Table 1.
Gene expression CodeSet panel analyzed using nCounter® Human Inflammation v2.
| Functional family | n | Gene name |
|---|---|---|
| MHC and cell surface receptor | 11 | HLADRA, HLADRB1, CD4, CD86, CD163, AGER, TREM2, FXYD2, MRC1, TBXA2R, TYROBP |
| IFN and ISGs | 16 | IFNA1, IFNB1, IFNG, IFI44, IFIT1, IFIT2, IFIT3, IRF1, IRF3, IRF5, IRF7, HSH2D, MX1, MX2, OAS2, OASL |
| TNF superfamily | 11 | TNF, LTA, LTB, CD40LG, FASLG, TNFSF14, CD40, TRAF2, TNFAIP3, TRADD, BIRC2 |
| Chemokines and receptors | 31 | CCL2, CCL3, CCL4, CCL5, CCL7, CCL8, CCL11, CCL13, CCL16, CCL17, CCL19, CCL20, CCL21, CCL22, CCL23, CCL24, CXCL1, CXCL2, CXCL3, CXCL5, CXCL6, CXCL9, CXCL10, CCR1, CCR2, CCR3, CCR4, CCR7, CXCR1, CXCR2, CXCR4 |
| Interleukins and receptors | 30 | IL1A, IL1B, IL2, IL3, IL4, IL5, IL6, IL7, IL8, IL9, IL10, IL11, IL12A, IL12B, IL13, IL15, IL17A, IL18, IL21, IL22, IL1RN, IL6R, IL10RB, IL22RA2, IL23A, IL23R, IL1R1, IL1RAP, IL18RAP, TSLP |
| Prostaglandin receptors | 9 | PTGDR2, PTGER1, PTGER2, PTGER3, PTGER4, PTGFR, PTGIR, PTGS1, PTGS2 |
| Toll-like receptors | 9 | TLR1, TLR2, TLR3, TLR4, TLR5, TLR6, TLR7, TLR8, TLR9 |
| Growth factor | 1 | AREG |
| TGF | 4 | TGFB1, TGFB2, TGFB3, TGFBR1 |
| VEGF | 1 | FLT1 |
| Leukotriene receptors | 4 | LTB4R, LTB4R2, CYSLTR1, CYSLTR2 |
| Complement and CRP | 20 | C1QA, C1QB, C1R, C1S, C2, C3, C4A, C5, C6, C7, C8A, C8B, C9, CFB, CFD, CD55, C3AR1, ITGB2, MASP1, MASP2 |
| GTPase family | 5 | RAPGEF2, HRAS, RHOA, CDC42, RAC1 |
| Serine/threonine kinase | 6 | LIMK, PRKCA, PRKCB, RIPK1, RIPK2, ROCK2 |
| Tyrosine kinase | 2 | PTK2, RPS6KA5 |
| Enzymes | 12 | ALOX12, ALOX15, ALOX5, ARG1, BCL2L1, HDAC4, NOS2, NOX1, OASL, PLA2G4A, PLCB1, PPP1R12B |
| G-Protein subunit | 5 | GNB1, GNGT1, GNAQ, GNAS, OXER1 |
| HSP family | 2 | HSPB1, HSPB2 |
| NOD-family | 2 | NOD1, NOD2 |
| Adaptor proteins | 9 | GRB2, KEAP1, LY96, MBL2, MYD88, MYL2, PDGFA, SHC1, TOLLIP |
| Co-factors | 6 | CFL1, CRP, DAXX, DEFA1, KNG1, NLRP3 |
| CSF | 3 | CSF1, CSF2, CSF3 |
| MMP | 2 | MMP3, MMP9 |
| Transcription factors | 3 | ATF2, BCL6, CEBPB, CREB1, DDIT3, ELK1, FOS, HIF1A, HMGB1, HMGB2, HMGN1, JUN, MAFF, MAFG, MAFK, MAX, MEF2A, MEF2BNB, MEF2C, MEF2D, MYC, NFATC3, NFE2L2, NFKB1, NR3C1, RELA, RELB, SMAD7, TCF4, TWIST2 |
| MAPK | 15 | MAP2K1, MAP2K4, MAP2K6, MAP3K1, MAP3K5, MAP3K7, MAP3K9, MAPK1, MAPK14, MAPK3, MAPK8, MAPKAPK2, MAPKAPK5, MKNK1, RAF1 |
| STAT family | 3 | STAT1, STAT2, STAT3 |
| Endogenous genes | 6 | CLTC, GAPDH, GUSB, HPRT1, PGK1, TUBB |
The 249 genes were classified according to their family and interacting factors. The CodeSet includes six internal reference genes. MHC II, Major histocompatibility complex class II; IFN, interferon; ISGs, IFN-stimulating genes; TNF, tumor necrosis factor; CRP, complement regulatory proteins; GTPase, guanosine triphosphatase; CFS, colony-stimulating factors; MMP, matrix metalloproteinases; MAPK, mitogen-activated protein kinases; STAT, signal transducer activator transcription; HSP, heat shock protein; NOD, nucleotide binding oligomerization domain.