Figure 4

Dual regulons analysis. Two TF regulon duals are selected for illustration, (A) MYB ~ SOX2 and (B) MYB ~ HOXB8. For each, a dot plot demonstrates the correlation (R) between expression of each TF and each of its targets, for all targets shared by the TF pair (i.e. each dot corresponds to a target shared by the two TFs, and the value is the correlation between expression of the target and the given TF). Red dots indicate positive correlation, blue dots indicate negative correlation, and grey dots indicate opposite correlation. A schematic is also shown for each, demonstrating the effect each TF putatively has on the phenotype, arrows indicating stimulation and flat bars indicating inhibition. MYB and SOX2 both appear to positively regulate the High Cell Cycle phenotype and negatively regulate the Low Cell Cycle phenotype, while MYB and HOXB8 appear to have opposite effects. (C) TF regulons were clustered by Regulon agreement, the Spearman correlation between TF pairs and their relationship with target genes (i.e. correlation based on data points in A and B), which divided TF regulons into two clusters, one enriched in regulons of high cell cycle activity, the other enriched in regulons of low cell cycle activity. Figures generated using expression data from Cohort 2.