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Nucleic Acids Research Advance Access published online on May 25, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm366
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Web Server Issue

GNARE—a grid-based server for the analysis of user submitted genomes

Dinanath Sulakhe1, Mark D'Souza1, Mustafa Syed2, Alexis Rodriguez2, Yi Zhang3, Elizabeth M. Glass1,2, Margaret F. Romine4 and Natalia Maltsev1,2,*

1Computation Institute, University of Chicago, Chicago, IL 60637, 2Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, 3University of Illinois at Chicago, Chicago, IL 60607 and 4Pacific Northwest National Lab, Richland, WA 99352, USA

*To whom correspondence should be addressed: Email: sulakhe{at}mcs.anl.gov

Received January 31, 2007. Revised April 17, 2007. Accepted April 25, 2007.

GeNome Analysis Research Environment (GNARE) is a bioinformatics server that supports both automated and interactive expert-driven analysis of user-submitted genomes and metagenomes. These analyses include gene function prediction and development of organism-specific metabolic reconstructions from sequence data. GNARE provides a framework for comparative and evolutionary analysis as well as annotation of genomes and metabolic networks in the context of phenotypic and taxonomic information. Results of analyses and metabolic models are visualized and extensively annotated with information from public databases. GNARE uses automated workflows and a Grid-based computational backend to perform high-throughput analysis of genomes. This use of distributed computing allows the analysis of an average-sized prokaryotic genome in less than 5 h. GNARE is available at http://compbio.mcs.anl.gov/gnare/.


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