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VCF2Networks: Applying genotype networks to single-nucleotide variants data


Dall'Olio, Giovanni M; Vahdati, Ali R; Bertranpetit, Jaume; Wagner, Andreas; Laayouni, Hafid (2014). VCF2Networks: Applying genotype networks to single-nucleotide variants data. Bioinformatics, 31(3):438-439.

Abstract

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.

Abstract

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.

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Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:07 Faculty of Science > Institute of Evolutionary Biology and Environmental Studies
Dewey Decimal Classification:570 Life sciences; biology
590 Animals (Zoology)
Language:English
Date:29 October 2014
Deposited On:20 Feb 2015 14:09
Last Modified:08 Dec 2017 11:58
Publisher:Oxford University Press
ISSN:1367-4803
Publisher DOI:https://doi.org/10.1093/bioinformatics/btu650
PubMed ID:25282646

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