Table 2

Information about gold standards (GS) used in the study.

Task

name

Reference/source

# TFs in GS

# genes in GS

# gene probes for GS genes in gene expression data

# TF-gene interactions

# TF-gene interactions significant at FDR = 0.05


ECOLI

[12,20]

140

913

913

1,885

1,607

YEAST

[12,21]

115

1,834

1,834

3,541

2,648

NOTCH1

[22,40]

1

302

813

813

553

RELA

[22,41,42]

1

1,420

3,657

3,657

931


"TF" stands for "transcription factor". Statistically significant associations were determined using Fisher's Z-test at 5% FDR in microarray gene expression data (please see text for details).

Statnikov et al. BMC Genomics 2012 13(Suppl 8):S22   doi:10.1186/1471-2164-13-S8-S22

Open Data