ArticleCurrent protocols in human genetics2020
Analytical Approaches for ATAC-seq Data Analysis.
Article in Current protocols in human genetics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
13 citing papers in PubMed.
- Integrative Epigenomics: Bioinformatics Strategies for Multi-Omics Data Analysis in Health and Disease.Epigenomes · 2026Review
- Benchmarking genome choice in functional genomics analyses.Nature communications · 2026Article
- Atacformer: A transformer-based foundation model for analysis and interpretation of ATAC-seq data.bioRxiv : the preprint server for biology · 2025Article
- Matrix-Rigidity Cooperates With Biochemical Cues in M2 Macrophage Activation Through Increased Nuclear Deformation and Chromatin Accessibility.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Methods for constructing and evaluating consensus genomic interval sets.Nucleic acids research · 2024Article
- Methods for evaluating unsupervised vector representations of genomic regions.NAR genomics and bioinformatics · 2024Article
- Emerging Approaches to Profile Accessible Chromatin from Formalin-Fixed Paraffin-Embedded Sections.Epigenomes · 2024Review
- HyGAnno: hybrid graph neural network-based cell type annotation for single-cell ATAC sequencing data.Briefings in bioinformatics · 2024Article
- Epigenetic Profiling ofCancers · 2023Article
- Chromatin accessibility profiling by ATAC-seq.Nature protocols · 2022Review
- The impact of single-cell genomics on the field of mycobacterial infection.Frontiers in microbiology · 2022Review
- Epigenetic Application of ATAC-Seq Based on Tn5 Transposase Purification Technology.Genetics research · 2022Article
- PEPATAC: an optimized pipeline for ATAC-seq data analysis with serial alignments.NAR genomics and bioinformatics · 2021Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
ATAC-seq, the assay for transposase-accessible chromatin using sequencing, is a quick and efficient approach to investigating the chromatin accessibility landscape. Investigating chromatin accessibility has broad utility for answering many biological questions, such as mapping nucleosomes, identifying transcription factor binding sites, and measuring differential activity of DNA regulatory elements. Because the ATAC-seq protocol is both simple and relatively inexpensive, there has been a rapid increase in the availability of chromatin accessibility data. Furthermore, advances in ATAC-seq protocols are rapidly extending its breadth to additional experimental conditions, cell types, and species. Accompanying the increase in data, there has also been an explosion of new tools and analytical approaches for analyzing it. Here, we explain the fundamentals of ATAC-seq data processing, summarize common analysis approaches, and review computational tools to provide recommendations for different research questions. This primer provides a starting point and a reference for analysis of ATAC-seq data. © 2020 Wiley Periodicals LLC.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.