Table 1.
The statistically significantly enriched pathways found by Walktrap and Multilevel community detection methods and the number of genes in each pathway that are either upregulated (more highly expressed) or downregulated (less expressed) in HGSC26. We identified statistically significant pathways in communities defined by only k = 4 in cluster 1 (k4c1), cluster 2 (k4c2), and cluster 4 (k4c4). The id number of the enriched community is also provided. Clusters 1, 2, 3 and 4 correspond to mesenchymal, proliferative, immunoreactive, and differentiated subtypes as previously defined by TCGA27.
| Cluster | Community | Method | Pathway Name | p-value | Downregulated | Upregulated |
|---|---|---|---|---|---|---|
| k4c1 | 0 | Walktrap | Beta1 integrin cell surface interactions integrin1_pathway | 8.01E-06 | 0 | 23 |
| k4c4 | 1 | Walktrap | Beta1 integrin cell surface interactions integrin1_pathway | 2.87E-06 | 12 | 0 |
| k4c1 | 2 | Multilevel | Beta1 integrin cell surface interactions integrin1_pathway | 8.47E-05 | 0 | 23 |
| k4c2 | 0 | Multilevel | IL12-mediated signaling events il12_2pathway | 1.99E-04 | 22 | 0 |
| k4c4 | 1 | Multilevel | Beta1 integrin cell surface interactions integrin1_pathway | 2. 0E-05 | 12 | 0 |