Figure 2

Assessment of CS-CCC Performance. (a) Comparison of COG functional categories of predicted pairs at three different confidence levels. The first method (1) used only E. coli K12. Each subsequent method added an additional (underlined) bacterial strain. 1, E. coli K12; 2, E. coli K12 and E. coli O157; 3, E. coli K12, E. coli O157 and S. flexneri; 4, E. coli K12, E. coli O157, S. flexneri, and S. typhimurium LT2; 5, E. coli K12, E. coli O157, S. flexneri, S. typhimurium LT2, and P. aeruginosa; 6, E. coli K12, E. coli O157, S. flexneri, S. typhimurium LT2, P. aeruginosa, and B. subtilis. The percentage of predicted interactions involving proteins from the same functional category (blue), different functional categories (green), or involving at least one protein that is unclassified (yellow) are depicted. (b) The CS-CCC network generated from the complete set of proteins included in the green bar of (a) for a confidence of 0.8, 6 species. A total of nine proteins (yellow nodes) and six-paired interactions were included in this group. The protein pairs and the classifications of each protein are as follows: (FtsI [M] and NusG [K]; MurE [M] and RecG [L]; MurG [M] and RecG [L]; MurC [M] and RecG [L]; MurA [M] and NusG [K]; RpoA [K] and RpsD [J]). M, cell envelope biogenesis, outer membrane; K, transcription; L, DNA replication, recombination and repair; J, translation, ribosomal structure and biogenesis. The edges are color coded for each species evaluated: E. coli K12, green; E. coli O157, blue; Shigella flexneri, black; S. typhimurium LT2, purple; P. aeruginosa, mustard; and Bacillus subtilis, red.