VCF2Networks: applying genotype networks to single-nucleotide variants data

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  • dc.contributor.author Dall'Olio, Giovanni Marco, 1983-ca
  • dc.contributor.author Vahdati, Ali R.ca
  • dc.contributor.author Bertranpetit, Jaume, 1952-ca
  • dc.contributor.author Wagner, Andreasca
  • dc.contributor.author Laayouni, Hafid, 1968-ca
  • dc.date.accessioned 2018-04-19T09:22:52Z
  • dc.date.available 2018-04-19T09:22:52Z
  • dc.date.issued 2015
  • dc.description.abstract SUMMARY: A wealth of large-scale genome sequencing projects opens the doors to new approaches to study the relationship between genotype and phenotype. One such opportunity is the possibility to apply genotype networks analysis to population genetics data. Genotype networks are a representation of the set of genotypes associated with a single phenotype, and they allow one to estimate properties such as the robustness of the phenotype to mutations, and the ability of its associated genotypes to evolve new adaptations. So far, though, genotype networks analysis has rarely been applied to population genetics data. To help fill this gap, here we present VCF2Networks, a tool to determine and study genotype network structure from single-nucleotide variant data. AVAILABILITY AND IMPLEMENTATION: VCF2Networks is available at https://bitbucket.org/dalloliogm/vcf2networks. CONTACT: giovanni.dallolio@kcl.ac.uk. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
  • dc.description.sponsorship This study has been possible thanks the grant BFU2013-43726-P awarded by Ministerio de Economía y Competitividad (Spain) and with the support of Secretaria d'Universitats i Recerca del Departament d'Economia i Coneixement de la Generalitat de Catalunya (GRC 2014 SGR 866). GMD was supported by a FPI fellowship BES-2009-017731. AW was supported by the Swiss National Science Foundation and by the URPP Evolutionary Biology at the University of Zurich.
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Dall'Olio GM, Vahdati AR, Bertranpetit J, Wagner A, Laayouni H. VCF2Networks: applying genotype networks to single-nucleotide variants data. Bioinformatics. 2015 Feb 1;31(3):438-9. DOI: 10.1093/bioinformatics/btu650
  • dc.identifier.doi http://dx.doi.org/10.1093/bioinformatics/btu650
  • dc.identifier.issn 1367-4803
  • dc.identifier.uri http://hdl.handle.net/10230/34404
  • dc.language.iso eng
  • dc.publisher Oxford University Pressca
  • dc.relation.ispartof Bioinformatics. 2015 Feb 1;31(3):438-9
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/BFU2013-43726-P
  • dc.rights © Oxford University Press. This is a pre-copy-editing, author-produced PDF of an article accepted for publication in Bioinformatics following peer review. The definitive publisher-authenticated version Dall'Olio GM, Vahdati AR, Bertranpetit J, Wagner A, Laayouni H. VCF2Networks: applying genotype networks to single-nucleotide variants data. Bioinformatics. 2015 Feb 1; 31(3): 438-9 is available online at: http://dx.doi.org/10.1093/bioinformatics/btu650
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.subject.other Genètica
  • dc.subject.other Genètica de poblacions
  • dc.subject.other Genoma humà
  • dc.subject.other Genètica humana -- Variació
  • dc.title VCF2Networks: applying genotype networks to single-nucleotide variants dataca
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/acceptedVersion

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