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Table 5 Function enrichment analysis of protein complexes detected from different datasets

From: Identifying protein complexes based on an edge weight algorithm and core-attachment structure

Dataset Algorithms PC <E-15 [E-15,E-10) [E-10,E-5) [E-5,0.01) Significant
BioGRID CMC 1113 125(11.23%) 89(7.99%) 258(23.18%) 360(32.34%) 832(74.76%)
  PEWCC 387 181(46.77%) 64(16.53%) 83(21.44%) 46(11.88%) 374(96.65%)
  GMFTP 597 73(12.22%) 59(9.88%) 156(26.13%) 161(26.96%) 449(75.21%)
  COACH 166 76(45.78%) 32(19.27%) 38(22.89%) 16(9.63%) 162(97.60%)
  ProRank+ 746 479(64.20%) 105(14.07%) 97(13.00%) 47(6.30%) 18(97.59%)
  DPC 2167 596(27.50%) 166(7.66%) 290(13.38%) 569(26.25%) 1621(74.81%)
  EWCA 1388 658(47.40%) 211(15.20%) 299(21.54%) 173(12.46%) 1341(96.62%)
DIP CMC 303 1(0.33%) 8(2.64%) 58(19.14%) 77(25.41%) 144(47.53%)
  PEWCC 676 78(11.53%) 117(17.30%) 278(41.12%) 132(19.52%) 605(89.50%)
  GMFTP 548 43(7.84%) 36(6.56%) 105(19.16%) 166(30.29%) 350(63.69%)
  COACH 329 21(6.38%) 25(7.59%) 66(20.06%) 32(9.72%) 144(43.68%)
  ProRank+ 338 74(21.89%) 77(22.78%) 126(37.27%) 42(12.42%) 319(94.38%)
  DPC 622 72(11.57%) 113(18.16%) 197(31.67%) 176(28.29%) 558(89.72%)
  EWCA 964 188(19.50%) 126(13.07%) 319(33.09%) 236(24.48%) 870(90.15%)
  1. NOTE: Table 5 lists the number percentage of protein complexes detected by CMC, PEWCC, GMFTP, COACH, ProRank+, DPC and EWCA in the PPI network whose p-value falls within different value ranges. In order to analyze functional enrichment, we should take into account of two values. For example, in the DIP dataset, in the fourth column of the fourteenth row 188 times 19.50% is 36.66 which is the highest value in this column that means EWCA is the best among these methods. Here, from the fourth column to the seventh column the larger value is, the better functional enrichment is