Modulation of Enhancer Looping and Differential Gene Targeting by Epstein-Barr Virus Transcription Factors Directs Cellular Reprogramming
Figure 2
Colocalization of histone modifications and transcription factor binding at EBNA 2 and 3 binding sites.
(A) Heatmap of EBNA 2, EBNA 3 and histone modification ChIP-seq signals at the top 1000 EBNA 2 binding sites. EBNA 2 and 3 ChIP-seq data from Mutu III BL cells was aggregated with ENCODE histone modification ChIP-seq data from the GM12878 LCL using hierarchical clustering. Each window displays the ChIP-seq signal −/+ 1 kb around the EBNA 2 binding site midpoint. Clusters of active enhancers (H3K4me1+, H3K27ac+) and poised enhancers (H3K4me1+, H3K27ac−) are indicated. (B) Heatmap of EBNA 3, EBNA 2 and histone modification ChIP-seq signals at the top 1000 EBNA 3 binding sites. (C) Position weight matrix and TF consensus prediction generated from unbiased motif searching using the top 300 EBNA 2 binding sites. Numbers show the p-value for site enrichment. (D) Position weight matrix derived from motif searching using the top 300 EBNA 3 family sites. (E) Position weight matrix for motif searching using all shared sites.