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Bioinformatics Advance Access originally published online on October 31, 2006
Bioinformatics 2007 23(1):125-126; doi:10.1093/bioinformatics/btl556
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

GECO–linear visualization for comparative genomics

C. T. Kuenne , R. Ghai , T. Chakraborty and T. Hain *

Institute of Medical Microbiology, Justus-Liebig-University Frankfurter Strasse 107, D-35392 Giessen, Germany

*To whom correspondence should be addressed.

Summary: In order to understand and interpret phylogenetic and functional relationships between multiple prokaryotic species, qualitative and quantitative data must be correlated and displayed. GECO allows linear visualization of multiple genomes using a client/server based approach by dynamically creating .png- or .pdf-formatted images. It is able to display ortholog relations calculated using BLASTCLUST by color coding ortholog representations. Irregularities on the genomic level can be identified by anomalous G/C composition. Thus, this software will enable researchers to detect horizontally transferred genes, pseudogenes and insertions/deletions in related microbial genomes.

Availability: http://bioinfo.mikrobio.med.uni-giessen.de/geco2/GecoMainServlet

Contact: Carsten.Kuenne{at}mikrobio.med.uni-giessen.de

Received on August 1, 2006; revised on October 17, 2006; accepted on October 23, 2006

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[Abstract] [Full Text] [PDF]


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