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Solving gap metabolites and blocked reactions in genome-scale models: application to the metabolic network of Blattabacterium cuenoti.

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Solving gap metabolites and blocked reactions in genome-scale models: application to the metabolic network of Blattabacterium cuenoti.

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dc.contributor.author Ponce de León, Miguel
dc.contributor.author Montero, Francisco
dc.contributor.author Peretó, Juli
dc.date.accessioned 2014-03-31T11:41:13Z
dc.date.available 2014-03-31T11:41:13Z
dc.date.issued 2013
dc.identifier.citation Ponce de León, Miguel Montero, Francisco Peretó Magraner, Juli 2013 Solving gap metabolites and blocked reactions in genome-scale models: application to the metabolic network of Blattabacterium cuenoti. Bmc Systems Biology 7 114
dc.identifier.uri http://hdl.handle.net/10550/33866
dc.description.abstract Background: Metabolic reconstruction is the computational-based process that aims to elucidate the network of metabolites interconnected through reactions catalyzed by activities assigned to one or more genes. Reconstructed models may contain inconsistencies that appear as gap metabolites and blocked reactions. Although automatic methods for solving this problem have been previously developed, there are many situations where manual curation is still needed. Results: We introduce a general definition of gap metabolite that allows its detection in a straightforward manner. Moreover, a method for the detection of Unconnected Modules, defined as isolated sets of blocked reactions connected through gap metabolites, is proposed. The method has been successfully applied to the curation of iCG238, the genome-scale metabolic model for the bacterium Blattabacterium cuenoti, obligate endosymbiont of cockroaches. Conclusion: We found the proposed approach to be a valuable tool for the curation of genome-scale metabolic models. The outcome of its application
dc.relation.ispartof Bmc Systems Biology, 2013, vol. 7, p. 114
dc.subject Bacteris
dc.subject Biologia
dc.title Solving gap metabolites and blocked reactions in genome-scale models: application to the metabolic network of Blattabacterium cuenoti.
dc.type journal article es_ES
dc.date.updated 2014-03-31T11:41:13Z
dc.identifier.doi 10.1186/1752-0509-7-114
dc.identifier.idgrec 093953
dc.rights.accessRights open access es_ES
dc.identifier.url 10.1186/1752-0509-7-114

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