling ILK Signaling LS Hyper 0.785 0.0312 PTK2,MYH9,MAPK1,TNFRSF1A,PIK3R2,ACTN1 MHC_I Polyp

ILK Signaling LS Tumor 3.85 0.0573 PARVB,FLNB,AKT2,MTOR,JUN,PIK3C2A,PIK3C3,P MHC_I IK3R1,ILK,CTNNB1,PTEN

FAK Signaling LS 0.318 0.0102 FGFR2 MHC_I Nonhyper Polyp FAK Signaling LS Hyper 0.538 0.0306 PTK2,MAPK1,PIK3R2 MHC_I Polyp FAK Signaling LS Tumor 1.82 0.051 AKT2,PIK3C2A,PIK3C3,PIK3R1,PTEN MHC_I

Estrogen-Dependent Breast LS 1.03 0.026 STAT5A,FGFR2 MHC_I Cancer Signaling Nonhyper Polyp Estrogen-Dependent Breast LS Hyper 0.737 0.039 STAT5A,MAPK1,PIK3R2 MHC_I Cancer Signaling Polyp

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Estrogen-Dependent Breast LS Tumor 3.01 0.0779 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1,HSD17B7 MHC_I Cancer Signaling

Role of PI3K/AKT Signaling in LS 0.413 0.0137 FGFR2 MHC_I the Pathogenesis of Influenza Nonhyper Polyp Role of PI3K/AKT Signaling in LS Hyper 0.388 0.0274 MAPK1,PIK3R2 MHC_I the Pathogenesis of Influenza Polyp Role of PI3K/AKT Signaling in LS Tumor 2.27 0.0658 AKT2,PIK3C2A,PIK3C3,PIK3R1,MLH1 MHC_I the Pathogenesis of Influenza Antiproliferative Role of TOB LS 0.797 0.0385 SKP2 MHC_I in T Cell Signaling Nonhyper Polyp Antiproliferative Role of TOB LS Hyper 1.06 0.0769 TGFBR1,MAPK1 MHC_I in T Cell Signaling Polyp Antiproliferative Role of TOB LS Tumor 0.493 0.0385 SKP2 MHC_I in T Cell Signaling Inhibition of Angiogenesis by LS Hyper 1.64 0.0938 HSPG2,TGFBR1,MAPK1 MHC_I TSP1 Polyp Inhibition of Angiogenesis by LS Tumor 1.09 0.0625 AKT2,JUN MHC_I TSP1 Mismatch Repair in LS Tumor 1.64 0.125 MSH6,MLH1 MHC_I Eukaryotes Role of Tissue Factor in LS 0.726 0.0168 STAT5A,FGFR2 MHC_I Cancer Nonhyper Polyp Role of Tissue Factor in LS Hyper 0.399 0.0252 STAT5A,MAPK1,PIK3R2 MHC_I Cancer Polyp Role of Tissue Factor in LS Tumor 2.69 0.0583 AKT2,ARRB2,MTOR,PIK3C2A,PIK3C3,PIK3R1,PTE MHC_I Cancer N

iNOS Signaling LS Hyper 0.248 0.0233 MAPK1 MHC_I Polyp iNOS Signaling LS Tumor 1.57 0.0682 JUN,IFNGR2,IRF1 MHC_I Estrogen-mediated S-phase LS 0.829 0.0417 SKP2 MHC_I Entry Nonhyper Polyp Estrogen-mediated S-phase LS Hyper 0.43 0.0417 E2F4 MHC_I

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Entry Polyp Estrogen-mediated S-phase LS Tumor 1.31 0.0833 TFDP1,SKP2 MHC_I Entry GDNF Family Ligand- LS 0.399 0.0132 FGFR2 MHC_I Receptor Interactions Nonhyper Polyp GDNF Family Ligand- LS Hyper 0.748 0.0395 MAPK1,ITPR2,PIK3R2 MHC_I Receptor Interactions Polyp GDNF Family Ligand- LS Tumor 3.04 0.0789 JUN,PIK3C2A,PIK3C3,PIK3R1,ITPR3,RASA1 MHC_I Receptor Interactions Diphthamide Biosynthesis LS Tumor 1.36 0.333 EEF2 MHC_I Thio-molybdenum Cofactor LS Tumor 1.83 1 MOCOS MHC_I Biosynthesis 2-ketoglutarate LS Tumor 2.89 0.5 DLST,OGDH MHC_I Dehydrogenase Complex Palmitate Biosynthesis I LS Tumor 1.53 0.5 FASN MHC_I (Animals) TCA Cycle II (Eukaryotic) LS Tumor 2.34 0.13 ACO2,DLST,OGDH MHC_I Anandamide Degradation LS Tumor 1.53 0.5 FAAH2 MHC_I Glycerol-3-phosphate Shuttle LS Tumor 1.36 0.333 GPD2 MHC_I Fatty Acid Biosynthesis LS Tumor 1.53 0.5 FASN MHC_I Initiation II Zymosterol Biosynthesis LS Tumor 2.5 0.333 HSD17B7,LBR MHC_I Glutamate Biosynthesis II LS Tumor 1.53 0.5 GLUD1 MHC_I Glutamate Degradation X LS Tumor 1.53 0.5 GLUD1 MHC_I Role of p14/p19ARF in Tumor LS 0.611 0.0238 FGFR2 MHC_I Suppression Nonhyper Polyp Role of p14/p19ARF in Tumor LS Hyper 0.255 0.0238 PIK3R2 MHC_I Suppression Polyp Role of p14/p19ARF in Tumor LS Tumor 1.62 0.0714 PIK3C2A,PIK3C3,PIK3R1 MHC_I Suppression PI3K/AKT Signaling LS Hyper 1.07 0.041 TSC1,MAPK1,TSC2,PIK3R2,THEM4 MHC_I Polyp PI3K/AKT Signaling LS Tumor 2 0.0488 AKT2,MTOR,PIK3R1,ILK,CTNNB1,PTEN MHC_I

Interferon Signaling LS Hyper 0.299 0.0278 MED14 MHC_I

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Polyp Interferon Signaling LS Tumor 1.8 0.0833 IFNGR2,IFNAR2,IRF1 MHC_I IL-2 Signaling LS 1.17 0.0312 STAT5A,FGFR2 MHC_I Nonhyper Polyp IL-2 Signaling LS Hyper 0.906 0.0469 STAT5A,MAPK1,PIK3R2 MHC_I Polyp IL-2 Signaling LS Tumor 2.59 0.0781 AKT2,JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

IL-4 Signaling LS 0.359 0.0116 FGFR2 MHC_I Nonhyper Polyp IL-4 Signaling LS Hyper 0.308 0.0233 PIK3R2,NFATC4 MHC_I Polyp IL-4 Signaling LS Tumor 2.05 0.0581 AKT2,MTOR,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Neurotrophin/TRK Signaling LS 0.399 0.0132 FGFR2 MHC_I Nonhyper Polyp Neurotrophin/TRK Signaling LS Hyper 0.368 0.0263 MAPK1,PIK3R2 MHC_I Polyp Neurotrophin/TRK Signaling LS Tumor 1.58 0.0526 JUN,PIK3C2A,PIK3C3,PIK3R1 MHC_I

Cancer Drug Resistance By LS Hyper 0.617 0.0408 MAPK1,PIK3R2 MHC_I Drug Efflux Polyp Cancer Drug Resistance By LS Tumor 2.23 0.0816 BRAF,AKT2,PIK3R1,PTEN MHC_I Drug Efflux Actin Nucleation by ARP- FAP 2.93 0.125 ROCK2,ROCK1,ACTR2,PPP1R12C,SOS1,BAIAP2, MHC_II WASP Complex NCK1

Actin Nucleation by ARP- LS Hyper 0.517 0.0536 ROCK1,NCK2,RHOQ MHC_II WASP Complex Polyp Actin Nucleation by ARP- LS Tumor 0.847 0.0536 ROCK1,SOS2,VASP MHC_II WASP Complex

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Estrogen Receptor Signaling FAP 2.87 0.0859 MED13,CDK8,MED20,MED15,SOS1,MED21,TBP,G MHC_II TF2H1,NCOR1,MED13L,MAP2K1

Estrogen Receptor Signaling LS 0.422 0.0156 MED23,MED16 MHC_II Nonhyper Polyp Estrogen Receptor Signaling LS Hyper 0.814 0.0547 MAPK1,TRRAP,CREBBP,NCOA1,NCOR2,SMARCA MHC_II Polyp 4,MED14

Estrogen Receptor Signaling LS Tumor 4.33 0.0938 POLR2C,MED23,POLR2A,MAPK1,ERCC3,TRRAP, MHC_II SOS2,NCOR1,PCK1,MED24,TAF2,SMARCA4

RhoA Signaling FAP 2.51 0.082 ROCK2,ROCK1,ARHGAP5,ACTR2,LPAR6,BAIAP2, MHC_II LPAR5,ARHGAP12,MYLK,ARHGAP1

RhoA Signaling LS 0.449 0.0164 ARHGEF1,PLD1 MHC_II Nonhyper Polyp RhoA Signaling LS Hyper 1.22 0.0656 PTK2,ROCK1,ARHGAP5,ANLN,LPAR5,ARHGAP1, MHC_II Polyp PI4KA,PKN1

RhoA Signaling LS Tumor 0.497 0.0328 ROCK1,PIKFYVE,RAPGEF6,ARHGEF1 MHC_II

Cell Cycle Control of FAP 2.24 0.107 TOP2B,CDK12,CDK8,PRIM1,TOP2A,ORC4 MHC_II Chromosomal Replication Cell Cycle Control of LS 0.358 0.0179 CHEK2 MHC_II Chromosomal Replication Nonhyper Polyp Cell Cycle Control of LS Hyper 0.897 0.0714 LIG1,MCM2,CDK11B,POLD1 MHC_II Chromosomal Replication Polyp Cell Cycle Control of LS Tumor 3.51 0.125 TOP2B,CDK12,ORC3,POLE,CDK4,MCM4,MCM7 MHC_II Chromosomal Replication

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Role of Macrophages, FAP 2.09 0.0561 IL6ST,PIK3C2B,FRZB,PDIA3,CSNK1A1,STAT3,RO MHC_II Fibroblasts and Endothelial CK1,ROCK2,CALM1 (includes Cells in Rheumatoid Arthritis others),PLCB4,CAMK2D,FZD6,PRKD3,MAP2K1,TC F7L2,LRP1,PPP3CA

Role of Macrophages, LS 0.424 0.0132 PLCD3,FGFR2,TLR3,STAT3 MHC_II Fibroblasts and Endothelial Nonhyper Cells in Rheumatoid Arthritis Polyp Role of Macrophages, LS Hyper 0.606 0.0429 ROCK1,PLCD3,NLK,MAPK1,TNFRSF1A,PRKCD,C MHC_II Fibroblasts and Endothelial Polyp REBBP,DVL1,PLCB3,PRKCH,CEBPB,PIK3R2,LRP1 Cells in Rheumatoid Arthritis

Role of Macrophages, LS Tumor 1 0.0363 ROCK1,AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C MHC_II Fibroblasts and Endothelial 3,DVL1,CTNNB1,PLCH1,LRP1 Cells in Rheumatoid Arthritis

Role of BRCA1 in DNA FAP 2.05 0.0875 ABRAXAS1,TOPBP1,RFC2,ATR,SMARCD1,SMAR MHC_II Damage Response CC1,NBN

Role of BRCA1 in DNA LS 1.31 0.0375 PBRM1,TOPBP1,CHEK2 MHC_II Damage Response Nonhyper Polyp Role of BRCA1 in DNA LS Hyper 1.69 0.0875 E2F4,FANCD2,SMARCB1,MSH6,HLTF,SMARCA4, MHC_II Damage Response Polyp NBN

Role of BRCA1 in DNA LS Tumor 3.26 0.1 PBRM1,RBL2,MSH6,BABAM1,ARID2,SMARCA4,ML MHC_II Damage Response H1,RFC3

Wnt/β-catenin Signaling FAP 1.95 0.0651 AXIN2,FRZB,APPL2,FZD6,CSNK1A1,NR5A2,TLE1, MHC_II BMPR2,SOX9,TCF7L2,LRP1

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Wnt/β-catenin Signaling LS Hyper 1.49 0.0651 CSNK1E,NLK,TGFBR1,CSNK1G2,CSNK1G3,DVL1, MHC_II Polyp CREBBP,MARK2,ACVR1,DVL3,LRP1

Wnt/β-catenin Signaling LS Tumor 0.993 0.0414 AKT2,JUN,HDAC1,DVL1,ILK,CTNNB1,LRP1 MHC_II

UDP-N-acetyl-D-glucosamine FAP 1.93 0.333 GNPNAT1,PGM3 MHC_II Biosynthesis II Mouse Embryonic Stem Cell FAP 1.92 0.0762 IL6ST,PIK3C2B,SOS1,FZD6,BMPR2,STAT3,MAP2K MHC_II Pluripotency 1,TCF7L2

Mouse Embryonic Stem Cell LS 1.64 0.0381 BMP4,TYK2,FGFR2,STAT3 MHC_II Pluripotency Nonhyper Polyp Mouse Embryonic Stem Cell LS Hyper 0.53 0.0476 MAPK1,DVL1,CREBBP,DVL3,PIK3R2 MHC_II Pluripotency Polyp Mouse Embryonic Stem Cell LS Tumor 1.94 0.0667 AKT2,MAPK1,PIK3C2A,PIK3C3,DVL1,SOS2,CTNN MHC_II Pluripotency B1

Cell Cycle: G2/M DNA FAP 1.86 0.102 TOP2B,TRIP12,TOP2A,CCNB2,ATR MHC_II Damage Checkpoint Regulation Cell Cycle: G2/M DNA LS 1.05 0.0408 CHEK2,SKP2 MHC_II Damage Checkpoint Nonhyper Regulation Polyp Cell Cycle: G2/M DNA LS Tumor 0.498 0.0408 TOP2B,SKP2 MHC_II Damage Checkpoint Regulation Valine Degradation I FAP 1.83 0.167 HIBCH,EHHADH,BCKDHB MHC_II

Melatonin Signaling FAP 1.78 0.0857 CALM1 (includes MHC_II others),PLCB4,CAMK2D,PDIA3,MAP2K1,PRKD3

Melatonin Signaling LS 0.289 0.0143 PLCD3 MHC_II Nonhyper Polyp

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Melatonin Signaling LS Hyper 1.03 0.0714 PLCD3,MAPK1,PRKCD,PLCB3,PRKCH MHC_II Polyp Melatonin Signaling LS Tumor 0.65 0.0429 BRAF,MAPK1,PLCH1 MHC_II Oncostatin M Signaling FAP 1.78 0.118 IL6ST,SOS1,STAT3,MAP2K1 MHC_II

Oncostatin M Signaling LS 1.33 0.0588 TYK2,STAT3 MHC_II Nonhyper Polyp Oncostatin M Signaling LS Hyper 0.484 0.0588 STAT5A,MAPK1 MHC_II Polyp Oncostatin M Signaling LS Tumor 0.726 0.0588 EPAS1,MAPK1 MHC_II DNA damage-induced 14-3- FAP 1.77 0.158 RAD17,CCNB2,ATR MHC_II 3σ Signaling DNA damage-induced 14-3- LS Tumor 0.442 0.0526 AKT2 MHC_II 3σ Signaling GM-CSF Signaling FAP 1.7 0.0822 PIK3C2B,CAMK2D,SOS1,STAT3,MAP2K1,PPP3CA MHC_II

GM-CSF Signaling LS 0.765 0.0274 FGFR2,STAT3 MHC_II Nonhyper Polyp GM-CSF Signaling LS Hyper 0.335 0.0411 ETS1,MAPK1,PIK3R2 MHC_II Polyp GM-CSF Signaling LS Tumor 2.15 0.0822 AKT2,MAPK1,PIK3C2A,PIK3C3,RACK1,SOS2 MHC_II

Transcriptional Regulatory FAP 1.69 0.0926 TRIM24,RIF1,KAT6A,SKIL,STAT3 MHC_II Network in Embryonic Stem Cells Transcriptional Regulatory LS 0.37 0.0185 STAT3 MHC_II Network in Embryonic Stem Nonhyper Cells Polyp Transcriptional Regulatory LS Hyper 0.252 0.037 KAT6A,CDX2 MHC_II Network in Embryonic Stem Polyp Cells Role of NANOG in FAP 1.61 0.0667 IL6ST,PIK3C2B,RIF1,SOS1,FZD6,BMPR2,STAT3,M MHC_II Mammalian Embryonic Stem AP2K1 Cell Pluripotency

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Role of NANOG in LS 1.46 0.0333 BMP4,TYK2,FGFR2,STAT3 MHC_II Mammalian Embryonic Stem Nonhyper Cell Pluripotency Polyp Role of NANOG in LS Tumor 2.14 0.0667 AKT2,RIF1,MAPK1,PIK3C2A,PIK3C3,DVL1,SOS2,C MHC_II Mammalian Embryonic Stem TNNB1 Cell Pluripotency PPARα/RXRα Activation FAP 1.58 0.0595 CAND1,PLCB4,HELZ2,PDIA3,SOS1,PRKAA1,NCO MHC_II A6,BMPR2,NCOR1,MAP2K1

PPARα/RXRα Activation LS 0.606 0.0179 PLCD3,MED23,CPT1B MHC_II Nonhyper Polyp PPARα/RXRα Activation LS Hyper 2.68 0.0833 TGFBR1,PRKAB2,MAPK1,ADCY3,CREBBP,ACVR1 MHC_II Polyp ,ADCY6,CKAP5,NFKB2,PLCD3,HELZ2,FASN,PLCB 3,NCOR2

PPARα/RXRα Activation LS Tumor 4.38 0.0833 SMAD2,MED23,MAPK1,SOS2,ADIPOR1,PLCH1,CA MHC_II ND1,JUN,NFKBIA,GPD2,FASN,NCOR1,GOT2,MED 24

CNTF Signaling FAP 1.51 0.0833 IL6ST,PIK3C2B,SOS1,STAT3,MAP2K1 MHC_II

CNTF Signaling LS 1.63 0.05 TYK2,FGFR2,STAT3 MHC_II Nonhyper Polyp CNTF Signaling LS Tumor 1.89 0.0833 MTOR,MAPK1,PIK3C2A,PIK3C3,RPS6KB2 MHC_II

CCR3 Signaling in FAP 1.5 0.0635 ROCK2,ROCK1,PIK3C2B,CALM1 (includes MHC_II Eosinophils others),PLCB4,MYLK,MAP2K1,PRKD3

CCR3 Signaling in LS Hyper 0.839 0.0556 ROCK1,MAPK1,ITPR2,PRKCD,PLCB3,PRKCH,PIK MHC_II Eosinophils Polyp 3R2

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CCR3 Signaling in LS Tumor 1.12 0.0476 ROCK1,MAPK1,PIK3C2A,PIK3C3,RACK1,ITPR3 MHC_II Eosinophils

IL-3 Signaling FAP 1.46 0.0723 PIK3C2B,SOS1,STAT3,MAP2K1,PRKD3,PPP3CA MHC_II

IL-3 Signaling LS 0.68 0.0241 FGFR2,STAT3 MHC_II Nonhyper Polyp IL-3 Signaling LS Hyper 1.61 0.0843 RAPGEF1,STAT5A,FOXO1,MAPK1,PRKCD,PRKCH MHC_II Polyp ,PIK3R2

IL-3 Signaling LS Tumor 1.88 0.0723 STAT6,AKT2,JUN,MAPK1,PIK3C2A,PIK3C3 MHC_II

Thrombin Signaling FAP 1.46 0.0547 ROCK2,ROCK1,PIK3C2B,PLCB4,CAMK2D,PDIA3,S MHC_II OS1,TBP,MYLK,MAP2K1,PRKD3

Thrombin Signaling LS 0.819 0.0199 PLCD3,FGFR2,ARHGEF1,ARHGEF9 MHC_II Nonhyper Polyp Thrombin Signaling LS Hyper 2.37 0.0746 CAMK1,MAPK1,ITPR2,ADCY3,ADCY6,NFKB2,ROC MHC_II Polyp K1,PTK2,PLCD3,ARHGEF5,RHOQ,PRKCD,PLCB3, PRKCH,PIK3R2

Thrombin Signaling LS Tumor 1.33 0.0448 ROCK1,AKT2,MAPK1,PIK3C2A,PIK3C3,RACK1,ITP MHC_II R3,ARHGEF1,PLCH1

Leptin Signaling in Obesity FAP 1.42 0.0706 PIK3C2B,PLCB4,PDIA3,PDE3B,STAT3,MAP2K1 MHC_II

Leptin Signaling in Obesity LS 1.25 0.0353 PLCD3,FGFR2,STAT3 MHC_II Nonhyper Polyp

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Leptin Signaling in Obesity LS Hyper 1.56 0.0824 PLCD3,FOXO1,MAPK1,ADCY3,ADCY6,PLCB3,PIK MHC_II Polyp 3R2

Leptin Signaling in Obesity LS Tumor 1.31 0.0588 AKT2,MAPK1,PIK3C2A,PIK3C3,PLCH1 MHC_II

Assembly of RNA Polymerase FAP 1.4 0.182 POLR1B,TBP MHC_II I Complex UDP-N-acetyl-D- FAP 1.4 0.182 GNPNAT1,PGM3 MHC_II galactosamine Biosynthesis II Thrombopoietin Signaling FAP 1.38 0.0769 PIK3C2B,SOS1,STAT3,MAP2K1,PRKD3 MHC_II

Thrombopoietin Signaling LS 0.844 0.0308 FGFR2,STAT3 MHC_II Nonhyper Polyp Thrombopoietin Signaling LS Hyper 1.14 0.0769 STAT5A,MAPK1,PRKCD,PRKCH,PIK3R2 MHC_II Polyp Thrombopoietin Signaling LS Tumor 1.19 0.0615 JUN,MAPK1,PIK3C2A,PIK3C3 MHC_II

Gαq Signaling FAP 1.35 0.0566 ROCK2,ROCK1,BTK,PIK3C2B,CALM1 (includes MHC_II others),PLCB4,MAP2K1,PRKD3,PPP3CA

Gαq Signaling LS 0.313 0.0126 FGFR2,PLD1 MHC_II Nonhyper Polyp Gαq Signaling LS Hyper 1 0.0566 ROCK1,RHOQ,MAPK1,ITPR2,PRKCD,PLCB3,PRK MHC_II Polyp CH,PIK3R2,NFKB2

Gαq Signaling LS Tumor 1.9 0.0566 ROCK1,AKT2,NFKBIA,PLD3,MAPK1,PIK3C2A,PIK3 MHC_II C3,RACK1,ITPR3

Cleavage and Polyadenylation FAP 1.33 0.167 CPSF6,CSTF3 MHC_II of Pre-mRNA Cleavage and Polyadenylation LS 0.935 0.0833 CPSF2 MHC_II of Pre-mRNA Nonhyper Polyp

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Cleavage and Polyadenylation LS Hyper 0.464 0.0833 CPSF1 MHC_II of Pre-mRNA Polyp Glycogen Degradation II FAP 1.33 0.167 PGM3,PYGL MHC_II Glycogen Degradation II LS Hyper 0.464 0.0833 PGM2L1 MHC_II Polyp Chemokine Signaling FAP 1.31 0.0735 ROCK2,CALM1 (includes MHC_II others),PLCB4,CAMK2D,MAP2K1

Chemokine Signaling LS Hyper 0.685 0.0588 PTK2,CAMK1,MAPK1,PLCB3 MHC_II Polyp Chemokine Signaling LS Tumor 0.325 0.0294 JUN,MAPK1 MHC_II RAR Activation FAP 1.31 0.0535 TRIM24,SDR16C5,RDH14,GTF2H1,NCOR1,SMAR MHC_II CD1,SMARCC1,MAP2K1,RDH13,PRKD3

RAR Activation LS Hyper 3.57 0.0909 STAT5A,MAPK1,CREBBP,ADCY3,ADCY6,SMAD6, MHC_II Polyp NFKB2,PSMC5,SMARCA4,PRKCD,SMARCB1,NCO A1,PRKCH,NCOR2,PIK3R2,RXRB,HLTF

RAR Activation LS Tumor 1.9 0.0535 PBRM1,SMAD2,AKT2,JUN,MAPK1,ERCC3,NCOR1, MHC_II ARID2,SMARCA4,PTEN

Acute Myeloid Leukemia FAP 1.28 0.0652 PIK3C2B,SOS1,STAT3,MAP2K1,SPI1,TCF7L2 MHC_II Signaling Acute Myeloid Leukemia LS 0.615 0.0217 FGFR2,STAT3 MHC_II Signaling Nonhyper Polyp Acute Myeloid Leukemia LS Hyper 0.407 0.0435 STAT5A,MAPK1,PIK3R2,NFKB2 MHC_II Signaling Polyp

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Acute Myeloid Leukemia LS Tumor 2.86 0.087 BRAF,AKT2,MTOR,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II Signaling ,RPS6KB2

Role of NFAT in Cardiac FAP 1.27 0.0509 IL6ST,PIK3C2B,CALM1 (includes MHC_II Hypertrophy others),PLCB4,CAMK2D,PDIA3,SOS1,CSNK1A1,M AP2K1,PRKD3,PPP3CA

Role of NFAT in Cardiac LS Hyper 1.43 0.0602 PLCD3,TGFBR1,CAMK1,MAPK1,HDAC8,ITPR2,PR MHC_II Hypertrophy Polyp KCD,ADCY3,ADCY6,PLCB3,PRKCH,PIK3R2,HDAC 5

Role of NFAT in Cardiac LS Tumor 1.51 0.0463 AKT2,MAPK1,PIK3C2A,PIK3C3,HDAC1,RACK1,ITP MHC_II Hypertrophy R3,SOS2,PLCH1,CABIN1

Aldosterone Signaling in FAP 1.24 0.0539 PIK3C2B,PLCB4,PDIA3,SLC12A2,HSPH1,SOS1,DN MHC_II Epithelial Cells AJC12,MAP2K1,PRKD3

Aldosterone Signaling in LS 0.611 0.018 PLCD3,DNAJC13,FGFR2 MHC_II Epithelial Cells Nonhyper Polyp Aldosterone Signaling in LS Hyper 2.28 0.0778 PLCD3,MAPK1,DNAJB4,ITPR2,PRKCD,DNAJC12,H MHC_II Epithelial Cells Polyp SPB11,PLCB3,PRKCH,NR3C2,DNAJB6,PIK3R2,PI4 KA

Aldosterone Signaling in LS Tumor 1.01 0.0419 MAPK1,PIK3C2A,PIK3C3,ITPR3,SOS2,PIKFYVE,PL MHC_II Epithelial Cells CH1

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Protein Kinase A Signaling FAP 1.22 0.0443 PTPRD,PDIA3,AKAP9,MYLK,PYGL,ROCK1,ROCK2 MHC_II ,CALM1 (includes others),PLCB4,CAMK2D,PDE3B,DUSP11,PGP,PRK D3,MAP2K1,TCF7L2,PPP3CA

Protein Kinase A Signaling LS 0.255 0.0104 PLCD3,PTPN2,DUSP11,PTPRR MHC_II Nonhyper Polyp Protein Kinase A Signaling LS Hyper 1.13 0.0495 FLNB,TGFBR1,PHKG2,MAPK1,PTPN23,ITPR2,CR MHC_II Polyp EBBP,ADCY3,ADCY6,PTPN3,NFKB2,ROCK1,PTK2 ,PLCD3,PRKCD,PLCB3,PRKCH,PTPN21,DUSP16

Protein Kinase A Signaling LS Tumor 2.74 0.0495 ANAPC2,FLNB,PTPRK,MAPK1,AKAP9,RACK1,PTP MHC_II RF,PLCH1,PTEN,ROCK1,HIST1H1B,BRAF,PHKB,N FKBIA,ITPR3,PTPN1,ANAPC5,CTNNB1,VASP

Sumoylation Pathway FAP 1.2 0.0625 RANBP2,DAXX,SENP6,RFC2,SENP3,SP100 MHC_II

Sumoylation Pathway LS Hyper 0.944 0.0625 ETS1,TDG,RHOQ,SIRT1,CREBBP,NFKB2 MHC_II Polyp Sumoylation Pathway LS Tumor 1.6 0.0625 RNF4,SAE1,NFKBIA,JUN,HDAC1,RFC3 MHC_II

ATM Signaling FAP 1.19 0.0619 HERC2,TOPBP1,RAD17,CCNB2,ATR,NBN MHC_II

ATM Signaling LS 0.582 0.0206 TOPBP1,CHEK2 MHC_II Nonhyper Polyp

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ATM Signaling LS Hyper 1.73 0.0825 SMC3,HP1BP3,RNF168,FANCD2,TRRAP,CREBBP, MHC_II Polyp TLK2,NBN

ATM Signaling LS Tumor 1.11 0.0515 HERC2,NFKBIA,JUN,SMC2,TRRAP MHC_II

PI3K Signaling in B FAP 1.11 0.0556 BTK,CALM1 (includes MHC_II Lymphocytes others),PLCB4,CAMK2D,PDIA3,MAP2K1,PPP3CA

PI3K Signaling in B LS Hyper 0.572 0.0476 PLCD3,MAPK1,ITPR2,PLCB3,PIK3R2,NFKB2 MHC_II Lymphocytes Polyp PI3K Signaling in B LS Tumor 1.55 0.0556 AKT2,NFKBIA,JUN,MAPK1,ITPR3,PLCH1,PTEN MHC_II Lymphocytes

Protein Ubiquitination FAP 1.05 0.0455 UBE2A,UBE2Q1,MED20,USP15,UBE3B,HSPH1,DN MHC_II Pathway AJC12,USP54,USP30,USP33,USP34,UBE3A

Protein Ubiquitination LS 1.71 0.0265 PAN2,PSMD10,USP5,UCHL5,DNAJC13,AMFR,SKP MHC_II Pathway Nonhyper 2 Polyp Protein Ubiquitination LS Hyper 0.9 0.0492 USP14,DNAJB4,UBR2,DNAJC12,BIRC6,THOP1,PS MHC_II Pathway Polyp MC5,USP48,PSMD11,HSPB11,DNAJB6,USP34,BIR C2

Protein Ubiquitination LS Tumor 2.84 0.0568 ANAPC2,USP15,USP5,HLA- MHC_II Pathway A,USP36,USP9X,BIRC6,USP54,USP48,SKP2,USP3 2,PSMD12,ANAPC5,SMURF2,UBA1

p70S6K Signaling FAP 1.05 0.0534 BTK,PIK3C2B,PLCB4,PDIA3,SOS1,MAP2K1,PRKD MHC_II 3

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p70S6K Signaling LS 0.82 0.0229 PLCD3,FGFR2,PLD1 MHC_II Nonhyper Polyp p70S6K Signaling LS Hyper 0.778 0.0534 PLCD3,MAPK1,PRKCD,PLCB3,PRKCH,PIK3R2,BC MHC_II Polyp AP31

p70S6K Signaling LS Tumor 1.93 0.0611 AKT2,MTOR,MAPK1,PIK3C2A,EEF2,PIK3C3,SOS2, MHC_II PLCH1

FLT3 Signaling in FAP 1.02 0.0602 PIK3C2B,SOS1,STAT3,MAP2K1,EIF4E MHC_II Hematopoietic Progenitor Cells FLT3 Signaling in LS 0.68 0.0241 FGFR2,STAT3 MHC_II Hematopoietic Progenitor Nonhyper Cells Polyp FLT3 Signaling in LS Hyper 0.494 0.0482 STAT5A,MAPK1,CREBBP,PIK3R2 MHC_II Hematopoietic Progenitor Polyp Cells FLT3 Signaling in LS Tumor 2.49 0.0843 STAT6,AKT2,MTOR,MAPK1,PIK3C2A,PIK3C3,SOS MHC_II Hematopoietic Progenitor 2 Cells Prolactin Signaling FAP 1.02 0.0602 PIK3C2B,SOS1,STAT3,MAP2K1,PRKD3 MHC_II

Prolactin Signaling LS 0.68 0.0241 FGFR2,STAT3 MHC_II Nonhyper Polyp Prolactin Signaling LS Hyper 1.61 0.0843 STAT5A,MAPK1,PRKCD,CREBBP,PRKCH,CEBPB, MHC_II Polyp PIK3R2

Prolactin Signaling LS Tumor 1.88 0.0723 JUN,MAPK1,PIK3C2A,PIK3C3,SOS2,IRF1 MHC_II

JAK/Stat Signaling FAP 1.02 0.0602 PIK3C2B,PIAS2,SOS1,STAT3,MAP2K1 MHC_II

JAK/Stat Signaling LS 1.27 0.0361 TYK2,FGFR2,STAT3 MHC_II Nonhyper Polyp

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JAK/Stat Signaling LS Hyper 0.801 0.0602 STAT5A,MAPK1,CEBPB,PIK3R2,NFKB2 MHC_II Polyp JAK/Stat Signaling LS Tumor 3.87 0.108 STAT6,AKT2,MTOR,JUN,MAPK1,PIK3C2A,PIK3C3, MHC_II PTPN1,SOS2

T Cell Receptor Signaling FAP 1.01 0.0556 BTK,PIK3C2B,CALM1 (includes MHC_II others),SOS1,MAP2K1,PPP3CA

T Cell Receptor Signaling LS Tumor 1.87 0.0648 NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2,RASA MHC_II 1

tRNA Charging FAP 1 0.0789 EARS2,IARS,FARSB MHC_II tRNA Charging LS 0.489 0.0263 VARS MHC_II Nonhyper Polyp tRNA Charging LS Hyper 2.03 0.132 YARS,VARS2,TARS,SARS2,IARS MHC_II Polyp tRNA Charging LS Tumor 1.23 0.0789 WARS,TARS2,EPRS MHC_II Gα12/13 Signaling FAP 0.993 0.0519 ROCK2,ROCK1,BTK,PIK3C2B,LPAR6,LPAR5,MAP MHC_II 2K1

Gα12/13 Signaling LS 0.394 0.0148 FGFR2,ARHGEF1 MHC_II Nonhyper Polyp Gα12/13 Signaling LS Hyper 0.493 0.0444 PTK2,ROCK1,MAPK1,LPAR5,PIK3R2,NFKB2 MHC_II Polyp Gα12/13 Signaling LS Tumor 2.89 0.0741 ROCK1,AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C MHC_II 3,ARHGEF1,CTNNB1,RASA1

Gap Junction Signaling FAP 0.963 0.0471 PIK3C2B,PLCB4,PDIA3,TJP1,SOS1,CSNK1A1,MAP MHC_II 2K1,PRKD3,PPP3CA

Gap Junction Signaling LS 0.233 0.0105 PLCD3,FGFR2 MHC_II

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Nonhyper Polyp Gap Junction Signaling LS Hyper 2.58 0.0785 TUBB3,MAPK1,ITPR2,CSNK1G2,CSNK1G3,TUBG1 MHC_II Polyp ,ADCY3,ADCY6,CSNK1E,PLCD3,TUBB6,PRKCD,P LCB3,PRKCH,PIK3R2

Gap Junction Signaling LS Tumor 2.27 0.0576 AKT2,TUBB3,MAPK1,PIK3C2A,TUBB4B,PIK3C3,IT MHC_II PR3,SOS2,CTNNB1,NPR2,PLCH1

Glioma Signaling FAP 0.943 0.0531 PIK3C2B,CALM1 (includes MHC_II others),CAMK2D,SOS1,MAP2K1,PRKD3

Glioma Signaling LS Hyper 1.02 0.0619 E2F4,CAMK1,MAPK1,PRKCD,CDKN2C,PRKCH,PIK MHC_II Polyp 3R2

Glioma Signaling LS Tumor 3.5 0.0885 AKT2,RBL2,MTOR,TFDP1,MAPK1,PIK3C2A,PIK3C MHC_II 3,SOS2,CDK4,PTEN

Pyridoxal 5'-phosphate FAP 0.93 0.0625 CDK8,PRKAA1,CSNK1A1,MAP2K1 MHC_II Salvage Pathway Pyridoxal 5'-phosphate LS Hyper 2.2 0.109 PRKX,DMPK,MAPK1,PRKCD,GRK6,PRKCH,PKN1 MHC_II Salvage Pathway Polyp

Pyridoxal 5'-phosphate LS Tumor 2.43 0.0938 BRAF,AKT2,DMPK,MAPK1,CDK4,NEK2 MHC_II Salvage Pathway HGF Signaling FAP 0.929 0.0526 PIK3C2B,ELF3,SOS1,STAT3,MAP2K1,PRKD3 MHC_II

HGF Signaling LS 0.95 0.0263 ELF4,FGFR2,STAT3 MHC_II Nonhyper Polyp

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HGF Signaling LS Hyper 1.36 0.0702 PTK2,ETS1,RAPGEF1,MAP3K11,MAPK1,PRKCD,P MHC_II Polyp RKCH,PIK3R2

HGF Signaling LS Tumor 1.29 0.0526 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

UVB-Induced MAPK Signaling FAP 0.895 0.0606 PIK3C2B,MAP2K1,PRKD3,EIF4E MHC_II

UVB-Induced MAPK Signaling LS 0.307 0.0152 FGFR2 MHC_II Nonhyper Polyp UVB-Induced MAPK Signaling LS Hyper 0.716 0.0606 MAPK1,PRKCD,PRKCH,PIK3R2 MHC_II Polyp UVB-Induced MAPK Signaling LS Tumor 1.72 0.0758 MTOR,JUN,MAPK1,PIK3C2A,PIK3C3 MHC_II

ErbB2-ErbB3 Signaling FAP 0.86 0.0588 PIK3C2B,SOS1,STAT3,MAP2K1 MHC_II

ErbB2-ErbB3 Signaling LS 1.49 0.0441 TYK2,FGFR2,STAT3 MHC_II Nonhyper Polyp ErbB2-ErbB3 Signaling LS Hyper 1.07 0.0735 STAT5A,FOXO1,MAPK1,ERBB2,PIK3R2 MHC_II Polyp ErbB2-ErbB3 Signaling LS Tumor 2.3 0.0882 JUN,MAPK1,PIK3C2A,PIK3C3,SOS2,PTEN MHC_II

EGF Signaling FAP 0.86 0.0588 PIK3C2B,SOS1,STAT3,MAP2K1 MHC_II

EGF Signaling LS 0.813 0.0294 FGFR2,STAT3 MHC_II Nonhyper Polyp EGF Signaling LS Hyper 0.38 0.0441 MAPK1,ITPR2,PIK3R2 MHC_II Polyp EGF Signaling LS Tumor 4.56 0.132 AKT2,MTOR,JUN,MAPK1,PIK3C2A,PIK3C3,ITPR3, MHC_II SOS2,RASA1

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Breast Cancer Regulation by FAP 0.838 0.0441 ROCK2,ROCK1,PIK3C2B,CALM1 (includes MHC_II Stathmin1 others),PLCB4,CAMK2D,SOS1,MAP2K1,PRKD3

Breast Cancer Regulation by LS 0.459 0.0147 FGFR2,ARHGEF1,ARHGEF9 MHC_II Stathmin1 Nonhyper Polyp Breast Cancer Regulation by LS Hyper 2.32 0.0735 TUBB3,E2F4,CAMK1,MAPK1,ITPR2,TUBG1,ADCY3 MHC_II Stathmin1 Polyp ,ADCY6,ROCK1,ARHGEF5,TUBB6,PRKCD,PLCB3, PRKCH,PIK3R2

Breast Cancer Regulation by LS Tumor 2.06 0.0539 ROCK1,TUBB3,MAPK1,PIK3C2A,TUBB4B,PIK3C3, MHC_II Stathmin1 ARHGEF7,RACK1,ITPR3,SOS2,ARHGEF1

ErbB Signaling FAP 0.81 0.0515 PIK3C2B,SOS1,NCK1,MAP2K1,PRKD3 MHC_II

ErbB Signaling LS 0.199 0.0103 FGFR2 MHC_II Nonhyper Polyp ErbB Signaling LS Hyper 1.3 0.0722 NCK2,FOXO1,MAPK1,PRKCD,PRKCH,ERBB2,PIK3 MHC_II Polyp R2

ErbB Signaling LS Tumor 1.58 0.0619 MTOR,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

TR/RXR Activation FAP 0.797 0.051 PIK3C2B,PDE3B,NCOA6,NCOR1,THRA MHC_II

TR/RXR Activation LS Hyper 1.28 0.0714 SREBF1,FASN,NCOA1,STRBP,PIK3R2,NCOR2,RX MHC_II Polyp RB

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TR/RXR Activation LS Tumor 3.32 0.0918 SLC16A3,AKT2,MTOR,PIK3C2A,SREBF1,PIK3C3,F MHC_II ASN,NCOR1,PCK1

Axonal Guidance Signaling FAP 0.796 0.0382 ACTR2,PIK3C2B,PDIA3,NCK1,EIF4E,ROCK1,HER MHC_II C2,ROCK2,PLCB4,MICAL1,SOS1,BAIAP2,MKNK1, FZD6,PRKD3,MAP2K1,PPP3CA

Axonal Guidance Signaling LS Hyper 1.24 0.0494 TUBB3,ADAM17,MAPK1,NTN4,TUBG1,SEMA6A,PL MHC_II Polyp XNA2,GIT1,RAC3,ROCK1,NCK2,PTK2,PLCD3,TUB B6,PRKCD,PLCB3,EPHB3,PRKCH,PLXNB2,ERBB2 ,PIK3R2,EPHA2

Axonal Guidance Signaling LS Tumor 2.06 0.0427 TUBB3,AKT2,MAPK1,PIK3C2A,TUBB4B,ARHGEF7, MHC_II SOS2,RACK1,PLCH1,ROCK1,HERC2,PIK3C3,PLX NB1,LNPEP,CHMP1A,RASA1,EPHA2,VASP,FARP2

Role of NFAT in Regulation of FAP 0.79 0.0442 BTK,PIK3C2B,CALM1 (includes MHC_II the Immune Response others),PLCB4,SOS1,CSNK1A1,MAP2K1,PPP3CA

Role of NFAT in Regulation of LS Hyper 0.543 0.0442 CSNK1E,MAPK1,CSNK1G2,ITPR2,CSNK1G3,PLCB MHC_II the Immune Response Polyp 3,PIK3R2,NFKB2

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Role of NFAT in Regulation of LS Tumor 2.44 0.0608 AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,HLA- MHC_II the Immune Response A,PIK3C3,RACK1,ITPR3,SOS2,CABIN1

CREB Signaling in Neurons FAP 0.786 0.0429 PIK3C2B,CALM1 (includes MHC_II others),PLCB4,CAMK2D,PDIA3,SOS1,TBP,MAP2K1 ,PRKD3

CREB Signaling in Neurons LS Hyper 0.722 0.0476 PLCD3,MAPK1,ITPR2,PRKCD,CREBBP,ADCY3,AD MHC_II Polyp CY6,PLCB3,PRKCH,PIK3R2

CREB Signaling in Neurons LS Tumor 1.58 0.0476 AKT2,POLR2C,POLR2A,MAPK1,PIK3C2A,PIK3C3, MHC_II RACK1,ITPR3,SOS2,PLCH1

Role of JAK family kinases in FAP 0.782 0.08 IL6ST,STAT3 MHC_II IL-6-type Cytokine Signaling Role of JAK family kinases in LS 1.57 0.08 TYK2,STAT3 MHC_II IL-6-type Cytokine Signaling Nonhyper Polyp Role of JAK family kinases in LS Hyper 0.673 0.08 STAT5A,MAPK1 MHC_II IL-6-type Cytokine Signaling Polyp Role of JAK family kinases in LS Tumor 0.351 0.04 MAPK1 MHC_II IL-6-type Cytokine Signaling VEGF Signaling FAP 0.772 0.05 ROCK2,ROCK1,PIK3C2B,SOS1,MAP2K1 MHC_II

VEGF Signaling LS Hyper 0.882 0.06 PTK2,ROCK1,FOXO1,MAPK1,PIK3R2,ACTN1 MHC_II Polyp VEGF Signaling LS Tumor 1.53 0.06 ROCK1,AKT2,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

EIF2 Signaling FAP 0.769 0.0425 PIK3C2B,PTBP1,SOS1,EIF5B,EIF4G3,RPS17,EIF2 MHC_II AK3,MAP2K1,EIF4E

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EIF2 Signaling LS Tumor 2.37 0.0566 EIF2AK1,EIF2AK4,PTBP1,AKT2,WARS,MAPK1,PIK MHC_II 3C2A,SREBF1,PIK3C3,EIF5B,SOS2,EIF4G1

Integrin Signaling FAP 0.769 0.0425 ROCK1,ARHGAP5,PIK3C2B,ACTR2,SOS1,MYLK,IT MHC_II GA1,NCK1,MAP2K1

Integrin Signaling LS Hyper 1.2 0.0566 PTK2,ROCK1,NCK2,ARHGAP5,RAPGEF1,RHOQ,M MHC_II Polyp AP3K11,MAPK1,PIK3R2,GIT1,RAC3,ACTN1

Integrin Signaling LS Tumor 4.39 0.0755 AKT2,MAPK1,PIK3C2A,ARHGEF7,SOS2,PIKFYVE,I MHC_II LK,TLN1,PTEN,ROCK1,BRAF,PARVB,PIK3C3,ZYX, ITGA1,VASP

Assembly of RNA Polymerase FAP 0.746 0.06 TBP,GTF2H1,GTF2E2 MHC_II II Complex Assembly of RNA Polymerase LS Tumor 1.54 0.08 POLR2C,POLR2A,ERCC3,TAF2 MHC_II II Complex GDNF Family Ligand- FAP 0.739 0.0526 PIK3C2B,SOS1,NCK1,MAP2K1 MHC_II Receptor Interactions GDNF Family Ligand- LS 0.265 0.0132 FGFR2 MHC_II Receptor Interactions Nonhyper Polyp GDNF Family Ligand- LS Hyper 0.311 0.0395 MAPK1,ITPR2,PIK3R2 MHC_II Receptor Interactions Polyp GDNF Family Ligand- LS Tumor 2.71 0.0921 JUN,MAPK1,PIK3C2A,PIK3C3,ITPR3,SOS2,RASA1 MHC_II Receptor Interactions

Superpathway of Cholesterol FAP 0.73 0.0741 DHCR7,ACAT2 MHC_II Biosynthesis Superpathway of Cholesterol LS Hyper 0.213 0.037 LBR MHC_II Biosynthesis Polyp

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Superpathway of Cholesterol LS Tumor 2.47 0.148 PMVK,HSD17B7,HMGCR,LBR MHC_II Biosynthesis Non-Small Cell Lung Cancer FAP 0.725 0.0519 STK4,PIK3C2B,SOS1,MAP2K1 MHC_II Signaling Non-Small Cell Lung Cancer LS 0.261 0.013 FGFR2 MHC_II Signaling Nonhyper Polyp Non-Small Cell Lung Cancer LS Hyper 0.899 0.0649 MAPK1,ITPR2,ERBB2,PIK3R2,RXRB MHC_II Signaling Polyp Non-Small Cell Lung Cancer LS Tumor 3.37 0.104 AKT2,TFDP1,MAPK1,PIK3C2A,PIK3C3,ITPR3,SOS MHC_II Signaling 2,CDK4

Adipogenesis pathway FAP 0.72 0.0455 ATG5,KAT6A,FZD6,GTF2H1,BMPR2,SOX9 MHC_II

Adipogenesis pathway LS 0.406 0.0152 BMP4,FGFR2 MHC_II Nonhyper Polyp Adipogenesis pathway LS Hyper 1.79 0.0758 FOXO1,HDAC8,TNFRSF1A,SREBF1,KAT6A,SIRT1, MHC_II Polyp SAP130,CEBPB,KAT2A,HDAC5

Adipogenesis pathway LS Tumor 0.43 0.0303 SREBF1,ERCC3,HDAC1,CTNNB1 MHC_II

Regulation of IL-2 Expression FAP 0.698 0.0506 CALM1 (includes others),SOS1,MAP2K1,PPP3CA MHC_II in Activated and Anergic T Lymphocytes Regulation of IL-2 Expression LS Hyper 0.288 0.038 TGFBR1,MAPK1,NFKB2 MHC_II in Activated and Anergic T Polyp Lymphocytes Regulation of IL-2 Expression LS Tumor 1.43 0.0633 SMAD2,NFKBIA,JUN,MAPK1,SOS2 MHC_II in Activated and Anergic T Lymphocytes Telomerase Signaling FAP 0.679 0.0463 PIK3C2B,ELF3,SOS1,TEP1,MAP2K1 MHC_II

Telomerase Signaling LS 0.518 0.0185 ELF4,FGFR2 MHC_II Nonhyper Polyp

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Telomerase Signaling LS Hyper 1.1 0.0648 ETS1,MAPK1,HDAC8,TEP1,PIK3R2,POT1,HDAC5 MHC_II Polyp

Telomerase Signaling LS Tumor 1.39 0.0556 AKT2,MAPK1,PIK3C2A,PIK3C3,HDAC1,SOS2 MHC_II

Erythropoietin Signaling FAP 0.672 0.0494 PIK3C2B,SOS1,MAP2K1,PRKD3 MHC_II

Erythropoietin Signaling LS 0.247 0.0123 FGFR2 MHC_II Nonhyper Polyp Erythropoietin Signaling LS Hyper 1.22 0.0741 STAT5A,MAPK1,PRKCD,PRKCH,PIK3R2,NFKB2 MHC_II Polyp

Erythropoietin Signaling LS Tumor 2.55 0.0864 AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

Insulin Receptor Signaling FAP 0.671 0.0438 PIK3C2B,PDE3B,SOS1,NCK1,MAP2K1,EIF4E MHC_II

Insulin Receptor Signaling LS Hyper 0.711 0.0511 TSC1,RAPGEF1,RHOQ,FOXO1,MAPK1,TSC2,PIK3 MHC_II Polyp R2

Insulin Receptor Signaling LS Tumor 3.42 0.0803 AKT2,MTOR,MAPK1,PIK3C2A,PIK3C3,PTPN1,SOS MHC_II 2,RPS6KB2,STX4,PTPRF,PTEN

Tight Junction Signaling FAP 0.67 0.0422 CPSF6,EPB41,TJP1,AFDN,MYLK,GOSR1,CSTF3 MHC_II

Tight Junction Signaling LS Hyper 1.9 0.0723 EPB41,MYH9,TGFBR1,TNFRSF1A,NECTIN3,MARK MHC_II Polyp 2,NAPG,CPSF1,CASK,NFKB2,PATJ,NECTIN2

Tight Junction Signaling LS Tumor 1.79 0.0542 AKT2,JUN,NECTIN3,CDK4,SYMPK,STX4,CTNNB1, MHC_II VASP,PTEN

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Hereditary Breast Cancer FAP 0.635 0.0426 PIK3C2B,RFC2,ATR,SMARCD1,SMARCC1,NBN MHC_II Signaling

Hereditary Breast Cancer LS 0.754 0.0213 PBRM1,FGFR2,CHEK2 MHC_II Signaling Nonhyper Polyp Hereditary Breast Cancer LS Hyper 2.45 0.0851 HDAC8,FANCD2,SMARCB1,XPC,CREBBP,TUBG1, MHC_II Signaling Polyp MSH6,PIK3R2,HLTF,SMARCA4,NBN,HDAC5

Hereditary Breast Cancer LS Tumor 5.25 0.0993 PBRM1,AKT2,POLR2C,POLR2A,PIK3C2A,PIK3C3, MHC_II Signaling HDAC1,MSH6,CDK4,ARID2,SMARCA4,MLH1,PTEN ,RFC3

Epithelial Adherens Junction FAP 0.617 0.042 ACTR2,BAIAP2,AFDN,BMPR2,TCF7L2,CLIP1 MHC_II Signaling Epithelial Adherens Junction LS Hyper 2.87 0.0909 RAPGEF1,TUBB3,TGFBR1,MYH9,TUBB6,SORBS1, MHC_II Signaling Polyp KEAP1,NECTIN3,TUBG1,ACVR1,CLIP1,ACTN1,NE CTIN2

Epithelial Adherens Junction LS Tumor 3.27 0.0769 AKT2,TUBB3,TUBB4B,NECTIN3,ZYX,CLINT1,CTN MHC_II Signaling NB1,NOTCH1,FARP2,CTNND1,PTEN

Molecular Mechanisms of FAP 0.606 0.0361 CDK12,PIK3C2B,BMPR2,NBN,DAXX,PLCB4,CAMK MHC_II Cancer 2D,CDK8,SOS1,FZD6,ATR,PRKD3,MAP2K1,LRP1

Molecular Mechanisms of LS 0.979 0.018 ZBTB17,BMP4,TYK2,FGFR2,ARHGEF1,ARHGEF9, MHC_II Cancer Nonhyper CHEK2 Polyp

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Molecular Mechanisms of LS Hyper 3 0.067 RAPGEF1,E2F4,TGFBR1,MAPK1,DVL1,ADCY3,CR MHC_II Cancer Polyp EBBP,ADCY6,SMAD6,CDKN2C,NFKB2,RAC3,NBN, PTK2,ARHGEF5,NLK,RHOQ,FANCD2,FOXO1,CDK 11B,PRKCD,PLCB3,PRKCH,PIK3R2,LRP1,BIRC2

Molecular Mechanisms of LS Tumor 3.47 0.0541 CDK12,SMAD2,AKT2,TFDP1,MAPK1,PIK3C2A,ARH MHC_II Cancer GEF7,SOS2,DVL1,CDK4,APAF1,ARHGEF1,BRAF,J UN,NFKBIA,PIK3C3,CTNNB1,RASA1,NOTCH1,LRP 1,CTNND1

NF-κB Activation by Viruses FAP 0.601 0.046 PIK3C2B,TBP,ITGA1,PRKD3 MHC_II

NF-κB Activation by Viruses LS 0.227 0.0115 FGFR2 MHC_II Nonhyper Polyp NF-κB Activation by Viruses LS Hyper 0.743 0.0575 MAPK1,PRKCD,PRKCH,PIK3R2,NFKB2 MHC_II Polyp NF-κB Activation by Viruses LS Tumor 1.79 0.069 AKT2,NFKBIA,MAPK1,PIK3C2A,PIK3C3,ITGA1 MHC_II

PEDF Signaling FAP 0.601 0.046 ROCK2,ROCK1,PIK3C2B,TCF7L2 MHC_II

PEDF Signaling LS 0.227 0.0115 FGFR2 MHC_II Nonhyper Polyp PEDF Signaling LS Hyper 1.52 0.0805 ROCK1,HNF1B,WASF2,MAPK1,PIK3R2,NFKB2,PN MHC_II Polyp PLA2

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PEDF Signaling LS Tumor 1.79 0.069 ROCK1,AKT2,NFKBIA,MAPK1,PIK3C2A,PIK3C3 MHC_II

PDGF Signaling FAP 0.569 0.0444 PIK3C2B,SOS1,STAT3,MAP2K1 MHC_II

PDGF Signaling LS 1.19 0.0333 TYK2,FGFR2,STAT3 MHC_II Nonhyper Polyp PDGF Signaling LS Tumor 1.73 0.0667 JUN,MAPK1,PIK3C2A,PIK3C3,SOS2,RASA1 MHC_II

NGF Signaling FAP 0.561 0.0417 ROCK2,ROCK1,PIK3C2B,SOS1,MAP2K1 MHC_II

NGF Signaling LS 0.458 0.0167 FGFR2,SMPD1 MHC_II Nonhyper Polyp NGF Signaling LS Hyper 1.25 0.0667 ROCK1,MAP3K11,MAPK1,PRKCD,CREBBP,TRIO, MHC_II Polyp PIK3R2,NFKB2

NGF Signaling LS Tumor 2.14 0.0667 ROCK1,AKT2,MAPK1,PIK3C2A,PIK3C3,SOS2,RPS MHC_II 6KB2,TRIO

Renin-Angiotensin Signaling FAP 0.552 0.0413 PIK3C2B,SOS1,STAT3,MAP2K1,PRKD3 MHC_II

Renin-Angiotensin Signaling LS 0.453 0.0165 FGFR2,STAT3 MHC_II Nonhyper Polyp Renin-Angiotensin Signaling LS Hyper 1.62 0.0744 PTK2,MAPK1,ITPR2,PRKCD,ADCY3,ADCY6,PRKC MHC_II Polyp H,PIK3R2,NFKB2

Renin-Angiotensin Signaling LS Tumor 1.19 0.0496 JUN,MAPK1,PIK3C2A,PIK3C3,ITPR3,SOS2 MHC_II

Glucocorticoid Receptor FAP 0.552 0.0357 PIK3C2B,SOS1,PRKAA1,TBP,GTF2H1,GTF2E2,NC MHC_II Signaling OR1,SMARCD1,SMARCC1,STAT3,MAP2K1,PPP3C A

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Glucocorticoid Receptor LS Hyper 0.731 0.0446 STAT5A,TGFBR1,PRKAB2,MAPK1,CREBBP,GTF2 MHC_II Signaling Polyp E2,CEBPB,SMARCA4,MED14,SMARCB1,NCOA1,N R3C2,NCOR2,PIK3R2,HLTF

Glucocorticoid Receptor LS Tumor 2.61 0.0506 PBRM1,SMAD2,AKT2,MAPK1,PIK3C2A,SOS2,ARID MHC_II Signaling 2,PCK1,SMARCA4,JUN,POLR2A,POLR2C,NFKBIA, ERCC3,PIK3C3,NCOR1,TAF2

Endometrial Cancer Signaling FAP 0.54 0.0469 PIK3C2B,SOS1,MAP2K1 MHC_II

Endometrial Cancer Signaling LS 0.316 0.0156 FGFR2 MHC_II Nonhyper Polyp Endometrial Cancer Signaling LS Hyper 0.421 0.0469 MAPK1,ERBB2,PIK3R2 MHC_II Polyp Endometrial Cancer Signaling LS Tumor 4.78 0.141 AKT2,MAPK1,PIK3C2A,PIK3C3,SOS2,ILK,CTNNB1, MHC_II MLH1,PTEN

IL-2 Signaling FAP 0.54 0.0469 PIK3C2B,SOS1,MAP2K1 MHC_II

IL-2 Signaling LS 0.316 0.0156 FGFR2 MHC_II Nonhyper Polyp IL-2 Signaling LS Hyper 0.421 0.0469 STAT5A,MAPK1,PIK3R2 MHC_II Polyp IL-2 Signaling LS Tumor 2.43 0.0938 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

Salvage Pathways of FAP 0.529 0.0426 CDK8,PRKAA1,CSNK1A1,MAP2K1 MHC_II Pyrimidine Ribonucleotides Salvage Pathways of LS Hyper 1.8 0.0851 PRKX,DMPK,MAPK1,PRKCD,GRK6,PRKCH,UCKL1 MHC_II Pyrimidine Ribonucleotides Polyp ,PKN1

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Salvage Pathways of LS Tumor 2.19 0.0745 BRAF,AKT2,DMPK,MAPK1,CDK4,PCK1,NEK2 MHC_II Pyrimidine Ribonucleotides Mevalonate Pathway I FAP 0.523 0.0833 ACAT2 MHC_II Mevalonate Pathway I LS Tumor 1.51 0.167 PMVK,HMGCR MHC_II Endothelin-1 Signaling FAP 0.519 0.0376 PNPLA8,PIK3C2B,PLCB4,ABHD3,PDIA3,SOS1,PR MHC_II KD3

Endothelin-1 Signaling LS 0.527 0.0161 PLCD3,FGFR2,PLD1 MHC_II Nonhyper Polyp Endothelin-1 Signaling LS Hyper 0.958 0.0538 PLCD3,MAPK1,ITPR2,CASP2,PRKCD,ADCY3,ADC MHC_II Polyp Y6,PLCB3,PRKCH,PIK3R2

Endothelin-1 Signaling LS Tumor 1.91 0.0538 PLBD1,BRAF,PLD3,JUN,MAPK1,PIK3C2A,PIK3C3,I MHC_II TPR3,PLCH1,CASP5

Regulation of the Epithelial- FAP 0.512 0.0374 PIK3C2B,ESRP2,SOS1,FZD6,STAT3,MAP2K1,TCF MHC_II Mesenchymal Transition 7L2 Pathway Regulation of the Epithelial- LS 0.523 0.016 TYK2,FGFR2,STAT3 MHC_II Mesenchymal Transition Nonhyper Pathway Polyp Regulation of the Epithelial- LS Hyper 0.704 0.0481 ETS1,MAML1,ADAM17,TGFBR1,MAPK1,DVL1,DVL MHC_II Mesenchymal Transition Polyp 3,PIK3R2,NFKB2 Pathway Regulation of the Epithelial- LS Tumor 1.9 0.0535 BRAF,SMAD2,AKT2,MAPK1,PIK3C2A,PIK3C3,DVL MHC_II Mesenchymal Transition 1,SOS2,CTNNB1,NOTCH1 Pathway

B Cell Receptor Signaling FAP 0.505 0.0372 BTK,PIK3C2B,CALM1 (includes MHC_II others),CAMK2D,SOS1,MAP2K1,PPP3CA

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B Cell Receptor Signaling LS Hyper 0.492 0.0426 PTK2,ETS1,MAP3K11,FOXO1,MAPK1,CREBBP,PI MHC_II Polyp K3R2,NFKB2

B Cell Receptor Signaling LS Tumor 1.88 0.0532 AKT2,MTOR,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3 MHC_II ,SOS2,RPS6KB2,PTEN

CD28 Signaling in T Helper FAP 0.502 0.0394 PIK3C2B,CALM1 (includes MHC_II Cells others),ACTR2,MAP2K1,PPP3CA

CD28 Signaling in T Helper LS Tumor 1.53 0.0551 AKT2,NFKBIA,JUN,PIK3C2A,HLA-A,PIK3C3,ITPR3 MHC_II Cells

Cholesterol Biosynthesis I FAP 0.494 0.0769 DHCR7 MHC_II Cholesterol Biosynthesis I LS Hyper 0.436 0.0769 LBR MHC_II Polyp Cholesterol Biosynthesis I LS Tumor 1.45 0.154 HSD17B7,LBR MHC_II Cholesterol Biosynthesis II FAP 0.494 0.0769 DHCR7 MHC_II (via 24,25-dihydrolanosterol) Cholesterol Biosynthesis II LS Hyper 0.436 0.0769 LBR MHC_II (via 24,25-dihydrolanosterol) Polyp Cholesterol Biosynthesis II LS Tumor 1.45 0.154 HSD17B7,LBR MHC_II (via 24,25-dihydrolanosterol) Cholesterol Biosynthesis III FAP 0.494 0.0769 DHCR7 MHC_II (via Desmosterol) Cholesterol Biosynthesis III LS Hyper 0.436 0.0769 LBR MHC_II (via Desmosterol) Polyp Cholesterol Biosynthesis III LS Tumor 1.45 0.154 HSD17B7,LBR MHC_II (via Desmosterol) IL-6 Signaling FAP 0.494 0.0391 IL6ST,PIK3C2B,SOS1,STAT3,MAP2K1 MHC_II

IL-6 Signaling LS 0.422 0.0156 FGFR2,STAT3 MHC_II Nonhyper Polyp IL-6 Signaling LS Hyper 0.345 0.0391 MAPK1,TNFRSF1A,CEBPB,PIK3R2,NFKB2 MHC_II Polyp

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IL-6 Signaling LS Tumor 1.51 0.0547 AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

Actin Cytoskeleton Signaling FAP 0.494 0.0362 ROCK2,ROCK1,PIK3C2B,ACTR2,SOS1,BAIAP2,MY MHC_II LK,MAP2K1

Actin Cytoskeleton Signaling LS 0.403 0.0136 DIAPH2,FGFR2,ARHGEF1 MHC_II Nonhyper Polyp Actin Cytoskeleton Signaling LS Hyper 1.09 0.0543 PTK2,ROCK1,DIAPH1,MYH9,CYFIP2,WASF2,MAP MHC_II Polyp K1,TRIO,PIK3R2,GIT1,RAC3,ACTN1

Actin Cytoskeleton Signaling LS Tumor 2.23 0.0543 ROCK1,MAPK1,PIK3C2A,PIK3C3,DIAPH3,ARHGEF MHC_II 7,SOS2,PIKFYVE,TRIO,ARHGEF1,TLN1,NCKAP1

FAK Signaling FAP 0.492 0.0408 PIK3C2B,HMMR,SOS1,MAP2K1 MHC_II

FAK Signaling LS Tumor 2.68 0.0816 AKT2,MAPK1,PIK3C2A,PIK3C3,ARHGEF7,SOS2,T MHC_II LN1,PTEN

Dopamine-DARPP32 FAP 0.485 0.0375 CALM1 (includes MHC_II Feedback in cAMP Signaling others),PLCB4,PDIA3,CSNK1A1,PRKD3,PPP3CA

Dopamine-DARPP32 LS Hyper 2.02 0.075 CSNK1E,PLCD3,CSNK1G2,ITPR2,CSNK1G3,PRKC MHC_II Feedback in cAMP Signaling Polyp D,CREBBP,ADCY3,ADCY6,PLCB3,ATP2A3,PRKCH

14-3-3-mediated Signaling FAP 0.479 0.0385 PIK3C2B,PLCB4,PDIA3,MAP2K1,PRKD3 MHC_II

14-3-3-mediated Signaling LS 0.414 0.0154 PLCD3,FGFR2 MHC_II Nonhyper

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Polyp 14-3-3-mediated Signaling LS Hyper 3.25 0.1 TSC1,TUBB3,MAPK1,TNFRSF1A,TUBG1,PLCD3,F MHC_II Polyp OXO1,TUBB6,PRKCD,TSC2,PLCB3,PRKCH,PIK3R 2

14-3-3-mediated Signaling LS Tumor 1.95 0.0615 AKT2,TUBB3,JUN,MAPK1,PIK3C2A,TUBB4B,PIK3C MHC_II 3,PLCH1

Glioblastoma Multiforme FAP 0.479 0.0373 PIK3C2B,PLCB4,PDIA3,SOS1,FZD6,MAP2K1 MHC_II Signaling Glioblastoma Multiforme LS 0.307 0.0124 PLCD3,FGFR2 MHC_II Signaling Nonhyper Polyp Glioblastoma Multiforme LS Hyper 1.62 0.0683 PLCD3,TSC1,E2F4,RHOQ,FOXO1,MAPK1,ITPR2,P MHC_II Signaling Polyp RKCD,TSC2,PLCB3,PIK3R2

Glioblastoma Multiforme LS Tumor 2.84 0.0683 AKT2,MTOR,MAPK1,PIK3C2A,PIK3C3,ITPR3,SOS2 MHC_II Signaling ,CDK4,CTNNB1,PLCH1,PTEN

RANK Signaling in FAP 0.474 0.04 PIK3C2B,CALM1 (includes MHC_II Osteoclasts others),MAP2K1,PPP3CA

RANK Signaling in LS Hyper 0.582 0.05 MAP3K11,MAPK1,PIK3R2,NFKB2,BIRC2 MHC_II Osteoclasts Polyp RANK Signaling in LS Tumor 1.53 0.06 AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3 MHC_II Osteoclasts DNA Double-Strand Break FAP 0.468 0.0714 NBN MHC_II Repair by Homologous Recombination DNA Double-Strand Break LS Hyper 1.95 0.214 LIG1,ATRX,NBN MHC_II Repair by Homologous Polyp Recombination DNA Double-Strand Break FAP 0.468 0.0714 NBN MHC_II

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Repair by Non-Homologous End Joining DNA Double-Strand Break LS Hyper 0.411 0.0714 NBN MHC_II Repair by Non-Homologous Polyp End Joining DNA Double-Strand Break LS Tumor 1.39 0.143 XRCC6,LIG3 MHC_II Repair by Non-Homologous End Joining CXCR4 Signaling FAP 0.459 0.0366 ROCK2,ROCK1,PIK3C2B,PLCB4,MAP2K1,PRKD3 MHC_II

CXCR4 Signaling LS Hyper 1.57 0.0671 PTK2,ROCK1,RHOQ,MAPK1,ITPR2,PRKCD,ADCY MHC_II Polyp 3,ADCY6,PLCB3,PRKCH,PIK3R2

CXCR4 Signaling LS Tumor 1.41 0.0488 ROCK1,AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,RACK MHC_II 1,ITPR3

P2Y Purigenic Receptor FAP 0.457 0.0376 PIK3C2B,PLCB4,PDIA3,MAP2K1,PRKD3 MHC_II Signaling Pathway P2Y Purigenic Receptor LS 0.402 0.015 PLCD3,FGFR2 MHC_II Signaling Pathway Nonhyper Polyp P2Y Purigenic Receptor LS Hyper 1.77 0.0752 PLCD3,MAPK1,PRKCD,CREBBP,ADCY3,ADCY6,P MHC_II Signaling Pathway Polyp LCB3,PRKCH,PIK3R2,NFKB2

P2Y Purigenic Receptor LS Tumor 1.44 0.0526 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,RACK1,PLCH1 MHC_II Signaling Pathway

Superpathway of Inositol FAP 0.455 0.0351 PPFIA1,PIK3C2B,PLCB4,PPP1R12C,DUSP11,PPP MHC_II Phosphate Compounds 4R1,PPP3CA,SACM1L

Superpathway of Inositol LS 1.07 0.0219 PLCD3,IPMK,PTPN2,DUSP11,FGFR2 MHC_II Phosphate Compounds Nonhyper Polyp

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Superpathway of Inositol LS Hyper 0.782 0.0482 MTMR6,PLCD3,PTPN23,SGPP2,PLCB3,PPM1F,ER MHC_II Phosphate Compounds Polyp BB2,PPP4R1,PIK3R2,PI4KA,DUSP16

Superpathway of Inositol LS Tumor 1.38 0.0439 PIK3C2A,PIK3C3,PTPN1,PIKFYVE,RASA1,PMPCA, MHC_II Phosphate Compounds PLCH1,PTPRF,PPIP5K2,PTEN

Androgen Signaling FAP 0.436 0.0368 CALM1 (includes MHC_II others),TBP,GTF2H1,GTF2E2,PRKD3

Androgen Signaling LS Hyper 1.01 0.0588 CALR,MAPK1,PRKCD,CREBBP,NCOA1,GTF2E2,P MHC_II Polyp RKCH,NFKB2

Androgen Signaling LS Tumor 1.39 0.0515 POLR2C,POLR2A,JUN,MAPK1,ERCC3,RACK1,TAF MHC_II 2

STAT3 Pathway FAP 0.434 0.0405 BMPR2,STAT3,MAP2K1 MHC_II

STAT3 Pathway LS 2.15 0.0541 PTPN2,TYK2,FGFR2,STAT3 MHC_II Nonhyper Polyp STAT3 Pathway LS Hyper 0.327 0.0405 TGFBR1,MAP3K11,MAPK1 MHC_II Polyp Chronic Myeloid Leukemia FAP 0.433 0.0381 PIK3C2B,SOS1,CBLC,MAP2K1 MHC_II Signaling Chronic Myeloid Leukemia LS Hyper 1.54 0.0762 STAT5A,E2F4,TGFBR1,MAPK1,HDAC8,PIK3R2,NF MHC_II Signaling Polyp KB2,HDAC5

Chronic Myeloid Leukemia LS Tumor 3.1 0.0857 AKT2,RBL2,TFDP1,MAPK1,PIK3C2A,PIK3C3,HDAC MHC_II Signaling 1,SOS2,CDK4

UVA-Induced MAPK Signaling FAP 0.433 0.0381 PIK3C2B,PLCB4,PDIA3,PARP14 MHC_II

UVA-Induced MAPK Signaling LS 1.64 0.0381 PLCD3,FGFR2,SMPD1,PARP9 MHC_II Nonhyper

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Polyp

UVA-Induced MAPK Signaling LS Hyper 0.309 0.0381 PLCD3,MAPK1,PLCB3,PIK3R2 MHC_II Polyp UVA-Induced MAPK Signaling LS Tumor 2.49 0.0762 MTOR,JUN,MAPK1,PIK3C2A,PIK3C3,RPS6KB2,PL MHC_II CH1,PARP14

IGF-1 Signaling FAP 0.425 0.0377 PIK3C2B,SOS1,STAT3,MAP2K1 MHC_II

IGF-1 Signaling LS 0.529 0.0189 FGFR2,STAT3 MHC_II Nonhyper Polyp IGF-1 Signaling LS Hyper 0.302 0.0377 PTK2,FOXO1,MAPK1,PIK3R2 MHC_II Polyp IGF-1 Signaling LS Tumor 2.47 0.0755 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2,RPS6K MHC_II B2,RASA1

Mismatch Repair in FAP 0.422 0.0625 RFC2 MHC_II Eukaryotes Mismatch Repair in LS Hyper 0.985 0.125 MSH6,POLD1 MHC_II Eukaryotes Polyp Mismatch Repair in LS Tumor 2.25 0.188 MSH6,MLH1,RFC3 MHC_II Eukaryotes IL-9 Signaling FAP 0.419 0.0444 PIK3C2B,STAT3 MHC_II IL-9 Signaling LS 1.11 0.0444 FGFR2,STAT3 MHC_II Nonhyper Polyp IL-9 Signaling LS Hyper 0.695 0.0667 STAT5A,PIK3R2,NFKB2 MHC_II Polyp IL-9 Signaling LS Tumor 0.548 0.0444 PIK3C2A,PIK3C3 MHC_II Phospholipase C Signaling FAP 0.418 0.034 BTK,MARCKS,CALM1 (includes MHC_II others),PLCB4,SOS1,MAP2K1,PRKD3,PPP3CA

Phospholipase C Signaling LS 0.655 0.017 PLCD3,ARHGEF1,ARHGEF9,PLD1 MHC_II Nonhyper

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Polyp

Phospholipase C Signaling LS Hyper 1.47 0.0596 HDAC8,MAPK1,ITPR2,CREBBP,ADCY3,ADCY6,NF MHC_II Polyp KB2,HDAC5,PLCD3,ARHGEF5,RHOQ,PRKCD,PLC B3,PRKCH

Phospholipase C Signaling LS Tumor 0.732 0.034 PLD3,MAPK1,ARHGEF7,HDAC1,RACK1,ITPR3,SO MHC_II S2,ARHGEF1

IL-15 Signaling FAP 0.415 0.0395 PIK3C2B,STAT3,MAP2K1 MHC_II

IL-15 Signaling LS 1.36 0.0395 TYK2,FGFR2,STAT3 MHC_II Nonhyper Polyp IL-15 Signaling LS Hyper 1.33 0.0789 PTK2,STAT5A,MAPK1,PIK3R2,NFKB2,RAC3 MHC_II Polyp IL-15 Signaling LS Tumor 1.49 0.0658 STAT6,AKT2,MAPK1,PIK3C2A,PIK3C3 MHC_II

Angiopoietin Signaling FAP 0.406 0.039 PIK3C2B,SOS1,NCK1 MHC_II Angiopoietin Signaling LS 0.261 0.013 FGFR2 MHC_II Nonhyper Polyp Angiopoietin Signaling LS Hyper 0.899 0.0649 PTK2,STAT5A,FOXO1,PIK3R2,NFKB2 MHC_II Polyp Angiopoietin Signaling LS Tumor 1.47 0.0649 AKT2,NFKBIA,PIK3C2A,PIK3C3,RASA1 MHC_II

Neurotrophin/TRK Signaling FAP 0.406 0.039 PIK3C2B,SOS1,MAP2K1 MHC_II

Neurotrophin/TRK Signaling LS 0.261 0.013 FGFR2 MHC_II Nonhyper Polyp Neurotrophin/TRK Signaling LS Hyper 0.303 0.039 MAPK1,CREBBP,PIK3R2 MHC_II Polyp Neurotrophin/TRK Signaling LS Tumor 1.47 0.0649 JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

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CD40 Signaling FAP 0.398 0.0385 PIK3C2B,STAT3,MAP2K1 MHC_II

CD40 Signaling LS 0.721 0.0256 FGFR2,STAT3 MHC_II Nonhyper Polyp CD40 Signaling LS Hyper 0.295 0.0385 MAPK1,PIK3R2,NFKB2 MHC_II Polyp CD40 Signaling LS Tumor 1.45 0.0641 NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3 MHC_II

IL-17A Signaling in Airway FAP 0.398 0.0385 PIK3C2B,STAT3,MAP2K1 MHC_II Cells IL-17A Signaling in Airway LS 1.34 0.0385 TYK2,FGFR2,STAT3 MHC_II Cells Nonhyper Polyp IL-17A Signaling in Airway LS Hyper 0.295 0.0385 MAPK1,PIK3R2,NFKB2 MHC_II Cells Polyp IL-17A Signaling in Airway LS Tumor 2.64 0.0897 AKT2,NFKBIA,MAPK1,PIK3C2A,PIK3C3,MUC5B,PT MHC_II Cells EN

Paxillin Signaling FAP 0.395 0.0364 PIK3C2B,SOS1,ITGA1,NCK1 MHC_II

Paxillin Signaling LS Hyper 0.482 0.0455 PTK2,NCK2,MAPK1,PIK3R2,ACTN1 MHC_II Polyp Paxillin Signaling LS Tumor 1.83 0.0636 MAPK1,PIK3C2A,PIK3C3,ARHGEF7,SOS2,TLN1,IT MHC_II GA1

p53 Signaling FAP 0.388 0.036 PIK3C2B,STAG1,TOPBP1,ATR MHC_II

p53 Signaling LS 0.976 0.027 TOPBP1,FGFR2,CHEK2 MHC_II Nonhyper Polyp p53 Signaling LS Tumor 3.56 0.0901 AKT2,JUN,PIK3C2A,PIK3C3,HDAC1,CCNK,APAF1, MHC_II CDK4,CTNNB1,PTEN

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Colorectal Cancer Metastasis FAP 0.379 0.0329 IL6ST,PIK3C2B,SOS1,FZD6,STAT3,MAP2K1,TCF7 MHC_II Signaling L2,LRP1

Colorectal Cancer Metastasis LS 0.622 0.0165 TYK2,FGFR2,TLR3,STAT3 MHC_II Signaling Nonhyper Polyp Colorectal Cancer Metastasis LS Hyper 0.868 0.0494 E2F4,RHOQ,TGFBR1,MAPK1,TNFRSF1A,DVL1,AD MHC_II Signaling Polyp CY3,ADCY6,MSH6,PIK3R2,NFKB2,LRP1

Colorectal Cancer Metastasis LS Tumor 2.75 0.0576 SMAD2,AKT2,PIK3C2A,MAPK1,SOS2,RACK1,DVL1 MHC_II Signaling ,MLH1,BRAF,JUN,PIK3C3,MSH6,CTNNB1,LRP1

Renal Cell Carcinoma FAP 0.373 0.037 PIK3C2B,SOS1,MAP2K1 MHC_II Signaling Renal Cell Carcinoma LS 0.696 0.0247 EGLN3,FGFR2 MHC_II Signaling Nonhyper Polyp Renal Cell Carcinoma LS Hyper 0.832 0.0617 ETS1,RAPGEF1,MAPK1,CREBBP,PIK3R2 MHC_II Signaling Polyp Renal Cell Carcinoma LS Tumor 1.93 0.0741 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II Signaling Huntington's Disease FAP 0.361 0.0324 PIK3C2B,PLCB4,SOS1,TBP,PSME4,NCOR1,GOSR MHC_II Signaling 1,PRKD3

Huntington's Disease LS Hyper 1.92 0.0648 SDHB,HDAC8,MAPK1,GLS,CREBBP,IFT57,NAPG, MHC_II Signaling Polyp HDAC5,DNM1,CASP2,PRKCD,PSME4,PLCB3,PRK CH,NCOR2,PIK3R2

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Huntington's Disease LS Tumor 4.66 0.0729 AKT2,MAPK1,PIK3C2A,HDAC1,SOS2,RACK1,APA MHC_II Signaling F1,MTOR,JUN,POLR2A,POLR2C,PIK3C3,HTT,PSM E4,NCOR1,RASA1,CASP5,DNM2

Rac Signaling FAP 0.355 0.0345 PIK3C2B,ACTR2,BAIAP2,MAP2K1 MHC_II

Rac Signaling LS 0.477 0.0172 FGFR2,PLD1 MHC_II Nonhyper Polyp Rac Signaling LS Hyper 1.33 0.069 PTK2,MCF2L,CYFIP2,MAP3K11,MAPK1,PIK3R2,NF MHC_II Polyp KB2,PI4KA

Rac Signaling LS Tumor 1.26 0.0517 JUN,MAPK1,PIK3C2A,PIK3C3,PIKFYVE,NCKAP1 MHC_II

Sirtuin Signaling Pathway FAP 0.35 0.0318 ATG5,POLR1B,ATG4D,PRKAA1,SIRT3,STAT3,NDU MHC_II FA1,TOMM70,NBN

Sirtuin Signaling Pathway LS 1.57 0.0247 CPT1A,ATG9A,CPT1B,SIRT6,ZBTB14,G6PD,STAT MHC_II Nonhyper 3 Polyp Sirtuin Signaling Pathway LS Hyper 1.44 0.0565 PPID,SDHB,MAPK1,GLS,SF3A1,NFKB2,XPA,NBN, MHC_II Polyp NDUFS1,FOXO1,ATG4D,SREBF1,SIRT1,XPC,NDU FS2,KAT2A

Sirtuin Signaling Pathway LS Tumor 2.55 0.053 TOMM40,EPAS1,TIMM44,MAPK1,SMARCA5,PCK1, MHC_II PFKM,HIST1H1B,MTOR,NDUFS1,JUN,SREBF1,ND UFA11,XRCC6,GOT2

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iCOS-iCOSL Signaling in T FAP 0.342 0.0339 PIK3C2B,CALM1 (includes MHC_II Helper Cells others),CAMK2D,PPP3CA

iCOS-iCOSL Signaling in T LS Tumor 1.68 0.0593 AKT2,NFKBIA,PIK3C2A,HLA- MHC_II Helper Cells A,PIK3C3,ITPR3,PTEN

Nur77 Signaling in T FAP 0.336 0.0377 CALM1 (includes others),PPP3CA MHC_II Lymphocytes Nur77 Signaling in T LS Tumor 1.46 0.0755 HLA-A,HDAC1,APAF1,CABIN1 MHC_II Lymphocytes

Neuregulin Signaling FAP 0.335 0.0349 SOS1,MAP2K1,PRKD3 MHC_II Neuregulin Signaling LS Hyper 1.54 0.0814 STAT5A,ADAM17,MAPK1,PRKCD,PRKCH,ERBB2, MHC_II Polyp PIK3R2

Neuregulin Signaling LS Tumor 1.81 0.0698 AKT2,MTOR,MAPK1,SOS2,RPS6KB2,PTEN MHC_II

TGF-β Signaling FAP 0.328 0.0345 SOS1,BMPR2,MAP2K1 MHC_II TGF-β Signaling LS 0.227 0.0115 BMP4 MHC_II Nonhyper Polyp TGF-β Signaling LS Hyper 1.1 0.069 TGFBR1,MAPK1,CREBBP,SKI,ACVR1,SMAD6 MHC_II Polyp TGF-β Signaling LS Tumor 2.37 0.0805 ZFYVE9,SMAD2,JUN,MAPK1,HDAC1,SOS2,SMUR MHC_II F2

HER-2 Signaling in Breast FAP 0.321 0.0341 PIK3C2B,SOS1,PRKD3 MHC_II Cancer HER-2 Signaling in Breast LS 0.224 0.0114 FGFR2 MHC_II Cancer Nonhyper Polyp HER-2 Signaling in Breast LS Hyper 1.49 0.0795 TSC1,FOXO1,PRKCD,TSC2,PRKCH,ERBB2,PIK3R MHC_II Cancer Polyp 2

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HER-2 Signaling in Breast LS Tumor 0.823 0.0455 AKT2,PIK3C2A,PIK3C3,SOS2 MHC_II Cancer Melanoma Signaling FAP 0.318 0.0364 PIK3C2B,MAP2K1 MHC_II Melanoma Signaling LS 0.364 0.0182 FGFR2 MHC_II Nonhyper Polyp Melanoma Signaling LS Hyper 0.244 0.0364 MAPK1,PIK3R2 MHC_II Polyp Melanoma Signaling LS Tumor 3.56 0.127 BRAF,AKT2,MAPK1,PIK3C2A,PIK3C3,CDK4,PTEN MHC_II

Apoptosis Signaling FAP 0.314 0.0337 ROCK1,MAP2K1,AIFM1 MHC_II

Apoptosis Signaling LS Hyper 2.45 0.101 ACIN1,ROCK1,MAPK1,TNFRSF1A,CASP2,BIRC6,N MHC_II Polyp FKB2,AIFM1,BIRC2

Apoptosis Signaling LS Tumor 1.75 0.0674 ACIN1,ROCK1,NFKBIA,MAPK1,BIRC6,APAF1 MHC_II

IL-22 Signaling FAP 0.293 0.0417 STAT3 MHC_II IL-22 Signaling LS 1.6 0.0833 TYK2,STAT3 MHC_II Nonhyper Polyp IL-22 Signaling LS Hyper 0.7 0.0833 STAT5A,MAPK1 MHC_II Polyp IL-22 Signaling LS Tumor 1.75 0.125 AKT2,MAPK1,IL10RB MHC_II Role of JAK1, JAK2 and TYK2 FAP 0.293 0.0417 STAT3 MHC_II in Interferon Signaling Role of JAK1, JAK2 and TYK2 LS 2.74 0.125 PTPN2,TYK2,STAT3 MHC_II in Interferon Signaling Nonhyper Polyp Role of JAK1, JAK2 and TYK2 LS Hyper 0.245 0.0417 NFKB2 MHC_II in Interferon Signaling Polyp Role of JAK1, JAK2 and TYK2 LS Tumor 0.364 0.0417 IFNAR2 MHC_II in Interferon Signaling CDP-diacylglycerol FAP 0.293 0.0417 TAZ MHC_II Biosynthesis I CDP-diacylglycerol LS 0.659 0.0417 LPCAT4 MHC_II

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Biosynthesis I Nonhyper Polyp CDP-diacylglycerol LS Hyper 1.32 0.125 TAMM41,LPCAT2,AGPAT3 MHC_II Biosynthesis I Polyp Fcγ Receptor-mediated FAP 0.289 0.0323 ACTR2,NCK1,PRKD3 MHC_II Phagocytosis in Macrophages and Monocytes Fcγ Receptor-mediated LS 0.21 0.0108 PLD1 MHC_II Phagocytosis in Macrophages Nonhyper and Monocytes Polyp Fcγ Receptor-mediated LS Hyper 0.992 0.0645 NCK2,MAPK1,PRKCD,PRKCH,PIK3R2,RAC3 MHC_II Phagocytosis in Macrophages Polyp and Monocytes Fcγ Receptor-mediated LS Tumor 2.21 0.0753 AKT2,PLD3,MAPK1,RPS6KB2,TLN1,VASP,PTEN MHC_II Phagocytosis in Macrophages and Monocytes Prostate Cancer Signaling FAP 0.277 0.0316 PIK3C2B,SOS1,MAP2K1 MHC_II

Prostate Cancer Signaling LS 0.204 0.0105 FGFR2 MHC_II Nonhyper Polyp Prostate Cancer Signaling LS Hyper 0.639 0.0526 FOXO1,MAPK1,CREBBP,PIK3R2,NFKB2 MHC_II Polyp Prostate Cancer Signaling LS Tumor 4.13 0.105 AKT2,MTOR,NFKBIA,TFDP1,MAPK1,PIK3C2A,PIK3 MHC_II C3,SOS2,CTNNB1,PTEN

Phosphatidylglycerol FAP 0.269 0.0385 TAZ MHC_II Biosynthesis II (Non-plastidic) Phosphatidylglycerol LS 0.629 0.0385 LPCAT4 MHC_II Biosynthesis II (Non-plastidic) Nonhyper Polyp Phosphatidylglycerol LS Hyper 1.23 0.115 TAMM41,LPCAT2,AGPAT3 MHC_II Biosynthesis II (Non-plastidic) Polyp Virus Entry via Endocytic FAP 0.239 0.0294 PIK3C2B,ITGA1,PRKD3 MHC_II Pathways Virus Entry via Endocytic LS 0.552 0.0196 FGFR2,AP1B1 MHC_II Pathways Nonhyper

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Polyp Virus Entry via Endocytic LS Hyper 0.853 0.0588 DNM1,FLNB,PRKCD,PRKCH,PIK3R2,RAC3 MHC_II Pathways Polyp Virus Entry via Endocytic LS Tumor 2.57 0.0784 FLNB,AP1G2,PIK3C2A,HLA- MHC_II Pathways A,PIK3C3,AP2B1,ITGA1,DNM2

Remodeling of Epithelial FAP 0.237 0.0303 ACTR2,CLIP1 MHC_II Adherens Junctions Remodeling of Epithelial LS 0.307 0.0152 MAPRE3 MHC_II Adherens Junctions Nonhyper Polyp Remodeling of Epithelial LS Hyper 2.13 0.106 DNM1,TUBB3,TUBB6,TUBG1,HGS,ACTN1,CLIP1 MHC_II Adherens Junctions Polyp

Remodeling of Epithelial LS Tumor 2.36 0.0909 TUBB3,TUBB4B,ZYX,CTNNB1,DNM2,CTNND1 MHC_II Adherens Junctions 4-1BB Signaling in T FAP 0.212 0.0312 MAP2K1 MHC_II Lymphocytes 4-1BB Signaling in T LS Hyper 0.519 0.0625 MAPK1,NFKB2 MHC_II Lymphocytes Polyp 4-1BB Signaling in T LS Tumor 1.42 0.0938 NFKBIA,JUN,MAPK1 MHC_II Lymphocytes Inhibition of Angiogenesis by FAP 0.212 0.0312 CD47 MHC_II TSP1 Inhibition of Angiogenesis by LS Hyper 1.01 0.0938 HSPG2,TGFBR1,MAPK1 MHC_II TSP1 Polyp Inhibition of Angiogenesis by LS Tumor 1.42 0.0938 AKT2,JUN,MAPK1 MHC_II TSP1 Role of JAK2 in Hormone-like FAP 0.212 0.0312 STAT3 MHC_II Cytokine Signaling Role of JAK2 in Hormone-like LS 1.37 0.0625 TYK2,STAT3 MHC_II Cytokine Signaling Nonhyper Polyp Role of JAK2 in Hormone-like LS Hyper 0.519 0.0625 STAT5A,HLTF MHC_II Cytokine Signaling Polyp Role of JAK2 in Hormone-like LS Tumor 0.275 0.0312 PTPN1 MHC_II Cytokine Signaling

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Aryl Hydrocarbon Receptor LS Hyper 0.722 0.0515 NCOA7,MAPK1,DHFR,NFKB2,NCOR2,RXRB,SMA MHC_II Signaling Polyp RCA4

Aryl Hydrocarbon Receptor LS Tumor 2.87 0.0735 TRIP11,RBL2,JUN,TFDP1,MAPK1,APAF1,CDK4,AL MHC_II Signaling DH18A1,SMARCA4,MCM7

LXR/RXR Activation LS Hyper 1.62 0.0744 SCD,TNFRSF1A,SREBF1,FASN,ABCG1,IRF3,NFK MHC_II Polyp B2,NCOR2,RXRB

LXR/RXR Activation LS Tumor 0.505 0.0331 SREBF1,FASN,NCOR1,HMGCR MHC_II

VDR/RXR Activation LS 0.261 0.013 KLF4 MHC_II Nonhyper Polyp VDR/RXR Activation LS Hyper 3.52 0.13 FOXO1,PRKCD,NCOA1,PRKCH,CEBPB,NCOR2,H MHC_II Polyp R,RXRB,KLF4,PSMC5

Caveolar-mediated LS Tumor 1.6 0.0704 FLNB,HLA-A,PTPN1,ITGA1,DNM2 MHC_II Endocytosis Signaling IL-8 Signaling LS Hyper 0.439 0.0408 PTK2,ROCK1,RHOQ,MAPK1,PRKCD,PRKCH,PIK3 MHC_II Polyp R2,RAC3

IL-8 Signaling LS Tumor 2.65 0.0612 ROCK1,BRAF,AKT2,ARRB2,MTOR,PLD3,JUN,MAP MHC_II K1,PIK3C2A,PIK3C3,RACK1,VASP

Role of Pattern Recognition LS 0.82 0.0229 OAS2,FGFR2,TLR3 MHC_II Receptors in Recognition of Nonhyper Bacteria and Viruses Polyp Role of Pattern Recognition LS Hyper 1.08 0.0611 MAPK1,TICAM1,PRKCD,PRKCH,IRF3,PIK3R2,NFK MHC_II Receptors in Recognition of Polyp B2,OAS3 Bacteria and Viruses Role of Pattern Recognition LS Tumor 0.437 0.0305 MAPK1,PIK3C2A,PIK3C3,C1QA MHC_II Receptors in Recognition of Bacteria and Viruses

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TREM1 Signaling LS 0.793 0.0286 TLR3,STAT3 MHC_II Nonhyper Polyp TREM1 Signaling LS Hyper 1.03 0.0714 SIGIRR,STAT5A,NLRC5,MAPK1,NFKB2 MHC_II Polyp TREM1 Signaling LS Tumor 0.65 0.0429 AKT2,MAPK1,CASP5 MHC_II Lymphotoxin β Receptor LS 0.302 0.0149 FGFR2 MHC_II Signaling Nonhyper Polyp Lymphotoxin β Receptor LS Hyper 1.09 0.0746 MAPK1,CREBBP,PIK3R2,NFKB2,BIRC2 MHC_II Signaling Polyp Lymphotoxin β Receptor LS Tumor 2.33 0.0896 AKT2,NFKBIA,MAPK1,PIK3C2A,PIK3C3,APAF1 MHC_II Signaling

IL-17 Signaling LS 0.234 0.0118 FGFR2 MHC_II Nonhyper Polyp IL-17 Signaling LS Hyper 0.248 0.0353 MAPK1,CEBPB,PIK3R2 MHC_II Polyp IL-17 Signaling LS Tumor 1.84 0.0706 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,MUC5B MHC_II

CTLA4 Signaling in Cytotoxic LS 0.576 0.0204 FGFR2,AP1B1 MHC_II T Lymphocytes Nonhyper Polyp CTLA4 Signaling in Cytotoxic LS Tumor 1.56 0.0612 AKT2,AP1G2,PIK3C2A,HLA-A,PIK3C3,AP2B1 MHC_II T Lymphocytes Reelin Signaling in Neurons LS 1.16 0.0326 FGFR2,ARHGEF1,ARHGEF9 MHC_II Nonhyper Polyp Reelin Signaling in Neurons LS Hyper 0.676 0.0543 ARHGEF5,MAP3K11,PIK3R2,MAPK8IP3,FRK MHC_II Polyp Reelin Signaling in Neurons LS Tumor 0.775 0.0435 PIK3C2A,PIK3C3,ARHGEF1,ITGA1 MHC_II

Relaxin Signaling LS Tumor 1.99 0.0584 BRAF,AKT2,NFKBIA,JUN,MAPK1,PIK3C2A,PIK3C3, MHC_II RACK1,NPR2

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Agrin Interactions at LS Hyper 1.56 0.0896 PTK2,MAPK1,DVL1,ERBB2,AGRN,RAC3 MHC_II Neuromuscular Junction Polyp Agrin Interactions at LS Tumor 1.7 0.0746 JUN,MAPK1,ARHGEF7,DVL1,ITGA1 MHC_II Neuromuscular Junction Docosahexaenoic Acid (DHA) LS 0.382 0.0192 FGFR2 MHC_II Signaling Nonhyper Polyp Docosahexaenoic Acid (DHA) LS Hyper 0.575 0.0577 FOXO1,PIK3R2,PNPLA2 MHC_II Signaling Polyp Docosahexaenoic Acid (DHA) LS Tumor 1.48 0.0769 AKT2,PIK3C2A,PIK3C3,APAF1 MHC_II Signaling Antiproliferative Role of LS 0.276 0.0137 FGFR2 MHC_II Somatostatin Receptor 2 Nonhyper Polyp Antiproliferative Role of LS Tumor 2.15 0.0822 BRAF,MAPK1,PIK3C2A,PIK3C3,RACK1,NPR2 MHC_II Somatostatin Receptor 2

Germ Cell-Sertoli Cell LS 0.285 0.0118 KEAP1,FGFR2 MHC_II Junction Signaling Nonhyper Polyp Germ Cell-Sertoli Cell LS Hyper 3.6 0.0947 TUBB3,TGFBR1,MAP3K11,MAPK1,TNFRSF1A,TUB MHC_II Junction Signaling Polyp G1,NECTIN3,RAC3,PTK2,RHOQ,TUBB6,SORBS1, KEAP1,PIK3R2,ACTN1,NECTIN2

Germ Cell-Sertoli Cell LS Tumor 2.67 0.0651 TUBB3,MAPK1,PIK3C2A,TUBB4B,PIK3C3,NECTIN MHC_II Junction Signaling 3,ILK,ZYX,CLINT1,CTNNB1,CTNND1

Small Cell Lung Cancer LS 0.665 0.0235 FGFR2,SKP2 MHC_II Signaling Nonhyper Polyp Small Cell Lung Cancer LS Hyper 0.771 0.0588 PTK2,PIK3R2,NFKB2,RXRB,BIRC2 MHC_II Signaling Polyp

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Small Cell Lung Cancer LS Tumor 3.79 0.106 AKT2,NFKBIA,TFDP1,PIK3C2A,PIK3C3,APAF1,CD MHC_II Signaling K4,SKP2,PTEN

Type II Diabetes Mellitus LS 0.335 0.0132 FGFR2,SMPD1 MHC_II Signaling Nonhyper Polyp Type II Diabetes Mellitus LS Hyper 1.1 0.0592 PRKAB2,MAPK1,TNFRSF1A,PRKCD,PRKCH,CEBP MHC_II Signaling Polyp B,PIK3R2,NFKB2,NSMAF

Type II Diabetes Mellitus LS Tumor 1.58 0.0526 AKT2,ACSL3,MTOR,NFKBIA,MAPK1,PIK3C2A,PIK3 MHC_II Signaling C3,ADIPOR1

Myc Mediated Apoptosis LS 0.289 0.0143 FGFR2 MHC_II Signaling Nonhyper Polyp Myc Mediated Apoptosis LS Tumor 1.62 0.0714 AKT2,PIK3C2A,PIK3C3,SOS2,APAF1 MHC_II Signaling Pancreatic Adenocarcinoma LS 1.46 0.0333 TYK2,FGFR2,STAT3,PLD1 MHC_II Signaling Nonhyper Polyp Pancreatic Adenocarcinoma LS Hyper 0.632 0.05 E2F4,TGFBR1,MAPK1,ERBB2,PIK3R2,NFKB2 MHC_II Signaling Polyp Pancreatic Adenocarcinoma LS Tumor 2.69 0.075 SMAD2,AKT2,PLD3,TFDP1,MAPK1,PIK3C2A,PIK3 MHC_II Signaling C3,CDK4,NOTCH1

Sphingosine-1-phosphate LS 0.871 0.0242 PLCD3,FGFR2,SMPD1 MHC_II Signaling Nonhyper Polyp Sphingosine-1-phosphate LS Hyper 1.56 0.0726 PTK2,PLCD3,RHOQ,MAPK1,CASP2,ADCY3,ADCY MHC_II Signaling Polyp 6,PLCB3,PIK3R2

Sphingosine-1-phosphate LS Tumor 1.15 0.0484 AKT2,MAPK1,PIK3C2A,PIK3C3,PLCH1,CASP5 MHC_II Signaling

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Systemic Lupus LS Tumor 1.88 0.0507 AKT2,MTOR,JUN,MAPK1,PIK3C2A,HLA- MHC_II Erythematosus Signaling A,PIK3C3,PRPF8,SOS2,SNRNP200,SNRNP40

ILK Signaling LS Hyper 1.15 0.057 PTK2,NCK2,FLNB,MYH9,RHOQ,MAPK1,TNFRSF1 MHC_II Polyp A,CREBBP,PIK3R2,NFKB2,ACTN1

ILK Signaling LS Tumor 2.24 0.057 PARVB,FLNB,AKT2,MTOR,JUN,MAPK1,PIK3C2A,P MHC_II IK3C3,ILK,CTNNB1,PTEN

AMPK Signaling LS 0.746 0.0186 PBRM1,CPT1A,CPT1B,FGFR2 MHC_II Nonhyper Polyp AMPK Signaling LS Hyper 1.45 0.0605 TSC1,PRKAB2,MAPK1,CREBBP,MLST8,SMARCA4 MHC_II Polyp ,FOXO1,FASN,SMARCB1,TSC2,SIRT1,PIK3R2,HLT F

AMPK Signaling LS Tumor 2.32 0.0558 PBRM1,AKT2,MTOR,MAPK1,PIK3C2A,EEF2,PIK3C MHC_II 3,FASN,ARID2,HMGCR,SMARCA4,PFKM

Ovarian Cancer Signaling LS Tumor 5.17 0.0979 AKT2,TFDP1,PIK3C2A,MAPK1,DVL1,CDK4,MLH1,P MHC_II TEN,BRAF,MTOR,PIK3C3,RPS6KB2,MSH6,CTNNB 1

Estrogen-Dependent Breast LS 0.254 0.0127 FGFR2 MHC_II Cancer Signaling Nonhyper Polyp Estrogen-Dependent Breast LS Hyper 0.865 0.0633 STAT5A,MAPK1,CREBBP,PIK3R2,NFKB2 MHC_II Cancer Signaling Polyp

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Estrogen-Dependent Breast LS Tumor 1.98 0.0759 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,HSD17B7 MHC_II Cancer Signaling

Role of PI3K/AKT Signaling in LS 0.265 0.0132 FGFR2 MHC_II the Pathogenesis of Influenza Nonhyper Polyp Role of PI3K/AKT Signaling in LS Hyper 0.575 0.0526 MAPK1,IRF3,PIK3R2,NFKB2 MHC_II the Pathogenesis of Influenza Polyp Role of PI3K/AKT Signaling in LS Tumor 2.06 0.0789 AKT2,NFKBIA,MAPK1,PIK3C2A,PIK3C3,MLH1 MHC_II the Pathogenesis of Influenza Role of Tissue Factor in LS Tumor 1.65 0.0583 AKT2,ARRB2,MTOR,MAPK1,PIK3C2A,PIK3C3,PTE MHC_II Cancer N Sertoli Cell-Sertoli Cell LS 0.275 0.0116 DLG1,KEAP1 MHC_II Junction Signaling Nonhyper Polyp Sertoli Cell-Sertoli Cell LS Hyper 1.77 0.0694 EPB41,TUBB3,MAP3K11,MAPK1,TUBB6,SORBS1, MHC_II Junction Signaling Polyp TNFRSF1A,KEAP1,NECTIN3,TUBG1,ACTN1,NECT IN2

Sertoli Cell-Sertoli Cell LS Tumor 2.6 0.0636 AKT2,TUBB3,JUN,MAPK1,TUBB4B,NECTIN3,ILK,S MHC_II Junction Signaling YMPK,CLINT1,CTNNB1,PTEN

iNOS Signaling LS 0.438 0.0227 TYK2 MHC_II Nonhyper Polyp iNOS Signaling LS Hyper 0.715 0.0682 MAPK1,CREBBP,NFKB2 MHC_II Polyp iNOS Signaling LS Tumor 1.72 0.0909 NFKBIA,JUN,MAPK1,IRF1 MHC_II

Cell Cycle: G1/S Checkpoint LS 0.311 0.0154 SKP2 MHC_II Regulation Nonhyper Polyp Cell Cycle: G1/S Checkpoint LS Hyper 1.14 0.0769 E2F4,FOXO1,HDAC8,CDKN2C,HDAC5 MHC_II Regulation Polyp

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Cell Cycle: G1/S Checkpoint LS Tumor 1.75 0.0769 RBL2,TFDP1,HDAC1,CDK4,SKP2 MHC_II Regulation Nucleotide Excision Repair LS Hyper 0.467 0.0571 XPC,XPA MHC_II Pathway Polyp Nucleotide Excision Repair LS Tumor 1.32 0.0857 POLR2C,POLR2A,ERCC3 MHC_II Pathway PI3K/AKT Signaling LS Hyper 0.878 0.0569 TSC1,FOXO1,MAPK1,TSC2,PIK3R2,NFKB2,THEM4 MHC_II Polyp

PI3K/AKT Signaling LS Tumor 2.62 0.0732 AKT2,MTOR,NFKBIA,MAPK1,SOS2,ILK,RPS6KB2, MHC_II CTNNB1,PTEN

IL-4 Signaling LS 0.657 0.0233 TYK2,FGFR2 MHC_II Nonhyper Polyp IL-4 Signaling LS Tumor 3.05 0.093 STAT6,AKT2,MTOR,PIK3C2A,HLA- MHC_II A,PIK3C3,SOS2,RPS6KB2

Phagosome Maturation LS 0.383 0.0145 ATP6V0A2,ATP6V0D1 MHC_II Nonhyper Polyp Phagosome Maturation LS Hyper 1.67 0.0725 CALR,TUBB3,TUBB6,TUBE1,CTSO,VPS33A,TUBG MHC_II Polyp 1,NAPG,VPS37C,CTSF

Phagosome Maturation LS Tumor 2.29 0.0652 DYNC1H1,CTSA,TUBB3,TUBB4B,HLA- MHC_II A,PIK3C3,ATP6V0D1,PIKFYVE,ATP6V0A1

Cancer Drug Resistance By LS 0.402 0.0204 ABCG2 MHC_II Drug Efflux Nonhyper Polyp Cancer Drug Resistance By LS Hyper 0.623 0.0612 FOXO1,MAPK1,PIK3R2 MHC_II Drug Efflux Polyp Cancer Drug Resistance By LS Tumor 1.57 0.0816 BRAF,AKT2,MAPK1,PTEN MHC_II Drug Efflux

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IL-7 Signaling Pathway LS 0.23 0.0116 FGFR2 MHC_II Nonhyper Polyp IL-7 Signaling Pathway LS Hyper 0.757 0.0581 PTK2,STAT5A,FOXO1,MAPK1,PIK3R2 MHC_II Polyp IL-7 Signaling Pathway LS Tumor 1.81 0.0698 AKT2,JUN,MAPK1,PIK3C2A,PIK3C3,SOS2 MHC_II

Opioid Signaling Pathway LS Hyper 0.924 0.0506 CAMK1,MAPK1,ITPR2,PRKCD,CREBBP,ADCY3,G MHC_II Polyp RK6,ADCY6,PRKCH,NFKB2,FRK,RAC3

Opioid Signaling Pathway LS Tumor 1.62 0.0464 BRAF,AKT2,ARRB2,NFKBIA,AP1G2,MAPK1,AP2B1 MHC_II ,ITPR3,SOS2,RPS6KB2,CTNNB1

IL-15 Production LS 1.48 0.0714 TYK2,MST1R MHC_II Nonhyper Polyp IL-15 Production LS Hyper 2.61 0.179 PTK2,MAP3K11,IRF3,NFKB2,FRK MHC_II Polyp IL-15 Production LS Tumor 0.315 0.0357 IRF1 MHC_II Antiproliferative Role of TOB LS 0.629 0.0385 SKP2 MHC_II in T Cell Signaling Nonhyper Polyp Antiproliferative Role of TOB LS Hyper 1.23 0.115 TGFBR1,MAPK1,PABPC4 MHC_II in T Cell Signaling Polyp Antiproliferative Role of TOB LS Tumor 1.66 0.115 SMAD2,MAPK1,SKP2 MHC_II in T Cell Signaling IL-17A Signaling in LS Hyper 0.926 0.0857 MAPK1,CEBPB,NFKB2 MHC_II Fibroblasts Polyp IL-17A Signaling in LS Tumor 1.32 0.0857 NFKBIA,JUN,MAPK1 MHC_II Fibroblasts Estrogen-mediated S-phase LS 0.629 0.0385 SKP2 MHC_II Entry Nonhyper Polyp Estrogen-mediated S-phase LS Hyper 0.223 0.0385 E2F4 MHC_II Entry Polyp Estrogen-mediated S-phase LS Tumor 1.66 0.115 TFDP1,CDK4,SKP2 MHC_II

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Entry Thio-molybdenum Cofactor LS Tumor 1.63 1 MOCOS MHC_II Biosynthesis 2-ketoglutarate LS Tumor 2.5 0.5 DLST,OGDH MHC_II Dehydrogenase Complex Palmitate Biosynthesis I LS Hyper 1.17 0.5 FASN MHC_II (Animals) Polyp Palmitate Biosynthesis I LS Tumor 1.34 0.5 FASN MHC_II (Animals) Anandamide Degradation LS Tumor 1.34 0.5 FAAH2 MHC_II Fatty Acid Biosynthesis LS Hyper 1.17 0.5 FASN MHC_II Initiation II Polyp Fatty Acid Biosynthesis LS Tumor 1.34 0.5 FASN MHC_II Initiation II Zymosterol Biosynthesis LS Hyper 0.722 0.167 LBR MHC_II Polyp Zymosterol Biosynthesis LS Tumor 2.12 0.333 HSD17B7,LBR MHC_II BER pathway LS Hyper 0.464 0.0833 LIG1 MHC_II Polyp BER pathway LS Tumor 1.51 0.167 POLE,LIG3 MHC_II Ingenuity Pathway Analysis of predicted neoantigens with binding affinity <500nM, allele frequency >5% and mRNA expression >10 TPM. Pathways with P-value<0.05 in either FAP, LS Polyps or LS Tumors are displayed.

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eTable 11. Germline and somatic mutation detected in FAP and LS polyps

Patient Germline Sample ID Syndrome Mutation Gene cDNA Protein ID Validation FAP_G2 FAP FAP_1 Germline APC c.1880dupA p.Ala630* Yes Germline APC c.1880dupA p.Ala630* Yes Somatic p.(Phe1491_Ala1492delinsLeu FAP_G3 FAP FAP_1 APC c.4473_4474delinsGC Pro) Somatic KRAS c.519T>C p.(=) Germline APC c.3810T>A p.Cys1270* Yes FAP_G53 FAP FAP_2 Somatic APC c.2438A>G p.(Asn813Ser) Somatic APC c.4348C>T p.(Arg1450*) FAP_G55 FAP FAP_2 Germline APC c.3810T>A p.Cys1270* Yes Germline APC del exon 15 p.? No FAP_G5 FAP FAP_3 Somatic APC LOH 5q FAP_G6 FAP FAP_3 Germline APC del exon 16 p.? No Germline APC c.622C>T p.Gln208* Yes FAP_G13 FAP FAP_4 Somatic APC c.4057G>T p.(Glu1353*) Somatic APC c.4135G>T p.(Glu1379*) FAP_G14 FAP FAP_4 Germline APC c.622C>T p.Gln208* No Germline APC c.622C>T p.Gln208* Yes FAP_G15 FAP FAP_4 Somatic APC c.4189_4190del p.(Arg1399Phefs*9) Somatic APC LOH 5q FAP_G25 FAP FAP_5 Germline APC del exons 8-10 p.? No FAP_G29 FAP FAP_6 Germline APC c.1658G>A p.Trp553* Yes FAP_G39 FAP FAP_7 Germline APC c.477C>G p.Tyr159* No

Germline APC c.4733_4734del p.Cys1578Tyrfs*13 No FAP_G47 FAP FAP_8 Somatic APC LOH 5q

FAP_G48 FAP FAP_8 Germline APC c.4733_4734del p.Cys1578Tyrfs*14 No Germline APC c.847C>T p.Arg283* No FAP_G67 FAP FAP_9 Somatic APC c.4135G>T p.(Glu1379*) Somatic KRAS c.35C>A p.(Gly12Val) FAP_G61 FAP FAP_10 Germline APC c.3810T>A p.Cys1270* Yes LS_EBL1 LS LS_1 Germline MSH6 c.3744_3773del p.His1248_Ser1257del Yes LS_EBL3 LS LS_2 Germline MSH2 c.687del p.Ala230Leufs*16 Yes LS_EBL5 LS LS_3 Germline PMS2 del exon 14 p.? No

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Somatic MLH1 c.342_343del p.(Ile115Tyrfs*6) LS_EBL7 LS LS_4 Germline MSH2 c.1034G>A p.Trp345* Yes Germline MSH2 c.1661+1G>A p.? No LS_EBL9 LS LS_5 Somatic MSH6 c.1340T>C p.(Leu447Pro) Somatic MSH6 c.3410T>C p.(Met1137Thr) Germline MSH2 del exons 1-6 p.? No Somatic MSH2 c.2172G>A p.(=) LS_EBL11 LS LS_6 Somatic APC c.2626C>T Somatic KRAS c.485A>G p.(Glu162Gly) Somatic CIITA c.1436C>T p.A479V LS_EBL13 LS LS_7 Germline MSH2 c.1216C>T p.Arg406* Yes LS_EBL18 LS LS_8 Germline MSH6 c.3238_3239del p.Leu1080Valfs*12 No Germline MSH6 c.3860_3861insATTA p.Y1287* Yes LS_EBL26 LS LS_9 Somatic MSH2 c.2646_2647del p.(Lys882Asnfs*16) Somatic APC c.4348C>T p.(Arg1450*) Germline MSH6 c.2645_2653del p.Phe882* Yes LS_EBL20 LS LS_10 Somatic APC c.4234G>T p. Somatic APC LOH 5q LS_EBL23 LS LS_11 Germline MSH6 c.3699_3702del p.Lys1233Asnfs*6 Yes Germline MLH1 c.1279C>T p.Gln427* Yes Somatic APC c.C4549T p.Q1517X Somatic BRAF c.1208delC p.P403fs LS_T3 LS LS_12 Somatic CTNNB1 c.C134T p.S45F Somatic AXIN1 c.1922delA p.K641fs Somatic RFX5 c.56delC p.P19fs Somatic RFXAP c.297delG p.P99fs Germline MLH1 c.1918C>T p.Pro640Ser Yes Somatic APC c.2540dupA p.E847fs Somatic KRAS c.G38A p.G13D LS_T2 LS LS_13 Somatic MLH1 c.C350T p.T117M Somatic c.666_667insGATGGAG MSH6 p.D222fs G Somatic c.668_669insGGCACAA MSH6 p.N223_E224delinsKAQLTX CTTACGTAAC LS_T1 LS LS_14 Germline MLH1 c.2059C>T p.Arg687Trp Yes Mutational data derived from RNA-seq analysis. Sample FAP_G53 and LS_EBL26 harbored APC LOH in 5q in addition to the somatic mutations.

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eFigure 1

A LS Polyp LS Tumor

T-cell Signature Enrichment

eFigure 1. A. Immune profile of Lynch syndrome premalignancy and carcinomas. RNA expression levels of immune-related genes invovled in CD4, Th1/Tc1, CTL, checkpoint response, TH17, Treg, Proinflammation and Metabolism comparing LS polyps and LS tumors; B. T-cell signature enrichment score comparing LS andFAP polyps, LS tumors.The graphs display mean for each group and statistically significant difference between each group using ANOVA and Tukey’s Test, and multiple comparisons by Benjamini & Hochberg method. (*P<0.05, **P<0.01, ***P<0.001).

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eFigure 2

R2 = 0.339 20 P-value <0.0001

RNA mutationRNA rate (Mutations/Mb) 0 0 100 200 300 400 DNA mutation rate (Mutations/Mb)

eFigure 2. Correlation of DNA and RNA mutation rate in samples from TCGA. A total of 47 Stage I and II colorectal tumors with known MSI and hypermutation status from TCGA were selected for analysis.

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eFigure 3

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eFigure 4

CD4 FOXP3

eFigure 4. Immunohistochemical staining of CD4 and FOXP3. Representative hypermutant Lynch syndrome polyp showing abundant infiltration by CD4 positive/FOXP3 positive T-cells.

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Downloaded From: https://jamanetwork.com/ on 09/24/2021 eMaterials and Methods

Study Design

The objective of this study was to assess the immune expression profile of premalignant lesions raising in patients with LS, and to investigate potential factors responsible for T-cell infiltration and immune checkpoint deregulation in MMR-deficient carcinogenesis. All patients and samples were collected under approved IRB, and no blinding was used for experiments. We chose as comparator group samples from FAP patients because they represent the premalignant model for colorectal carcinogenesis developing in a background of chromosomal instability and proficiency of the MMR system. Sample identification numbers for each experiment and analysis are included within the figures. All primary data used is provided in Supplementary Tables. The sample size of this study is limited due to the relative rarity of premalignant lesions in the population of LS patients. However, the sample size provides sufficient statistical power for comparison between LS and FAP.

Subjects and Samples

RNA-seq was performed in a total of 28 colorectal polyps (26 tubular adenomas and 2 hyperplastic polyps) from 21 patients diagnosed with FAP (n=10) and LS (n=11) at The University of Texas MD Anderson Cancer Center (UTMDACC) and 3 early stage colorectal tumors (one stage I and two stage II) from 3 patients diagnosed with LS obtained by Nouscom SRL from “Regina Elena” National Cancer Institute, Rome, Italy (Tables S1-2). All of the patients had their diagnosis confirmed by genetic testing performed at a Clinical Laboratory Improvement Amendments (CLIA) laboratory and carried mutations in APC (n=10), MLH1 (n=2), MSH2 (n=5), MSH6 (n=5) and PMS2 (n=2) (Table S1). Polyps were collected at the time of endoscopic surveillance and were either fully resected or biopsied with snare forceps. Tumors were collected at the time of surgical resection. All tissues were immediately flash- frozen or preserved in RNAlater storage solution (Life Technologies, Carlsbad, CA) and then stored at – 80°C according to internal protocols. Total RNA was extracted using TRIzol (Invitrogen, Waltham, MA) and the RNeasy kit (Qiagen). RNA was quantified using Qubit (LifeTechnologies) and RNA quality with the Agilent 2100 Bioanalyzer in order to select samples for analysis based on RNA integrity numbers for analysis. The diagnosis of adenomatous versus hyperplastic polyps and tumors was confirmed by an expert gastrointestinal pathologist (M.W.T.) in all samples that rendered enough tissue for both nucleic acid extraction and pathologic confirmation (Table S2). Informed consent was obtained from all individuals, and the IRB approved this study (UTMDACC Protocol ID number: PA12-0327).

Illumina Sequencing

Sample preparation, library construction, and sequencing was performed at UTMDACC Sequencing Core Facility and the Center for Genomics and Transcriptomics (Tuebingen, Germany). For polyps transcriptome analysis was performed with the Illumina HiSeq 2000 instrument generating paired-end 75- base pair (bp) reads when 8 samples are multiplexed using barcodes. Each sample had an average of 40 million read pairs and an average alignment rate of 84.83% (SD=2.98%). For tumors, transcriptome analysis was performed with the Illumina HiSeq 4000 instrument generating paired-end 100-bp reads. Each sample had an average of 27.5 million read pairs and an average alignment rate of 76% (SD=0.04%). Reads were mapped to human genome assembly b37 using STAR v2.5.1b_modified in 2- PASS mode. During STAR first-pass, reads are aligned against transcript definition from gencode.v19. Splice junctions output during STAR first-pass were used in STAR second-pass mapping to generate aligned BAM1.

Whole transcriptomic analysis

Downloaded From: https://jamanetwork.com/ on 09/24/2021 We used rsem-calculate-expression with default options in RSEM v1.2.212 to quantify mRNA expression in LS and FAP samples. RSEM transcript counts of all polyp and tumor samples were combined into a matrix and quantile-normalized using batch as a covariate. Normalized counts were transformed into log2 counts-per-million (CPM) with limma_3.30.93. Genes linked to the immune microenvironment of CRC and MMR deficiency were grouped by lineage and/or function (Th1/Tc1, CTL, Th17, Treg, proinflammation, and metabolism) as previously reported4 to distinguish which genes were differentially expressed on the basis of LS and FAP status. mRNA counts-per-million were plotted in GraphPad Prism 6.0 (GraphPad Software, San Diego, CA).

We performed an unsupervised hierarchical clustering of LS and FAP polyps using a curated list of genes related to class I and II antigen presentation, cytotoxic activity, immune checkpoints, Treg, and MDSC cells that has been previously reported by us5. Samples were clustered based on Euclidean distances and genes based on Pearson’s correlation with ComplexHeatmap_1.12.06. Differential expression of immune- related genes between FAP and LS polyps, and between LS hyper-mutant and LS non-hyper-mutant were assessed with Welch’s t-test and Benjamini & Hochberg multiple corrections. Significant genes were denoted as False Discovery Rate (FDR) <0.05. Differential expression of immune-related genes among FAP, LS polyps and LS carcinomas were performed with one-way ANOVA and Tukey’s test. All statistical analyses were performed with stats package in R version 3.3.1. Single sample gene set enrichment scores on immune related signatures and pathways previously reported to be relevant to distinguish mismatch repair deficient from proficient colorectal carcinogenesis7 were calculated with GSVA_1.24.1 for FAP and LS polyps, LS tumors. Significant differences between groups were performed with one-way ANOVA and Tukey’s test.

Mutational Analysis

We followed GATK best practices on mutation discovery with RNA-Seq. We performed mark-duplicates, SplitNCigarReads and base-recalibration with GATK v3.6 on STAR-aligned BAM files. We called somatic mutations with Mutect2. We decided to keep for further analysis as somatic mutation candidates all mutations denoted as “PASS” by mutect2 and that were not present in the thousand genome phase 3 data8, the NHLBI GO Exome Sequencing Project (EVS; http://evs.gs.washington.edu/EVS/) or ExAC database 9, for which the reference allele and variant allele count were >2 and the allele frequency >5%. Mutations were annotated by Annovar10 and vtools11.

Mutation rates were calculated by dividing the number of somatic mutations by the number of callable bases (defined as >10x in polyp and matched normal mucosa sample). Somatic allelic imbalances (AI) were detected using HapLOHseq with event prevalence of 0.001 and with match normal mucosa as reference12. Somatic AI events in APC and MMR genes were found by overlapping their genomic coordinates (UCSC refgenes.gft) with AI regions Mutation. Mutation signatures were detected and plotted with deconstructSigs_1.8.013 and hierarchical clustering of premalignant and malignant samples from our cohort and TCGA were performed with the same package.

Neoantigen Discovery

We used seq2HLA v2.214 with default settings to generate 4-digits MHC typing for class I and class II on FAP and LS normal mucosa. Then, we ran pvac-seq v4.0.815 to generate neoantigen predictions on each polyps or tumor sample using the following parameters: (i) ‘pass’ status from MuTect2 for somatic mutation candidates, (ii) MHC class I and II 4-digit typing, (iii) NetMHCpan prediction algorithm, and (iv) epitope length of 8, 9, 10, 11 aminoacids. We selected those neoantigens that required a binding affinity <500 nM, had allele frequency >5%, were expressed at a level >10 Transcripts per Million (TPM) and were not present in the 1,000 genomes database. We classified neoantigens based on their affinity in the following categories: strong if the binding affinity was <50 nM, medium if affinity was <100 nM, and

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weak if affinity was <500 nM. We performed canonical pathway comparison of neoantigens genes discovered in FAP and LS polyps with IPA. Selected pathways with P-values <0.05 were plotted. We assessed the difference in the number of neoantigens among FAP, LS non-hypermutant and hyper-mutant polyps, and LS carcinomas using Kruskal-Wallis test and Dunn’s multiple comparison test.

Analysis of the expression colorectal tumors from TCGA

A total of 47 CRC (6 hyper-mutants and 41 non-hypermutants) were downloaded from The Genomics Data Commons16. Mutation calls were performed using Mutect2 and following standard practices by TCGA17.

Immunohistochemistry

Formalin Fixed Paraffin Embedded (FFPE) specimens from 12 LS and 7 FAP polyps were cut into 5-μm sections and mounted on glass slides. CD4 (clone 4B12; dilution 1:80; Leica Biosystems) and FOXP3 (clone 206D; dilution 1:50; BioLegend) stainings were performed according to standard protocols.

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