Table 3 KEGG pathway analysis for differentially expressed genes in JS1 cells with or without LPS treatments and the key regulatory genes
Path | Path Term | Enrichment (+, up; −, down) | P value | No. of genes | Gene-act-network core genes (degree >3) | Co-expression network core genes (Dif-degree >3) |
|---|---|---|---|---|---|---|
path:mmu00010 | Glycolysis/gluconeogenesis | +3.226 | 0.002679 | 10 | Hk1 | Gm5506, Tpi1, Ldha |
path:mmu03420 | Nucleotide excision repair | +3.110 | 0.008222 | 8 | / | Rfc2, Ercc1, Cdk7 |
path:mmu03040 | Spliceosome | +2.030 | 0.013765 | 15 | / | Ddx39b, Snrpb, Rpa2, Prpf19, Ppie, Hnrnpa3 |
path:mmu04620 | Toll-like receptor signaling pathway | +2.224 | 0.018448 | 11 | Mapk9, Mapk14 | Mapk9, Mapk14 |
path:mmu04722 | Neurotrophin signaling pathway | +1.965 | 0.021031 | 14 | Mapk14, Cdc42 | Mapk14 |
path:mmu05320 | Autoimmune thyroid disease | +2.589 | 0.028615 | 7 | H2-Q2, H2-Q10,LOC100044874,H2-T10,H2-Bl | H2-Q2 |
path:mmu03030 | DNA replication | +2.757 | 0.032638 | 6 | / | Pola2 |
path:mmu04070 | Phosphatidylinositol signaling system | −3.880 | 0.003976 | 7 | Prkca, Pik3r3 | Prkca |
path:mmu04530 | Tight junction | −2.431 | 0.025024 | 8 | Prkca, Myl9 | / |
path:mmu04120 | Ubiquitin mediated proteolysis | −2.231 | 0.028651 | 9 | Map3k1 | Map3k1, Herc1, Prkca, Ubr5 |