High-throughput screening of prostate cancer risk loci by single nucleotide polymorphisms sequencing.

ABSTRACT: Functional characterization of disease-causing variants at risk loci has been a significant challenge. Here we report a high-throughput single-nucleotide polymorphisms sequencing (SNPs-seq) technology to simultaneously screen hundreds to thousands of SNPs for their allele-dependent protein-binding differences. This technology takes advantage of higher retention rate of protein-bound DNA oligos in protein purification column to quantitatively sequence these SNP-containing oligos. We apply this technology to test prostate cancer-risk loci and observe differential allelic protein binding in a significant number of selected SNPs. We also test a unique application of self-transcribing active regulatory region sequencing (STARR-seq) in characterizing allele-dependent transcriptional regulation a

SUBMITTER: Zhang P 

PROVIDER: S-EPMC5964124 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature