Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: ATACseqQC

https://packages.ecosyste.ms/registries/bioconductor.org/packages/ATACseqQC

ATAC-seq Quality Control
1 version
Latest release: about 1 year ago
2 dependent packages
36,657 downloads total

Papers Mentioning ATACseqQC 14

10.3389/fonc.2020.00423

Computational Oncology in the Multi-Omics Era: State of the Art
Cited by: 55
Author(s): Guillermo de Anda-Jáuregui, Enrique Hernández‐Lemus
Software Mentions: 46
Published: over 4 years ago

From reads to insight: a hitchhiker’s guide to ATAC-seq data analysis
Cited by: 231
Author(s): Feng Yan, David Powell, David Curtis, Nicholas C. Wong
Software Mentions: 21
Published: almost 5 years ago

10.1186/s13072-020-00342-y

ATAC-seq normalization method can significantly affect differential accessibility analysis and interpretation
Cited by: 39
Author(s): Jake J. Reske, Mike R. Wilson, Ronald L. Chandler
Software Mentions: 14
Published: over 4 years ago

10.1186/s12864-018-4559-3

ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data
Cited by: 133
Author(s): Jianhong Ou, Haibo Li, Jun Yu, Michelle A. Kelliher, Lucio H. Castilla, Nathan D. Lawson, Lihua Julie Zhu
Software Mentions: 14
Published: over 6 years ago

10.3389/fimmu.2021.617592

Phenotypic and Epigenetic Adaptations of Cord Blood CD4+ T Cells to Maternal Obesity
Cited by: 11
Author(s): Suhas Sureshchandra, Norma Mendoza, Allen Jankeel, Randall M. Wilson, Nicole Marshall, Ilhem Messaoudi
Software Mentions: 8
Published: over 3 years ago

10.3389/fnmol.2021.680280

Impaired SNF2L Chromatin Remodeling Prolongs Accessibility at Promoters Enriched for Fos/Jun Binding Sites and Delays Granule Neuron Differentiation
Cited by: 1
Author(s): Laura Rose Goodwin, Gerardo Zapata, Sara Timpano, Jacob Marenger, David J. Picketts
Software Mentions: 7
Published: over 3 years ago

10.3389/fgene.2018.00250

GUAVA: A Graphical User Interface for the Analysis and Visualization of ATAC-seq Data
Cited by: 15
Author(s): Mayur Divate, Edwin Cheung
Software Mentions: 7
Published: over 6 years ago

10.26508/lsa.201800085

Transcriptional repression by FACT is linked to regulation of chromatin accessibility at the promoter of ES cells
Cited by: 29
Author(s): Constantine Mylonas, Peter Tessarz
Software Mentions: 7
Published: over 6 years ago

10.1016/j.isci.2021.102690

Functional and genomic adaptations of blood monocytes to pregravid obesity during pregnancy
Cited by: 12
Author(s): Suhas Sureshchandra, Nicole Marshall, Norma Mendoza, Allen Jankeel, Michael Z. Zulu, Ilhem Messaoudi
Software Mentions: 6
Published: over 3 years ago

10.1016/j.xpro.2020.100079

Using Chromatin Accessibility to Delineate Therapeutic Subtypes in Pancreatic Cancer Patient-Derived Cell Lines
Cited by: 4
Author(s): Holly Brunton, Ian Garner, Ulla-Maja Bailey, Rosanna Upstill-Goddard, Peter J. Bailey
Software Mentions: 6
Published: about 4 years ago

10.3389/fgene.2020.618478

ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq
Cited by: 7
Author(s): Rita Jui-Hsien Lu, Yen-Ting Liu, Chih-Wei Huang, Ming‐Ren Yen, Chung‐Yen Lin, Pao‐Yang Chen
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41597-020-00713-w

Genome-wide identification of accessible chromatin regions in bumblebee by ATAC-seq
Cited by: 2
Author(s): Xiaomeng Zhao, Long Su, Weilin Xu, Sarah Schaack, Cheng Sun
Software Mentions: 4
Published: about 4 years ago

10.1016/j.chom.2021.03.001

The SMC5/6 complex compacts and silences unintegrated HIV-1 DNA and is antagonized by Vpr
Cited by: 40
Author(s): Liane Dupont, Stuart Bloor, James C Williamson, Sergio Martínez Cuesta, Raven Shah, Ana Teixeira-Silva, Adi Naamati, Edward Jd Greenwood, Stefan G. Sarafianos, Nicholas J Matheson, Paul J. Lehner
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0232332

Combining signal and sequence to detect RNA polymerase initiation in ATAC-seq data
Cited by: 1
Author(s): Ignacio J. Tripodi, Murad Chowdhury, Margaret Gruca, Robin D. Dowell
Software Mentions: 3
Published: over 4 years ago