Automated Identification of Core Regulatory Genes in Human Gene Regulatory Networks
Fig 5
MCF-7 estrogen response gene network.
(a) Differentially expressed genes with FDR < 0.001 were selected from two high quality datasets GSE11324 (microarray) and GSE51403 (RNA-seq). A significant number of genes were common between the two datasets, near about 70% if a FDR cutoff of 0.05 were to be used as shown by dotted ellipses. The union list between GSE11324 and GSE51403 was selected for network construction. The union list also had a good overlap with another dataset GSE11352. (b) The final MCF-7 network consisted of 5736 nodes including 462 TFs, 58 miRNAs and 5216 mRNA genes. The numbers on the edges denote the total number of interconnections between various types of nodes.