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2,234 results for ATAC‐seq

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RNA‐seq and ATAC‐seq analysis of CD163+ macrophage‐induced progestin‐insensitive endometrial cancer cells
Author / Creator:Wang, Lulu ; Lv, Qiaoying ; Wu, Pengfei ; Luo, Shuhan ; Liu, Sijia ; Chen, Xiaojun ; Luo, Xuezhen
Publisher:United States: John Wiley & Sons, Inc
Journal title:Cancer medicine (Malden, MA), 2023-03, Vol.12 (5), p.5964-5978
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Integrated ATAC‐seq and RNA‐seq data analysis identifies transcription factors related to rice stripe virus infection in Oryza sativa
Author / Creator:Li, Miaomiao ; Li, Jing ; Zhang, Yan ; Zhai, Yushan ; Chen, Yi ; Lin, Lin ; Peng, Jiejun ; Zheng, Hongying ; Chen, Jianping ; Yan, Fei ; Lu, Yuwen
Publisher:Oxford: John Wiley & Sons, Inc
Journal title:Molecular plant pathology, 2024-03, Vol.25 (3), p.n/a
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Chromatin accessibility profiling by ATAC-seq
Author / Creator:Grandi, Fiorella C. ; Modi, Hailey ; Kampman, Lucas ; Corces, M. Ryan
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2022-06, Vol.17 (6), p.1518-1552
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From reads to insight: a hitchhiker’s guide to ATAC-seq data analysis
Author / Creator:Yan, Feng ; Powell, David R. ; Curtis, David J. ; Wong, Nicholas C.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2020-02, Vol.21 (1), p.22-22, Article 22
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Identification of transcription factor binding sites using ATAC-seq
Author / Creator:Li, Zhijian ; Schulz, Marcel H. ; Look, Thomas ; Begemann, Matthias ; Zenke, Martin ; Costa, Ivan G.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2019-02, Vol.20 (1), p.45-45, Article 45
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Comprehensive analysis of single cell ATAC-seq data with SnapATAC
Author / Creator:Fang, Rongxin ; Preissl, Sebastian ; Li, Yang ; Hou, Xiaomeng ; Lucero, Jacinta ; Wang, Xinxin ; Motamedi, Amir ; Shiau, Andrew K. ; Zhou, Xinzhu ; Xie, Fangming ; Mukamel, Eran A. ; Zhang, Kai ; Zhang, Yanxiao ; Behrens, M. Margarita ; Ecker, Joseph R. ; Ren, Bing
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-02, Vol.12 (1), p.1337-15, Article 1337
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cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data
Author / Creator:Bravo González-Blas, Carmen ; Minnoye, Liesbeth ; Papasokrati, Dafni ; Aibar, Sara ; Hulselmans, Gert ; Christiaens, Valerie ; Davie, Kristofer ; Wouters, Jasper ; Aerts, Stein
Publisher:New York: Nature Publishing Group US
Journal title:Nature methods, 2019-05, Vol.16 (5), p.397-400
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An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
Author / Creator:Corces, M Ryan ; Trevino, Alexandro E ; Hamilton, Emily G ; Greenside, Peyton G ; Sinnott-Armstrong, Nicholas A ; Vesuna, Sam ; Satpathy, Ansuman T ; Rubin, Adam J ; Montine, Kathleen S ; Wu, Beijing ; Kathiria, Arwa ; Cho, Seung Woo ; Mumbach, Maxwell R ; Carter, Ava C ; Kasowski, Maya ; Orloff, Lisa A ; Risca, Viviana I ; Kundaje, Anshul ; Khavari, Paul A ; Montine, Thomas J ; Greenleaf, William J ; Chang, Howard Y
Publisher:London: Nature Publishing Group UK
Journal title:Nature methods, 2017-10, Vol.14 (10), p.959-962
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ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation
Author / Creator:Bentsen, Mette ; Goymann, Philipp ; Schultheis, Hendrik ; Klee, Kathrin ; Petrova, Anastasiia ; Wiegandt, René ; Fust, Annika ; Preussner, Jens ; Kuenne, Carsten ; Braun, Thomas ; Kim, Johnny ; Looso, Mario
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2020-08, Vol.11 (1), p.4267-4267, Article 4267
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Transcript-indexed ATAC-seq for precision immune profiling
Author / Creator:Satpathy, Ansuman T. ; Saligrama, Naresha ; Buenrostro, Jason D. ; Wei, Yuning ; Wu, Beijing ; Rubin, Adam J. ; Granja, Jeffrey M. ; Lareau, Caleb A. ; Li, Rui ; Qi, Yanyan ; Parker, Kevin R. ; Mumbach, Maxwell R. ; Serratelli, William S. ; Gennert, David G. ; Schep, Alicia N. ; Corces, M. Ryan ; Khodadoust, Michael S. ; Kim, Youn H. ; Khavari, Paul A. ; Greenleaf, William J. ; Davis, Mark M. ; Chang, Howard Y.
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2018-05, Vol.24 (5), p.580-590
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Fine-mapping cellular QTLs with RASQUAL and ATAC-seq
Author / Creator:Kumasaka, Natsuhiko ; Knights, Andrew J ; Gaffney, Daniel J
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2016-02, Vol.48 (2), p.206-213
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Assessment of computational methods for the analysis of single-cell ATAC-seq data
Author / Creator:Chen, Huidong ; Lareau, Caleb ; Andreani, Tommaso ; Vinyard, Michael E. ; Garcia, Sara P. ; Clement, Kendell ; Andrade-Navarro, Miguel A. ; Buenrostro, Jason D. ; Pinello, Luca
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2019-11, Vol.20 (1), p.241-241, Article 241
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SCALE method for single-cell ATAC-seq analysis via latent feature extraction
Author / Creator:Xiong, Lei ; Xu, Kui ; Tian, Kang ; Shao, Yanqiu ; Tang, Lei ; Gao, Ge ; Zhang, Michael ; Jiang, Tao ; Zhang, Qiangfeng Cliff
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2019-10, Vol.10 (1), p.4576-10, Article 4576
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scJoint integrates atlas-scale single-cell RNA-seq and ATAC-seq data with transfer learning
Author / Creator:Lin, Yingxin ; Wu, Tung-Yu ; Wan, Sheng ; Yang, Jean Y. H. ; Wong, Wing H. ; Wang, Y. X. Rachel
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2022-05, Vol.40 (5), p.703-710
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ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data
Author / Creator:Ou, Jianhong ; Liu, Haibo ; Yu, Jun ; Kelliher, Michelle A. ; Castilla, Lucio H. ; Lawson, Nathan D. ; Zhu, Lihua Julie
Publisher:England: BioMed Central Ltd
Journal title:BMC genomics, 2018-03, Vol.19 (1), p.169-13, Article 169
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Modeling fragment counts improves single-cell ATAC-seq analysis
Author / Creator:Martens, Laura D. ; Fischer, David S. ; Yépez, Vicente A. ; Theis, Fabian J. ; Gagneur, Julien
Publisher:New York: Nature Publishing Group US
Journal title:Nature methods, 2024-01, Vol.21 (1), p.28-31
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Single-cell ATAC-seq: strength in numbers
Author / Creator:Pott, Sebastian ; Lieb, Jason D.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2015-08, Vol.16 (1), p.172-172, Article 172
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scBasset: sequence-based modeling of single-cell ATAC-seq using convolutional neural networks
Author / Creator:Yuan, Han ; Kelley, David R.
Publisher:New York: Nature Publishing Group US
Journal title:Nature methods, 2022-09, Vol.19 (9), p.1088-1096
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ATAC-Seq analysis reveals a widespread decrease of chromatin accessibility in age-related macular degeneration
Author / Creator:Wang, Jie ; Zibetti, Cristina ; Shang, Peng ; Sripathi, Srinivasa R. ; Zhang, Pingwu ; Cano, Marisol ; Hoang, Thanh ; Xia, Shuli ; Ji, Hongkai ; Merbs, Shannath L. ; Zack, Donald J. ; Handa, James T. ; Sinha, Debasish ; Blackshaw, Seth ; Qian, Jiang
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-04, Vol.9 (1), p.1364-13, Article 1364
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Single cell RNA-seq and ATAC-seq analysis of cardiac progenitor cell transition states and lineage settlement
Author / Creator:Jia, Guangshuai ; Preussner, Jens ; Chen, Xi ; Guenther, Stefan ; Yuan, Xuejun ; Yekelchyk, Michail ; Kuenne, Carsten ; Looso, Mario ; Zhou, Yonggang ; Teichmann, Sarah ; Braun, Thomas
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-11, Vol.9 (1), p.4877-17, Article 4877
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Showing 1 to 20 of 2,234 results

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RNA‐seq and ATAC‐seq analysis of CD163+ macrophage‐induced progestin‐insensitive endometrial cancer cells

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Integrated ATAC‐seq and RNA‐seq data analysis identifies transcription factors related to rice stripe virus infection in Oryza sativa

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Chromatin accessibility profiling by ATAC-seq

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

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Identification of transcription factor binding sites using ATAC-seq

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Comprehensive analysis of single cell ATAC-seq data with SnapATAC

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cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data

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An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues

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ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation

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Transcript-indexed ATAC-seq for precision immune profiling

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Fine-mapping cellular QTLs with RASQUAL and ATAC-seq

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Assessment of computational methods for the analysis of single-cell ATAC-seq data

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SCALE method for single-cell ATAC-seq analysis via latent feature extraction

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scJoint integrates atlas-scale single-cell RNA-seq and ATAC-seq data with transfer learning

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

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Modeling fragment counts improves single-cell ATAC-seq analysis

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Single-cell ATAC-seq: strength in numbers

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scBasset: sequence-based modeling of single-cell ATAC-seq using convolutional neural networks

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ATAC-Seq analysis reveals a widespread decrease of chromatin accessibility in age-related macular degeneration

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Single cell RNA-seq and ATAC-seq analysis of cardiac progenitor cell transition states and lineage settlement

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