From protein interactions to functional annotation: graph alignment in Herpes

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68378050%3A_____%2F08%3A00337896" target="_blank" >RIV/68378050:_____/08:00337896 - isvavai.cz</a>
Result on the web
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DOI - Digital Object Identifier
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Result language
angličtina
Original language name
From protein interactions to functional annotation: graph alignment in Herpes
Original language description
Sequence alignment is a prolific basis of functional annotation, but remains a challenging problem in the twilight zone of high sequence divergence or short gene length. We demonstrate how information on gene interactions can resolve ambiguous sequence alignments. We compare two distant Herpes viruses by constructing a graph alignment based jointly on the similarity of their protein interaction networks and on sequence similarity. This hybrid method provides functional associations between proteins of the two organisms that cannot be obtained from sequence or interaction data alone. We find proteins where interaction similarity and sequence similarity are individually weak but together provide evidence of orthology. There are also proteins with high interaction similarity and no detectable sequence similarity, providing evidence of functional association beyond sequence homology. The predictions derived from our alignment are consistent with genomic position and gene expression data.
Czech name
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Czech description
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Type
J<sub>x</sub> - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)
CEP classification
EB - Genetics and molecular biology
OECD FORD branch
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Publication year
2008
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

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