Fig. 4
From: HiCoP, a simple and robust method for detecting interactions of regulatory regions
HiCoP has an advantage in detecting promoter–enhancer interactions. a Distribution of the cis-PETs of HiChIP and HiCoP. PETs are called from two replicates by using HiC-Pro. b Distribution of the cis loops of HiC, HiChIP, and HiCoP. Loops were called from two replicates by using Fit-Hic. c Distribution of the functionally annotated loops. P–P, loop between promoter and promoter; P–E, promoter and enhancer; E–E, enhancer and enhancer. d Venn diagrams of the genes associated with P–E loops and e the K562-expressing genes associated with P–E loops. K562 RNA-seq data are from ENCODE database, and expression cut level is TPM > = 0.5. f The expression levels of the K562-expressing genes associated with P–E loops. P values were calculated by Wilcoxon test. *** < 0.001. HiC and HiChIP(H3K27ac) data were downloaded from SRA database (HiC: SRR1658693, SRR1658694; HiChIP: SRR5831492, SRR5831493)