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dc.contributor.authorSchäuble, Sascha
dc.contributor.authorStavrum, Anne-Kristin
dc.contributor.authorBockwoldt, Mathias
dc.contributor.authorPuntervoll, Pål
dc.contributor.authorHeiland, Ines
dc.PublishedSchäuble S, Stavrum A, Bockwoldt M, Puntervoll P, Heiland I. SBMLmod: a Python-based web application and web service for efficient data integration and model simulation. BMC Bioinformatics. 2017;18:314eng
dc.description.abstractBackground: Systems Biology Markup Language (SBML) is the standard model representation and description language in systems biology. Enriching and analysing systems biology models by integrating the multitude of available data, increases the predictive power of these models. This may be a daunting task, which commonly requires bioinformatic competence and scripting. Results: We present SBMLmod, a Python-based web application and service, that automates integration of high throughput data into SBML models. Subsequent steady state analysis is readily accessible via the web service COPASIWS. We illustrate the utility of SBMLmod by integrating gene expression data from different healthy tissues as well as from a cancer dataset into a previously published model of mammalian tryptophan metabolism. Conclusion: SBMLmod is a user-friendly platform for model modification and simulation. The web application is available at, whereas the WSDL definition file for the web service is accessible via Furthermore, the entire package can be downloaded from We envision that SBMLmod will make automated model modification and simulation available to a broader research community.en_US
dc.publisherBioMed Centralen_US
dc.rightsAttribution CC BYeng
dc.subjectWeb applicationeng
dc.subjectWeb serviceeng
dc.subjectData integrationeng
dc.subjectModel simulationeng
dc.titleSBMLmod: a Python-based web application and web service for efficient data integration and model simulationen_US
dc.typePeer reviewed
dc.typeJournal article
dc.rights.holderCopyright 2017 The Author(s)en_US
dc.source.journalBMC Bioinformatics
dc.relation.projectNorges forskningsråd: 178885
dc.relation.projectAndre: BMBF e:Med GlioPATH
dc.relation.projectAndre: DAAD-exchange program

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Except where otherwise noted, this item's license is described as Attribution CC BY