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BY-NC-ND 4.0 license Open Access Published by De Gruyter October 18, 2016

CoryneRegNet 2: An Integrative Bioinformatics Approach for Reconstruction and Comparison of Transcriptional Regulatory Networks in Prokaryotes

  • Jan Baumbach , Karina Brinkrolf , Tobias Wittkop , Andreas Tauch and Sven Rahmann


CoryneRegNet is an ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. Initially, it was designed to provide methods for the analysis and visualization of the gene regulatory network of Corynebacterium glutamicum. Now we integrated the genomes and transcriptional interactions of three other corynebacteria, C. diphtheriae, C. efficiens, and C. jeikeium into CoryneRegNet; providing comparative analysis and visualization with GraphVis. We also integrated the high-performance PSSM search tool PoSSuM search to detect potential transcription factor binding sites within and across species. As an application, we reconstruct in silico the regulatory network of the iron metabolism regulator DtxR in the four corynebacteria.

CoryneRegNet is freely accessible at The final slash (/) is mandatory. In order to use the GraphVis feature, Java (at least version 1.4.2) is required.

Published Online: 2016-10-18
Published in Print: 2006-12-1

© 2006 The Author(s). Published by Journal of Integrative Bioinformatics.

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

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