Table S10. Gene Set Enrichment Analyses results for HLA I MANA burden high vs low group at during treatment. ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GeneSets,pval,padj,log2err,ES,NES,size,Leading Edge 1,Leading Edge 2,Leading Edge 3,Leading Edge 4,Leading Edge 5,Leading Edge 6,Leading Edge 7,Leading Edge 8,Leading Edge 9,Leading Edge 10,Leading Edge 11,Leading Edge 12,Leading Edge 13,Leading Edge 14,Leading Edge 15,Leading Edge 16,Leading Edge 17,Leading Edge 18,Leading Edge 19,Leading Edge 20,Leading Edge 21,Leading Edge 22,Leading Edge 23,Leading Edge 24,Leading Edge 25,Leading Edge 26,Leading Edge 27,Leading Edge 28,Leading Edge 29,Leading Edge 30,Leading Edge 31,Leading Edge 32,Leading Edge 33,Leading Edge 34,Leading Edge 35,Leading Edge 36,Leading Edge 37,Leading Edge 38,Leading Edge 39,Leading Edge 40,Leading Edge 41,Leading Edge 42,Leading Edge 43,Leading Edge 44,Leading Edge 45,Leading Edge 46,Leading Edge 47,Leading Edge 48,Leading Edge 49,Leading Edge 50,Leading Edge 51,Leading Edge 52,Leading Edge 53,Leading Edge 54,Leading Edge 55,Leading Edge 56,Leading Edge 57,Leading Edge 58,Leading Edge 59,Leading Edge 60,Leading Edge 61,Leading Edge 62,Leading Edge 63,Leading Edge 64,Leading Edge 65,Leading Edge 66
AYERS.EXPANDED.IMMUNE [1],0.150501672,0.616812301,0.145516146,-0.551169892,-1.330064047,18,GZMB,IDO1,CXCL10,LAG3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BELTRA.TEX.PROG.1 [2],0.563218391,1,0.080202344,0.401480374,0.921961634,10,CXCR5,IL7R,TCF7,SELL,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BELTRA.TEX.TERM [2],0.938811189,1,0.042417005,-0.272185185,-0.596408616,11,LAG3,CD38,NFATC1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BIOCARTA_BCR_PATHWAY,1,1,0.061570676,0.160179641,0.506031199,33,ELK1,RAC1,CD79A,RAF1,MAPK3,MAP2K1,MAPK8,NFATC4,NFATC3,CALM2,PRKCB,CALM1,PPP3CB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BIOCARTA_CCR3_PATHWAY,0.799657534,1,0.04879897,-0.319016499,-0.75192848,16,GNAS,PPP1R12B,PLCB1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BIOCARTA_CXCR4_PATHWAY,0.150990099,0.616812301,0.179782316,0.468301242,1.267666486,18,PIK3R1,CXCR4,CXCL12,RAF1,MAPK3,MAP2K1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BIOCARTA_DC_PATHWAY,0.724324324,1,0.055710423,-0.385118655,-0.799019716,9,CD7,CD40,IFNG,ITGAX,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BIOCARTA_MONOCYTE_PATHWAY,0.208112875,0.616812301,0.125033368,-0.583004197,-1.246024561,10,CD44,SELE,ICAM1,ITGB2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
BIOCARTA_THELPER_PATHWAY,0.638111888,1,0.060248409,-0.384466252,-0.857484359,12,ICAM1,ITGB2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
CALABRO.LYMPHOCYTE.INFILTRATION [3],0.336492891,0.84854729,0.112378519,0.415016179,1.08030512,15,MS4A1,CD79A,CD19,CD14,LTB,CD3G,CD3E,CD3D,CD8A,IGLC1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
Cancer.Testis.Antigens,0.011459985,0.132935831,0.380730401,-0.774598145,-1.655508347,10,MAGEC1,MAGEA1,PASD1,MAGEA4,MAGEA10,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"CRISTESCU.T.GEP {Cristescu, 2018 #77}",0.254180602,0.670112496,0.10797236,-0.492290219,-1.187977664,18,IDO1,CD274,LAG3,CD276,CXCL9,PSMB10,HLA-DQA1,STAT1,HLA-DRB1,NKG7,CMKLR1,HLA-E,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
Endogenous.Retroviruses,0.537037037,1,0.076873673,0.52392678,0.942600382,4,ERVFRD-1,ERVK3-1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GALON.IMMUNOLOGIC.CONSTANT.OF.REJECTION [5],0.169435216,0.616812301,0.135740944,-0.540589645,-1.294889204,17,GZMB,CX3CL1,CXCL10,ICAM1,PRF1,CXCL9,IFNG,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE16385_MONOCYTE_VS_MACROPHAGE_DN [6],0.126566416,0.611737678,0.136490438,-0.346380067,-1.206596671,149,NCAM2,MMP16,CPA2,ASB14,TRIL,ACER3,RASGRP3,PNMT,CTTN,CTSE,MYOD1,ASB4,EFCAB1,ELAVL2,PPTC7,ITGA6,CCSER1,EDIL3,NAALADL2,ATXN7L3B,PAN3,MFAP3,GRIA2,SEMA3E,TIAM2,IGF2BP2,SYN2,MGAT5,CHODL,ITGB1BP2,NAV1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE16385_MONOCYTE_VS_MACROPHAGE_UP [6],0.671084337,1,0.040740353,-0.256768763,-0.90910406,167,FABP7,EIF3E,GJC2,SGIP1,BFSP1,WDFY1,KATNB1,MOG,GM2A,AIM2,BEX2,LYRM4,SORCS2,SOX1,FHIT,SERTAD4,GPCPD1,FBXO46,STK11IP,ENC1,SLC7A5,AFAP1L1,SAPCD1,RANBP17,ZNF414,CDKL1,SRRM4,AFF2,ARSJ,CPNE4,GPRC5B,LMLN,SOD2,NCOA7,SH3BGRL,CAPS2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE1740_UNSTIM_VS_IFNA_STIMULATED_MCSF_IFNG_DERIVED_MACROPHAGE_DN [7],0.364779874,0.881551363,0.184706471,0.242517129,1.028314892,180,RABEPK,TMEM176A,JTB,NPRL2,CMTM8,AIFM1,METTL7A,LINC00884,KCTD6,ZFP36L1,CCL17,VKORC1L1,PIK3CD,FH,SURF1,COMMD1,ACAD9,MAOA,C2orf69,DHX33,TSPAN33,XPA,MRPL34,NUP85,TMEM71,MTCP1,VPS26B,TUBG1,PET117,CHST7,PRPS1,SNX17,CCL26,COMMD3,LAGE3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE1740_UNSTIM_VS_IFNA_STIMULATED_MCSF_IFNG_DERIVED_MACROPHAGE_UP [7],0.996216898,1,0.023579309,-0.179963907,-0.625090564,141,PTP4A3,PDLIM4,KIF13A,ARHGEF17,EMP1,BTN2A3P,BAK1,TJP1,PHLDA2,FAT1,KLK13,CREB5,GRIN3A,HIVEP3,ZNF208,AMN1,CLCN7,SCPEP1,HMGA2,LINC01013,IGHG1,ADCY4,HM13,RBCK1,LGMN,RTP4,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE5099_CLASSICAL_M1_VS_ALTERNATIVE_M2_MACROPHAGE_DN [8],0.005349075,0.103415441,0.407017919,-0.430909705,-1.50515551,147,CUBN,ADAMTS1,LRRN1,GALNT7,TFF3,ELAVL4,PPEF1,ZBTB12,SOX4,OSBPL5,CTTN,CDK6,PLCH1,CBX5,CORIN,GAS7,TRDMT1,MARCKSL1,RGMA,HOXA10,SORT1,FZD1,GLI4,KIR2DL4,DBN1,DLAT,TSPAN11,CHSY1,PALLD,CDSN,EVC2,HOXA9,KRTAP5-2,FBLL1,DDX5,MBD6,CEP97,AEBP1,COL7A1,HOXA7,GPR4,PDE10A,QSER1,,,,,,,,,,,,,,,,,,,,,,,
GSE5099_CLASSICAL_M1_VS_ALTERNATIVE_M2_MACROPHAGE_UP [8],0.752369668,1,0.034641017,-0.246394041,-0.877335567,186,HLA-G,PGAP1,S100B,RGS16,SEMA3A,ZNF883,ZNF229,STIM2,RPS18,BMS1,TRIM69,POLR3E,ATP10A,BAG3,UBALD2,PABPC1,HLA-J,ZNF16,SPIN3,IKZF4,EEF1G,PDE4B,RPLP2,P4HA1,FBLN7,MPP7,RPLP1,E4F1,RPL30,RPL12,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE5099_MONOCYTE_VS_ALTERNATIVE_M2_MACROPHAGE_DN [8],0.971910112,1,0.099927697,0.187781424,0.790881274,158,STYXL1,WDR33,HIBCH,CPT1A,CASP9,LINC01146,TMA7,SERP1,PER1,MALT1,ZBTB18,NCKIPSD,EYA3,C1D,TUBE1,PHF8,BET1,RASL11A,SUCLA2,SMAP2,SIRT3,GTF2A2,LINC00607,DNAJB2,CEP104,POMGNT2,HEMK1,NIN,OR7D2,ZNF439,CRKL,ZNF277,TRANK1,DSN1,STON2,MAGI3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE5099_MONOCYTE_VS_ALTERNATIVE_M2_MACROPHAGE_UP [8],0.598503741,1,0.047543419,-0.270433297,-0.94236169,143,PGAM2,NEURL1,SDK2,PPEF1,TRPM3,NEFH,NEFM,CORIN,SCG2,OLIG2,GAS5,TSPY26P,LRP8,DLAT,STRA6,PRSS27,SNHG17,EVC2,ERP27,ZBTB45,HSF2BP,CCDC85A,COL7A1,GLB1L2,RABGGTB,AKIRIN2,STAG3L4,SLFN13,DNASE1L1,DCAF4,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
GSE5099_MONOCYTE_VS_CLASSICAL_M1_MACROPHAGE_DN [8],0.969084423,1,0.021796003,-0.206238053,-0.732028763,175,STX16,MAGED2,ENDOD1,CENPJ,ANKS3,GNAS,ATAT1,UNC5B,BAG3,SNRNP70,PLBD1,DTX2,CS,PHKA1,PROSER1,EPHA2,RHBDF2,DCAF13,SPEF2,PSPC1,HNRNPDL,EWSR1,UBE2V2,MARVELD1,RPL4,HIGD2A,AMPH,ZNF346,PRPF6,BRAP,RPS4X,PSAP,HSBP1,HLA-C,C12orf57,IER2,HSPH1,RASL11B,STUB1,SH2B2,DHX15,ALDH16A1,MICAL1,ETV6,EHD4,NEK3,NPM1,HSPA2,STRIP1,HLA-B,ZNRF1,ILF3,PANK4,CORO7,RPS8,FANCF,TBC1D9B,DIMT1,PRKAR1A,TUBA1A,ERGIC3,PRPF38A,KBTBD2,,,
GSE5099_MONOCYTE_VS_CLASSICAL_M1_MACROPHAGE_UP [8],0.894607843,1,0.027799559,-0.222251523,-0.780139503,154,HAPLN1,ELAVL4,MARK1,GFRA3,ARHGAP31,AKR1B15,DYNC2H1,PAQR8,CX3CL1,ZNF354B,TRIM36,RPS6KA2,STK32A,GAL3ST4,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_COMPLEMENT [9],7.77E-06,0.000450889,0.593325476,0.417836234,1.76473296,181,CLU,DPP4,LTF,F5,CFB,CP,C4BPB,CDA,MSRB1,HPCAL4,SERPINE1,ADRA2B,CTSL,SERPINC1,C1S,ITIH1,SERPINB2,F10,CTSV,CASP9,CFH,SERPINA1,C9,C3,S100A9,CA2,C1R,PPP4C,APOC1,F2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_IL2_STAT5_SIGNALING [9],0.113924051,0.611737678,0.341793381,0.268824576,1.136239632,186,GSTO1,SNX9,AMACR,FAH,SH3BGRL2,ABCB1,PTH1R,CDCP1,GPX4,UMPS,SERPINC1,PLIN2,XBP1,GABARAPL1,ENPP1,ECM1,DHRS3,IRF6,LIF,TWSG1,PNP,CA2,IL1R2,SLC1A5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_IL6_JAK_STAT3_SIGNALING [9],0.861003861,1,0.085288469,0.220167705,0.825129709,81,LEPR,MYD88,IL1R2,TNFRSF1A,CSF3R,IL6ST,TNFRSF12A,IL18R1,IL1B,IFNAR1,IL7,IL13RA1,IRF9,CD36,IL10RB,CXCL3,FAS,STAT3,CSF2RA,IL1R1,CSF2,IFNGR1,PTPN2,PDGFC,PF4,CD14,LTB,TNFRSF1B,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_INFLAMMATORY_RESPONSE [9],0.873671783,1,0.027096742,-0.227669308,-0.811189209,184,PCDH7,ICAM4,ATP2A2,BEST1,GABBR1,HBEGF,RGS16,MYC,RIPK2,CX3CL1,CXCL10,LDLR,IFITM1,TNFSF9,SELE,ICAM1,NDP,INHBA,PDE4B,HAS2,TNFAIP6,MEP1A,MSR1,OSMR,ATP2B1,ADORA2B,CD70,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_INTERFERON_ALPHA_RESPONSE [9],0.459709379,1,0.062523741,-0.304641862,-1.009729357,95,RIPK2,CXCL10,LGALS3BP,IFITM1,BATF2,GMPR,B2M,IFIT3,MX1,HLA-C,LPAR6,IFI27,PARP12,TAP1,RNF31,NCOA7,RTP4,CXCL11,IFI44L,RSAD2,CMPK2,IL15,ISG15,CD47,CMTR1,GBP2,BST2,SAMD9L,TRAFD1,DDX60,HERC6,IFI30,IFI44,IRF7,ELF1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_INTERFERON_GAMMA_RESPONSE [9],0.928066038,1,0.023791589,-0.21790309,-0.779212744,195,HLA-G,HLA-A,ARID5B,RIPK2,IDO1,CXCL10,IL18BP,CD274,LGALS3BP,MX2,BATF2,ICAM1,PML,SLAMF7,PDE4B,PTPN1,TNFAIP6,B2M,CD38,IFIT3,VAMP5,MX1,LATS2,IFI27,PARP12,SSPN,BPGM,TAP1,CD40,SOD2,RNF31,RBCK1,RTP4,TNFAIP2,FCGR1A,CXCL11,IFI44L,RSAD2,CSF2RB,OAS2,IRF4,CMPK2,SOCS1,CXCL9,XAF1,OAS3,IL15,ISG15,CMTR1,TAPBP,BST2,SAMD9L,HLA-B,TRAFD1,DDX60,HERC6,GBP6,IFI30,IFI44,ZNFX1,IRF7,,,,,
HALLMARK_PROTEIN_SECRETION [9],0.204081633,0.616812301,0.199915231,0.294179409,1.133748505,95,SOD1,EGFR,RER1,KRT18,BNIP3,TPD52,TOM1L1,AP3S1,NAPG,VPS4B,TMED2,SCRN1,ARFGAP3,SGMS1,LMAN1,BET1,VAMP3,RAB14,LAMP2,CLN5,CAV2,AP2S1,COPB1,ZW10,AP1G1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_TGF_BETA_SIGNALING [9],0.517094017,1,0.060509299,-0.320739878,-0.962857791,51,NCOR2,WWTR1,APC,JUNB,TJP1,BCAR3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_UV_RESPONSE_DN [9],0.969849246,1,0.024849388,-0.20365943,-0.706305427,134,MMP16,ZMIZ1,SCHIP1,MYC,DLC1,LAMC1,LDLR,LTBP1,TJP1,MAP1B,CACNA1A,ARHGEF9,COL11A1,HAS2,ATP2B4,ABCC1,AMPH,IGF1R,MAP2K5,GJA1,ATP2B1,ADORA2B,NEK7,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
HALLMARK_UV_RESPONSE_UP [9],0.741813602,1,0.038162891,-0.251515182,-0.872050329,136,NPTXR,COL2A1,NPTX2,E2F5,OLFM1,FOSB,KCNH2,JUNB,HSPA13,MAPK8IP2,NXF1,BSG,BAK1,ICAM1,DDX21,AMD1,STIP1,CLTB,TYRO3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION [10],0.100141044,0.611737678,0.165656695,-0.415073635,-1.304774513,67,HLA-G,HLA-A,HSP90AB1,CANX,NFYA,KIR3DL1,KIR2DL4,B2M,PDIA3,KIR3DL2,HLA-C,TAP2,TAP1,LGMN,RFX5,HSPA2,TAPBP,CTSS,RFXAP,HLA-B,HLA-F,IFI30,HSPA1B,KLRC3,HLA-DQA1,PSME3,KIR2DL2,HLA-DMB,CD74,HLA-DRB1,HLA-DOA,HSPA4,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_B_CELL_RECEPTOR_SIGNALING_PATHWAY [10],0.992805755,1,0.073990144,0.171735375,0.63050213,73,PIK3CD,MALT1,PIK3R1,CHP1,BLNK,VAV2,RAC1,CD79A,CD19,PLCG2,AKT2,FCGR2B,RAF1,MAPK3,MAP2K1,PIK3R2,PIK3AP1,CHUK,CD22,IKBKG,BCL10,NFATC4,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_CYTOKINE_CYTOKINE_RECEPTOR_INTERACTION [10],0.195945946,0.616812301,0.266350657,0.252834715,1.08694507,207,LEPR,OSM,EGFR,TNFRSF10D,LEP,CCL16,TNFRSF11B,IL6R,GHR,CXCR1,CCR3,CXCR2,TNFSF14,CCL17,LIF,CCL19,CX3CR1,CCL13,CCR6,TNFRSF13C,TSLP,IL1R2,CXCR4,CCR4,IL23A,CXCR5,TNFSF15,CCR2,CCL14,TNFRSF1A,AMHR2,IL7R,CSF3R,IL1RAP,IL6ST,EPO,CXCL12,EPOR,TNFRSF12A,CCL26,TNFRSF10A,IL18R1,IL1B,EDAR,IFNAR1,IL7,TNFSF10,FLT3,IL13RA1,TNFSF12,BMP7,GDF5,PRLR,PDGFRB,IFNLR1,HGF,CCL20,KIT,TNFRSF10C,CSF1R,LIFR,IL10RB,,,,
KEGG_FC_GAMMA_R_MEDIATED_PHAGOCYTOSIS [10],0.030463576,0.294481236,0.300682129,-0.428856802,-1.412167403,90,PLA2G4F,ASAP1,PLA2G6,DNM3,GAB2,MARCKSL1,PLA2G4E,LIMK2,MYO10,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_LEUKOCYTE_TRANSENDOTHELIAL_MIGRATION [10],0.810344828,1,0.036454854,-0.244962779,-0.810796449,94,MYLPF,JAM3,MMP9,VCL,PTK2,PXN,MSN,MAPK11,PTPN11,CTNNA3,ICAM1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_NATURAL_KILLER_CELL_MEDIATED_CYTOTOXICITY [10],0.951093951,1,0.027166977,-0.212315642,-0.72201699,113,HLA-G,CHP2,HLA-A,GZMB,KIR3DL1,KIR2DL4,PTPN11,BRAF,ICAM1,SOS1,KIR3DL2,HLA-C,PRF1,NCR1,ITGB2,PIK3R3,NFATC2,PLCG1,NFATC1,IFNG,SOS2,NFAT5,SHC4,SHC3,HLA-B,KRAS,PIK3CB,FASLG,RAET1E,ULBP1,SH2D1B,KLRC3,SHC1,PAK1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_T_CELL_RECEPTOR_SIGNALING_PATHWAY [10],1,1,0.082434409,0.136004725,0.533601414,102,PIK3CD,MALT1,PIK3R1,DLG1,CHP1,NCK2,CTLA4,VAV2,CDC42,GRAP2,AKT2,RAF1,MAPK3,MAP2K1,ITK,PIK3R2,CSF2,CD40LG,CDK4,PAK2,CHUK,CD8B,IKBKG,BCL10,NFATC4,LCP2,RHOA,NFATC3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KEGG_TGF_BETA_SIGNALING_PATHWAY [10],0.119079838,0.611737678,0.147331214,-0.39184356,-1.259872288,78,ID4,BMPR1B,E2F5,PITX2,MYC,THBS2,BMP8A,LTBP1,BMP8B,TGFB2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
KHAN.T.EXHAUSTION [11],0.387724551,0.899520958,0.077274697,-0.3679072,-1.04152611,38,ASAP1,ARID5B,SRCAP,IKZF2,DNMT3A,ZBED4,PARP12,UBR5,BAZ1A,OAS2,ISG15,TET2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
PID_CD8_TCR_DOWNSTREAM_PATHWAY [12],0.223328592,0.616812301,0.105920293,-0.392736764,-1.18740514,52,HLA-A,GZMB,JUNB,TNFRSF4,TNFRSF18,BRAF,B2M,JUN,PRF1,NFATC2,TNFRSF9,NFATC1,EGR1,IFNG,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
PID_TCR_PATHWAY [12],0.992927864,1,0.029777461,-0.187664712,-0.582833851,63,GAB2,PTPN11,ORAI1,IKBKB,SOS1,PAG1,FLNA,CD80,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
REACTOME_CD28_CO_STIMULATION [13],0.85915493,1,0.068956735,0.241792002,0.763856732,33,PIK3R1,YES1,CDC42,RAC1,TRIB3,GRAP2,AKT2,MTOR,PRR5,PIK3R2,PAK2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
REACTOME_CLASS_I_MHC_MEDIATED_ANTIGEN_PROCESSING_PRESENTATION [13],0.993506494,1,0.013718352,-0.192548155,-0.721002422,360,S100A1,ASB11,TRIM9,HLA-G,TRIM71,ASB5,ASB14,FBXL19,HLA-A,KBTBD13,CUL7,FBXL14,ASB4,FBXO40,TRIM36,MYLIP,ANAPC4,ASB1,CANX,TRIM69,ASB2,ASB12,FBXW8,RNF6,WSB1,RNF41,ITGAV,LY96,FBXL8,RNF115,ASB6,GAN,FBXL22,BTBD1,IKBKB,MGRN1,UBE3A,TRIM41,UBE2V2,B2M,UBE2E3,PJA1,PDIA3,SIAH1,RLIM,UBR1,FBXW11,UBE2O,HLA-C,HERC2,CCNF,MIB2,TAP2,MKRN1,FCGR1B,FBXW9,TAP1,HECTD2,STUB1,SH3RF1,RBCK1,UBOX5,CYBA,KBTBD6,UBE2V1,FCGR1A
REACTOME_DOWNSTREAM_TCR_SIGNALING [13],0.000983295,0.02851556,0.455059867,0.438522028,1.690035665,95,PSMD5,PSMA2,PSMD9,PSMD11,MALT1,PIK3R1,UBB,PSMD6,PSMB7,PSMB2,PSMB1,TAB2,PSMB3,PSMA3,PSMA7,PSMD4,PSMD3,PSMB6,PSMB4,CDC34,PTEN,PSMA6,PSMD8,PSMA4,TRAV29DV5,TRAV8-4,PSME1,PIK3R2,PSMC3,PSMC6,PSMC4,CHUK,PSMD13,PSMD12,PSMA1,IKBKG,PSMC1,PSMB5,,,,,,,,,,,,,,,,,,,,,,,,,,,,
REACTOME_IMMUNOREGULATORY_INTERACTIONS_BETWEEN_A_LYMPHOID_AND_A_NON_LYMPHOID_CELL [13],0.857142857,1,0.029351919,-0.230770583,-0.813793481,164,COL2A1,HLA-G,ICAM4,HLA-A,NCR3LG1,IFITM1,KIR3DL1,IGLV1-47,IGHV2-70,KIR2DL4,ICAM1,SLAMF7,TREM2,LILRB4,IGKV3D-20,IGKV3-20,LAIR2,B2M,IGHV3-13,KIR3DL2,IGHV2-5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
REACTOME_MHC_CLASS_II_ANTIGEN_PRESENTATION [13],0.943152455,1,0.027799559,-0.214868904,-0.729105246,112,DYNC1I1,CTSE,DNM3,SH3GL2,CANX,TUBB1,KIF3A,KIFAP3,KIF5B,KIF20A,KLC2,KIF26A,CTSF,LAG3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
REACTOME_NEUTROPHIL_DEGRANULATION [13],0.074338657,0.53895526,0.287805131,0.248661274,1.152059309,415,LRG1,A1BG,LTF,CDA,ORMDL3,PLD1,FPR1,IDH1,CFP,PRDX4,METTL7A,FCAR,CXCR1,LAMTOR2,TOLLIP,CHRNB4,ORM1,HP,PSMA2,CXCR2,AGPAT2,SLC15A4,NIT2,SERPINA1,YPEL5,C3,SLC27A2,S100A8,SNAP29,DIAPH1,NME2,S100A9,PSMD11,PNP,GDI2,ALDOC,STOM,PLAC8,PSMD6,PSMB7,APEH,PSMB1,PGAM1,SIGLEC5,PRDX6,ORM2,BRI3,IQGAP2,ATP6V1D,GCA,SURF4,GGH,HSPA6,PPIA,RAB14,SLC2A3,PSMD3,LAMP2,C6orf120,DYNC1LI1,CD300A,,,,,
REACTOME_SIGNALING_BY_THE_B_CELL_RECEPTOR_BCR [13],0.052556916,0.435471588,0.321775918,0.299593967,1.259340932,150,PSMD5,PSMA2,PIK3CD,PSMD9,BLK,PSMD11,MALT1,PIK3R1,UBB,IGHD,IGLV1-51,PSMD6,IGLV2-11,PSMB7,PSMB2,PSMB1,PSMB3,PSMA3,BLNK,PSMA7,PSMD4,PPIA,PSMD3,PSMB6,CD79A,CD19,PLCG2,PSMB4,PSMA6,PSMD8,PSMA4,IGHV1-2,ITPR2,IGHM,PSME1,IGLV3-21,REL,PIK3AP1,IGKV1-12,PSMC3,PSMC6,PSMC4,IGKV5-2,CHUK,PSMD13,PSMD12,PSMA1,CD22,IKBKG,PSMC1,PSMB5,AHCYL1,IGHV3-53,BCL10,IGKV3-15,,,,,,,,,,,
REACTOME_TCR_SIGNALING [13],0.007566961,0.10972094,0.407017919,0.361747318,1.472959822,117,PSMD5,PSMA2,PSMD9,PSMD11,MALT1,PIK3R1,UBB,PSMD6,PSMB7,PSMB2,PSMB1,TAB2,PSMB3,PSMA3,PSMA7,PSMD4,PSMD3,PSMB6,PLCG2,PSMB4,CDC34,PTEN,GRAP2,PSMA6,PSMD8,PSMA4,TRAV29DV5,TRAV8-4,ITK,PSME1,PIK3R2,PSMC3,PSMC6,PSMC4,PAK2,CHUK,PSMD13,PSMD12,PSMA1,IKBKG,PSMC1,PSMB5,BCL10,LCP2,HLA-DQA2,,,,,,,,,,,,,,,,,,,,,
REACTOME_TNF_SIGNALING [13],0.951327434,1,0.033898419,-0.219371868,-0.633217169,41,SPPL2B,IKBKB,FADD,BIRC2,USP21,RNF31,RBCK1,MADD,NSMAF,OTUD7B,TAB1,TNF,TRAF1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
WOLF.IFNY [14],0.179080824,0.616812301,0.128142917,-0.50375713,-1.299054918,24,CXCL10,IFIT3,MX1,IFI27,TAP1,RTP4,IFI44L,RSAD2,OAS2,OAS3,ISG15,DDX60,HERC6,IFI44,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
WP_B_CELL_RECEPTOR_SIGNALING_PATHWAY,0.901055409,1,0.031133514,-0.230081576,-0.764184075,96,E2F3,CAMK2A,RASGRP3,MYC,GAB2,MEF2D,RAPGEF1,PTPN11,BRAF,IKBKB,PIP5K1C,SOS1,JUN,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
WP_CANCER_IMMUNOTHERAPY_BY_PD1_BLOCKADE,0.216216216,0.616812301,0.115240003,-0.487667346,-1.242993075,23,HLA-A,CD274,PTPN11,JUN,NFATC2,NFATC1,IFNG,NFAT5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
WP_TCELL_ANTIGEN_RECEPTOR_TCR_SIGNALING_PATHWAY,1,1,0.026394714,-0.115542584,-0.377496856,86,GAB2,RIPK2,PTPN11,IKBKB,SOS1,JUN,NFATC2,IRF4,PLCG1,TNFRSF9,NFATC1,CD83,PRKCD,MAPK14,SHC1,PAK1,IL1A,PSTPIP1,NCK1,FOS,MAPK9,VIM,FYN,CBL,ZAP70,SH2B3,VAV3,MAP2K2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
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*All gene sets were either obtained from the Molecular Signatures Database (MsigDB) v7.5.1 or from direct literature ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
Referrences:,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
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