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Bioinformatics Advance Access published online on August 2, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti606
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oupjournals.org
Received February 22, 2005
Revised May 10, 2005
Accepted July 28, 2005

Applications note

GenColors: accelerated comparative analysis and annotation of prokaryotic genomes at various stages of completeness

Alessandro Romualdi 1, Roman Siddiqui 2, Gernot Glöckner 2, Rüdiger Lehmann 2, and Jürgen Sühnel 1*

1 Biocomputing Group, Institute of Molecular Biotechnology, Beutenbergstr. 11, 07745 Jena, Germany
2 Genome Analysis, Institute of Molecular Biotechnology, Beutenbergstr. 11, 07745 Jena, Germany

* To whom correspondence should be addressed.
Jürgen Sühnel, E-mail: jsuehnel{at}imb-jena.de


  Abstract

Summary: GenColors is a new web-based software/database system aimed at an improved and accelerated annotation of prokaryotic genomes considering information on related genomes and making extensive use of genome comparison. It offers a seamless integration of data from ongoing sequencing projects and annotated genomic sequences obtained from GenBank. The genome comparison tools determine, for example, best-bidirectional hits, gene conservation, syntenies and gene core sets. Swiss-Prot/TrEMBL hits allow annotationsin an effective manner. To further support annotation base-specific quality data can also be displayed if available. With GenColors dedicated genome browsers containing a group of related genomes can be easily set up and maintained. It has been efficiently used for Borrelia garinii and is currently applied to various ongoing genome projects.

Availability: Detailed information on GenColors is available at http://gencolors.imb-jena.de. Online usage of GenColors-based genome browsers is the preferred application mode. The system is also available upon request for local installation.


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