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Ortholuge

Description

Ortholuge is a computational method that can generate precise ortholog predictions between two species on a genome-wide scale (using additional outgroup data for reference). It can either evaluate a previously constructed set of orthologs or it can generate an initial tentative set of orthologs that are subsequently evaluated. Precise ortholog prediction is important for a variety of analyses that utilize comparative genomics, including regulatory element identification.

Ortholuge was developed for the Genome Canada Pathogenomics Project (www.pathogenomics.ca), by members of the Brinkman Laboratory, to facilitate the project's comparative genomics analyses. Some ortholog predictions generated using this method are freely available below. In addition, the current version of our Ortholuge software, which facilitates analyses of other data sets, is available below under the GNU General Public Licence.

The Ortholuge method is described in the paper Fulton DL, Li YY, Laird M, Horsman BGS, Roche FMR, Brinkman FSL. Improving the specificity of high-throughput ortholog prediction. BMC Bioinformatics, 2006. 7:270.

OrtholugeDB

OrtholugeDB contains Ortholuge-based orthology predictions for completely sequenced bacterial and archaeal genomes. It is also a resource for reciprocal best BLAST-based ortholog predictions, in-paralog predictions (recently duplicated genes) and ortholog groups in Bacteria and Archaea.

Data and Downloads

Disclaimer

THE DATA AND SOFTWARE ARE PROVIDED "AS IS" AND WITHOUT ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF MERCHANTIBILITY AND FITNESS FOR A PARTICULAR PURPOSE.

This project is supported by Genome British Columbia, Genome Prairie and Genome Canada, a not-for-profit organization which is leading Canada's national strategy on genomics with $ 600 million in funding from the federal government.


© 2006 Pathogenomics of Innate Immunity: A GenomeBC Project

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