Fig. 3

Example of module extraction and qualitative assessment. The full model of EGFR signaling in colorectal cancer cells, a bird’s-eye view of which is presented in (A), is broken down into several modules: EGFR-Src (green), PI3K-Akt (red), Ras-Raf-Mek-Erk (blue), and S6K (yellow). Nodes shared between two or more modules are left uncolored. Each of these modules can be extracted for independent visualization and evaluation, as shown for the S6K module in (B) and (C), using the PlotModules.R and TruthTable.R scripts, respectively