title: Metingear: a development environment for annotating genome-scale metabolic models.
abstract: Genome-scale metabolic models often lack annotations that would allow them to be used for further analysis. Previous efforts have focused on associating metabolites in the model with a cross reference, but this can be problematic if the reference is not freely available, multiple resources are used or the metabolite is added from a literature review. Associating each metabolite with chemical structure provides unambiguous identification of the components and a more detailed view of the metabolism. We have developed an open-source desktop application that simplifies the process of adding database cross references and chemical structures to genome-scale metabolic models. Annotated models can be exported to the Systems Biology Markup Language open interchange format.
  
  
  BACKGROUND
  Source code, binaries, documentation and tutorials are freely available at http://johnmay.github.com/metingear. The application is implemented in Java with bundles available for MS Windows and Macintosh OS X.
authors.affiliation: Cheminformatics and Metabolism, European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK. johnmay@ebi.ac.uk
authors.forename: John W
authors.initials: JW
authors.lastname: May
authors.forename: A Gordon
authors.initials: AG
authors.lastname: James
authors.forename: Christoph
authors.initials: C
authors.lastname: Steinbeck
mesh_terms: D016208:Databases, Factual; D016678:Genome; D008660:Metabolism; D008954:Models, Biological; D012984:Software; D049490:Systems Biology / Q000379:methods