{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,12]],"date-time":"2026-04-12T08:58:26Z","timestamp":1775984306795,"version":"3.50.1"},"reference-count":28,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2019,10,29]],"date-time":"2019-10-29T00:00:00Z","timestamp":1572307200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004562","name":"French Ministry of Higher Education and Research","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100004562","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001677","name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001677","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"abstract":"<jats:title>Abstract<\/jats:title><jats:p>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.<\/jats:p>","DOI":"10.1093\/nar\/gkz945","type":"journal-article","created":{"date-parts":[[2019,10,9]],"date-time":"2019-10-09T19:31:17Z","timestamp":1570649477000},"source":"Crossref","is-referenced-by-count":31,"title":["ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments"],"prefix":"10.1093","author":[{"given":"Jeanne","family":"Ch\u00e8neby","sequence":"first","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zacharie","family":"M\u00e9n\u00e9trier","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Martin","family":"Mestdagh","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thomas","family":"Rosnet","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Allyssa","family":"Douida","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Wassim","family":"Rhalloussi","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Aur\u00e9lie","family":"Bergon","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fabrice","family":"Lopez","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0834-7135","authenticated-orcid":false,"given":"Benoit","family":"Ballester","sequence":"additional","affiliation":[{"name":"Aix Marseille Univ, INSERM, TAGC, Marseille, France"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2019,10,29]]},"reference":[{"key":"2019103013350488000_B1","doi-asserted-by":"crossref","first-page":"1497","DOI":"10.1126\/science.1141319","article-title":"Genome-wide mapping of in vivo protein-DNA interactions","volume":"316","author":"Johnson","year":"2007","journal-title":"Science"},{"key":"2019103013350488000_B2","doi-asserted-by":"crossref","first-page":"1408","DOI":"10.1016\/j.cell.2011.11.013","article-title":"Comprehensive Genome-wide Protein-DNA interactions detected at single nucleotide resolution","volume":"147","author":"Rhee","year":"2011","journal-title":"Cell"},{"key":"2019103013350488000_B3","doi-asserted-by":"crossref","first-page":"1659","DOI":"10.1038\/nprot.2017.055","article-title":"Mapping genome-wide transcription-factor binding sites using DAP-seq","volume":"12","author":"Bartlett","year":"2017","journal-title":"Nat. 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