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rdf:type |
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lifeskim:mentions |
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pubmed:dateCreated |
2008-7-29
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pubmed:abstractText |
Protein-protein interactions networks are most often generated from physical protein-protein interaction data. Co-conservation, also known as phylogenetic profiles, is an alternative source of information for generating protein interaction networks. Co-conservation methods generate interaction networks among proteins that are gained or lost together through evolution. Co-conservation is a particularly useful technique in the compact bacteria genomes. Prior studies in yeast suggest that the topology of protein-protein interaction networks generated from physical interaction assays can offer important insight into protein function. Here, we hypothesize that in bacteria, the topology of protein interaction networks derived via co-conservation information could similarly improve methods for predicting protein function. Since the topology of bacteria co-conservation protein-protein interaction networks has not previously been studied in depth, we first perform such an analysis for co-conservation networks in E. coli K12. Next, we demonstrate one way in which network connectivity measures and global and local function distribution can be exploited to predict protein function for previously uncharacterized proteins.
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pubmed:grant |
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pubmed:commentsCorrections |
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:status |
MEDLINE
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pubmed:issn |
1471-2164
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pubmed:author |
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pubmed:issnType |
Electronic
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pubmed:volume |
9
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
313
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pubmed:dateRevised |
2010-9-22
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pubmed:meshHeading |
pubmed-meshheading:18590549-Algorithms,
pubmed-meshheading:18590549-Cluster Analysis,
pubmed-meshheading:18590549-Escherichia coli K12,
pubmed-meshheading:18590549-Genome, Bacterial,
pubmed-meshheading:18590549-Metabolic Networks and Pathways,
pubmed-meshheading:18590549-Phylogeny,
pubmed-meshheading:18590549-Predictive Value of Tests,
pubmed-meshheading:18590549-Protein Interaction Mapping,
pubmed-meshheading:18590549-Reference Values,
pubmed-meshheading:18590549-Reproducibility of Results
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pubmed:year |
2008
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pubmed:articleTitle |
The topology of the bacterial co-conserved protein network and its implications for predicting protein function.
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pubmed:affiliation |
Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, Colorado 80045, USA. anis.karimpour-fard@uchsc.edu
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pubmed:publicationType |
Journal Article,
Research Support, U.S. Gov't, Non-P.H.S.,
Research Support, N.I.H., Extramural
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