MicrobesOnline: an integrated portal for comparative and functional genomics
Name
Alm_MicrobesOnline an.pdf
Size
4.08 MB
Format
Adobe PDF
Checksum (MD5)
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Author(s)
Dehal, Paramvir S.
Joachimiak, Marcin P.
Price, Morgan N.
Bates, John T.
Baumohl, Jason K.
Chivian, Dylan
Friedland, Greg D.
Huang, Katherine H.
Keller, Keith
Novichkov, Pavel S.
Date Issued
November 2009
Journal
Nucleic Acids Research
Publisher
Oxford University Press
Citation
Dehal, P. S. et al. “MicrobesOnline: an integrated portal for comparative and functional genomics.” Nucleic Acids Research 38 (2009): D396-D400.
Version
Final published version
Abstract
Since 2003, MicrobesOnline (http://www.microbesonline.org) has been providing a community resource for comparative and functional genome analysis. The portal includes over 1000 complete genomes of bacteria, archaea and fungi and thousands of expression microarrays from diverse organisms ranging from model organisms such as Escherichia coli and Saccharomyces cerevisiae to environmental microbes such as Desulfovibrio vulgaris and Shewanella oneidensis. To assist in annotating genes and in reconstructing their evolutionary history, MicrobesOnline includes a comparative genome browser based on phylogenetic trees for every gene family as well as a species tree. To identify co-regulated genes, MicrobesOnline can search for genes based on their expression profile, and provides tools for identifying regulatory motifs and seeing if they are conserved. MicrobesOnline also includes fast phylogenetic profile searches, comparative views of metabolic pathways, operon predictions, a workbench for sequence analysis and integration with RegTransBase and other microbial genome resources. The next update of MicrobesOnline will contain significant new functionality, including comparative analysis of metagenomic sequence data. Programmatic access to the database, along with source code and documentation, is available at http://microbesonline.org/programmers.html.
MIT Department
Massachusetts Institute of Technology. Department of Biological Engineering
Massachusetts Institute of Technology. Department of Civil and Environmental Engineering
Terms of Use
Creative Commons Attribution Noncommercial
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1093/nar/gkp919
