ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments.

Autor:	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.
Jazyk:	angličtina
Zdroj:	Nucleic acids research [Nucleic Acids Res] 2020 Jan 08; Vol. 48 (D1), pp. D180-D188.
DOI:	10.1093/nar/gkz945
Abstrakt:	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.)
Databáze:	MEDLINE
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