Fig. 2

Identification of modulator genes in the discovery dataset. a-d Distributions of ACI score, number of nodes, number of edges, and connectivity of 5308 genes in the GSE2034 dataset. The parameters approximately followed log-normal distributions. e Pairwise correlation coefficients among the four parameters. Generally, the parameters were highly similar, with correlation coefficients falling between 0.64 and 0.95. f Venn diagram of significant modulators assessed by the parameters. Significance level of each parameter of a putative modulator gene was tested by a 10,000-time random permutation of the original expression dataset. By a cutoff of empirical P-value <0.0001, we identified 2121, 3305, 2987, and 1216 significant modulators by each parameter. A total of 973 genes reported by all of the parameters were defined as key modulator genes and selected for further analysis