Figure 2

A network model describing major cellular pathways regulated by five key TFs in response to PDGF-BB stimulation. (A) The network was reconstructed using 255 target genes that belong to the overrepresented pathways. The node and node border colors represent log2 scale fold changes of mRNA expression at 4h and 24 h, respectively: genes decreasing at 4 h or 24 h compared to 0 hour are represented in green while those which increased at 4 h or 24 h are represented in red. The blue and cyan lines in the network indicate protein-protein interaction and TF-target interaction, respectively. The network nodes were arranged into several modules according to KEGG pathway information and Gene Ontology biological processes of the corresponding genes. (B) Two-dimensional map showing fold enrichment scores (FES) representing the contribution of TFs to the individual modules. The color gradient of each rectangle indicates the magnitude of the FES in the corresponding module. (C) Immunoblot analysis of time-dependent changes in PDGFR phosphorylation and putative master regulators in response to PDGF-BB treatment for the indicated times. The blot is representative of at least 3 independent trials.