High-resolution genome-wide functional dissection of transcriptional regulatory regions and nucleotides in human.

ABSTRACT: Genome-wide epigenomic maps have revealed millions of putative enhancers and promoters, but experimental validation of their function and high-resolution dissection of their driver nucleotides remain limited. Here, we present HiDRA (High-resolution Dissection of Regulatory Activity), a combined experimental and computational method for high-resolution genome-wide testing and dissection of putative regulatory regions. We test ~7 million accessible DNA fragments in a single experiment, by coupling accessible chromatin extraction with self-transcribing episomal reporters (ATAC-STARR-seq). By design, fragments are highly overlapping in densely-sampled accessible regions, enabling us to pinpoint driver regulatory nucleotides by exploiting differences in activity between partially-overlapping fr

SUBMITTER: Wang X 

PROVIDER: S-EPMC6300699 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature