Figure 5

List of inconsistencies. List of inconsistencies detected in the E. coli transcriptional network. A. The inconsistency appears because no possible stable behaviour may be obtained using this network as ihfA and ihfB genes code for the protein complex IHF, which deregulates the transcription of these genes. B. This inconsistency was found after confronting the network with 45 literature-curated expression changes during the exponential-stationary growth shift. The nodes with red and green borders refer to '+', and '-' observations. The problem appears since no possible explanation exists for the negative shift observed in the ihfA expression: ihfA is activated by RpoS and repressed by IHF; the change in expression of RpoS was inferred to be positive (because of fic), and the change in expression of IHF was inferred to be negative (because of ihfA and ihfB); consequently, these influences cannot explain the down-regulation of ihfA.