From reads to insight: a hitchhiker's guide to ATAC-seq data analysis.
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ABSTRACT:
SUBMITTER: Yan F
PROVIDER: S-EPMC6996192 | biostudies-literature | 2020 Feb
REPOSITORIES: biostudies-literature
Publications
From reads to insight: a hitchhiker's guide to ATAC-seq data analysis.
Yan Feng F Powell David R DR Curtis David J DJ Wong Nicholas C NC
Genome biology 20200203 1
Assay of Transposase Accessible Chromatin sequencing (ATAC-seq) is widely used in studying chromatin biology, but a comprehensive review of the analysis tools has not been completed yet. Here, we discuss the major steps in ATAC-seq data analysis, including pre-analysis (quality check and alignment), core analysis (peak calling), and advanced analysis (peak differential analysis and annotation, motif enrichment, footprinting, and nucleosome position analysis). We also review the reconstruction of ...[more]
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