دورية أكاديمية
ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments.
| العنوان: | ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments. |
|---|---|
| المؤلفون: | Chèneby J; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Ménétrier Z; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Mestdagh M; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Rosnet T; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Douida A; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Rhalloussi W; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Bergon A; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Lopez F; Aix Marseille Univ, INSERM, TAGC, Marseille, France., Ballester B; Aix Marseille Univ, INSERM, TAGC, Marseille, France. |
| المصدر: | Nucleic acids research [Nucleic Acids Res] 2020 Jan 08; Vol. 48 (D1), pp. D180-D188. |
| نوع المنشور: | Journal Article; Research Support, Non-U.S. Gov't |
| اللغة: | English |
| بيانات الدورية: | Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: 1992- : Oxford : Oxford University Press Original Publication: London, Information Retrieval ltd. |
| مواضيع طبية MeSH: | Databases, Genetic* , Regulatory Elements, Transcriptional*, Arabidopsis/*genetics , Transcription Factors/*metabolism, Arabidopsis/metabolism ; Chromatin Immunoprecipitation Sequencing ; DNA-Binding Proteins/metabolism ; Histone Code ; Humans ; User-Computer Interface |
| مستخلص: | ReMap (http://remap.univ-amu.fr) aims to provide the largest catalogs of high-quality regulatory regions resulting from a large-scale integrative analysis of hundreds of transcription factors and regulators from DNA-binding experiments in Human and Arabidopsis (Arabidopsis thaliana). In this 2020 update of ReMap we have collected, analyzed and retained after quality control 2764 new human ChIP-seq and 208 ChIP-exo datasets available from public sources. The updated human atlas totalize 5798 datasets covering a total of 1135 transcriptional regulators (TRs) with a catalog of 165 million (M) peaks. This ReMap update comes with two unique Arabidopsis regulatory catalogs. First, a catalog of 372 Arabidopsis TRs across 2.6M peaks as a result of the integration of 509 ChIP-seq and DAP-seq datasets. Second, a catalog of 33 histone modifications and variants across 4.5M peaks from the integration of 286 ChIP-seq datasets. All catalogs are made available through track hubs at Ensembl and UCSC Genome Browsers. Additionally, this update comes with a new web framework providing an interactive user-interface, including improved search features. Finally, full programmatically access to the underlying data is available using a RESTful API together with a new R Shiny interface for a TRs binding enrichment analysis tool. (© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.) |
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| المشرفين على المادة: | 0 (DNA-Binding Proteins) 0 (Transcription Factors) |
| تواريخ الأحداث: | Date Created: 20191031 Date Completed: 20200525 Latest Revision: 20200525 |
| رمز التحديث: | 20240628 |
| مُعرف محوري في PubMed: | PMC7145625 |
| DOI: | 10.1093/nar/gkz945 |
| PMID: | 31665499 |
| قاعدة البيانات: | MEDLINE |
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