The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements

Nucleic Acids Res. 2015 Jan;43(Database issue):D240-9. doi: 10.1093/nar/gku1158. Epub 2014 Nov 15.


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

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Databases, Protein*
  • Gene Ontology
  • Genome, Plant
  • Humans
  • Internet
  • Plant Proteins / chemistry
  • Plant Proteins / genetics*
  • Proteome / chemistry*
  • Proteome / genetics
  • Sequence Homology, Amino Acid*
  • Synteny
  • Triticum / genetics


  • Plant Proteins
  • Proteome