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Nucleic Acids Research Advance Access originally published online on November 29, 2006
Nucleic Acids Research 2007 35(Database issue):D32-D35; doi:10.1093/nar/gkl977
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Nucleic Acids Research, 2007, Vol. 35, Database issue D32-D35
© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

Developments in CORG: a gene-centric comparative genomics resource

C. Dieterich*, M. W. Franz and M. Vingron1

Department of Evolutionary Biology, Max Planck Institute for Developmental Biology Spemannstrasse 35-37, 72076 Tübingen, Germany 1 Department of Computational Biology, Max Planck Institute for Molecular Genetics Ihnestrasse 73, 14195 Berlin, Germany

*To whom correspondence should be addressed. Tel: +49 7071 601 405; Fax: +49 7071 601 498; Email: christoph.dieterich{at}tuebingen.mpg.de

Received September 14, 2006. Revised October 26, 2006. Accepted October 26, 2006.

The CORG resource (Comparative Regulatory Genomics, http://corg.eb.tuebingen.mpg.de) provides extensive cross-species comparisons of promoter regions in particular and whole gene loci in general. Pairwise as well as multiple alignments of 10 vertebrate species form the key component of CORG. We implemented a rapid alignment approach based on weight matrix motif anchors to ensure efficient computation and biologically informative alignments. All CORG workbench components have been enhanced towards more flexibility and interactivity. Reference sequence based data presentation and analysis was put into the well-known and modular Generic Genome Browser framework. Herein, various plugins facilitate online data analysis and integration with static conservation data. Main emphasis was put on the design of a new JAVA WebStart application for comparative data display. Flexible data import and export options for standard formats complete the provided services.


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