Fig. 5
From: Evolution of gene knockout strains of E. coli reveal regulatory architectures governed by metabolism
Mapping between network components and annotated regulation. a An algorithm for determining agreement and disagreement between system components categories and annotated biochemical pathways and regulation. 1. The algorithm inputs include the component profiles, the network components, and the network interactions. 2. An on/off Boolean interaction network that describes the biochemical and/or regulatory relationship between two components is constructed. 3. The component categories and on/off interaction between each component can then be determined. 4. For components that were not directly measured, a consensus category and confidence score can be determined. b Example of metabolite-mediated transcription factor activation between tyr-L, TyrR, and aroF53. c Example of an unresolved discrepancy involving Fur regulation. d Example of transcription factor hierarchy between cAMP-CRP and Cra
