Fig. 8

Deletion of the region encompassing the PCa risk-associated CTCF site near rs4919742 increases KRT gene expression. a A blowup of the CTCF peak information, genomic annotation, and looping information for rs4919742 from Fig. 4. b Hi-C chromatin interaction map of the region of chromosome 1 near the rs4919742. The location of the SNP is indicated by the blue line and arrow. The blue circles indicate the high confidence risk loops used in the analysis. c Detailed schematic of the high confidence risk loops in which rs4919742 is involved, as identified by the Hi-C chromatin interaction data; there are 26 keratin genes within the loops. d Shown is the fold-change expression of all genes within a ± 1-Mb region near rs4919742 in the cells deleted for a 2875-bp region encompassing the PCa risk-associated CTCF site (site 4); a volcano plot illustrating the genome-wide analysis of the RNA-seq data can be found in Additional file 1: Figure S2. The yellow X indicates which CTCF site has been deleted