Hotspots preferentially bind in cell type-specific gene neighbourhoods. A. A heatmap of Pearson’s correlation coefficients of genes in 30 sets (three groups of 10 cell types) with a hierarchical clustering tree showing that singletons and combinatorials clustered together in a tight cluster while hotspot gene sets were very distinct from each other. B. Fraction of ES super enhancers defined by Whyte et al.  in three groups showing hotspots significantly overlapped with super enhancers. C. Fraction of high Oct4 bound regions in Oct4+/− compared to Oct4+/+  ES cells in three groups showing hotspots enriched for high Oct4 bound regions in Oct4+/− and also pluripotent genes D. Functional enrichments of hotspot genes in 10 cell types along with p values showing that hotspot genes were enriched for cell type specific genes.