OMA 2011: orthology inference among 1000 complete genomes

OMA (Orthologous MAtrix) is a database that identifies orthologs among publicly available, complete genomes. Initiated in 2004, the project is at its 11th release. It now includes 1000 genomes, making it one of the largest resources of its kind. Here, we describe recent developments in terms of spec...

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Bibliographic Details
Published inNucleic acids research Vol. 39; no. Database; pp. D289 - D294
Main Authors Altenhoff, Adrian M, Schneider, Adrian, Gonnet, Gaston H, Dessimoz, Christophe
Format Journal Article
LanguageEnglish
Published England Oxford University Press 01.01.2011
Subjects
Algorithms
Alternative Splicing
Databases, Genetic
Evolution, Molecular
Genes
Genome
Phylogeny
User-Computer Interface
Online AccessGet full text
ISSN0305-1048
1362-4962
1362-4954
1362-4962
DOI10.1093/nar/gkq1238

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Summary:OMA (Orthologous MAtrix) is a database that identifies orthologs among publicly available, complete genomes. Initiated in 2004, the project is at its 11th release. It now includes 1000 genomes, making it one of the largest resources of its kind. Here, we describe recent developments in terms of species covered; the algorithmic pipeline--in particular regarding the treatment of alternative splicing, and new features of the web (OMA Browser) and programming interface (SOAP API). In the second part, we review the various representations provided by OMA and their typical applications. The database is publicly accessible at http://omabrowser.org.
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ISSN:0305-1048
1362-4962
1362-4954
1362-4962
DOI:10.1093/nar/gkq1238