Fig. 5: Community structure of the primed state pluripotency network.
From: The regulatory architecture of the primed pluripotent cell state
a Schematic representation of parameters for defining node hierarchy based on their regularized out-degree (ROD) and betweenness score. b Distribution density for ROD across all MRs. The vertical dotted lines indicate the point of equal probability for a mixture of Gaussian models fitted to the data, defining the boundaries for Listeners, Communicators and Speakers. c Heatmap showing network parameters for the 77 MRs, showing scaled values for Degree, ROD and betweenness scores. d–f Violin plots showing distribution of regularized out-degree (d), betweenness (e), and degree (f) (FDR < 0.05, 2-tailed U-test). g Heatmap of the integrated meta-protein activity change for each community across the five differentiation treatments. Each cell represents the weighted average of the relative change in activity vs. untreated EpiSC controls across all MRs of each community, with the weight calculated based on the MR community score (Supplementary Fig. 8). h Heatmap showing GOBP pathways preferentially enriched (-log10(FDR), 1-tailed aREA test) on each of the four communities.
