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Figure 3 | BMC Genomics

Figure 3

From: Snapshot of iron response in Shewanella oneidensis by gene network reconstruction

Figure 3

(A) Module of iron acquisition systems. Each node represents a gene and the width of the line represents the correlation coefficient of two linked genes. Blue and gray lines indicate positive and negative correlation coefficients, respectively. Colors are assigned to nodes according to their functional categories: red represents known iron acquisition systems, lavender represents transcriptional regulator, white represents unknown genes, and the black node depicts a gene whose association to other genes is not yet understood. The sequence logo of the consensus sequence in the promoter regions of genes in the module of iron acquisition systems was generated by the Gibbs Recursive Sampler program [28] and Weblogo program [50]. (B) Module of genes related to anaerobic energy metabolism. Colors are assigned as described in Fig. 3A except that red nodes represent genes with known roles in anaerobic energy metabolism. (C) Module of genes involved in protein degradation. Colors are assigned to nodes according to their functional categories: red represents genes that function in protein degradation, and white represents genes with unknown function.

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