Table 1 Enriched genes in immune cells

All T cells

Human: CD3G, CD3D, TRA, CD6, CD5, NPDC1, CD28, CAMK4, GFI1, GATA3, SH2D1A, TRB, TNFRSF25, NK4, TACTILE, BCL11B, CD3E, INPP4B, MAL, NPDC1, ITM2A, ITK, LCK, NFATC3, RORA, MGC19764, TCF7, ZAP70, LEF1, SPOCK2, PRKCQ, SATB1, RASGRP1, LRIG1, DPP4, CD3Z, PDE4D, FYN, WWP1, LAT, DUSP16, KIAA0748, CDR2, STAT4, FLT3LG, IL6ST

78–79

CD8+T cells

Human: FCGBP, C1ORF21, PHEMX, KLRG1, ZNF145, ADRB2, DUSP2, IL2RB, CCL5, GZMC, TBX21, CCL4L, GZMH, PRF1, GNLY, CST7, GPR56, KLRC1, S100B, D12S2489E, CD8B1, CD8A

79, 81, 82

T regulatory cells

Human: AKAP2, ANXA2, C8FW, CALM2, CDH13, ENTPD1, EPSTI1, F5, GBP2, GBP5, HS3ST3B1, HSPCA, ICA1, LAIR2, LGALS3, LOC51191, MKP-7, NINJ2, P53DINP1, PMAIP1, PTPLA, GPR2, HLA-DMA, HLA-DPA1, HLA-DPB1, HLA-DQB1, HLA-DRA, HLA-DRB4, HLA-DRB5, HPGD, PTT1, SAT, SHMT2, TMOD3, TNFRSF6, VIL2, LRRC32, CHAC1, EGR1, PYCR1, IL13, C3AR1, ZBED2, IL10, GAB3, NR4A1, IL1R2, ULBP1, IL17F, EIF4EBP1, RGS16, BCAT1, VEGFA, GIMAP1, GPR44, GPT2, PSPH, NLN, MS4A3, UCK2, TNIP3, TNFRSF9, IL7R, NR4A3, CSGALNA, CT1, SLC43A1, ZBTB32, SCFD2, HK2, C17ORF96, C1ORF186, LYZ, SFXN4, CYP1B1, SLC7A5, C17ORF58, SLC4A5, CD52, KLRB1, S100A4, POLA1, SLC7A1, ATPBD4, UBXN8, CASP8, FAIM3, IL12RB2, MPP7, ZNF831, BNIP3L, LRP8, UTRN, SOCS3, LY9, EVI2B, SFXN3, TNFRSF4, ING4, BLM, TNFSF11, SLFN5, CCR8, CD244, MYO1F, HOMER1, ATF3, AGPAT4, CTH, JAKMIP1, TFRC, RPL26L1, MICAL1, GPRASP1, TMX4, FYB, ZNF792, WDR4, HUWE1, CD83, TRIB2, LARP1B, SLC38A5, AUH, CTPS, CYTH1, APOL3, CHD6, IL1R1, LPCAT4, CITED2, DUSP4, SSBP2, LAYN, ZFAND2B, PIK3R1, GCNT4, PPP3CA, TIMP1, SIRPG, CCR3, PTP4A3, SERINC5, MAGOHB, GIMAP4, KLHL24, CCNG2, WDR70, MYBL1, CNPY4, TIMM8A, CCDC28A, MNAT1, MS4A2, GZMB, E2F5, HIBCH, C9ORF91, NHP2, CDC25B, VDR, CSF1, GPATCH4, NFKBID, TMCO7, EHBP1, FAM173B, FARS2, FLVCR2, NPM3, PNPO, P2RY8, TMEM63A, MXI1, MRTO4, SESN2, C1ORF38, STK38, SLC6A6, ALG14, LXN, TNFRSF18, ACSS1, UBA7, MTSS1, PSMA6, FAM8A1, RAB31, TNRC6B, SESN1, CEP68, LAPTM5, PLAGL2, LRRC33, EIF2B3, URB2, DDX21, ITGA4, RGS2, RORC, IFNAR2, CSDA, SORL1, LRRC37B, IL10RA, PRKACB, CBWD1, SMAD3, C1ORF96, FCER1A, HSP90AB1, EMG1

83–87

B cells

Human: PSEN2, FZD5, PLEKHF2, SIDT2, MTPN, TUBB6, FLJ21127, SMC6L1, KIAA1026, NUP88, GNA12, RNTRE, GSTZ1, RFX5, XYLT1, GL012, EPB41L2, LOC51760, SCRN1, PTD008, CYB561D2, SCAP2, MMP11, ERDJ5, TTC7A, PMAIP1, GARNL4, TMEPAI, SH3BP5, EDD, UCP4, EVI5L, PIK3C2B, SMAD3, LHFPL2, LOC57228, GM2A, HRK, ZNF207, LOC92497, F5, DMXL1, CLIC4, PRCP, DKFZP434C0328, STRBP, PHF16, JUP, TEAD2, PPP3CA, CNR2, ATP5B, ABCA1, BMF, ZCCHC7, KIAA0274, SLC22A3, SPI1, AMFR, ANXA4, EBF, ITPR1, HIST1H2BK, COPS3, COL14A1, SAV1, APOBEC3B, CCNG2, STAG3, LOC348938, POLD4, TBC1D1, MK2S4, APG4A, DAPP1, TNFRSF18, HERPUD1, POU2F2, ADK, CKIP-1, ACTA2, PARP14, MTSS1, DTX1, DDR1, RRAS2, RNF141, SYPL, SSPN, CORO1C, NFKBIE, CHD7, SP140, WDR34, BTNL9, ATP6V0A1, UROS, HLA-DOA, C22ORF13, IFI27, JMJD2B, WEE1, ODC1, KIAA0746, WDR11, SYNGR2, FOXP1, BLR1, MYO1E, MYBL2, GYLTL1B, SETBP1, KLF1, INPPL1, LOC54103, ZNF154, MHC2TA, CD24, ARHGEF3, BIRC3, TRIM56, HLA-DPB1, UVRAG, CD38, PEA15, FLJ10697, TLR10, ARHGAP10, HLA-DRA, SHMT2, LGALS9, FLJ10853, CEBPB, PRICKLE1, LCP21, CR1, KLHL14, TLR7, C20ORF72, HLA-DQB2, CORO1A, PRKCE HECW2, FLJ25604, TRIM26, FBXO41, GCNT1, LRMP, UBE2J1, IGKV3D, PCCA, GLDC, CYSLTR1, BTLA, NET5, HLA-DPA1, BLNK, CD79B, TM4SF8, TFEB, CD11ORF24,ADRBK2, CDKN2A, RIPK2, STX7, NCF4, SRGAP2, SLC2A5, CTSZ, AIM2, TCF4, TPD52, MAP3K8, MOBKL2B, HLA-DOB, IFIT3, MGC24039, BRD4, RALGPS2, SEMA4B, BSG,IGKC, HLA-DRB6, FUBP1, UNC84B, IFNGR2, HSPA5, HLA-DRB5, MARCKS, KYNU, PACAP, RHOBTB2, FLJ12363, TMED8, FGD2, FBXO10, IL4R, CD1C, MGC50844,MRPL49, CTSH, LYN, WASPIP, C3ORF6, EGR1, IGKV15, SPAP1, CHERP, IGHG3, ADAM28, HLA-DMA, HLA-DMB, PALM2-AKAP2, CD86, LAF4, LOC283663, FREB,DKFZP586A0522, UREB1, IGLL1, HLA-DQA2, KIAA1219, PLCG2, MARCH-1, BCNP1, PNOC, CD20, PSCD1, BCL11A, VPS28, SWAP70, SYK, BCL7A, NAP1L, TEM6, BTK,RAB30, FCGR2B, STAT6, BRDG1, LOC201895, ITGB1, CD74, CORO2B, VPREB3, HSPC182, MGC15619, RHOH, IGHA, CYBASC3, KIAA0125, RAM2, CD83, FCRH1, FLII,SNX10, IGHG1, EPHX1, FLJ10979, GTPAP, IGLL3, E2F5, TNFRSF17, BLK, FLJ00332, SNX2, CD200, HLA-DQB1, TRIO, CYBB, PIK3AP1, IRF4, CD22, BACE2, IGJ, PAX5,RGS13, TCL1A, MEF2C, C13ORF18, POU2AF1, HHEX, IRF8, BANK1, OSBPL10, SLC2A1, NCF1, IGL@, IGLC2, SPAP1, IGHG3, HLA-DMA, HLA-DMB, CD79A, HSPA6, IGHD,KIAA0476, SLC7A7, NKG7, CD19, SAMD9, LY86, SPIB, NAPSB, RNASE6, IGHM, LY64, CD72, IRTA2, CD1D, HLA-DQA1, SAS, CTSH, LYN, WASPIP, C3ORF6, EGR1, FREB,DKFZP586A0522

88, 79, 89

Resting NK cells

Human: IL18RAP, PRF1, GZMH, TKTL1

90–92

Macrophages

^aMurine: Pecr, Tmem195, Ptplad2, 1810011H11Rik, Fert2, Tlr4, Pon3, Mr1, Arsg, Fcgr1, Camk1, Pld3, Tpp1, Ctsd, Pla2g15, Lamp2, Pla2g4a, MerTK, Tlr7, Cd14, Tbxas1, Fcgr3, Fgd4, Sqrdl, Csf3r, Plod1, Tom1, Myo7a, A930030A15Rik, Sepp1, Glul, Cd164, Tcn2, Dok3, Ctsl, Tspan14

93–95

M1 macrophages

^aMurine: Cd38, Cfb, Slfn4, H2-Q6, Fpr1, Slfn1, Gpr18, Ccrl2, Fpr2, Cxcl10, Mpa2IOasl1, Tlr2, Ms4a4c, LOC100503664, Irak3, Hp, Itgal, Herc6, Cd300lf, Isf20, Pstpip2, Cp, Isg15, Herc6, Probe, 1452408_at, Ifi44, E030037K03, Rik, Saa3, Ifit1, Marco, F11r, Rsad2, Ddx60, Pilr1, Cpd, Gngt2, Mx1, Pyhin1, Epb4.1l3, Slfn8, Arhgap24, Nfkbiz, Gbp6, Stat1, Zpb1, D14Erd668e, Ddx58, Tuba4a, H2-T10, Ebi3, Fam176b, Xaf1, Stat2, Sepx1, Ifit2

96

M2 macrophages

^aMurine: Ptgs1, Egr2, Olfm1, Flrt2, P2ry1, Vwf, Amz1, Tmem158, Tiam1, Rhoj, Mmp9, Mrc1, Bcar3, Il6st, Tanc2, Mmp12, Tcfec, Clec71, Matk, Myc, Clec10a, Atp6v0a1, Lmna, Chst7, Atp6v0d2, Emp2, Socs6, Atp6v0a1, Plk2, Ptpla

96

Classical monocytes

Human: S100A12, ALOX5AP, PAD14, NRG1, MCEMP1, THBS1, CRISPLD2, F13A1, MOSC1, CYP27A1, CD163, QPCT, ADAM19, ASGR2, RNASE4, ALDH1A1, EDG3, PROK2, CLEC4D, S100A9, OSM, CSPG2, GALS2, ANG, VNN2, EBI2, UTS2, RPPH1, MGST1, IL8, CCR2, SELL, DYSF, MT1F, CD14, RANSE6, CSF3R, STAB1, CYP1B1, ADHFE1, PLA2G7, MMP25, ZNF395, SLC2A3, EGR1, CMTM2, CD9

97, 98

Intermediate monocytes

Human: GFRA2, NKG7, PLVAP, PLAC8, MARCKSL1, E2F2, G8P4, CLEC10A, SCD, COTL1, SLC29A1, DDIT4, TGM2, LILRA3, ATF5, GPA33, C1QC, EVA1, MERTK, MGLL, DDEFL1, MARCO, NR1H3, FBP1, ACP2, GBP1, GPBAR1, SASH1, OLFM1, TIMP1, HLA-DOA, CAMK1, POUFUT1, EPB4IL3, H19, ZNF703, SNX5, CLEC10, AK-ALPHA-1, DPB1, DHRS9, MTHFD2, RGL1, PRDM1, FADS1, SLC2A8, CSK, ISOC2, CD300C, FGD2

97, 98

Nonclassical monocytes

Human: C1QA, HES4, CDKN1C, C1QB, RHOC, CLEC4F, ADA, TAGLN, TCF7L2, CD798, CTSL, SFTPD, ABI3, SETBP1, FGFRL1, CD798, SPRED1, SNFT, EVL, MTSS1, SH2D1B, CYFIP2, NELF, STS-1, SIGLEC10, CKS1B, PTP4A3, LYPD2, SIDT2, INSIG1, LTB, PAPSS2, ABCC3, CASP5, VOM1, HSPB1, GNGT2, HMOX1, RRAS, RNF122, CDH23, FMNL2, RGS12, SGGB3A1, FER1L3, CALML4, IFITM3, CKB, CEACAM3, IFITM1

97, 98

Mature DC’s

Human: ACCL5, CXCL10, CCR7, IL15, IF127, IF144L, IFIH1, IFIT1, MX1, ISG15, ISG20, IRF7, GBP4, DUSP5, NFKB1A, ATF3, TNFSF10, IL6, IL8, IL7R, CCL4, TNFA1P6, IFIT3, OASL, GBP1, HES4, CYP27B1, RIPK2, TNFRSF9, SOD2, CD38, CD44, CD80, CD83, CD86, INDO MT2A, TRAF1, GADD45B, MT1M, MTIP2, BIRC3, USP18, TUBB2A, CCL8, EBI3, IFITM1, MT1B, MT1E, MT1G, MT1H, GADD45A, CD200, LAMP3, RGS1, SAT1

99, 100

Monocyte-derived DC’s

Human: CD1A, CD1B, CD1C, CD23A, MRC1, CD36, HLA-DQA, HLA-DP light chain, HLA-DG protein 41, RIL, RAP1GAP, CCND2, DUSP5, PPIC, STAC, PRKACB, TRIB2, SHB

99–101

Mature neutrophils

Human: ALPL, IL8RB, FCGR3B, SEMA3C, HM74, SOD2, FCGR3A, IL-8, STHM, IL8RA, FCGR2A, CSF3R, NCF2, AOAH

102, 103

Immature neutrophils

Human: AZU1, ELA2, BPI, LCN2, MPO, CTSG, MMP8, DEFA4, DEFA3, CAMP, X-CGD

103–105