Results 1 to 10 of about 24,092 (116)

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.
Chung-Yen Lin, Pao-Yang Chen, Jui-Hsien Lu   +2 more
exaly   +3 more sources

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

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
exaly   +2 more sources

A generic reference defined by consensus peaks for single-cell ATAC-seq data analysis [PDF]

Nature Communications
The rapid advancement of transposase-accessible chromatin using sequencing (ATAC-seq) technology, particularly with the emergence of single-cell ATAC-seq (scATAC-seq), accelerates the studies of gene regulation.
Qiuchen Meng, Xinze Wu, Wenchang Chen, Yubo Zhao, Chen Li, Zheng Wei, Xiaocheng Zeng, Jiaqi Li, Xi Xi, Sijie Chen, Catherine Zhang, Shengquan Chen, Jiaqi Li, Xiaowo Wang, Rui Jiang, Lei Wei, Xuegong Zhang   +16 more
doaj   +2 more sources

Robust Identification of Developmentally Active Endothelial Enhancers in Zebrafish Using FANS-Assisted ATAC-Seq

Cell Reports, 2017
Identification of tissue-specific and developmentally active enhancers provides insights into mechanisms that control gene expression during embryogenesis.
Lihua Julie Zhu, Nathan D Lawson, Aurélie Quillien   +2 more
exaly   +3 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.
Xin Wang, Chuanye Chen, Chao He, Dijun Chen, Wenhao Yan   +4 more
doaj   +1 more source

maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks.

PLoS Computational Biology, 2023
Transcription factors read the genome, fundamentally connecting DNA sequence to gene expression across diverse cell types. Determining how, where, and when TFs bind chromatin will advance our understanding of gene regulatory networks and cellular ...
Tareian A Cazares, Faiz W Rizvi, Balaji Iyer, Xiaoting Chen, Michael Kotliar, Anthony T Bejjani, Joseph A Wayman, Omer Donmez, Benjamin Wronowski, Sreeja Parameswaran, Leah C Kottyan, Artem Barski, Matthew T Weirauch, V B Surya Prasath, Emily R Miraldi   +14 more
doaj   +1 more source

I-ATAC: interactive pipeline for the management and pre-processing of ATAC-seq samples [PDF]

PeerJ, 2017
Assay for Transposase Accessible Chromatin (ATAC-seq) is an open chromatin profiling assay that is adapted to interrogate chromatin accessibility from small cell numbers.
Zeeshan Ahmed, Duygu Ucar
doaj   +2 more sources

Optimized assay for transposase-accessible chromatin by sequencing (ATAC-seq) library preparation from adult Drosophila melanogaster neurons

Scientific Reports, 2022
Assay for transposase-accessible chromatin by sequencing (ATAC-seq) is rapidly becoming the assay of choice to investigate chromatin-mediated gene regulation, largely because of low input requirements, a fast workflow, and the ability to interrogate the ...
Collin B. Merrill, Miguel A. Pabon, Austin B. Montgomery, Aylin R. Rodan, Adrian Rothenfluh   +4 more
doaj   +1 more source

A map of bat virus receptors derived from single-cell multiomics

Scientific Data, 2022
Measurement(s) RNA-seq gene expression profiling assay • ATAC-Seq Technology Type(s) RNA-seq of coding RNA from single cells • Single cell ATAC-seq (cell index) Sample Characteristic - Organism Rhinolophus ...
Tianhang Lv, Xiaoshan Wang, Chao Yu, Zhifeng Wang, Rong Xiang, Linmiao Li, Yue Yuan, Yuhang Wang, Xiaoyu Wei, Yeya Yu, Xiangyang He, Libiao Zhang, Qiuting Deng, Peiying Wu, Yong Hou, Jinping Chen, Chuanyu Liu, Gary Wong, Longqi Liu   +18 more
doaj   +1 more source

Optimized protocol for assay for transposase-accessible chromatin by sequencing (ATAC-seq) from Drosophila melanogaster brain tissue

STAR Protocols, 2023
Summary: Transposase-accessible chromatin by sequencing (ATAC-seq) has emerged as an advantageous technique to assess chromatin accessibility owing to the robustness of ''tagmentation'' process and a relatively faster library preparation. A comprehensive
Jasmine Kaur Dhall, Nandashree Kasturacharya, Awadhesh Pandit, Lakshminarayanan CP   +3 more
doaj   +1 more source