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dc.contributor.authorVos, M
dc.contributor.authorte Beek, TAH
dc.contributor.authorvan Driel, MA
dc.contributor.authorHuynen, MA
dc.contributor.authorEyre-Walker, A
dc.contributor.authorvan Passel, MWJ
dc.date.accessioned2017-02-21T10:41:38Z
dc.date.issued2013-05-06
dc.description.abstractQuantifying patterns of adaptive divergence between taxa is a major goal in the comparative and evolutionary study of prokaryote genomes. When applied appropriately, the McDonald-Kreitman (MK) test is a powerful test of selection based on the relative frequency of non-synonymous and synonymous substitutions between species compared to non-synonymous and synonymous polymorphisms within species. The webserver ODoSE (Ortholog Direction of Selection Engine) allows the calculation of a novel extension of the MK test, the Direction of Selection (DoS) statistic, as well as the calculation of a weighted-average Neutrality Index (NI) statistic for the entire core genome, allowing for systematic analysis of the evolutionary forces shaping core genome divergence in prokaryotes. ODoSE is hosted in a Galaxy environment, which makes it easy to use and amenable to customization and is freely available at www.odose.nl.en_GB
dc.description.sponsorshipMWJvP is funded by the Netherlands Organization for Scientific Research (NWO) via a VENI grant. TtB and MAvD are funded by the BioAssist/BRS programme of the Netherlands Bioinformatics Centre, which is supported by the Netherlands Genomics Initiative. This work is part of the programme of BiG Grid, the Dutch e-Science Grid, which is financially supported by the NWO. MV is supported by investment from the European Regional Development Fund and the European Social Fund Convergence Programme for Cornwall and the Isles of Scilly to the European Centre for the Environment and Human Health. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.en_GB
dc.identifier.citationVol. 8, article e62447en_GB
dc.identifier.doi10.1371/journal.pone.0062447
dc.identifier.urihttp://hdl.handle.net/10871/25981
dc.language.isoenen_GB
dc.publisherPublic Library of Scienceen_GB
dc.relation.urlhttps://www.ncbi.nlm.nih.gov/pubmed/23671597en_GB
dc.rights© 2013 Vos et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.en_GB
dc.subjectAdaptation, Biologicalen_GB
dc.titleODoSE: a webserver for genome-wide calculation of adaptive divergence in prokaryotesen_GB
dc.typeArticleen_GB
dc.date.available2017-02-21T10:41:38Z
exeter.place-of-publicationUnited Statesen_GB
dc.descriptionThis is the final version. Available on open access from the publisher via the DOI in this record.en_GB
dc.identifier.journalPLoS Oneen_GB


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