Results 11 to 20 of about 186,580 (246)

scATAC-seq generates more accurate and complete regulatory maps than bulk ATAC-seq [PDF]

Scientific Reports
Bulk ATAC-seq assays have been used to map and profile the chromatin accessibility of regulatory elements such as enhancers, promoters, and insulators. This has provided great insight into the regulation of gene expression in many cell types in a variety
Jim R Hughes, Hughes Jim R
exaly   +4 more sources

Mapping open chromatin by ATAC-seq in bread wheat

Frontiers in Plant Science, 2022
Gene transcription is largely regulated by cis-regulatory elements. Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) is an emerging technology that can accurately map cis-regulatory elements in animals and plants.
Dijun Chen, Wenhao Yan, Chen Dijun
exaly   +5 more sources

ATAC-seq in Emerging Model Organisms: Challenges and Strategies. [PDF]

J Exp Zool B Mol Dev Evol
The Assay for Transposase‐Accessible Chromatin with sequencing (ATAC‐seq) is a versatile and widely utilized method for identifying potential regulatory regions, such as promoters and enhancers, within a genome.
Erdoğan DE, Karimifard S, Khodadadi M, Ling L, Linke L, Catalán A, Doublet V, Glaser-Schmitt A, Niehuis O, Nowick K, Soro A, Turetzek N, Feldmeyer B, Posnien N.   +13 more
europepmc   +6 more sources

Identification of transcription factor binding sites using ATAC-seq [PDF]

Genome Biology, 2019
Transposase-Accessible Chromatin followed by sequencing (ATAC-seq) is a simple protocol for detection of open chromatin. Computational footprinting, the search for regions with depletion of cleavage events due to transcription factor binding, is poorly ...
Zhijian Li, Marcel H. Schulz, Thomas Look, Matthias Begemann, Martin Zenke, Ivan G. Costa   +5 more
doaj   +6 more sources

Chromatin accessibility profiling by ATAC-seq

Nature Protocols, 2022
The assay for transposase-accessible chromatin using sequencing (ATAC-seq) provides a simple and scalable way to detect the unique chromatin landscape associated with a cell type and how it may be altered by perturbation or disease.
F. Grandi, Hailey Modi, Lucas Kampman, M. Corces   +3 more
semanticscholar   +5 more sources

ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq

Frontiers in Genetics, 2021
Assay for transposase-accessible chromatin using sequencing data (ATAC-seq) is an efficient and precise method for revealing chromatin accessibility across the genome.
Rita Jui-Hsien Lu, Yen-Ting Liu, Ming-Ren Yen   +2 more
exaly   +3 more sources

ATAC‐seq: A Method for Assaying Chromatin Accessibility Genome‐Wide

Current Protocols in Molecular Biology, 2015
This unit describes Assay for Transposase‐Accessible Chromatin with high‐throughput sequencing (ATAC‐seq), a method for mapping chromatin accessibility genome‐wide.
Jason D Buenrostro, Beijing Wu, Howard Y Chang   +2 more
exaly   +2 more sources

ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data

BMC Genomics, 2018
Background ATAC-seq (Assays for Transposase-Accessible Chromatin using sequencing) is a recently developed technique for genome-wide analysis of chromatin accessibility. Compared to earlier methods for assaying chromatin accessibility, ATAC-seq is faster
Jianhong Ou, Haibo Liu, Jun Yu, Michelle A. Kelliher, Lucio H. Castilla, Nathan D. Lawson, Lihua Julie Zhu   +6 more
doaj   +2 more sources

From reads to insight: a hitchhiker’s guide to ATAC-seq data analysis

Genome Biology, 2020
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.
Feng Yan, David R. Powell, David J. Curtis, Nicholas C. Wong   +3 more
doaj   +2 more sources

GUAVA: A Graphical User Interface for the Analysis and Visualization of ATAC-seq Data

Frontiers in Genetics, 2018
Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) is a powerful genomic technology that is used for the global mapping and analysis of open chromatin regions.
Mayur Divate, Edwin Cheung, Cheung Edwin   +2 more
exaly   +3 more sources