Peak calling by Sparse Enrichment Analysis for CUT&RUN chromatin profiling.

ABSTRACT:

Background

CUT&RUN is an efficient epigenome profiling method that identifies sites of DNA binding protein enrichment genome-wide with high signal to noise and low sequencing requirements. Currently, the analysis of CUT&RUN data is complicated by its exceptionally low background, which renders programs designed for analysis of ChIP-seq data vulnerable to oversensitivity in identifying sites of protein binding.

Results

Here we introduce Sparse Enrichment Analysis for CUT&RUN (SEACR), an analysis strategy that uses the global distribution of background signal to calibrate a simple threshold for peak calling. SEACR discriminates between true and false-positive peaks with near-perfect specificity from "gold standard" CUT&RUN datasets and efficiently identifies enriched regions f

SUBMITTER: Meers MP 

PROVIDER: S-EPMC6624997 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature