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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