ATAC-seq normalization method can significantly affect differential accessibility analysis and interpretation.

ABSTRACT:

Background

Chromatin dysregulation is associated with developmental disorders and cancer. Numerous methods for measuring genome-wide chromatin accessibility have been developed in the genomic era to interrogate the function of chromatin regulators. A recent technique which has gained widespread use due to speed and low input requirements with native chromatin is the Assay for Transposase-Accessible Chromatin, or ATAC-seq. Biologists have since used this method to compare chromatin accessibility between two cellular conditions. However, approaches for calculating differential accessibility can yield conflicting results, and little emphasis is placed on choice of normalization method during differential ATAC-seq analysis, especially when global chromatin alterations might be expected

SUBMITTER: Reske JJ 

PROVIDER: S-EPMC7178746 | biostudies-literature | 2020 Apr

REPOSITORIES: biostudies-literature