Chromatin interactions and candidate genes at ten prostate cancer risk loci 1Scientific RepoRts | 6 23202 | DOI 10 1038/srep23202 www nature com/scientificreports Chromatin interactions and candidate[.]
www.nature.com/scientificreports OPEN received: 28 October 2015 accepted: 02 March 2016 Published: 16 March 2016 Chromatin interactions and candidate genes at ten prostate cancer risk loci Meijun Du1, Lori Tillmans2, Jianzhong Gao3, Ping Gao5, Tiezheng Yuan1, Rachel L Dittmar1, Wei Song5, Yuehong Yang5, Natasha Sahr4, Tao Wang4, Gong-Hong Wei5, Stephen N. Thibodeau2 & Liang Wang1 Genome-wide association studies have identified more than 100 common single nucleotide polymorphisms (SNPs) that are associated with prostate cancer risk However, the vast majority of these SNPs lie in noncoding regions of the genome To test whether these risk SNPs regulate their target genes through long-range chromatin interactions, we applied capture-based 3C sequencing technology to investigate possible cis-interactions at ten prostate cancer risk loci in six cell lines We identified significant physical interactions between risk regions and their potential target genes including CAPG at 2p11.2, C2orf43 at 2p24.1, RFX6 at 6q22.1, NFASC at 1q32.1, MYC at 8q24.1 and AGAP7P at 10q11.23 Most of the interaction peaks were co-localized to regions of active histone modification and transcription factor binding sites Expression quantitative trait locus (eQTL) analysis showed suggestive eQTL signals at rs1446669, rs699664 and rs1078004 for CAPG (p