SelenoDB 2.0: annotation of selenoprotein genes in animals and their genetic diversity in humans

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• dc.contributor.author Romagné, Frédéricca
• dc.contributor.author Santesmasses Ruiz, Didac, 1978-ca
• dc.contributor.author White, Louiseca
• dc.contributor.author Sarangi, Gaurab K.ca
• dc.contributor.author Mariotti, Marco, 1984-ca
• dc.contributor.author Hübler, Ronca
• dc.contributor.author Weihmann, Antjeca
• dc.contributor.author Parra Farré, Genísca
• dc.contributor.author Gladyshev, Vadim N.ca
• dc.contributor.author Guigó Serra, Rodericca
• dc.contributor.author Castellano Hereza, Sergica
• dc.date.accessioned 2015-02-06T08:10:05Z
• dc.date.available 2015-02-06T08:10:05Z
• dc.date.issued 2014ca
• dc.description.abstract SelenoDB (http://www.selenodb.org) aims to provide high-quality annotations of selenoprotein genes, proteins and SECIS elements. Selenoproteins are proteins that contain the amino acid selenocysteine (Sec) and the first release of the database included annotations for eight species. Since the release of SelenoDB 1.0 many new animal genomes have been sequenced. The annotations of selenoproteins in new genomes usually contain many errors in major databases. For this reason, we have now fully annotated selenoprotein genes in 58 animal genomes. We provide manually curated annotations for human selenoproteins, whereas we use an automatic annotation pipeline to annotate selenoprotein genes in other animal genomes. In addition, we annotate the homologous genes containing cysteine (Cys) instead of Sec. Finally, we have surveyed genetic variation in the annotated genes in humans. We use exon capture and resequencing approaches to identify single-nucleotide polymorphisms in more than 50 human populations around the world. We thus present a detailed view of the genetic divergence of Sec- and Cys-containing genes in animals and their diversity in humans. The addition of these datasets into the second release of the database provides a valuable resource for addressing medical and evolutionary questions in selenium biology.
• dc.description.sponsorship This work was supported by the Plan Nacional and the Instituto Nacional de BIoinformatica (Spain)
• dc.format.mimetype application/pdfca
• dc.identifier.citation Romagné F, Santesmasses D, White L, Sarangi GK, Mariotti M, Hübler R et al. SelenoDB 2.0: annotation of selenoprotein genes in animals and their genetic diversity in humans. Nucleic Acids Research. 2014;42(1):D437-43. DOI: 10.1093/nar/gkt1045ca
• dc.identifier.doi http://dx.doi.org/10.1093/nar/gkt1045
• dc.identifier.issn 0305-1048ca
• dc.identifier.uri http://hdl.handle.net/10230/23102
• dc.language.iso engca
• dc.publisher Oxford University Pressca
• dc.relation.ispartof Nucleic Acids Research. 2014;42(1):D437-43
• dc.rights © 2014 Frédéric Romagné et al. Published by Oxford University Press. This is an Open Access article distributed under the terms a Creative Commons Attribution License which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly citedca
• dc.rights.accessRights info:eu-repo/semantics/openAccessca
• dc.rights.uri http://creativecommons.org/licenses/by/3.0/
• dc.subject.other Porteïnes
• dc.subject.other Genètica
• dc.subject.other Selenoproteïnes
• dc.title SelenoDB 2.0: annotation of selenoprotein genes in animals and their genetic diversity in humansca
• dc.type info:eu-repo/semantics/articleca
• dc.type.version info:eu-repo/semantics/publishedVersionca