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. 2015 Jul 9;5:12063. doi: 10.1038/srep12063

Figure 2. Regulation rewiring in cancers.

Figure 2

(a) The patterns of joint interactors/interactions between normal and tumor GRNs. For each regulation type, the proportions of the intersection regulators/regulations between normal and tumor GRNs across seven cancer types are shown as a function of the proportion of the top correlated regulations. The P-values are calculated by Wilcoxon rank-sum test to indicate the significance of the difference between the proportions of shared interactors and interactions. (b) The illustration of regulation rewiring. We defined three types of regulation rewiring: I) gain or loss of a regulation but retention of both the regulator and target, II) gain or loss of a regulation with either one regulator or target being kept, and III) gain or loss of a regulation through the gain or loss of both the regulators and targets. (c) The distribution of regulation rewiring. For each regulation forms, the average percentage of regulation rewiring types over seven cancer types is shown as a function of the top 5%, 10%, 15, and 20% highly correlated GRNs. The regulation rewiring types are displayed by color codes (red: Type I, orange: Type II, and green: Type III). (d) The enrichment of cancer-associated regulations within DC BiTM regulations in the seven TCGA cancer types. For each cancer type, the proportion of cancer-associated regulations is shown. The asterisk on the top of each bar represents the significance of cancer-associated regulations with P < 0.05 derived from Fisher′s exact test. Because BiTM regulations possess two types of regulators, i.e., TF and miRNAs, we further specialized these three categories for BiTM as: 1) CN: only TFs are cancer-associated; 2) NC: only miRNAs are cancer-associated; 3) CC: both TFs and miRNAs are cancer-associated (C: cancer-associated, N: non-cancer-associated). In addition, we labeled the significance of the three sub-categorized cancer-associated regulations with P < 0.05 from Fisher’s exact test on the bottom of each bar. The order of asterisks for the sub-categorized cancer-associated regulations is CN, NC, and CC from top to bottom. Red asterisk: overrepresented. Green asterisk: underrepresented.