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  Correlating protein-DNA and protein-protein interaction networks

Manke, T., Bringas, R., & Vingron, M. (2003). Correlating protein-DNA and protein-protein interaction networks. Journal of Molecular Biology, 333(1), 75-85. doi:10.1016/j.jmb.2003.08.004.

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Genre: Journal Article
Alternative Title : J. Mol. Biol.

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 Creators:
Manke, Thomas1, Author              
Bringas, Ricardo, Author
Vingron, Martin2, Author              
Affiliations:
1Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433547              
2Gene regulation (Martin Vingron), Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479639              

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Free keywords: protein–DNA binding; protein–protein interaction; regulatory network
 Abstract: Here, we search protein–DNA binding data for prevalent pairs and higher-order tuples of co-occurring transcription factors (TF) in Saccharomyces cerevisiae. While the identification of such modules is dependent on uncertainties of genome-wide data sets, we find several biologically meaningful examples, which allow putative annotation of yet unclassified genes. For the frequently occurring transcriptional module Mcm1-Fkh2-Ndd1, we identified several new target genes involved in cell-cycle control and filament formation. Using large-scale protein interaction data, we demonstrate a significant correlation between co-occurrence of TF binding sites and the vicinity in the protein interaction network. In particular we find that directly interacting transcription factors and those which are members of a protein complex are more likely to occur together as putative DNA-binding modules.

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Language(s): eng - English
 Dates: 2003-10-10
 Publication Status: Published in print
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Type: -
 Identifiers: eDoc: 175054
ISI: 000185794700006
DOI: 10.1016/j.jmb.2003.08.004
 Degree: -

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Title: Journal of Molecular Biology
  Alternative Title : J. Mol. Biol.
Source Genre: Journal
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Publ. Info: -
Pages: - Volume / Issue: 333 (1) Sequence Number: - Start / End Page: 75 - 85 Identifier: ISSN: 0022-2836