Table 2.

Selected pathways and the genes associated with them from the RA and SZ interactomes

Pathway	RA p-value	SZ p-value	Genes exclusive to RA Interactome	Genes common to RA & SZ Interactomes	Genes exclusive to SZ Interactome
Role of NFAT in Regulation of the Immune Response	6.3 E-28	3.0 E-07	NFATC2, NFKBIB, GNAO1, HRAS, ATM, NFKBIE, CD4, MAP2K1, CD247, IKBKAP, IKBKG, IKBKE, CD86, RAF1, CD79A, XPO1, FCER1G, FCER1A, PIK3CA, PIK3CD, PIK3CG, CSNK1D, MAPK1, PIK3R3, PIK3R2, NFKB2, CD80, MS4A2, CD28, PLCB4, FCGR2B, FCGR2A, GNG5, PRKCQ, GATA4, LYN, NFKBIA, IKBKB, ITK, SOS1, LCK, CSNK1E, GRB2, GNA12, HLA-DOA, CD79B, MEF2D, LAT, FCGR3A/FCGR3B, PPP3CB, CD3E, ATF2	GSK3A, NFATC3, MAPK3, SYK, JUN, FOS, FYN, CHUK, CALM1 (includes others), GNB2L1, PLCG2, PLCG1, AKT1, ZAP70, PIK3R1, LCP2, NFKB1, RELA, BTK	CSNK1A1, GNAS, GNB5, GNG10, GNB1, GSK3B, AKT3, HLA-DMB
IL-8 Signaling	3.98E-24	3.16E-13	BCL2L1, PTK2, MAP4K4, LIMK2, PIK3CD, HRAS, LIMK1, IKBKB, RHOC, MAP2K1, IKBKG, MAP2K4, FLT4, RAF1, EGF, FLT1, TEK, ATM, PIK3CA, RPS6KB1, PIK3CG, NFKBIB, MAPK1, PIK3R3, PIK3R2, IKBKE, IRAK2, IRAK3, IRAK1, KDR, ITGAM, PRKCI, ITGB2, ICAM1, CDH1, PRKCQ, RHOA, BRAF, CCND3, GNG5, GNA12, IRAK4	PRKCH, EGFR, AKT1, PTK2B, JUN, GNB2L1, MAPK3, PIK3R1, NFKB1, RELA, SRC, TRAF6, FOS, PRKCA, PRKCB, CHUK, PRKCG, PRKCD, PRKCZ, MTOR, LASP1, MAPK8, CCND1, CCND2, EIF4EBP1, PRKD1, BCL2	PTGS2, PRKCE, GNAS, GNB5, GNB1, PLD3, GNG10, RHOJ, AKT3, MAPK9, MYL9
CD28 Signaling in T Helper Cells	7.94E-27	2.04E-07	NFATC2, IKBKE, NFKBIB, ATM, NFKBIE, IKBKB, MAP2K1, CD247, IKBKG, MAP2K4, CD86, FCER1G, PIK3CA, PIK3CD, PIK3CG, GRAP2, PIK3R3, PIK3R2, PTPRC, NFKB2, MALT1, CTLA4, CD28, NFKBIA, CSK, PRKCQ, WAS, PTPN6, CD4, ITK, VAV1, PTPN11, CD3E, GRB2, IL2, HLA-DOA, CD80, LAT, PPP3CB, ACTR2, BCL10, LCK	NFATC3, FOS, SYK, CALM1 (includes others), FYN, CHUK, AKT1, PLCG1, JUN, ZAP70, PIK3R1, LCP2, NFKB1, RELA, MAPK8	ARPC3, ARPC1B, AKT3, PDPK1, MAPK9, HLA-DMB, CDC42
Natural Killer Cell Signaling	6.31E-25	5.50E-08	KLRC1, SH2D1B, HRAS, SH2D1A, MAP2K1, CD247, LAIR1, RAF1, FCER1G, INPPL1, PIK3CA, PIK3CD, PIK3CG, MAPK1, PIK3R3, PIK3R2, PRKCI, ATM, SHC1, NCR1, FCGR2A, PRKCQ, KIR2DL5A, PTPN6, INPP5D, NCK1, SOS1, VAV1, PTPN11, LCK, GRB2, KIR2DL4, LAT, FCGR3A/FCGR3B, SIGLEC7, VAV3	PRKCH, PRKCB, MAPK3, PRKCA, SYK, VAV2, FYN, PRKCD, PRKCG, PLCG2, PLCG1, PRKCZ, AKT1, ZAP70, PIK3R1, LCP2, PRKD1	PAK4, PAK6, AKT3, PRKCE, INPP5K
B Cell Receptor Signaling	6.31E-48	6.31E-12	BCL2L1, NFATC2, PTK2, CFL1, NFKBIB, PAG1, HRAS, NFKBIA, GAB2, NFKBIE, IKBKB, MAP2K1, RAP2A, IKBKG, IKBKE, PIK3CG, CD79B, ETS1, CD79A, MAP3K8, MAP2K4, INPPL1, ATF2, PIK3CA, PIK3CD, MAP3K4, MAP3K5, ELK1, PIK3R3, PIK3R2, RAF1, MAP3K14, LYN, MALT1, ATM, SHC1, CSK, RPS6KB1, CAMK2D, CD22, CAMK2G, FCGR2B, CREB1, FCGR2A, PAX5, MAP2K6, NFKB2, PRKCQ, GAB1, PTPN6, INPP5D, SOS1, VAV1, PTPN11, DAPP1, RASSF5, MAP3K11, GRB2, PTPRC, MAP3K3, MAPK1, PPP3CB, BCL6, VAV3, BCL10, CD19	NFATC3, CALM1 (includes others), MAPK14, PLCG2, PTK2B, MAP2K7, ABL1, EGR1, JUN, MAP3K7, MAPK3, PIK3R1, NFKB1, RELA, PRKCB, CAMK2A, CAMK2B, CHUK, MTOR, EP300, MAPK8, AKT1, SYK, VAV2, GSK3A, CREBBP, BTK	TCF3, INPP5K, GSK3B, PTEN, AKT3, PDPK1, MAPK9, CDC42