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Extrapolation of metabolic pathways as an aid to modelling completely sequenced nonSaccharomyces yeasts.

hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
hal.structure.identifierModels and Algorithms for the Genome [MAGNOME]
dc.contributor.authorIRAGNE, Florian
hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
hal.structure.identifierModels and Algorithms for the Genome [MAGNOME]
dc.contributor.authorNIKOLSKI, Macha
hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
hal.structure.identifierModels and Algorithms for the Genome [MAGNOME]
dc.contributor.authorSHERMAN, David James
dc.date.accessioned2024-04-15T09:56:13Z
dc.date.available2024-04-15T09:56:13Z
dc.date.issued2008
dc.identifier.issn1567-1356
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/198815
dc.description.abstractEnMathematical models of biological processes for the model yeast Saccharomyces cerevisiae are the subject of intensive effort and are available in increasing numbers. An open question is whether such models are informative for related yeasts of biotechnological and medical interest that will not themselves benefit from an equivalent effort. In this study, we assess a method for extrapolating reference models to other completely sequenced yeasts, using a combination of graph-theoretic analysis and reliable identification of homologous genes using Génolevures protein families. In this first assessment, we focus on subtractive modeling, identified through the correlated loss of input and output ports in metabolic pathways. We confirm that the major, highly connected, pathways of central metabolism are conserved and might be universal. In 60-80% of our results, further analysis is not required to determine whether the pathway is lost or conserved, so that our method can be systematically applied as a first step in developing species-specific models.
dc.language.isoen
dc.publisherOxford University Press (OUP)
dc.subject.encomparative genomics
dc.subject.enmetabolic pathways
dc.subject.engraph algorithms
dc.title.enExtrapolation of metabolic pathways as an aid to modelling completely sequenced nonSaccharomyces yeasts.
dc.typeArticle de revue
dc.identifier.doi10.1111/j.1567-1364.2007.00290.x
dc.subject.halInformatique [cs]/Bio-informatique [q-bio.QM]
dc.subject.halSciences du Vivant [q-bio]/Bio-Informatique, Biologie Systémique [q-bio.QM]
bordeaux.journalFEMS Yeast Research
bordeaux.page132-9
bordeaux.volume8
bordeaux.hal.laboratoriesLaboratoire Bordelais de Recherche en Informatique (LaBRI) - UMR 5800*
bordeaux.issue1
bordeaux.institutionUniversité de Bordeaux
bordeaux.institutionBordeaux INP
bordeaux.institutionCNRS
bordeaux.peerReviewedoui
hal.identifierinria-00202723
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//inria-00202723v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=FEMS%20Yeast%20Research&rft.date=2008&rft.volume=8&rft.issue=1&rft.spage=132-9&rft.epage=132-9&rft.eissn=1567-1356&rft.issn=1567-1356&rft.au=IRAGNE,%20Florian&NIKOLSKI,%20Macha&SHERMAN,%20David%20James&rft.genre=article


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