Fig. 5
From: High-throughput screening of prostate cancer risk loci by single nucleotide polymorphisms sequencing
Allele-dependent transcriptional regulation at a haplotype region containing rs6579003, rs7123299, and rs7123418. a TF enrichment at SNPs (rs6579003, rs7123299, and rs7123418) by ChIP-seq analysis. The region is occupied with TFs such as AR, FOXA1, and HOXB13, and enriched with active chromatin mark H3K4me2. b TF enrichment at SNP rs7123299 site by ChIP-AS-qPCR analysis. The rs7123299 allele A shows higher binding ability to FOXA1 and HOXB13 than allele G in VCaP cells under ETH treatment but effect of the two alleles are switched under DHT treatment. The P values were calculated using the two-tailed Student’s t-test, mean ± s.d. c Luciferase reporter assay at three haplotype SNPs (rs6579003, rs7123299, and rs7123418) in LNCaP cells. The relative luciferase activity for haplotype A–A–A is higher than haplotype C–G–C in both ETH and DHT treatment. The P values were calculated using the two-tailed Student’s t-test, mean ± s.d. d eQTL analysis between haplotype-based genotypes (rs6579003, rs7123299, and rs7123418) and ASCL2. Compared to haplotype genotype CGC/CGC, the AAA/AAA confers higher expression of ASCL2 in benign prostate tissues. The upper, middle, and lower bounds of boxes represent the 75th, 50th, and 25th percentile of the values, respectively. The whiskers represent 95th to 5th percentile. The P values were calculated using the correlation/trend test (genotype association test in Golden Helix)
