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Bioinformatics Advance Access originally published online on February 26, 2004
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Bioinformatics 20(11) © Oxford University Press 2004; all rights reserved.

Applications Note

Visualization for genomics: the Microbial Genome Viewer

Robert Kerkhoven 1,*, Frank H. J. van Enckevort 1,2, Jos Boekhorst 1, Douwe Molenaar 2,3 and Roland J. Siezen 1,2,3

1 Centre for Molecular and Biomolecular Informatics (CMBI), University of Nijmegen, P.O. Box 9010, 6500 GL Nijmegen, The Netherlands, 2 NIZO Food Research, P.O. Box 20, 6710 BA Ede, The Netherlands and 3 Wageningen Centre for Food Sciences (WCFS), P.O. Box 557, 6700 AN Wageningen, The Netherlands

Received on October 14, 2003; accepted on January 7, 2004

Summary: A Web-based visualization tool, the Microbial Genome Viewer, is presented that allows the user to combine complex genomic data in a highly interactive way. This Web tool enables the interactive generation of chromosome wheels and linear genome maps from genome annotation data stored in a MySQL database. The generated images are in scalable vector graphics (SVG) format, which is suitable for creating high-quality scalable images and dynamic Web representations. Gene-related data such as transcriptome and time-course microarray experiments can be superimposed on the maps for visual inspection.

Availability: The Microbial Genome Viewer 1.0 is freely available at http://www.cmbi.kun.nl/MGV

Contact: R.Kerkhoven{at}cmbi.kun.nl

* To whom correspondence should be addressed.


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