A system-wide network reconstruction of gene regulation and metabolism in Escherichia coli
Fig 5
Schematic overview of the components and connections of the integrative E. coli network, especially those involved in the protein interface.
The information about edges are presented in gray and about traversing paths are shown in gold while the number of vertices are shown in dark blue and the traversing paths-related ones are given in dark brown, in addition. The solid lines denote direct link connections while the dashed lines the traversing paths connections. In the regulatory domain, for example, 274 vertices are directly linked to 283 vertices in the metabolic domain via 283 edges. Also, 806 vertices have a directed edge to 812 vertices in the protein interface (summing up to 813 edges). Similarly, the regulatory domain has 3210 edges residing in this domain. The total number of vertices in the regulatory domain that exchange an incoming or outgoing link with one of the other domains are 1533. The number of edges displayed on the right-hand side of the figure is the total count of edges between two domains or within a single domain. The number 385, for example, is the total count of edges between the regulatory domain and the metabolic domain. The number 1854 is the total count of edges within the interface domain. In gold (as numbers and dashed lines) the information about traversing paths is given. The total number of downwards traversing paths (18904) and of upwards traversing paths (4070) is indicated in gold along these dashed lines.