Table 3 Table with the immune cells marker genes for ssGSEA

B cells

MS4A1; TCL1A; HLA-DOB; PNOC; KIAA0125; CD19; CR2; IGHG1; FCRL2; BLK; COCH; OSBPL10; IGHA1; TNFRSF17; ABCB4; BLNK; GLDC; MEF2C; IGHM; FAM30A; SPIB; BCL11A; GNG7; IGKC; CD72; MICAL3; BACH2; IGL@; CCR9; QRSL1; DTNB; HLA-DQA1; SCN3A; QRSL1; SLC15A2

T cells

PRKCQ; CD3D; CD3G; CD28; LCK; TRAT1; BCL11B; CD2; TRBC1; TRA@; ITM2A; SH2D1A; CD6; CD96; NCALD; CIMAP5; CD3E; SKAP1

T helper cells

ICOS; LRBA; ITM2A; FAM111A; PHF10; NUP107; SEC24C; NAP1L4; BATF; ASF1A; FRYL; FUSIP1; TRA@; PRA1; UBE2L3; ANP32B; DDX50; C13orf34; PPP2R5C; SLC25A12; ATF2; CD28; GOLGA8A

Tcm

CDC14A; ATM; USP9Y; PCNX; FOXP1; KLF12; ST3GAL1; INPP4B; CASP8; MLL; PCM1; RP11-74E24.2; PHC3; NFATC3; LOC202134; TIMM8A; ATF71P; REPS1; PSPC1; RPP38; HNRPH1; STX16; CYLD; SNRPN; TRAF3IP3; NEFL; POLR2J2; AQP3; CG030; PDXDC2; CLUAP1; DOCK9; CYorf15B; CREBZF; CEP68; TXK; SLC7A6; FYB; MAP3K1

Tem

TRA@; PRKY; VIL2; GDPD5; CCR2; MEFV; C7orf54; FLI1; TBC1D5; DDX17; AKT3; EWSR1; TBCD; CCR2; NFATC4; LTK

Th1 cells

IFNG; LTA; APBB2; APOD; ZBTB32; CD38; CSF2; CTLA4; CD70; DPP4; EGFL6; BST2; DUSP5; LRP8; IL22; DGKI; CCL4; DPP4; GGT1; LRRN3; SYNGR3; ATP9A; BTG3; CMAH; HBEGF; SGCB

Th2 cells

PMCH; AHI1; PTGIS; CXCR6; EVI5; IL26; MB; NEIL3; GSTA4; PHEX; SMAD2; CENPF; ANK1; ADCY1; AI582773; LAIR2; SNRPD1; MICAL2; DHFR; WDHD1; BIRC5; SLC39A4; HELSS; LIMA1; CDC25C; CD27; GATA3

TFH

CHI3L2; CXCL13; MYO7A; CHGB; ICA1; HEY1; CDK5R1; ST8SIA1; PDCD1; BLR1; KIAA1324; PVALB; TSHR; C18orf1; TOX; SLC7A10; SMAD1; POMT1; PASK; MKL2; PTPN13; KCNK5; ZNF764; MAF; MYO6; SIRPG; THADA; MAGEH1; B3GAT1; SH3TC1; HIST1H4K; STK39

Th17 cells

IL17A; IL17RA; RORC

TReg

FOXP3

CD8 T cells

CD8B; CD8A; PF4; PRR5; SF1; LIME1; DNAJB1; ARHGAP8; GZMM; SLC16A7; SFRS7; APBA2; C4orf15; LEPROTL1; ZFP36L2; GADD45A; MYST3; ZEB1; ZNF609; C12orf47; THUMPD1; VAMP2; ZNF91; ZNF22; TMC6; DNAJB1; FLT3LG; CDKN2AIP; TSC22D3; TBCC; RBM3; ABT1; C19orf6; CAMLG; PPP1R2; AES; KLF9; PRF1

Tgd

TRD@; TARP; C1orf61; TRGV9; CD160; TARP; FEZ1

Cytotoxic cells

KLRD1; KLRF1; GNLY; CTSW; KLRB1; KLRK1; NKG7; GZMH; SIGIRR; ZBTB16; RUNX3; APOL3; APBA2; WHDC1L1; DUSP2; GZMA

NK cells

LOC643313; GAGE2; ZNF747; XCL1; XCL2; AF107846; SLC30A5; NM_014114; MCM3AP; TBXA2R; CDC5L; LOC730096; FUT5; FGF18; MRC2; RP5-886K2.1; SPN; PSMD4; PRX; FZR1; ZNF205; AL080130; ZNF528; MAPRE3; BCL2; NM_017616; ARL6IP2; PDLIM4; NM_014274; LDB3; ADARB1; SMEK1; TCTN2; TINAGL1; IGFBP5; ALDH1B1; NCR1

NK CD56dim cells

KIR3DL2; SPON2; KIR2DL3; GZMB; KIR3DS1; KIR3DL1; FLJ20699; TMEPAI; IL21R; KIR2DS5; KIR2DS2; GTF3C1; KIR2DS1; EDG8

NK CD56bright cells

DUSP4; RRAD; XCL1; PLA2G6; NIBP; FOXJ1; MADD; BG255923; MPPED1; MUC3B

DC

CD209; CCL17; HSD11B1; CCL13; CCL22; PPFIBP2; NPR1

iDC

CD1B; VASH1; F13A1; MMP12; FABP4; CLEC10A; SYT17; MS4A6A; CTNS; GUCA1A; CARD9; CD1E; ABCG2; CD1A; PPARG; PAP1GAP; SLC7A8; GSTT1; NM_021941; FZD2; CSF1R; HS3ST2; CH25H; LMAN2L; SLC26A6; BLVRB; NUDT9; PREP; TM7SF4; TACSTD2; CD1C

aDC

CCL1; EBI3; INDO; LAMP3; OAS3

pDC

IL3RA

Eosinophils

IL5RA; KCNH2; TKTL1; EMR1; KCNH2; CCR3; ACACB; THBS1; GALC; RNU2; CLC; HIST1H1C; CYSLTR2; HRH4; RNASE2; CAT; LRP5L; SYNJ1; THBS4; GPR44; KBTBD11; HES1; ABHD2; TIPARP; SMPD3; MYO15B; TGIF1; RRP12; IGSF2; HES1; RCOR3; EPN2; C9orf56; SIAH1

Macrophages

MARCO; CXCL5; SCG5; SULT1C2; MSR1; CTSK; PTGDS; COLEC12; GPC4; PCOLCE2; CHIT1; KAL1; CLEC5A; ME1; DNASE2B; CCL7; FN1; CD163; GM2A; SCARB2; BCAT1; RAI14; COL8A2; APOE; CHI3L1; ATG7; CD84; FDX1; MS4A4A; SGMS1; EMP1; CYBB; CD68

Mast cells

PRG2; CTSG; TPSAB1; SLC18A2; TPSAB1; MS4A2; CPA3; TPSB2; NM_003293; GATA2; HDC; LOH11CR2A; SIGLEC6; ELA2; CMA1; PGDS; MLPH; ADCYAP1; SLC24A3; CALB2; KIT; ABCC4; PPM1H; MAOB; HPGD; SCG2; PTGS1; CEACAM8; MPO; NR0B1; LOC339524

Neutrophils

CSF3R; CYP4F3; VNN3; FPRL1; KCNJ15; MME; IL8RA; IL8RB; FCGR3B; DYSF; FCAR; CEACAM3; FPRL1; HIST1H2BC; HPSE; FLJ11151; CREB5; S100A12; TNFRSF10C; SLC22A4; KIAA0329; SLC25A37; BST1; FCAR; CEACAM3; CRISPLD2; G0S2; SIGLEC5; CD93; MGMA; ALPL; FPR1; PDE4B; LILRB2