Table 3 Alteration of biological functions related to cell signaling in MACO model

Positive regulation of ERK1 and ERK2 cascade

56

2.62E-08

ARHGAP8, FLT4, ITGB3, HTR2B, HTR2C, FGF2, CX3CL1, ICAM1, PYCARD, C1QTNF3, EDNRA, CYSLTR2, GLIPR2, CD36, LGALS9, NPY5R, DCC, IL1B, RARA, CHI3L1, CD44, CCL12, C5AR2, C5AR1, NOD2, C3, CCL9, THPO, GPNMB, CCL7, CCL6, ERBB4, NPY, PDGFD, CCL4, GCNT2, CCL3, CCL2, CCL19, NTSR2, CCR1, JUN, CCL22, TGFB1, CCL20, CFLAR, SCIMP, MT3, ESR1, EPOR, IL6, GPR183, TRPV4, FGF18, F2RL1

Positive regulation of MAPK cascade

38

1.04E-06

ITGB1, CD40, ITGB3, FLT4, TNFRSF11B, NOD2, KNG2, KNG1, LEPR, RIPK1, CD36, RELT, IL6R, NTSR2, TBX1, NGFR, IL11, GPR37, KSR1, IGFBP3, PRKCD, OSM, IGF2, LIF, GPR37L1, IGF1, TNFRSF1B, SORBS3, AGT, AR, IL6, PTPRC, ADRB3, FAS, CD27, LTBR, TNFRSF26, FGFR1

Cellular response to tumor necrosis factor

41

3.59E-06

REG3B, CCL12, CD40, CALCA, THBS1, CX3CL1, ICAM1, PYCARD, ZFP36, CCL9, ADAMTS13, MUC2, CCL7, CCL6, CCL4, ZC3H12A, CCL3, CCL2, CYP1B1, HAS2, RIPK1, CCL19, ADAMTS7, VCAM1, CCL22, NOS2, NOS3, CCL20, ERBIN, ACOD1, CYBA, MMP9, OCLN, IL6, FABP4, IRF1, GPD1, LCN2, FAS, CHI3L1, BIRC3

Integrin-mediated signaling pathway

27

6.25E-04

ITGB1, LAMA5, ITGAM, ITGB3, PLEK, ITGB2, ITGAL, PRAM1, ADAMTS2, ADAMTS1, ITGAX, ITGB8, ITGB7, ADAMTS9, FCER1G, ITGA2, ITGA1, ADAM11, VAV1, FGR, COL3A1, TYROBP, ZYX, PLP1, ITGA5, CDH17, FERMT3

Positive regulation of protein kinase B signaling

26

0.0012

CSF3, TNF, THBS1, FGF2, C1QTNF3, THPO, CCL3, CPNE1, GCNT2, CCL19, NGFR, TGFB1, MYOC, F10, IGF2, IGF1, F3, F7, IL6, MC1R, RARA, CD28, HCLS1, CHI3L1, HBEGF

Positive regulation of I-kappaB kinase/NF-kappaB signaling

38

0.0016

CD40, ECM1, EDA, HTR2B, NOD2, ZC3HAV1, TNF, LITAF, MALT1, GJA1, LGALS1, CASP8, S100A13, TNFSF10, HMOX1, FLNA, RIPK1, CD36, LGALS9, CCL19, TGM2, SECTM1B, NEK6, IRAK4, CFLAR, TICAM1, RHOC, TNFRSF1A, GPRC5B, TNIP2, CTH, IL1B, REL, F2RL1, S100A4, LTBR, MYD88, CARD11

Response to tumor necrosis factor

15

0.0020

NOS2, GCH1, MMP3, PTGS2, MMP9, CXCL16, ADAMTS13, CASP8, CHI3L1, CCL2, RIPK1, MBP, CD14, JAK2, GGT1

Intracellular signal transduction

74

0.0021

ITK, GUCY1B2, MAST3, DGKB, PLEK, HSPB1, PREX2, NRBP2, ZFP36, GRB14, CASP3, STK32A, JAK2, JAK3, GUCY1A2, CISH, PRKCD, MASTL, DGKZ, LAX1, VAV1, TIAM2, LAT2, ZAP70, DEPDC1B, MELK, TYROBP, RASA4, NRG4, SPATA13, DCX, ARHGEF2, PLCB1, SHC4, LOC100911548, GUCY2D, RGS14, SHC1, ADCY4, ASB11, NOD2, KALRN, ADCY7, RGD1562638, SOCS3, NUAK2, SOCS1, IRAK2, CHN2, CHN1, HMOX1, PLEK2, SH2B2, SOCS4, LYN, NOS2, MCF2, ECEL1, DCLK3, DCDC2, SMAD7, MOS, ADCY10, SPSB2, SPSB1, MC1R, CAMK4, STAC2, GPR182, PTPN6, PLCH2, ASB2, PLCD4, PLCD1

Tumor necrosis factor-mediated signaling pathway

16

0.0024

TNFSF18, NGFR, CD40, TNFRSF10B, TNFRSF11B, TNFRSF1B, TNF, TNFRSF1A, PYCARD, FAS, CD27, LTBR, TNFRSF26, JAK2, RELT, CARD14

Cell surface receptor signaling pathway

44

0.0024

CD63, CD274, LOC103690020, VIPR1, VIPR2, TNFRSF13B, GIPR, ITGAL, MCHR1, ADGRG3, GHRHR, UPK1B, ADGRG5, CXCR2, PRLHR, CD36, FCGR1A, CD53, LAG3, FCER1G, ANXA1, ADGRV1, TRPA1, EDN3, NPY5R, GCGR, GLP2R, TACR1, F2, TNFRSF1B, AGT, TNFRSF1A, ADGRF2, FCGR2A, MAPKAPK3, CD8A, CLCF1, TSPAN18, ADGRF4, COL4A3, CD9, OSTN, FCGR2B, MYD88

Positive regulation of tumor necrosis factor production

19

0.0039

FCER1G, CYBA, NOD2, TICAM1, NFATC4, TNFRSF1A, PYCARD, CCL4, CCL3, CCL2, RIPK1, CD36, LGALS9, CCL19, ARHGEF2, LBP, CD14, JAK2, MYD88

Positive regulation of NF-kappaB transcription factor activity

30

0.0052

CD40, EDA, ITGB2, CAMK2A, NOD2, TNF, MALT1, ICAM1, PYCARD, IRAK2, NLRP3, RIPK1, LGALS9, IL6R, TNFSF18, TGFB1, RIPK3, SPHK1, CFLAR, TICAM1, AR, IL6, CTH, IL1B, ARHGEF2, RAB7B, CARD14, MYD88, HSPA1B, CARD11

Adenylate cyclase-activating G-protein coupled receptor signaling pathway

18

0.0090

PTGFR, PTGIR, CALCA, GPR26, GCGR, PTGER2, PTGER3, ADCY4, ADRB1, HTR4, ADCY7, RXFP1, RXFP2, GHRHR, ADRB3, GALR2, UCN2, ADM2

Phospholipase C-activating G-protein coupled receptor signaling pathway

19

0.010

CASR, C5AR2, PTGER3, C5AR1, HTR2B, HTR2C, GPR84, ESR1, AGTR1A, GNG13, ANO1, CYSLTR2, GALR2, P2RY2, CXCR2, C3AR1, PLCE1, TGM2, NTSR2

Positive regulation of phosphatidylinositol 3-kinase signaling

19

0.019

CSF3, TGFB2, MYOC, IGF1, F2, AGT, FGR, SELP, GH1, ERBB4, PDGFD, RARA, CD28, F2RL1, HCLS1, PLXNB1, PTPN6, JAK2, HCST

Lipopolysaccharide-mediated signaling pathway

12

0.028

LYN, TGFB1, IRAK2, NOS3, IL1B, CCL3, CCL2, LBP, CD14, TICAM1, TNF, MYD88