Table 1.

Neoantigens recognized by T lymphocytes from 75 patients with GI cancers

Patient ID*Tumor typeNumber of variant transcripts screened/total variant transcriptsCD8+ reactivitiesCD4+ reactivities
3942 (32)Colorectal131/150NUP98(A359D), KARS(D328H)GPD2(E426K)
3971 (32)Colorectal51/116CASP8(F126V)
3995 (32)Colorectal57/67TUBGCP2(P293L), RNF213(N1702S), KRAS(G12D)
4007 (32)Colorectal124/142SKIV2L(R653H), H3F3B(A48T)
4032 (32)Colorectal92/112API5(R189Q), RNF10(E572K), PHLPP1(G566E)
4060Colorectal56/86SMC1A(R192W)
4071Colorectal53/188QSOX2(R524W)
4072Colorectal45/93VPS51(Y348C), NEDD9(A728T)
4081Colorectal93/110ALDOC(R69H)
4090Colorectal80/84RPS15(R43Q)MRPL39(L189V)
4095 (20)Colorectal55/118KRAS(G12D)
4108Colorectal141/438SH3BP2(S130I)
4115Colorectal111/162PTBP1(N112K), YWHAG(R86W)
4141Colorectal111/134MPI(L408R)
4151Colorectal73/88
4160Colorectal139/148APMAP(K195T), RNF43(P160L)
4166Colorectal134/152NPLOC4(I473V)
4171Colorectal114/133SIN3A(N520I)PRMT3(I380S)
4182Colorectal81/85ETV6(V265M)
4196Colorectal164/223TP53(R175H)GTF2E1(S334F)
4207Colorectal29/42
4211Colorectal89/94RAB1A(I72S)
4213Colorectal174/245DDX1(S362F), SMAD5(P268delinsPKH)
4214Colorectal129/159NCK1(K24R), MCU(D123Y)
4217Colorectal159/265MUC4(R4435S)UEVLD(F191V), RAD51B(L321R), MAP3K2(S153F)
4223Colorectal145/204
4232Colorectal33/58
4235Colorectal103/123GALK(A249V)
4236Colorectal139/158ADAR(I723T)
4238Colorectal93/102NCKAP1(D438Y), CYFIP1(I121V)CSNK1E(R340W)
4239Colorectal93/99
4241Colorectal76/80CCAR2(R417W), MED14(Q226R)CCAR2(R417W), MED14(Q226R), ATM(D899H)
4245Colorectal189/256NBEAL2(R371C)FAM129B(R493W)
4246Colorectal117/123ARMC9(L146F), MYO5B(K1410Q)
4252Colorectal235/467ENDOG(V121L), NUP85(G349D), SLC2A1(I272V)EXPH5(P1490T), SMU1(L346V)
4255Colorectal86/89DDX21(R634H)
4257Colorectal154/166PPL(T922I), NAV2(R496Q)
4259Colorectal143/154TP53(Y220C)TP53(Y220C)
4262Colorectal212/218NAMPT(I178T)GNG5(A21T)
4263Colorectal120/130
4266Colorectal129/140TP53(R248W), ECI2(N352I)NFASC(H1031Y), FAM208B(D677E)
4268Colorectal85/91RNF149(D372H), USP37(D100Y)KRAS(G12R)
4271Colorectal117/119CPSF6(G178E), WDFY1(E44K), DHTKD1(V643I)CHD2(K1351R), USP47(F1156L)
4273Colorectal117/124TP53(R248W)
4274Colorectal96/101TARS(R689C), ICAM2(E159K), BOD1(Q58K)
4275Colorectal81/88GPATCH8(R954H)WLS(R445G)
4278Colorectal137/150COPS2(P42L, P308L)
4283Colorectal154/161DNMT3A(P282S)MUC6(V307M)
4284Colorectal203/219CYP2E1(L101F)RPL8(R241H), DDX47(E175K)
4285Colorectal208/354TP53(R175H), ATP6VOB(Y88F)
4289Colorectal86/105RAD21(D162V)
3737 (32)Bile duct22/29ERBB2IP(E805G)
3812 (32)Bile duct44/54
3978 (32)Bile duct32/67ITGB4(S1002I)
4077Bile duct34/41HIST1H2BE(E72V)
4107Bile duct18/22
4110Bile duct121/208TES(K62N)HYDIN(G4555V), ACLY(R794W)
4112Bile duct205/931NBAS(C144S)EIF4A3(D169Y)
4200Bile duct36/45HIPK1(N66T)
4203Bile duct54/74TUBGCP6(R611Q), ECE2(A40T)
4220Bile duct94/208
4230Bile duct61/67
4272Bile duct145/155RSU1(P150T)
4069 (32)Pancreatic13/34ZFYVE27(R6H)
4114Pancreatic23/30TP53(C135R), NTN1(596_597del)
4145Pancreatic57/64IFI16(A577T)
4231Pancreatic41/41
4247Pancreatic55/61
4265Pancreatic97/99PRPF6(S261T)ATP11B(C705R)
4270Pancreatic66/78MCAT(Q121K)KRAS(G12R)
4078Stomach84/107
4242Stomach151/177CDC42BPA(D428Y)GOLGB1(E255G)
4251Stomach143/161HNRNPU(F580I), RNF213(P4766H)FMOD(S332N), TRAFD1(R11L)
3948 (32)Esophageal78/92PLEC(E1289K), XPO7(P274S), AKAP2(Q329K)
4264Esophageal147/160CCNYL1(H84Y)
  • *The patient ID number is followed by a reference number in parentheses if data from the indicated patient has been previously published.