The most significant pathway crosstalks (the threshold of P-value of significance test is set as 0.001 strictly) consist of the map of pathways.
KEGG analysis revealed that the most significant pathway was that of Bladder Cancer (p = 1.5×10−31).
The most significant pathway (p-value <2.16×10-5) represented was farnesoid X receptor (FXR) and retinoid X receptor (RXR) activation (Table S10).
Interestingly, KEGG analysis of our selected dataset, revealed that the most significant pathway was that of Bladder Cancer (p = 1.5×10-31).
Furthermore, KEGG analysis identified the Bladder Cancer pathway as the most significant pathway, in which the selected GOIs participate, providing support for the accuracy of our analysis.
Acute phase response signaling was the most significant pathway for BMI-associated proteins and was also significant for insulin-associated proteins.
Importantly, when we performed an analysis for KEGG pathway participation of our selected dataset, the most significant pathway appeared to be the Bladder Cancer Pathway (p = 1.5×10−31).
Since the most significant pathway identified in the Lesnick et al. study was very small (7 genes), we will focus here on the pathway identified in the Moran et al. dataset.
Our results demonstrate a significant number of hepatic genes to be statistically altered by TNFα and the most significant pathway and network to be targeted predominantly involved those of lipid metabolism, cholesterol and steroid biosynthesis.
As a result, the MAPK pathway was found to be the most significant pathway associated with 13 TFs (Figure 4; enrichment of this pathway was supported by Fisher's exact test, p<10−4).
Figure 6 shows the "biosynthesis of steroids" pathway obtained using the Ingenuity Pathway Analysis tool that was derived as the most significant pathway being affected by our set of TNFα induced altered genes.
