Table 2.
Result of pathway analysis for the red, green, and brown modules
| Pathway | # DE | p Value |
|---|---|---|
| Red module | ||
| Sphingolipid signaling pathway | 5 | 1.81 × 10−32 |
| Glycerophospholipid metabolism | 4 | 0.00016 |
| Phospholipase D signaling pathway | 4 | 0.0008 |
| Cyclic adenosine monophosphate signaling pathway | 4 | 0.00149 |
| Choline metabolism in cancer | 3 | 0.00561 |
| Ether lipid metabolism | 2 | 0.01523 |
| Glycerolipid metabolism | 2 | 0.03437 |
| Green module | ||
| Metabolic pathway | 6 | 0.00471 |
| Epstein-Barr virus infection | 3 | 0.1168 |
| Notch signaling pathway | 2 | 0.1168 |
| Pyrimidine metabolism | 2 | 0.1492 |
| Basal cell carcinoma | 2 | 0.1492 |
| Brown module | ||
| Proteoglycans in cancer | 6 | 0.00208 |
| Salmonella infection | 4 | 0.00208 |
| Terpenoid backbone biosynthesis | 3 | 0.00208 |
| Pathways in cancer | 7 | 0.00239 |
| Gonadotropin-releasing hormone signaling pathway | 4 | 0.00239 |
Pathway indicates the KEGG pathway being tested; # DE is the number of genes that are differentially expressed in our module; and the false discovery rate is the p value for overrepresentation