BioModelsapplication/xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000.pdfhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000-biopax2.owlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000-biopax3.owlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000_url.xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000_urn.xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000.xpphttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000.vcmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000.pnghttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000.scihttps://www.ebi.ac.uk/biomodels/model/download/MODEL1311070000?filename=MODEL1311070000.mprimaryOK200Miguel Ponce de LeónNon-curatedL2V1https://www.ebi.ac.uk/biomodels/MODEL131107000024176055falseBioModelsSBMLModelsPonce de Léon2013 Genome scale metabolic model for Blattabacterium cuenoti (iMP240)2013MODEL1311070000Non KineticMiguel Ponce-de-León, Francisco Montero, Juli PeretóMiguel Ponce-de-León24176055, <h4>Background</h4>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.<h4>Results</h4>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.<h4>Conclusion</h4>We found the proposed approach to be a valuable tool for the curation of genome-scale metabolic models. The outcome of its application to the genome-scale model B. cuenoti iCG238 is a more accurate model version named as B. cuenoti iMP240.. null, 7. nullmiguelponcedeleon@gmail.comUniversidad Complutense de Madrid<h4>Background</h4>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.<h4>Results</h4>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.<h4>Conclusion</h4>We found the proposed approach to be a valuable tool for the curation of genome-scale metabolic models. The outcome of its application to the genome-scale model B. cuenoti iCG238 is a more accurate model version named as B. cuenoti iMP240.Solving gap metabolites and blocked reactions in genome-scale models: application to the metabolic network of Blattabacterium cuenoti.Ponce-de-León Miguel M, Montero Francisco F, Peretó Juli Jscale tissue, whole genome, scales, peltate hair., scale, Genomes, plant peltate hairscale tissue, rasGAP, GAPDH II, 10538, GTPase-activating protein, secondary metabolites, Gapdh13F, peltate hair., RASGAP, GAP1, RASA, GADPH, primary metabolites, CG8893, gap1, Gapdh, sxt, PKWS, rI533, GAP, Gap, scales, p120GAP, p120RASGAP, FBgn 32821, GAPDH, Ras-GAP, CG10538, DmelCG6721, scale, Genomes, RasGAP, plant peltate hair, Gapd, GA3PDH, DmelCG10538, Gap 1, metabolite, blocked, mip, gap, whole genome, GAPDH2, CMAVM, d-CdGAPr, Gapdh-2, Ras p21 protein activator, metabolites, CM-AVM, CG6721, DmelCG8893Cryptocercidae, Blattarias, scale tissue, rasGAP, anatomical protrusion, Materials, Procedures, GAPDH II, peltate hair, Cockroach, Blattidae, 10538, secondary metabolites, GTPase-activating protein, Gene, Gapdh13F, peltate hair., Procedure, RASGAP, GAP1, Cistrons, RASA, results, Dictyoptera, protrusion, Techniques, method, primary metabolites, GADPH, CG8893, gap1, Method, Gapdh, method used in an experiment, sxt, Studies, Genetic Materials, PKWS, background, rI533, techniques, GAP, Gap, scales, p120GAP, p120RASGAP, FBgn 32821, Technique, Genetic Material, GAPDH, Blattodea, Ras-GAP, CG10538, DmelCG6721, Genetic, scale, Genomes, RasGAP, plant peltate hair, Gapd, GA3PDH, DmelCG10538, Gap 1, metabolite, blocked, mip, Cockroache, Dictyopteras, gap, Methodological, procedures, whole genome, Cockroachs, GAPDH2, CMAVM, Methodological Study, introduction, plan specification, Study, Blattaria, d-CdGAPr, Blaberidae, Gapdh-2, Polyphagidae, Methodological Studies, spine, Material, Ras p21 protein activator, metabolites, CM-AVM, CG6721, Cistron, DmelCG8893, Blattodeas, methodologyDesc, DESCR., Description, Descriptive, Descriptor, description, Product Description/AppearancefalsePonce-de-Léon2013 - Genome scale metabolic model for Blattabacterium cuenoti (iMP240)No description2014-01-152005-01-012013-11-07MODEL131107000024176055MODEL1311070000GO:190157639782