CAAStools: a toolbox to identify and test Convergent Amino Acid Substitutions
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- dc.contributor.author Barteri, Fabio
- dc.contributor.author Valenzuela, Alejandro
- dc.contributor.author Farré, Xavier
- dc.contributor.author Juan, David
- dc.contributor.author Muntané, Gerard
- dc.contributor.author Esteve Altava, Borja
- dc.contributor.author Navarro i Cuartiellas, Arcadi, 1969-
- dc.date.accessioned 2023-12-12T06:58:01Z
- dc.date.available 2023-12-12T06:58:01Z
- dc.date.issued 2023
- dc.description.abstract Motivation: Coincidence of Convergent Amino Acid Substitutions (CAAS) with phenotypic convergences allow pinpointing genes and even individual mutations that are likely to be associated with trait variation within their phylogenetic context. Such findings can provide useful insights into the genetic architecture of complex phenotypes. Results: Here we introduce CAAStools, a set of bioinformatics tools to identify and validate CAAS in orthologous protein alignments for predefined groups of species representing the phenotypic values targeted by the user. Availability and implementation: CAAStools source code is available at http://github.com/linudz/caastools, along with documentation and examples.
- dc.description.sponsorship This work was supported by the I+D+i project PID2021-127792NB-I00 funded by MCIN/AEI/10.13039/501100011033 (FEDER Una manera de hacer Europa); and “Unidad de Excelencia María de Maeztu,” funded by the AEI [CEX2018-000792-M] and Departament de Recerca i Universitats de la Generalitat de Catalunya [GRC 2021 SGR 0467].
- dc.format.mimetype application/pdf
- dc.identifier.citation Barteri F, Valenzuela A, Farré X, de Juan D, Muntané G, Esteve-Altava B, Navarro A. CAAStools: a toolbox to identify and test Convergent Amino Acid Substitutions. Bioinformatics. 2023 Oct 3;39(10):btad623. DOI: 10.1093/bioinformatics/btad623
- dc.identifier.doi http://dx.doi.org/10.1093/bioinformatics/btad623
- dc.identifier.issn 1367-4803
- dc.identifier.uri http://hdl.handle.net/10230/58516
- dc.language.iso eng
- dc.publisher Oxford University Press
- dc.relation.ispartof Bioinformatics. 2023 Oct 3;39(10):btad623
- dc.relation.projectID info:eu-repo/grantAgreement/ES/3PE/PID2021-127792NB-I00
- dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/CEX2018-000792-M
- dc.rights © The Author(s) 2023. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by/4.0/
- dc.subject.other Filogènia
- dc.subject.other Aminoàcids
- dc.subject.other Genètica
- dc.title CAAStools: a toolbox to identify and test Convergent Amino Acid Substitutions
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion