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CoryneRegNet 3.0—An interactive systems biology platform for the analysis of gene regulatory networks in corynebacteria and Escherichia coli

Paper ID Volume ID Publish Year Pages File Format Full-Text
25466 43575 2007 11 PDF Available
Title
CoryneRegNet 3.0—An interactive systems biology platform for the analysis of gene regulatory networks in corynebacteria and Escherichia coli
Abstract

CoryneRegNet is an ontology-based data warehouse for the reconstruction and visualization of transcriptional regulatory interactions in prokaryotes. To extend the biological content of CoryneRegNet, we added comprehensive data on transcriptional regulations in the model organism Escherichia coli K-12, originally deposited in the international reference database RegulonDB. The enhanced web interface of CoryneRegNet offers several types of search options. The results of a search are displayed in a table-based style and include a visualization of the genetic organization of the respective gene region. Information on DNA binding sites of transcriptional regulators is depicted by sequence logos. The results can also be displayed by several layouters implemented in the graphical user interface GraphVis, allowing, for instance, the visualization of genome-wide network reconstructions and the homology-based inter-species comparison of reconstructed gene regulatory networks. In an application example, we compare the composition of the gene regulatory networks involved in the SOS response of E. coli and Corynebacterium glutamicum. CoryneRegNet is available at the following URL: http://www.cebitec.uni-bielefeld.de/groups/gi/software/coryneregnet/.

Keywords
Corynebacterium glutamicum; Escherichia coli; Transcriptional regulation; Regulatory network; SOS response; Systems biology
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CoryneRegNet 3.0—An interactive systems biology platform for the analysis of gene regulatory networks in corynebacteria and Escherichia coli
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Publisher
Database: Elsevier - ScienceDirect
Journal: Journal of Biotechnology - Volume 129, Issue 2, 30 April 2007, Pages 279–289
Authors
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Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us