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Nucleic Acids Research, 2004, Vol. 32, Database issue D281-D283
© 2004 Oxford University Press

The ORFanage: an ORFan database

Naomi Siew*,1,2, Yaniv Azaria2 and Daniel Fischer2

1 Department of Chemistry and 2 Bioinformatics Group, Department of Computer Science, Ben Gurion University, Beer-Sheva 84105, Israel

*To whom correspondence should be addressed. Tel: +1 716 849 6719; Fax: +1 716 849 6749; Email: nomsiew{at}cs.bgu.ac.il
Present address: Daniel Fischer, Buffalo Center of Excellence in Bioinformatics, 901 Washington Street, Suite 300, Buffalo, NY 14203-1199, USA
The authors wish it to be known that, in their opinion, all authors should be regarded as joint First Authors

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.


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