Table 5.
Enriched KEGG pathways for module genes using the hypergeometric test
| Pathway name (KEGG ID) | Pathway size | # module genes | P | PBonferroni |
|---|---|---|---|---|
| VEGAS-all | ||||
| Neurotrophin signaling pathway (hsa04722) | 116 | 10 | 6.96 × 10-5 | 0.007 |
| Adipocytokine signaling pathway (hsa04920) | 55 | 6 | 6.34 × 10-4 | 0.065 |
| Cell cycle (hsa04110) | 114 | 8 | 1.56 × 10-3 | 0.158 |
| Chronic myeloid leukemia (hsa05220) | 70 | 6 | 2.28 × 10-3 | 0.227 |
| Vasopressin-regulated water reabsorption (hsa04962) | 34 | 4 | 4.10 × 10-3 | 0.405 |
| VEGAS-top | ||||
| Cell cycle (hsa04110) | 114 | 20 | 8.61 × 10-8 | 1.15 × 10-5 |
| Neurotrophin signaling pathway (hsa04722) | 116 | 17 | 1.14 × 10-5 | 1.51 × 10-3 |
| Endometrial cancer (hsa05213) | 49 | 8 | 1.31 × 10-3 | 0.173 |
| RIG-I-like receptor signaling pathway (hsa04622) | 50 | 8 | 1.50 × 10-3 | 0.196 |
| Chronic myeloid leukemia (hsa05220) | 70 | 9 | 3.69 × 10-3 | 0.479 |
| minP | ||||
| T cell receptor signaling pathway (hsa04660) | 104 | 17 | 2.68 × 10-6 | 3.43 × 10-4 |
| Neurotrophin signaling pathway (hsa04722) | 116 | 18 | 2.91 × 10-6 | 3.69 × 10-4 |
| Antigen processing and presentation (hsa04612) | 59 | 12 | 8.58 × 10-6 | 1.08 × 10-3 |
| Chronic myeloid leukemia (hsa05220) | 70 | 13 | 1.03 × 10-5 | 1.28 × 10-3 |
| Non-small cell lung cancer (hsa05223) | 51 | 11 | 1.14 × 10-5 | 1.42 × 10-3 |