ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome.

ABSTRACT: Massively parallel reporter assays (MPRAs) test the capacity of putative gene regulatory elements to drive transcription on a genome-wide scale. Most gene regulatory activity occurs within accessible chromatin, and recently described methods have combined assays that capture these regions-such as assay for transposase-accessible chromatin using sequencing (ATAC-seq)-with self-transcribing active regulatory region sequencing (STARR-seq) to selectively assay the regulatory potential of accessible DNA (ATAC-STARR-seq). Here, we report an integrated approach that quantifies activating and silencing regulatory activity, chromatin accessibility, and transcription factor (TF) occupancy with one assay using ATAC-STARR-seq. Our strategy, including important updates to the ATAC-STARR-seq assay and w

SUBMITTER: Hansen TJ 

PROVIDER: S-EPMC9435738 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature