Fig. 2

Clusters of enhancers with Hi-C reads. Here all ChromHMM active enhancer clusters in GM12878 are shown within the region Chr1:161,060,000-161,175,000. Total five clusters belong to this region. The bottom half of the figure shows the five enhancer clusters (grey, yellow, green, purple and brown on the two sides) interacting with the common gene promoter regions (in the middle), arranged from left to right according to their relative genomic locations. The top half of the figure shows the same interactions of the five clusters (same color codes) with Hi-C reads. For example, the yellow cluster of enhancers interact with NIT1 and PFDN2 gene promoters with 687 Hi-C reads. The unmarked enhancer (blue) and gene promoter (UFC1) did not belong to any cluster. The location of the enhancers relative to each other and to the target genes are shown in the middle