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Table 3 Comparison of protein complex prediction by MIPS reference dataset

From: Finding low-conductance sets with dense interactions (FLCD) for better protein complex prediction

Network Method # complex #. matched Coverage Recall Precision F-measure Sn PPV Acc MMR
SceDIP FLCD 2134 120 3921 0.6522 0.1603 0.2573 0.4001 0.3901 0.3951 0.3206
  CONE 380 74 1503 0.4022 0.1868 0.2551 0.2749 0.4015 0.3322 0.1533
  LinkC 1839 109 3735 0.5924 0.1104 0.1862 0.4775 0.3646 0.4173 0.2993
  SR-MCL 2851 41 4687 0.1964 0.0230 0.0402 0.4592 0.2104 0.3108 0.0726
SceBG FLCD 4027 124 5836 0.6561 0.1393 0.2298 0.4643 0.4315 0.4476 0.3611
  CONE 522 86 2735 0.4450 0.1533 0.2293 0.4537 0.4452 0.4494 0.1795
  LinkC 5382 109 6076 0.6349 0.0918 0.1604 0.8179 0.3504 0.5354 0.3285
  SR-MCL 1862 65 5889 0.3439 0.0673 0.1126 0.7360 0.2436 0.4234 0.1384
SceIntAct FLCD 3394 120 4678 0.6417 0.1452 0.2368 0.4183 0.4034 0.4108 0.3482
  CONE 496 79 1994 0.4225 0.1633 0.2356 0.3587 0.4296 0.3925 0.1927
  LinkC 1297 80 5290 0.4278 0.0732 0.1251 0.9028 0.1986 0.4234 0.1886
  SR-MCL 1079 45 5342 0.1337 0.0190 0.0941 0.6246 0.1850 0.3399 0.0960
SceMINT FLCD 2483 111 4210 0.5904 0.1800 0.2759 0.4147 0.4086 0.4116 0.3231
  CONE 513 67 2335 0.3564 0.1267 0.1869 0.3274 0.4017 0.3626 0.1519
  LinkC 2201 100 4068 0.5319 0.1040 0.1740 0.4744 0.4038 0.4377 0.2744
  SR-MCL 3698 24 4976 0.1277 0.0112 0.0205 0.4192 0.1999 0.2894 0.0481
  1. CONE and LinkC are short for ClusterONE and LinkComm, respectively
  2. Bold values denote the best scores corresponding to specific criteria