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Table 5 Venn-analysis for pathways of differentially expressed genes that were LPS responsive 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 P value No. of DifGenes Gene-act-net
(+, up; −, down) core genes (degree >5)
PATH:04668 TNF signaling pathway 3.8644 0.0005 10 Mapk9, Mapk14, Map2k1
PATH:04722 Neurotrophin signaling pathway 3.7442 0.0002 12 Mapk9, Foxo3, Mapk14, Map2k1
PATH:04621 NOD-like receptor signaling pathway 3.4526 0.0195 5 Mapk9, Mapk14
PATH:04620 Toll-like receptor signaling pathway 3.3364 0.0044 8 Mapk9, Mapk14, Map2k1
PATH:04622 RIG-I-like receptor signaling pathway 3.0523 0.0301 5 Mapk9, Mapk14
PATH:04066 HIF-1 signaling pathway 3.03588 0.0074 8 Map2k1
PATH:04068 FoxO signaling pathway 2.8081 0.0075 9 Mapk9, Foxo3, Mapk14, Map2k1
PATH:04141 Protein processing in endoplasmic reticulum 2.4924 0.0106 10 Mapk9
PATH:04380 Osteoclast differentiation 2.3217 0.0396 7 Mapk9, Mapk14, Map2k1
PATH:04010 MAPK signaling pathway 2.0206 0.0189 13 Mapk9, Mapk14, Map2k1
PATH:04151 PI3K-Akt signaling pathway 1.8052 0.0291 15 Foxo3, Map2k1
PATH:04066 HIF-1 signaling pathway -3.5287 0.0321 4 Pik3r3
PATH:04070 Phosphatidylinositol signaling system -6.0445 0.0021 5 Ocrl, Pik3r3, Synj2