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Nucleic Acids Research Advance Access published online on October 30, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn837
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© 2008 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.

Database Issue

PRODORIC (release 2009): a database and tool platform for the analysis of gene regulation in prokaryotes

Andreas Grote1,2, Johannes Klein1, Ida Retter1, Isam Haddad1, Susanne Behling1, Boyke Bunk1, Ilona Biegler1, Svitlana Yarmolinetz1, Dieter Jahn1,* and Richard Münch1

1Institute of Microbiology, Technical University of Braunschweig, Spielmannstr. 7 and 2Institute of Bioinformatics and Biochemistry, Technical University of Braunschweig, Langer Kamp 19b, 38106 Braunschweig, Germany

*To whom correspondence should be addressed. Tel: +49 531 391 5801; Fax: +49 531 391 5854; Email: d.jahn{at}tu-bs.de

Received September 11, 2008. Accepted October 14, 2008.

PRODORIC is a database that provides annotated information on the regulation of gene expression in prokaryotes. It integrates a large compilation of gene regulatory data including transcription factor binding sites, promoter structures and gene expression patterns. The whole dataset is manually curated and relies on published results extracted from the scientific literature. The current extended version of PRODORIC contains gene regulatory data for several new microorganisms. Major improvements were realized in the design of the web interface and the accessibility of the stored information. The database was further improved by the implementation of various new tools for the elucidation of gene regulatory interactions. Thus, the PRODORIC platform represents a framework for the interactive exploration, prediction and evaluation of gene regulatory networks in prokaryotes. PRODORIC is accessible at http://www.prodoric.de.

The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors


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P. S. Novichkov, O. N. Laikova, E. S. Novichkova, M. S. Gelfand, A. P. Arkin, I. Dubchak, and D. A. Rodionov
RegPrecise: a database of curated genomic inferences of transcriptional regulatory interactions in prokaryotes
Nucleic Acids Res., November 1, 2009; (2009) gkp894v1.
[Abstract] [Full Text] [PDF]


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