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Table 4 KEGG pathway analysis for differentially expressed genes in JS1 cells with or without HMGB1 treatments and the key regulatory genes

From: Transcriptomic analysis of the effects of Toll-like receptor 4 and its ligands on the gene expression network of hepatic stellate cells

Path Path term Enrichment (+, up; −, down) P value No. of genes Gene-act-network core genes (degree >3) Co-expression network Dif-degree >3
path:mmu03410 Base excision repair +4.857 0.001406 7 / Nthl1, Mpg
path:mmu00480 Glutathione metabolism +3.001 0.022114 6 Gpx4,Gstt2,Gstp1,Mgst3,Gstp2 Gstt2, Gpx4, Odc1
path:mmu00982 Drug metabolism—cytochrome P450 +2.805 0.028716 6 Gstt2,Cyp2e1, Mgst3,Gstp1 Gstt2, Cyp2e1
path:mmu04120 Ubiquitin-mediated proteolysis −2.378 0.003899 15 Traf6 Ube2n, Uba3, Herc1
path:mmu04150 mTOR signaling pathway −3.012 0.014331 7 Mapk1 Rps6ka3
path:mmu05200 Pathways in cancer −1.622 0.030471 22 Igf1r,Prkca,Mapk1,Ptk2 Rala, E2f3, Foxo1
path:mmu04622 RIG-I-like receptor signaling pathway −2.342 0.041959 7 Traf6 Cyld
  1. Note: Genes that are identified to be key regulatory factors by both gene-act-network analysis and co-expression network analysis (degree or difference degree >3) are marked in bold and italic font