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Table 3 Evaluation of performance on Gavin_2006 and Krogan_2006 networks using CYC2008 gold-standard.

From: Integrating domain similarity to improve protein complexes identification in TAP-MS data

Network

Gavin_2006

Krogan_2006

Quality measures

BGCA

BGCA + BP

BGCA

BGCA + BP

Sensitivity

0.461

0.480

0.300

0.419

PPV

0.711

0.709

0.550

0.595

Geometric accuracy

0.573

0.583

0.406

0.499

Complex-wise Homogeneity

0.307

0.326

0.134

0.221

Cluster-wise Homogeneity

0.819

0.896

0.745

0.846

Geometric Homogeneity

0.502

0.540

0.316

0.432

Precision

0.670

0.714

0.371

0.428

Recall

0.461

0.480

0.300

0.419

PR value

0.556

0.585

0.334

0.423

Cluster-wise Jaccard

0.536

0.583

0.255

0.321

Complex-wise Jaccard

0.361

0.380

0.204

0.293

Jaccard FMeasure

0.432

0.460

0.227

0.306

BH-Specificity

0.867

0.901

0.740

0.840

BH-Sensitivity

0.340

0.352

0.136

0.232

BH-FMeasure

0.489

0.506

0.229

0.363

  1. Better measuring values are in bold.