Fig. 3

Results of cross-species transcriptional module analysis on the Oct4/Sox2/Nanog-directed regulatory network in human and mouse ESCs and EBs. (A) Heatmap presentation of the combined pair-wise correlation matrices of gene expression profiles in mouse (upper diagonal part) and human (lower diagonal part). Each column or row represents a human–mouse orthologous gene. Each block on the matrix presents the correlation level between the gene of the corresponding column and the gene of the row. The more reddish the color is, the more correlated the genes are on the expression profiles. The white color indicates zero correlation. (B) Heatmap of normalized gene expression values (red, over-expression in comparison to the mean expression value; green, under-expression, black, non change on the expression level). Each row represents an orthologous gene, and the position of the genes is the same as that on the row in the correlation matrix heatmap in A. The identified transcriptional modules are labeled as C1 through D7