Research Article
Identifying Hierarchical and Overlapping Protein Complexes Based on Essential Protein-Protein Interactions and “Seed-Expanding” Method
Table 2
Comparing the functional enrichment of protein complexes identified by MCSE and the seven other algorithms.
| | Algorithms | <E − 10 | | | ≥0.01 (insignificant) | <0.01 (significant) |
| | MCSE (λ_th = 0.5) | 7 (1.8%) | 114 (29.5%) | 186 (48.1%) | 80 (20.7%) | 307 (793%) | | CMC (AdjstCD = 1, overlap_thres = 0.5, merge_thres = 0.15) | 61 (8.4%) | 131 (17.9%) | 280 (38.4%) | 258 (35.3%) | 472 (64.7%) | | Core-Attachment | 76 (5.6%) | 122 (9.0%) | 287 (21.1%) | 873 (64.3%) | 485 (35.7%) | | CPM () | 25 (12.7%) | 49 (24.9%) | 42 (21.3%) | 81 (41.1%) | 116 (58.9%) | | Dpclus () | 42 (3.5%) | 155 (12.9%) | 329 (27.4%) | 674 (56.2%) | 526 (43.8%) | | HC-PIN (, size = 2) | 40 (16.6%) | 35 (14.5%) | 84 (24.1%) | 99 (55.2%) | 166 (44.8%) | | MCL (inflation = 2.0) | 54 (5.8%) | 114 (12.3%) | 239 (25.7%) | 522 (56.2%) | 407 (43.8%) | | NFC () | 47 (9.2%) | 81 (15.6%) | 124 (23.9%) | 266 (51.3%) | 252 (48.7%) |
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