Skip to main content
Figure 4 | BMC Bioinformatics

Figure 4

From: A joint model of regulatory and metabolic networks

Figure 4

Active paths explaining glucose limitation, expression data, model of inferred links. Metabolites (triangles) connect to the fluxes (squares) of the reactions they participate in. Arrows are from the reactants of a reaction to its flux and from the flux of a reaction to its products. The preferred direction of each reaction is specified in EcoCyc. Enzymes (circles) connect to the fluxes they catalyze. Regulators (octagons) connect to operons (diamonds) they regulate, and operons connect to their member genes (circles). Metabolites connect to regulators via the feedback links. Perturbation sources and responses are colored by red (increase) or green (decrease). Enlarged colored nodes denote perturbation sources (glucose in this figure), colored nodes slightly larger than uncolored ones denote the significant responses explained by the model, and small colored nodes denote the unexplained responses. Solid edges are positive (activating), and dash edges are negative (inhibitory). Active paths are marked by blue edges connecting source to responses. For instance, the path glucose → ArcA → aceBAK (operon) → aceA explains the up regulation of aceA in glucose limitation.

Back to article page