Cistrome Data Browser: integrated search, analysis and visualization of chromatin data Article Swipe
Len Taing
,
Ariaki Dandawate
,
Sehi L’Yi
,
Nils Gehlenborg
,
Myles Brown
,
Clifford A. Meyer
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkad1069
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkad1069
The Cistrome Data Browser is a resource of ChIP-seq, ATAC-seq and DNase-seq data from humans and mice. It provides maps of the genome-wide locations of transcription factors, cofactors, chromatin remodelers, histone post-translational modifications and regions of chromatin accessible to endonuclease activity. Cistrome DB v3.0 contains approximately 45 000 human and 44 000 mouse samples with about 32 000 newly collected datasets compared to the previous release. The Cistrome DB v3.0 user interface is implemented as a single page application that unifies menu driven and data driven search functions and provides an embedded genome browser, which allows users to find and visualize data more effectively. Users can find informative chromatin profiles through keyword, menu, and data-driven search tools. Browser search functions can predict the regulators of query genes as well as the cell type and factor dependent functionality of potential cis-regulatory elements. Cistrome DB v3.0 expands the display of quality control statistics, incorporates sequence logos into motif enrichment displays and includes more expansive sample metadata. Cistrome DB v3.0 is available at http://db3.cistrome.org/browser.
Related Topics
Concepts
Chromatin
Biology
Epigenomics
Genome browser
Computational biology
Visualization
Genome
Computer science
Genetics
Genomics
Data mining
DNA methylation
Gene
Gene expression
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/nar/gkad1069
- https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad1069/53471376/gkad1069.pdf
- OA Status
- gold
- Cited By
- 46
- References
- 44
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4388722442
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4388722442Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/nar/gkad1069Digital Object Identifier
- Title
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Cistrome Data Browser: integrated search, analysis and visualization of chromatin dataWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
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2023-11-16Full publication date if available
- Authors
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Len Taing, Ariaki Dandawate, Sehi L’Yi, Nils Gehlenborg, Myles Brown, Clifford A. MeyerList of authors in order
- Landing page
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https://doi.org/10.1093/nar/gkad1069Publisher landing page
- PDF URL
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https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad1069/53471376/gkad1069.pdfDirect link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad1069/53471376/gkad1069.pdfDirect OA link when available
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Chromatin, Biology, Epigenomics, Genome browser, Computational biology, Visualization, Genome, Computer science, Genetics, Genomics, Data mining, DNA methylation, Gene, Gene expressionTop concepts (fields/topics) attached by OpenAlex
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46Total citation count in OpenAlex
- Citations by year (recent)
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2025: 32, 2024: 14Per-year citation counts (last 5 years)
- References (count)
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44Number of works referenced by this work
- Related works (count)
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10Other works algorithmically related by OpenAlex
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