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Nucleic Acids Res. 2004 Jan 1;32(Database issue):D281-3.

The ORFanage: an ORFan database.

Author information

1
Department of Chemistry, Ben Gurion University, Beer-Sheva 84105, Israel. nomsiew@cs.bgu.ac.il

Abstract

As each newly sequenced genome contains a significant number of protein-coding ORFs that are species-, family- or lineage-specific, many interesting questions arise about the evolution and role of these ORFs and of the genomes they are part of. We refer to these poorly conserved ORFs as singleton or paralogous ORFans if they are unique to one genome, or as orthologous ORFans if they appear only in a family of closely related organisms and have no homolog in other genomes. In order to study and classify ORFans we have constructed the ORFanage, an ORFan database. This database consists of the predicted ORFs in fully sequenced microbial genomes, and enables searching for the three types of ORFans in any subset of the genomes chosen by the user. The ORFanage could help in choosing interesting targets for further genomic and evolutionary studies. The ORFanage is accessible via http://www.bioinformatics.buffalo. edu/ORFanage.

PMID:
14681413
PMCID:
PMC308850
DOI:
10.1093/nar/gkh116
[Indexed for MEDLINE]
Free PMC Article

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