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Table 5 Comparison of several computational methods for target gene prediction

From: Genome-wide analysis of chromatin features identifies histone modification sensitive and insensitive yeast transcription factors

 

ROC AUC

 

Number of target genes

HIS+PSSM

HIS alone

PSSM alone (FIMO)

Cluster-Buster

MCAST

EEL

Stubb

ABF1

549

0.830

0.736

0.781

0.776

0.676

0.807

0.893

FHL1

207

0.957

0.963

0.827

0.855

0.874

0.852

0.887

FKH1

284

0.656

0.625

0.606

0.680

0.546

0.661

0.725

FKH2

216

0.723

0.694

0.664

0.698

0.566

0.688

0.735

HAP1

215

0.738

0.711

0.635

0.675

0.624

0.676

0.663

RAP1

408

0.865

0.818

0.805

0.752

0.774

0.802

0.811

REB1

278

0.773

0.623

0.774

0.727

0.818

0.765

0.758

SWI4

252

0.831

0.790

0.634

0.680

0.626

0.664

0.651

SWI6

230

0.809

0.768

0.719

0.720

0.629

0.742

0.665

UME6

298

0.854

0.767

0.831

0.774

0.783

0.814

0.815

  1. HIS, histone modification-based method.
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Genome Biology

ISSN: 1474-760X

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