A system-wide network reconstruction of gene regulation and metabolism in Escherichia coli
Fig 3
Graph snapshots of the four partitions.
The functional three-domain partition into metabolic and regulatory domains and protein interface (MD—PI—RD) (A), the functional two-domain partition into metabolic and regulatory domains (MD—RD) (B), vertex-driven three-domain partition into compounds/reactions, proteins and genes (C), vertex-driven two-domain partition into compounds/reactions, and proteins/genes (D). Vertices are colored according to their domain-affiliation: yellow–(pseudo) regulatory and gene-focused domain, respectively, and blue—(pseudo) metabolic and compound-focused domain, respectively. The interface domain in the three-domain partitions are drawn in red. The diagrams in the top right corners of each panel show the edge composition of the system in terms of intra-domain and inter-domain edges.