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Table 2 Performances of prediction of GRNs by various methods on 30 yeast genes ground-truth network

From: Fusing gene expressions and transitive protein-protein interactions for inference of gene regulatory networks

Method TP FP FN Prec.(%) Rec.(%) F1(%) AUROC AUPR
CLR 190 312 127 37.85 59.94 46.40 0.555 0.388
GENIE3 128 202 189 38.79 40.38 39.57 0.546 0.395
TIGRESS 140 207 177 40.35 44.16 42.17 0.546 0.392
GMM 172 266 145 39.27 54.26 45.56 0.583 0.412
GHMM 258 329 59 43.95 81.39 57.08 0.664 0.461
R scores (GHMM) 250 262 67 48.83 78.86 60.31 0.705 0.501
BGM (R scores) 202 237 115 46.01 63.72 53.44 0.627 0.446
  1. Best performance measures that are significantly different are shown in bold