The MicrobesOnline Web site for comparative genomics
- Eric J. Alm1,
- Katherine H. Huang1,
- Morgan N. Price1,
- Richard P. Koche3,
- Keith Keller3,
- Inna L. Dubchak1,2, and
- Adam P. Arkin1,3,4,5
- 1 Physical Biosciences Division, Berkeley, California 94720, USA
- 2 Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
- 3 Department of Bioengineering, University of California, Berkeley, California 94720, USA
- 4 Howard Hughes Medical Institute, Berkeley, California 94720, USA
Abstract
At present, hundreds of microbial genomes have been sequenced, and hundreds more are currently in the pipeline. The Virtual Institute for Microbial Stress and Survival has developed a publicly available suite of Web-based comparative genomic tools (http://www.microbesonline.org) designed to facilitate multispecies comparison among prokaryotes. Highlights of the MicrobesOnline Web site include operon and regulon predictions, a multispecies genome browser, a multispecies Gene Ontology browser, a comparative KEGG metabolic pathway viewer, a Bioinformatics Workbench for in-depth sequence analysis, and Gene Carts that allow users to save genes of interest for further study while they browse. In addition, we provide an interface for genome annotation, which like all of the tools reported here, is freely available to the scientific community.
Footnotes
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Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.3844805. Freely available online through the Genome Research Immediate Open Access option.
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↵5 Corresponding author. E-mail aparkin{at}lbl.gov; fax (510) 486-6219.
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- Accepted May 6, 2005.
- Received February 17, 2005.
- Cold Spring Harbor Laboratory Press
