Table 3 Performance comparison on prostate cancer gene expression data and PPI for the subnetwork detection methods
Method | BioNet | jAM_GS | jAM_SA | Cosine | BMRF | WMAXC | FEM | PinnacleZ | KR | Kwalk | ClustEx |
|---|---|---|---|---|---|---|---|---|---|---|---|
Number of nodes selected | 196 | 316 | 1559 | 243 | 601 | 539 | 233 | 246 | 328 | 466 | 419 |
Number of edges in the subnetwork | 275 | 715 | 2987 | 102 | 1179 | 1698 | 292 | 503 | 472 | 771 | 495 |
Number of PC genes recovered | 24 | 48 | 132 | 23 | 94 | 95 | 2 | 46 | 38 | 42 | 26 |
Fold enrichment | 1.633 | 1.773 | 1.129 | 1.262 | 2.086 | 2.35 | 0.114 | 2.494 | 1.545 | 1.202 | 0.828 |