Abstract

Genome-wide mapping of histone modifications is critical to understanding transcriptional regulation. CUT&Tag is a new method for profiling histone modifications, offering improved sensitivity and decreased cost compared with ChIP-seq. Here, we present GoPeaks, a peak calling method specifically designed for histone modification CUT&Tag data. We compare the performance of GoPeaks against commonly used peak calling algorithms to detect histone modifications that display a range of peak profiles and are frequently used in epigenetic studies. We find that GoPeaks robustly detects genome-wide histone modifications and, notably, identifies a substantial number of H3K27ac peaks with improved sensitivity compared to other standard algorithms.

Details

Title
GoPeaks: histone modification peak calling for CUT&Tag
Author
Yashar, William M; Kong, Garth; VanCampen, Jake; Curtiss, Brittany M; Coleman, Daniel J; Carbone, Lucia; Galip Gürkan Yardimci; Maxson, Julia E; Braun, Theodore P  VIAFID ORCID Logo 
Pages
1-21
Section
Method
Publication year
2022
Publication date
2022
Publisher
BioMed Central
ISSN
14747596
e-ISSN
1474760X
Source type
Scholarly Journal
Language of publication
English
DOI
https://doi.org/10.1186/s13059-022-02707-w
ProQuest document ID
2691528860
Copyright
© 2022. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.