Research Article
A Least Square Method Based Model for Identifying Protein Complexes in Protein-Protein Interaction Network
Table 1
Comparison on biological relevance of complexes predicted by the algorithms.
| Network | Method | MF | BP | CC |
| Krogan | PLSMC | 0.479 | 0.457 | 0.592 | SLCP2 | 0.394 | 0.114 | 0.094 | ClusterONE | 0.311 | 0.291 | 0.357 | RSGNM | 0.392 | 0.270 | 0.270 | OCG | 0.199 | 0.185 | 0.331 | MCL | 0.265 | 0.057 | 0.033 | CFinder | 0.296 | 0.287 | 0.330 |
| Collins | PLSMC | 0.536 | 0.460 | 0.620 | SLCP2 | 0.405 | 0.353 | 0.410 | ClusterONE | 0.401 | 0.377 | 0.419 | RSGNM | 0.376 | 0.371 | 0.418 | OCG | 0.519 | 0.439 | 0.612 | MCL | 0.380 | 0.240 | 0.331 | CFinder | 0.439 | 0.351 | 0.439 |
| Gavin | PLSMC | 0.399 | 0.362 | 0.467 | SLCP2 | 0.374 | 0.153 | 0.189 | ClusterONE | 0.374 | 0.308 | 0.360 | RSGNM | 0.382 | 0.333 | 0.389 | OCG | 0.381 | 0.310 | 0.405 | MCL | 0.308 | 0.112 | 0.210 | CFinder | 0.387 | 0.350 | 0.401 |
| BioGRID | PLSMC | 0.459 | 0.452 | 0.511 | SLCP2 | 0.443 | 0.184 | 0.117 | ClusterONE | 0.439 | 0.447 | 0.439 | RSGNM | 0.363 | 0.277 | 0.267 | OCG | 0.262 | 0.321 | 0.343 | MCL | 0.400 | 0.176 | 0.140 | CFinder | — | — | — |
| CYC2008 | | 0.458 | 0.424 | 0.525 |
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MF, molecular function; BP, biological process; CC, cellular compartment.
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