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Table 6 Venn analysis for pathways of differentially expressed genes belong to HMGB1 treatment only in JS1 cells vs JS2 cells, 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

Pathway ID Pathway term Enrichment (+, up; −, down) P value No. of DifGenes Gene-act-net core genes (degree >5)
PATH:00480 Glutathione metabolism 4.2971 0.0380 3 Gstt2, Mgst3
PATH:04145 Phagosome 3.6668 0.0026 8 H2-M11, H2-T24
PATH:04722 Neurotrophin signaling pathway 3.5650 0.0094 6 Mapk3, Kras, Irs1
PATH:04380 Osteoclast differentiation 3.1579 0.0264 5 Mapk3
PATH:04068 FoxO signaling pathway 2.9708 0.0327 5 Mapk3, Kras, Irs1
PATH:01100 Metabolic pathways 1.6410 0.0234 25 Pold4, Polr3h, Cyp2e1, Pip5k1c
PATH:04151 PI3K-Akt signaling pathway −1.7433 0.0427 14 Mapk1, Igf1r, Ptk2, F2r, Irs1, Chuk
PATH:05205 Proteoglycans in cancer −2.1213 0.0215 11 Mapk1, Igf1r, Ptk2, Prkx
PATH:04068 FoxO signaling pathway −2.2599 0.0443 7 Mapk1, Igf1r, Foxo1, Irs1, Chuk
PATH:04722 Neurotrophin signaling pathway −2.2599 0.0443 7 Mapk1, Traf6, Irs1, Rps6ka3
PATH:05200 Pathways in cancer −2.3845 0.0014 18 Mapk1, Igf1r, Ptk2, Traf6, Foxo1, Chuk
PATH:04120 Ubiquitin mediated proteolysis −2.8018 0.0075 9 Traf6, Wwp1
PATH:04720 Long-term potentiation −3.1582 0.0267 5 Mapk1, Prkx, Rps6ka3
PATH:04150 mTOR signaling pathway −4.0231 0.0056 6 Mapk1, Irs1, Rps6ka3
PATH:04621 NOD-like receptor signaling pathway −4.2869 0.0042 6 Mapk1, Traf6, Chuk'