A protein interaction atlas for the nuclear receptors: properties and quality of a hub-based dimerisation network.

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Serval ID
serval:BIB_8C6B61D79078
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
A protein interaction atlas for the nuclear receptors: properties and quality of a hub-based dimerisation network.
Journal
BMC Systems Biology
Author(s)
Amoutzias G.D., Pichler E.E., Mian N., De Graaf D., Imsiridou A., Robinson-Rechavi M., Bornberg-Bauer E., Robertson D.L., Oliver S.G.
ISSN
1752-0509 (Electronic)
ISSN-L
1752-0509
Publication state
Published
Issued date
2007
Peer-reviewed
Oui
Volume
1
Pages
34
Language
english
Abstract
BACKGROUND: The nuclear receptors are a large family of eukaryotic transcription factors that constitute major pharmacological targets. They exert their combinatorial control through homotypic heterodimerisation. Elucidation of this dimerisation network is vital in order to understand the complex dynamics and potential cross-talk involved. RESULTS: Phylogeny, protein-protein interactions, protein-DNA interactions and gene expression data have been integrated to provide a comprehensive and up-to-date description of the topology and properties of the nuclear receptor interaction network in humans. We discriminate between DNA-binding and non-DNA-binding dimers, and provide a comprehensive interaction map, that identifies potential cross-talk between the various pathways of nuclear receptors. CONCLUSION: We infer that the topology of this network is hub-based, and much more connected than previously thought. The hub-based topology of the network and the wide tissue expression pattern of NRs create a highly competitive environment for the common heterodimerising partners. Furthermore, a significant number of negative feedback loops is present, with the hub protein SHP [NR0B2] playing a major role. We also compare the evolution, topology and properties of the nuclear receptor network with the hub-based dimerisation network of the bHLH transcription factors in order to identify both unique themes and ubiquitous properties in gene regulation. In terms of methodology, we conclude that such a comprehensive picture can only be assembled by semi-automated text-mining, manual curation and integration of data from various sources.
Keywords
Animals, DNA/metabolism, Databases, Protein, Evolution, Molecular, Gene Expression Regulation, Humans, Metabolic Networks and Pathways/genetics, Mice, Phylogeny, Protein Binding, Protein Interaction Mapping, Receptors, Cytoplasmic and Nuclear/classification, Receptors, Cytoplasmic and Nuclear/genetics, Transcription Factors/classification, Transcription Factors/genetics
Pubmed
Web of science
Open Access
Yes
Create date
24/01/2008 17:47
Last modification date
20/08/2019 14:50
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