期刊
GENOME BIOLOGY
卷 23, 期 1, 页码 -出版社
BMC
DOI: 10.1186/s13059-022-02707-w
关键词
GoPeaks; CUT&Tag; Histone modifications; Peak calling; Epigenetics; CUT&RUN; ChIP-seq; ATAC-seq; MACS2; SEACR
资金
- American Society of Hematology Research Restart Award
- American Society of Hematology Scholar Award
- NCI [1 K08 CA245224]
- NIH: Medical Scientist Training Program of Oregon Health and Science University [T32 GM109835]
The study presents a new method GoPeaks for detecting histone modification peaks with improved sensitivity compared to traditional algorithms, which is of great significance for epigenetic research.
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.
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