Table 1

Summary of GRN modules
Index Size Main regulators Target gene functions
1 419 RUNX3, RUNX2, POU2AF1, POU2F2, FLI1, BHLHB3, PRDM1

Immune response,

Plasma membrane,

Cell activation

2 328 HAND2, TCF4, FOXF1, FOXF2, ARID5B, FOXL1

Extracellular region,

Cell adhension

3 270 miR-150, miR-142, miR-155, miR-181a, miR-342, miR-27a, miR-146a, miR-199a, miR-214, HNF4A

Mitochondrion,

Oxidation reduction,

Mitochondrial envelope

4 152 AR, miR-127, miR-377, miR-323, miR-299, miR-221, miR-433, miR-376a, miR-136, miR-18a, miR-296, miR-154, miR-431, miR-382, miR-369, miR-200b

Oxidation reduction,

Cofactor metabolic process,

Steroid metabolic process

5 103 NR1I3, NR1I2, ESR1

Oxidation reduction,

Microsome,

Fatty acid metabolic process

6 75 E2F1, E2F7

Cell cycle,

Mitosis,

Chromosome,

Nuclear lumen

3, 4, 5 525 NR1I3,miR-150, miR-142, miR-155, miR-181a, AR, NR1I2, miR-342, miR-27a, miR-146a, HNF4A, miR-199a, miR-218, miR-214, miR-127, miR-132, ESR1, miR-377, SOX4, miR-323, miR-299, miR-221, miR-23a

Mitochondrion,

Oxidation reduction,

Cofactor binding,

Regulators are sorted by the number of targets. Regulators that regulate more than 80‚ÄČ% of genes in each module are listed. Gene Ontology enrichment was applied by DAVID to find common functions of genes. Size of each module corresponds to the number of nodes. The detailed enrichment results can be found in Additional File 2.

Gu et al.

Gu et al. BMC Systems Biology 2012 6:32   doi:10.1186/1752-0509-6-32

Open Data