The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements
Altenhoff, Adrian M. ; Škunca, Nives ; Glover, Natasha ; Train, Clément-Marie ; Sueki, Anna ; Piližota, Ivana ; Gori, Kevin ; Tomiczek, Bartlomiej ; Müller, Steven ; Redestig, Henning ; Gonnet, Gaston H. ; Dessimoz, Christophe
In: Nucleic Acids Research, 2015, vol. 43, no. D1, p. D240-D249
Aggiungi alla tua lista- Summary
- The Orthologous Matrix (OMA) project is a method and associated database inferring evolutionary relationships amongst currently 1706 complete proteomes (i.e. the protein sequence associated for every protein-coding gene in all genomes). In this update article, we present six major new developments in OMA: (i) a new web interface; (ii) Gene Ontology function predictions as part of the OMA pipeline; (iii) better support for plant genomes and in particular homeologs in the wheat genome; (iv) a new synteny viewer providing the genomic context of orthologs; (v) statically computed hierarchical orthologous groups subsets downloadable in OrthoXML format; and (vi) possibility to export parts of the all-against-all computations and to combine them with custom data for ‘client-side' orthology prediction. OMA can be accessed through the OMA Browser and various programmatic interfaces at http://omabrowser.org