1. High-throughput screening of prostate cancer risk loci by single nucleotide polymorphisms sequencing.
- Author
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Peng Zhang, Ji-Han Xia, Jing Zhu, Ping Gao, Yi-Jun Tian, Meijun Du, Yong-Chen Guo, Suleman, Sufyan, Qin Zhang, Kohli, Manish, Tillmans, Lori S., Thibodeau, Stephen N., French, Amy J., Cerhan, James R., Li-Dong Wang, Gong-Hong Wei, and Liang Wang
- 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 and provide detailed functional analysis at two risk loci (RGS17 and ASCL2). Together, we introduce a powerful high-throughput pipeline for large-scale screening of functional SNPs at disease risk loci. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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