Table 2 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and disease ontology (DO) analyses (only the top 15 items are shown)

KEGG

hsa03010

Ribosome

8.44E-18

MRPL30/RPL10/MRPS21/RPS28/RPS29/RPL34/RPS23/RPS24/RPL21/RPS27A/RPL17/RPL39/UBA52/RPL9/RPS2/RPS10/MRPL16/RPL7/RPS17/RPS3/RPL31/RPL27A/RPL23A/RPL28/RPL37/RPL4/RPS18/RPL22/RPS4X/RPLP0/RPL41/RPL36/RPL14/RPL26/RPL6/RPL13/RPL13A/RPL24/RPL18A/RPS13/RPL10A/RPL7A/RPS5/RPS19/RPS6/RPL22L1/RPS25/RPL8/RPS27/RPL29/RPL27/RPL19/RPL18/RPL38/RPS9/RPL35/RPS15A/RPL11/RPS3A/RPS21/RPS15/RPL23/FAU/RPLP2/RPS12/RPS14/RPS11/RPLP1/RPL30/RPS8/RPS16/RPL37A

KEGG

hsa05204

Chemical carcinogenesis

1.04E-05

CYP2E1/CYP2C8/ADH6/CYP3A4/UGT2B28/ADH4/ADH1B/CYP3A5/ADH1A/CYP2C9/UGT2B11/CYP2A6/ADH1C/CYP2C19/SULT2A1/UGT1A6/CYP2C18/UGT2A3/UGT2B15/UGT2A1/UGT2B4/HSD11B1/UGT1A1/CYP1A2/CYP3A43/GSTO1/SULT1A1/GSTK1/CYP1B1/SULT1A2/SULT1A4/SULT1A3/GSTP1

KEGG

hsa04610

Complement and coagulation cascades

1.20E-04

FGA/F8/FGG/C3/C7/FGB/F2R/KNG1/VTN/C1S/PLG/CFB/SERPINC1/C1R/F9/CFI/C9/C6/SERPINA5/MASP1/F7/C8A/C4BPA/F11/MBL2/BDKRB2/C5AR1/SERPINA1/PLAUR/ITGB2

KEGG

hsa04145

Phagosome

1.20E-04

C3/EEA1/TUBAL3/STX7/TUBB1/ATP6V1C1/RAB7A/TUBB4A/C1R/COLEC11/CLEC4M/MBL2/NOS1/LAMP1/ATP6V0C/ATP6AP1/HLA-C/ACTB/TUBA1A/ATP6V1B2/ATP6V1F/TUBA1B/ACTG1/SEC61A1/TAP2/TLR4/NCF2/HLA-DMA/NCF4/CALR/TLR2/CLEC7A/FCGR3A/ATP6V0B/CORO1A/CYBB/HLA-DRB1/HLA-DPA1/TCIRG1/HLA-DRB5/HLA-DMB/SEC61B/HLA-DRA/CD14/CTSS/ITGB2/CYBA

KEGG

hsa00190

Oxidative phosphorylation

1.89E-04

ATP6V1C1/COX6B2/UQCRH/ATP5MG/ATP6V0C/NDUFA2/ATP6AP1/SDHC/UQCR10/ATP6V1B2/ATP6V1F/NDUFB4/SDHD/NDUFA1/NDUFB11/ATP5F1B/NDUFC2/UQCRQ/NDUFA11/NDUFB9/COX4I1/ATP5F1E/COX5A/ATP5F1A/ATP5PD/ATP5MC2/UQCRC1/NDUFB10/CYC1/ATP5ME/UQCR11/COX8A/ATP5PO/ATP5F1D/NDUFA13/ATP6V0B/ATP5MF/COX7C/NDUFB2/TCIRG1/COX5B/NDUFAB1

KEGG

hsa00830

Retinol metabolism

1.93E-04

CYP2C8/ALDH1A2/ADH6/CYP3A4/UGT2B28/ADH4/ADH1B/CYP3A5/CYP4A11/ADH1A/CYP2C9/UGT2B11/CYP2A6/ADH1C/CYP2B6/UGT1A6/CYP2C18/UGT2A3/UGT2B15/UGT2A1/UGT2B4/UGT1A1/CYP1A2/AOX1/CYP4A22/DGAT1

KEGG

hsa00982

Drug metabolism - cytochrome P450

2.32E-04

CYP2E1/CYP2C8/ADH6/CYP3A4/UGT2B28/ADH4/ADH1B/CYP3A5/ADH1A/CYP2C9/UGT2B11/CYP2A6/ADH1C/CYP2C19/CYP2B6/FMO3/UGT1A6/UGT2A3/UGT2B15/UGT2A1/UGT2B4/UGT1A1/CYP1A2/AOX1/GSTO1/GSTK1/GSTP1

KEGG

hsa05150

Staphylococcus aureus infection

6.74E-04

FGG/C3/C1S/PLG/CFB/C1R/CFI/MASP1/DEFA5/DEFB1/MBL2/ICAM1/HLA-DMA/FPR2/ITGAL/FCGR3A/HLA-DRB1/C5AR1/HLA-DPA1/HLA-DRB5/FPR1/SELPLG/HLA-DMB/HLA-DRA/ITGB2

KEGG

hsa00980

Metabolism of xenobiotics by cytochrome P450

1.75E-03

CYP2E1/ADH6/CYP3A4/UGT2B28/ADH4/ADH1B/CYP3A5/ADH1A/CYP2C9/UGT2B11/CYP2A6/ADH1C/CYP2B6/SULT2A1/UGT1A6/UGT2A3/UGT2B15/UGT2A1/UGT2B4/HSD11B1/UGT1A1/CYP1A2/GSTO1/GSTK1/CYP1B1/GSTP1

KEGG

hsa05152

Tuberculosis

2.52E-03

TGFB2/MAPK10/CAMK2D/C3/EEA1/AKT3/NFYB/RAB7A/MAPK9/IFNA16/EP300/IFNB1/IFNA4/CLEC4M/LBP/CALM1/RHOA/LAMP1/ATP6V0C/ATP6AP1/MYD88/IRAK1/IFNGR2/TLR4/NOD2/CEBPB/CTSD/FCER1G/IL10RB/HLA-DMA/TNFRSF1A/TLR1/TLR2/CLEC7A/FCGR3A/ATP6V0B/CORO1A/HLA-DRB1/HLA-DPA1/CD74/TCIRG1/IL10RA/HLA-DRB5/HLA-DMB/HLA-DRA/CD14/CTSS/ITGB2

KEGG

hsa04932

Non-alcoholic fatty liver disease (NAFLD)

8.56E-03

MAPK10/CYP2E1/PIK3R3/AKT3/ADIPOR1/GSK3B/PIK3CA/MAPK9/PRKAA1/ADIPOQ/MLXIPL/COX6B2/UQCRH/NDUFA2/SDHC/UQCR10/NDUFB4/SDHD/NDUFA1/IL6R/NDUFB11/NDUFC2/UQCRQ/NDUFA11/NDUFB9/COX4I1/COX5A/TNFRSF1A/UQCRC1/NDUFB10/CYC1/UQCR11/COX8A/NDUFA13/XBP1/COX7C/NDUFB2/COX5B/NDUFAB1/SOCS3

KEGG

hsa05140

Leishmaniasis

1.70E-02

TGFB2/C3/TAB2/MYD88/IRAK1/IFNGR2/TLR4/NCF2/HLA-DMA/NCF4/TLR2/ITGA4/FCGR3A/CYBB/HLA-DRB1/HLA-DPA1/NFKBIA/HLA-DRB5/HLA-DMB/HLA-DRA/FOS/ITGB2/CYBA

KEGG

hsa05010

Alzheimer disease

1.98E-02

PLCB4/GNAQ/ITPR2/CACNA1F/GSK3B/APOE/COX6B2/NOS1/CALM1/UQCRH/NDUFA2/SDHC/UQCR10/NDUFB4/SDHD/NDUFA1/NDUFB11/ATP5F1B/NDUFC2/UQCRQ/NDUFA11/NDUFB9/COX4I1/ATP5F1E/GAPDH/COX5A/ATP5F1A/ATP5PD/ATP5MC2/TNFRSF1A/UQCRC1/NDUFB10/LRP1/CYC1/UQCR11/COX8A/ATP5PO/ATP5F1D/NDUFA13/COX7C/NDUFB2/COX5B/NDUFAB1

KEGG

hsa05012

Parkinson disease

2.06E-02

PRKACB/COX6B2/UQCRH/GNAL/NDUFA2/SDHC/UQCR10/SLC25A5/NDUFB4/SDHD/NDUFA1/UBB/NDUFB11/ATP5F1B/NDUFC2/UQCRQ/NDUFA11/NDUFB9/COX4I1/ATP5F1E/COX5A/ATP5F1A/ATP5PD/ATP5MC2/UQCRC1/NDUFB10/CYC1/UQCR11/COX8A/ATP5PO/ATP5F1D/SLC25A6/NDUFA13/COX7C/NDUFB2/COX5B/NDUFAB1

KEGG

hsa04380

Osteoclast differentiation

2.12E-02

TGFB2/MAPK10/PIK3R3/AKT3/TAB2/PIK3CA/MAPK9/IFNB1/TNFRSF11B/GRB2/JUND/TGFBR1/IFNAR1/LILRB1/STAT2/IFNGR2/LILRA2/NCF2/SIRPA/LILRA6/TNFRSF1A/NCF4/LILRB2/FCGR3A/OSCAR/NFKBIA/LILRB3/LILRA5/SOCS3/CSF1R/FOS/TYROBP/CYBA/JUNB

DO

DOID:74

hematopoietic system disease

1.74E-04

ALB/FGA/CYP2C8/FGF2/HFE/APOB/FGG/C3/APOC3/APOA1/ADH1B/BDNF/APOH/FGB/FN1/F2R/TUBB1/LRRFIP1/CYP2C9/PON1/PLG/CXCL12/SERPINC1/FABP3/ADH1C/CYP2C19/CCL2/PAPPA/IGFBP1/MEF2A/APOE/PROM1/AHSG/F7/PTGIS/CCL11/ABCC9/UGT1A1/CYP1A2/ADIPOQ/INHBA/F11/CRP/TNFRSF11B/MB/MBL2/TNNT2/ELN/PPIA/TLR4/ALOX5/CTSD/ICAM1/PTPRC/ALOX5AP/ADAM8/GPX1/TLR2/PRF1/CST3/GZMB/PLAUR/CD14/CXCR4/TNFRSF1B/S100A9

DO

DOID:5844

myocardial infarction

2.06E-04

KITLG/NFAT5/FGF2/TET2/BDNF/FIP1L1/IL5/KRAS/CCL11/UGT1A1/IL25/CFTR/NTRK3/MBL2/RASGRP4/TLR4/HAX1/TNFRSF1A/CD8A/ITPA/TLR8/FCGR3A/CSF3R/CXCR3/CD4/RNASE2/CXCR4/DUSP1

DO

DOID:9500

leukocyte disease

2.97E-04

ALB/FGA/CYP2C8/CDKN2B/FGF2/HFE/APOB/FGG/C3/APOC1/APOC3/CYP3A4/APOA1/ADH1B/BDNF/APOC2/APOH/FGB/FN1/F2R/SPP1/TUBB1/LRRFIP1/CYP2C9/MTR/PON1/PLG/CXCL12/SERPINC1/FABP3/ADH1C/CYP2C19/CCL2/PAPPA/IGFBP1/MEF2A/APOE/PROM1/AHSG/F7/PTGIS/CCL11/ABCC9/UGT1A1/CYP1A2/ADIPOQ/INHBA/F11/CRP/TFAP2B/TNFRSF11B/NPC1L1/MB/MBL2/TNNT2/ELN/CNDP1/PPIA/TLR4/ALOX5/CTSD/ICAM1/PTPRC/ALOX5AP/ADAM8/GPX1/TLR2/ITGAL/PRF1/CST3/GZMB/SELPLG/PLAUR/CD14/CXCR4/TNFRSF1B/S100A9/CYBA

DO

DOID:3393

coronary artery disease

3.32E-04

AR/PTBP2/RBP4/CYP2E1/TJP1/CCL21/FGF2/HFE/FGG/APOC1/APOC3/VRK1/AMBP/MKI67/APOA1/NEDD4/APOH/FGB/ADIPOR1/DLC1/F2R/SPP1/HMGB1/DNMT1/TIA1/CYP2A6/GSK3B/PIK3CA/PON1/CXCL12/CCL2/KRAS/NR5A2/TCEA1/CBL/IFNB1/APOE/AHSG/HNF4A/UGT1A6/OPRD1/ADIPOQ/EGFR/CLEC4M/MBL2/CAPNS1/ARF1/GRB2/TMSB4X/HLAC/VIPR1/MYD88/DNAJB1/IFNAR1/IL6R/PPIA/TLR4/ALOX5/PSMB9/OAS1/CDKN1B/EIF4A1/LAMTOR5/HSPA5/VIM/ICAM1/TNFRSF1A/IRF1/PTPRC/TNFSF10/CD81/REX1BD/TLR2/FGL2/DGAT1/ITGAL/PRF1/CCL4/FCGR3A/HLA-DRB1/CXCR3/HLA-DPA1/SERPINA1/IL10RA/GZMB/GSTP1/PLAUR/CD4/CD14/SOCS3/FCN2/CXCR4/TNFRSF1B

DO

DOID:2237

hepatitis

5.74E-04

NFAT5/CCL21/LIG4/C3/APOA1/MLLT3/DNMT3B/PRKAR1A/HEXIM1/FOXO3/CXCL12/CYP2B6/IL5/PTN/FOXN1/APOE/PROM1/HIF3A/UGT1A1/BMP2/TNFRSF11B/NGF/MBL2/CTSC/PPIA/NCF2/CD63/TAPBP/ICOS/NCF4/CD86/TLR2/CD3E/PRF1/SRSF5/FCGR3A/CYBB/HLA-DRB1/BST2/SERPINA1/FCGRT/PLAUR/CD4/CXCR4/CD3D/TNFRSF1B/ITGB2/CYBA

DO

DOID:612

primary immunodeficiency disease

6.33E-04

SPP1/CCL2/APOE/CRP/TLR4/ICAM1/TLR2/ITGAL/CYBA

DO

DOID:4248

coronary stenosis

6.49E-04

AR/HFE/FGG/APOC3/APOA1/NEDD4/APOH/DLC1/HMGB1/DNMT1/TIA1/GSK3B/CCL2/KRAS/NR5A2/IFNB1/APOE/AHSG/HNF4A/ADIPOQ/MBL2/CAPNS1/TMSB4X/HLA-C/MYD88/DNAJB1/IFNAR1/IL6R/TLR4/ALOX5/PSMB9/OAS1/LAMTOR5/HSPA5/TNFRSF1A/TNFSF10/REX1BD/TLR2/FGL2/PRF1/HLA-DRB1/HLA-DPA1/GZMB/GSTP1/PLAUR/CD14/SOCS3/CXCR4

DO

DOID:2043

hepatitis B

9.04E-04

ITGA1/ATXN2/HFE/C3/C7/MBP/EBF1/APOA1/BDNF/KCNA3/GABPA/HMGB1/CXCL12/CCL2/CRYAB/IFNB1/APOE/CRP/HLA-C/IL6R/IRF8/NOD2/GAPDH/EIF2B5/ICAM1/IRF5/IRF1/PTPRC/CD6/SLC11A1/ITGA4/PTPRCAP/FCGR3A/HLA-DRB1/CXCR3/GZMB/HLA-DRB5/SELPLG/CD4/GRN/HLA-DRA/CD14

DO

DOID:2377

multiple sclerosis

9.35E-04

AR/GAB1/F8/FGF2/LIG4/HFE/WWOX/APOC1/CYP3A4/AMBP/TET2/BRAF/EIF4E/TNPO1/NSD2/COL1A1/BDNF/CYP3A5/FN1/RAD23B/SPP1/DNMT1/CCNK/GSK3B/PIK3CA/BCL9/RARB/SFRP2/CXCL12/CYP2C19/KRAS/PTN/ETV6/THPO/IGFBP1/PTPN11/LDHC/FRZB/F7/CTAG2/INHBA/SFRP1/BMP2/TNFRSF11B/HGFAC/MBL2/SFRP4/NOTCH1/RHOA/IFNAR1/RASSF1/IL6R/IRF8/CDKN1B/CEBPB/ICAM1/MVP/PTPRC/HCK/TNFSF10/LRP1/CYP1B1/ITGA4/CCL4/XBP1/CD74/NFKBIA/GSTP1/PLAUR/SULF2/SOCS3/CXCR4

DO

DOID:4960

bone marrow cancer

9.73E-04

AR/GAB1/F8/FGF2/LIG4/HFE/WWOX/APOC1/CYP3A4/AMBP/TET2/BRAF/EIF4E/TNPO1/NSD2/COL1A1/BDNF/CYP3A5/FN1/RAD23B/SPP1/DNMT1/CCNK/GSK3B/PIK3CA/BCL9/RARB/SFRP2/CXCL12/CYP2C19/KRAS/PTN/ETV6/THPO/IGFBP1/LDHC/FRZB/F7/CTAG2/INHBA/SFRP1/BMP2/TNFRSF11B/HGFAC/MBL2/SFRP4/NOTCH1/RHOA/IFNAR1/RASSF1/IL6R/IRF8/CDKN1B/CEBPB/ICAM1/MVP/PTPRC/HCK/TNFSF10/LRP1/CYP1B1/ITGA4/CCL4/XBP1/CD74/NFKBIA/GSTP1/PLAUR/SULF2/SOCS3/CXCR4

DO

DOID:0070004

myeloma

1.01E-03

GAB1/FGF2/LIG4/WWOX/APOC1/CYP3A4/AMBP/BRAF/EIF4E/TNPO1/NSD2/COL1A1/BDNF/CYP3A5/RAD23B/SPP1/DNMT1/CCNK/GSK3B/PIK3CA/BCL9/SFRP2/CXCL12/CYP2C19/KRAS/PTN/IGFBP1/FRZB/CTAG2/INHBA/SFRP1/BMP2/TNFRSF11B/HGFAC/MBL2/SFRP4/NOTCH1/RHOA/IFNAR1/RASSF1/IL6R/IRF8/CDKN1B/CEBPB/ICAM1/MVP/PTPRC/HCK/TNFSF10/LRP1/CYP1B1/ITGA4/CCL4/XBP1/CD74/NFKBIA/GSTP1/PLAUR/SULF2/CXCR4

DO

DOID:9538

multiple myeloma

1.01E-03

ITGA1/ATXN2/HFE/C3/C7/MBP/EBF1/APOA1/BDNF/KCNA3/GABPA/HMGB1/CXCL12/CCL2/CRYAB/IFNB1/APOE/CRP/HLA-C/IL6R/IRF8/NOD2/GAPDH/EIF2B5/ICAM1/IRF5/IRF1/PTPRC/CD6/SLC11A1/ITGA4/PTPRCAP/FCGR3A/HLA-DRB1/CXCR3/GZMB/HLA-DRB5/SELPLG/CD4/GRN/HLA-DRA/CD14/ITGB2

DO

DOID:3213

demyelinating disease

1.04E-03

TTC37/SLC26A3/FGF19/APOE/HTR3E/UGT1A1/CFTR/EGFR/SLC9A3/TNFRSF11B/TLR4/S100A8/CD4

DO

DOID:13250

diarrhea

1.07E-03

PAWR/ASPH/CDKN2B/APOB/TTR/WWOX/BRAF/TP53BP1/DNMT3B/SPP1/DNMT1/RPS6KB1/PIK3CA/CXCL12/KRAS/SMAD4/APOE/PROM1/MUC4/WISP1/TFF2/EGFR/NGF/SCTR/RASSF1/IMP3/ANXA2/VIM/TNFSF10/ANXA1/LGALS3/TYMP/SERPINA1/SOCS3/CXCR4/DUSP1

DO

DOID:4606

bile duct cancer

1.74E-04

ALB/FGA/CYP2C8/FGF2/HFE/APOB/FGG/C3/APOC3/APOA1/ADH1B/BDNF/APOH/FGB/FN1/F2R/TUBB1/LRRFIP1/CYP2C9/PON1/PLG/CXCL12/SERPINC1/FABP3/ADH1C/CYP2C19/CCL2/PAPPA/IGFBP1/MEF2A/APOE/PROM1/AHSG/F7/PTGIS/CCL11/ABCC9/UGT1A1/CYP1A2/ADIPOQ/INHBA/F11/CRP/TNFRSF11B/MB/MBL2/TNNT2/ELN/PPIA/TLR4/ALOX5/CTSD/ICAM1/PTPRC/ALOX5AP/ADAM8/GPX1/TLR2/PRF1/CST3/GZMB/PLAUR/CD14/CXCR4/TNFRSF1B/S100A9