Extensive evaluation of ATAC-seq protocols for native or formaldehyde-fixed nuclei.

ABSTRACT:

Background

The "Assay for Transposase Accessible Chromatin sequencing" (ATAC-seq) is an efficient and easy to implement protocol to measure chromatin accessibility that has been widely used in multiple applications studying gene regulation. While several modifications or variants of the protocol have been published since it was first described, there has not yet been an extensive evaluation of the effects of specific protocol choices head-to-head in a consistent experimental setting. In this study, we tested multiple protocol options for major ATAC-seq components (including three reaction buffers, two reaction temperatures, two enzyme sources, and the use of either native or fixed nuclei) in a well-characterized cell line. With all possible combinations of components, we created 24

SUBMITTER: Zhang H 

PROVIDER: S-EPMC8928671 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature