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 |
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| المؤلفون: | Chèneby, Jeanne, Ménétrier, Zacharie, Mestdagh, Martin, Rosnet, Thomas, Douida, Allyssa, Rhalloussi, Wassim, Bergon, Aurélie, Lopez, Fabrice, Ballester, Benoit |
| المساهمون: | Theories and Approaches of Genomic Complexity (TAGC), Aix Marseille Université (AMU)-Institut National de la Santé et de la Recherche Médicale (INSERM), ANR-10-EQPX-0029,EQUIP@MESO,Equipement d'excellence de calcul intensif de Mesocentres coordonnés - Tremplin vers le calcul petaflopique et l'exascale(2010) |
| المصدر: | Nucleic Acids Research Nucleic Acids Research, Oxford University Press, 2020, ⟨10.1093/nar/gkz945⟩ |
| بيانات النشر: | HAL CCSD, 2020. |
| سنة النشر: | 2020 |
| مصطلحات موضوعية: | [SDV]Life Sciences [q-bio], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] |
| الوصف: | International audience; 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 hi-stone 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. |
| اللغة: | English |
| تدمد: | 0305-1048 1362-4962 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=dedup_wf_001::5c7f64b7bd8aaa3b0d2ae1bb99279add https://hal-amu.archives-ouvertes.fr/hal-02351736/document |
| رقم الأكسشن: | edsair.dedup.wf.001..5c7f64b7bd8aaa3b0d2ae1bb99279add |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 03051048 13624962 |
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