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JAFA: a protein function annotation meta-server
Burnham Institute for Medical Research, Program in Bioinformatics and Systems Biology 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
*To whom correspondence should be addressed. Tel: +1 858 646 3100 x3516; Fax: +1 858 713 9949; Email: idoerg{at}burnham.org
Received January 30, 2006. Revised February 21, 2006. Accepted February 21, 2006.
With the high number of sequences and structures streaming in from genomic projects, there is a need for more powerful and sophisticated annotation tools. Most problematic of the annotation efforts is predicting gene and protein function. Over the past few years there has been considerable progress in automated protein function prediction, using a diverse set of methods. Nevertheless, no single method reports all the information possible, and molecular biologists resort to ‘shopping around’ using different methods: a cumbersome and time-consuming practice. Here we present the Joined Assembly of Function Annotations, or JAFA server. JAFA queries several function prediction servers with a protein sequence and assembles the returned predictions in a legible, non-redundant format. In this manner, JAFA combines the predictions of several servers to provide a comprehensive view of what are the predicted functions of the proteins. JAFA also offers its own output, and the individual programs' predictions for further processing. JAFA is available for use from http://jafa.burnham.org.
The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors
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