Gene Phylogenies and Orthologous Groups.

Setubal, João C; Stadler, Peter F

Setubal, João C; Stadler, Peter F.

Afiliação

Setubal JC; Department of Biochemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes 748, São Paulo, SP, 05508-000, Brazil. setubal@iq.usp.br.
Stadler PF; Bioinformatics Group, Department of Computer Science, Interdisciplinary Center for Bioinformatics, University of Leipzig, Härtelstraße 16-18, 04107, Leipzig, Germany.

Methods Mol Biol ; 1704: 1-28, 2018.

Article em En | MEDLINE | ID: mdl-29277861

RESUMO

This chapter covers the theory and practice of ortholog gene set computation. In the theoretical part we give detailed and formal descriptions of the relevant concepts. We also cover the topic of graph-based clustering as a tool to compute ortholog gene sets. In the second part we provide an overview of practical considerations intended for researchers who need to determine orthologous genes from a collection of annotated genomes, briefly describing some of the most popular programs and resources currently available for this task.

Assuntos

Algoritmos; Genoma; Genômica/métodos; Filogenia; Software; Animais; Análise por Conglomerados; Bases de Dados Factuais; Evolução Molecular; Humanos; Cadeias de Markov; Família Multigênica; Proteínas/genética

Palavras-chave

Gene family; Orthologs; Paralogs; Phylogeny; Protein family

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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Filogenia / Algoritmos / Software / Genoma / Genômica Tipo de estudo: Health_economic_evaluation Limite: Animals / Humans Idioma: En Revista: Methods Mol Biol Assunto da revista: BIOLOGIA MOLECULAR Ano de publicação: 2018 Tipo de documento: Article País de afiliação: Brasil País de publicação: Estados Unidos

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