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
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' |