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Nucleic Acids Research 2005 33(Database Issue):D317-D320; doi:10.1093/nar/gki075
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Nucleic Acids Research, 2005, Vol. 33, Database issue D317-D320
© 2005, the authors
Nucleic Acids Research, Vol. 33, Database issue © Oxford University Press 2005; all rights reserved

BacMap: an interactive picture atlas of annotated bacterial genomes

Paul Stothard, Gary Van Domselaar, Savita Shrivastava, Anchi Guo, Brian O'Neill, Joseph Cruz, Michael Ellison1,2 and David S. Wishart*

Department of Computing Science and Biological Sciences, 1 Department of Biochemistry and 2 Institute for Biomolecular Design, University of Alberta, Edmonton, AB, Canada T6G 2E8

* To whom correspondence should be addressed. Tel: +780 492 0383; Fax: +780 492 1071; Email: david.wishart{at}ualberta.ca

Received August 14, 2004; Revised and Accepted October 8, 2004

BacMap is an interactive visual database containing fully labeled, zoomable and searchable chromosome maps from more than 170 bacterial (archaebacterial and eubacterial) species. It uses a recently developed visualization tool (CGView) to generate high-resolution circular genome maps from sequence feature information. Each map includes an interface that allows the image to be expanded and rotated. In the default view, identified genes are drawn to scale and colored according to coding directions. When a region of interest is expanded, gene labels are displayed. Each label is hyperlinked to a custom ‘gene card’ which provides several fields of information concerning the corresponding DNA and protein sequences. Each genome map is searchable via a local BLAST search and a gene name/synonym search. BacMap is freely available at http://wishart.biology.ualberta.ca/BacMap/.

The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use permissions, please contact journals.permissions{at}oupjournals.org.


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