From protein interactions to functional annotation: graph alignment in Herpes

Kód výsledku v 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>

Výsledek na webu

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DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

From protein interactions to functional annotation: graph alignment in Herpes

Popis výsledku v původním jazyce

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.

Název v anglickém jazyce

From protein interactions to functional annotation: graph alignment in Herpes

Popis výsledku anglicky

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.

Druh

J_x - Nezařazeno - Článek v odborném periodiku (Jimp, Jsc a Jost)

CEP obor

EB - Genetika a molekulární biologie

OECD FORD obor

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Projekt

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Návaznosti

Z - Vyzkumny zamer (s odkazem do CEZ)

Rok uplatnění

2008

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

BMC Sytems Biology

ISSN

1752-0509

e-ISSN

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Svazek periodika

2

Číslo periodika v rámci svazku

90

Stát vydavatele periodika

GB - Spojené království Velké Británie a Severního Irska

Počet stran výsledku

10

Strana od-do

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Kód UT WoS článku

000262308800001

EID výsledku v databázi Scopus

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