Table 2 Evaluation of performance on Gavin_2006 and Krogan_2006 networks using MIPS gold-standard.
From: Integrating domain similarity to improve protein complexes identification in TAP-MS data
Network | Gavin_2006 | Krogan_2006 | ||
|---|---|---|---|---|
Quality measures | BGCA | BGCA + BP | BGCA | BGCA + BP |
Sensitivity | 0.357 | 0.425 | 0.257 | 0.438 |
PPV | 0.601 | 0.626 | 0.455 | 0.590 |
Geometric accuracy | 0.463 | 0.516 | 0.342 | 0.509 |
Complex-wise Homogeneity | 0.324 | 0.364 | 0.156 | 0.323 |
Cluster-wise Homogeneity | 0.692 | 0.812 | 0.642 | 0.828 |
Geometric Homogeneity | 0.473 | 0.544 | 0.317 | 0.517 |
Precision | 0.530 | 0.614 | 0.246 | 0.449 |
Recall | 0.357 | 0.425 | 0.257 | 0.438 |
PR value | 0.435 | 0.511 | 0.251 | 0.444 |
Cluster-wise Jaccard | 0.387 | 0.458 | 0.159 | 0.328 |
Complex-wise Jaccard | 0.267 | 0.331 | 0.149 | 0.330 |
Jaccard FMeasure | 0.316 | 0.384 | 0.154 | 0.329 |
BH-Specificity | 0.698 | 0.837 | 0.491 | 0.824 |
BH-Sensitivity | 0.354 | 0.425 | 0.122 | 0.361 |
BH-FMeasure | 0.470 | 0.564 | 0.195 | 0.502 |