Table 4 Differentially expressed genes in ASD and co-morbidities that overlap with innate immunity pathways

Autism spectrum disorder

TLR9, MAP2K4, CCL4, LY96,

CCL4, JAK2, GRK7, CCL17,

BIRC3, MAPK13, SUGT1, PSTPIP1,

TXK, NCF2, JAM2, GNAI2, GNAI3,

CD14, TAB2, MAP2K2, MAPK13,

CCL21, CCL22, GNB3, GNAI2,

PYCARD, TAB2, BIRC2

CLDN23, ACTN3, ICAM1, ACTN1, MAPK13,

MAP2K1, TBK1, TLR1, TLR2

CCR2, CXCR3, GNAI3, CCR10,

CD99, RAP1B, CLDN14, MSN

ADCY6, PREX1, HCK, MAP2K1,

RAP1B

Asthma

STAT1, IKBKE, NFKB1, RELA,

STAT1, CCL2, GNB4, JAK2,

CXCL1, RIPK2, BIRC3, CCL2,

TXK, ACTN2, ICAM1

TLR7, TICAM1, IL8, IFNAR1,

CCL20, NFKB1, RELA, CXCL5,

IL8, CASP5, NFKB1, RELA,

IFNAR2, TICAM2, CD40, CXCL9,

XCR1, PLCB1, CXCL1, PRKCD,

CXCL2, IL6

TLR3, IL6, IRF7

HCK, IL8, CCL1, CXCL2,

CXCL9, LYN

Chronic kidney disease

JUN, CTSK, NFKBIA, FOS

CCL17, NFKBIA, CXCR6

NFKBIA, HSP90AA1, NLRC4,

CLDN16, ACTN4, CLDN9

HSP90AB1

Cerebral palsy

CD14

CCL2

CCL2

JAM3, MMP2, VCAM1, ACTN4, ACTG1,

MSN, CTNNA3

Dilated cardiomyopathy

MYD88, LY96, CD14, NFKBIA,

CCL2, CCL11, CCL8, NFKBIA,

RIPK2, CCL2, CCL11, CCL8,

PIK3R1

MAP2K1, PIK3R1

MAP2K1, CCR1, PIK3R1

NFKBIA

Ear infection

JUN, CD86, STAT1, CCL3,

STAT3, STAT1, STAT2, CCL2,

CASP8, CXCL1, RIPK2, TNF,

TXK, NCF4, VCAM1, PIK3R5, CLDN23,

MYD88, CCL5, CCL4, LBP,

CCL3, CCL5, CCL4, CX3CR1,

BIRC3, CCL2, CCL5, CCL11,

CLDN10, CLDN8, MYL9, CLDN5, ICAM1,

TLR6, MAP3K8, CD14, IKBKE,

CCL11, CCL7, CXCL14, JAK3,

CCL7, MEFV, CASP1, TNFAIP3,

ACTN4, CLDN19, CLDN22, RASSF5,

NFKB1, NFKBIA, PIK3R5, TLR5,

JAK2, CCL17, CCL20, CCL19,

MAPK3, NFKB1, NFKBIB, NFKBIA,

CLDN7, CLDN4, PIK3R2

ITIRAP, RELA, TOLLIP, CXCL11,

CCL22, NFKB1, NFKBIB, NFKBIA,

IL18, RELA, IL1B, NLRP3,

TLR7, TLR8, CXCL10, CASP8,

PIK3R5, RELA, GNG7, FGR, GNG11,

BIRC2, CXCL2, IL6

TNF, IL12B, MAP2K3, MAP2K1,

GNGT2, XCL1, CXCL5, ADCY3, CXCL11,

MAP2K6, MAPK3, IL1B, CD40,

ADCY2, CXCL10, CXCL1, PLCB3,

TBK1, CXCL9, TLR3, TLR4,

CXCR5, CXCR2, GNG8, HCK,

TLR1, FOS, TLR2, IL6,

MAP2K1, CCR5, CCR7, MAPK3,

IRF7, PIK3R2

CXCL16, CCR1, CXCL13, CXCL2,

CXCL3, CXCL9, LYN, PIK3R2

Epilepsy

–

–

–

–

Toll-like receptor signaling pathway

Chemokine signaling pathway

NOD-like receptor signaling pathway

Leukocyte transendothelial migration pathway

Inflammatory bowel disease

CD86, MYD88, CCL4, LY96,

CCL2, CCL4, CCL11, CCL7,

CHUK, CXCL1, BIRC3, CCL2,

TXK, ITGA4, NCF4, MMP9, NCF2,

MAP3K8, AKT1, CD14, CTSK,

AKT1, CCL18, ARRB2, CCL20,

CARD6, CCL11, CCL7, IL8,

MYL12A, THY1, GNAI2, MYL5, RHOH,

SPP1, TOLLIP, CXCL11, TLR8,

GNG5, GNB3, GNB2, CCL24,

CASP5, CASP1, MAPK3, IL1B,

CLDN8, MYL9, CLDN15, MYL12B, RAP1A,

CXCL10, TICAM1, CHUK, IL8,

PRKX, GNG10, GNAI2, GNG11,

NLRP1, CXCL2, HSP90AB1

PIK3CA, MSN, VAV3

MAP2K3, IL12A, MAPK3, IRF3,

XCL1, CXCL11, CXCL6, CCR10,

IL1B, PIK3CA, CXCL9, TLR4,

CXCL10, ADCY6, CHUK, CXCL1,

TLR1, TLR2

PLCB3, CXCR2, CXCR1, HCK,

IL8, ADCY4, PRKCZ, MAPK3,

CCR1, XCL2, CXCL13, RAP1A,

PF4, CXCL2, CXCL3, PF4V1,

PIK3CA, CXCL9, PPBP, VAV3,

LYN

Bacterial and viral infection

TLR9, MYD88, CCL5, LY96,

STAT3, STAT2, CCL5, DOCK2,

CHUK, RIPK2, CCL5, NOD1,

TXK, ITGAM, NCF4, MMP9, NCF2, VAV1,

CD14, NFKBIA, TLR5, TLR8,

JAK2, VAV2, NRAS, NFKBIA,

CARD6, CCL8, CARD8, CASP5,

VASP, MYL12A, VAV2, ITGB2, CTNNA1,

CHUK, IRAK4, MAP2K7, IRF3,

GNG7, GNG5, GNB2, GNG10,

NOD2, NFKBIA, IKBKG, PYCARD,

GNAI3, EZR, PLCG1, RHOH, PRKCA,

IKBKG, TICAM2, IL1B, TBK1,

GNG11, ADCY3, CXCR3, CCL4L1,

NLRC4, IL1B, BIRC2

ESAM, RAC2, CD99, ITK, NCF1, CYBA,

TLR4, TLR1, FOS, TLR2,

GNAI3, GNB1, SOS2, CHUK,

CYBB, MYL5, RHOA

IRF7

RAF1, RHOA, CXCR2, CXCR1,

PRKCD, HCK, RAC2, RASGRP2,

ADCY4, CCR3, CCR4, CXCR6,

CCR7, GRB2, IKBKG, HRAS,

GSK3B, CCR1, ITK, NCF1,

PPBP, LYN

Muscular dystrophy

LY96, CD14, CTSK, SPP1,

GNG10, HCK, MAP2K1, GNG12

PYCARD

JAM3, MMP2, NCF2, VCAM1, ITGB2,

MAP2K1, FOS

JAM2, MYL5, CD99, ACTG1, MYL12B,

MSN, CYBA

Schizophrenia

–

–

–

CD99

Upper respiratory infection

CCL4, CXCL11, CXCL10, IFNB1,

STAT2, CCL2, CCL4, CCL7,

CCL2, CCL7, IL6

–

CXCL9, IL6, IRF7

CXCL11, CXCL10, CXCL9