Results 21 to 30 of about 176,761 (289)

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   +1 more source

SeATAC: a tool for exploring the chromatin landscape and the role of pioneer factors

Genome Biology, 2023
Assay for Transposase-Accessible Chromatin with sequencing (ATAC-seq) reveals chromatin accessibility across the genome. Currently, no method specifically detects differential chromatin accessibility.
Wuming Gong, Nikita Dsouza, Daniel J. Garry   +2 more
doaj   +1 more source

Computational Analyses and Challenges of Single-cell ATAC-seq. [PDF]

Genomics Proteomics Bioinformatics
Abstract Single-cell Assay for Transposase-Accessible Chromatin using sequencing (scATAC-seq) has emerged as a powerful technique to study cell-specific epigenetic landscapes and to provide a multidimensional portrait of gene regulation. However, low genomic coverage per cell results in intrinsic data sparsity and missing-data issues,
Wang C, Zhou J, Zhang H, Zhuang Z, Bai G, Tang M, Liu S, Liu T.   +7 more
europepmc   +3 more sources

ATAC-seq peaks.

, 2022
ATAC-seq, assay for transposase accessible chromatin and sequencing. (XLSX)
Michele Chirichella (4025858), Amy Kenyon (390021), Gioacchino Natoli (249306), Niccolò Bianchi (9729407), Emina Džafo (12072862), Silvia Monticelli (3240), Francesco Gualdrini (9120080), Elena Foli (12072865)   +7 more
core   +1 more source

ATAC-seq dataset overview.

, 2023
Overview of all ATAC-seq datasets generated and used, including datatype, origin, medium condition, and GEO accession number. (DOCX)
Mariya Moosajee (9259733), Huiqing Zhou (233710), Jos G. A. Smits (8173446), Dulce Lima Cunha (10123784), Lorenz Latta (16716320), Tanja Stachon (17242113), Nicholas Owen (10097392), Stefano Ferrari (224700), Jieqiong Qu (540008), Lauriane N. Roux (17242110), Maryam Amini (616084), Daniel Aberdam (270067), Simon J. van Heeringen (8267484), Camille Laberthonnière (17242107), Berthold Seitz (644325), Marina Bertolin (3207921), Nora Szentmary (6247454)   +16 more
core   +1 more source

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
doaj   +1 more source

ATAC-seq protocol.

, 2023
We use ATAC-seq to examine chromatin accessibility for four different tissues in Drosophila melanogaster: adult female brain, ovaries, and both wing and eye-antennal imaginal discs from males.
Stuart J. Macdonald (9573966), Anthony D. Long (9950467), Khoi Huynh (1447576), Brittny R. Smith (14232540)   +3 more
core   +1 more source

Single-cell ATAC-seq: strength in numbers [PDF]

Genome Biology, 2015
Single-cell ATAC-seq detects open chromatin in individual cells. Currently data are sparse, but combining information from many single cells can identify determinants of cell-to-cell chromatin variation.
Pott, Sebastian, Lieb, Jason D.
openaire   +2 more sources

ATAC-seq analysis in primary T cells.

, 2022
Clustering analysis including all ATAC-seq peaks that were significantly affected after 24 hours or 72 hours of activation in either naive or memory T cells. ATAC-seq, assay for transposase accessible chromatin and sequencing. (EPS)
Michele Chirichella (4025858), Amy Kenyon (390021), Gioacchino Natoli (249306), Niccolò Bianchi (9729407), Emina Džafo (12072862), Silvia Monticelli (3240), Francesco Gualdrini (9120080), Elena Foli (12072865)   +7 more
core   +1 more source

ATAC-seq on Sorted Adult Mouse Neurons [PDF]

BIO-PROTOCOL, 2019
Transcription regulation is a key aspect of cellular identity established during development and maintained into adulthood. Molecular and biochemical assays that probe the genome are critical tools in exploring mechanisms of transcription regulation and cell type identity.
Erin Clark, Yasuyuki Shima, Sacha Nelson
openaire   +3 more sources