MEMOSys: Bioinformatics platform for genome-scale metabolic models
| Autor: | Stephan Pabinger, Robert Rader, Rasmus Agren, Zlatko Trajanoski, Jens Nielsen |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Systems biology
Genomics Biology Bioinformatics Models Biological Annotation Software Structural Biology Modelling and Simulation Leverage (statistics) SBML Molecular Biology lcsh:QH301-705.5 business.industry Applied Mathematics Computational Biology Data science Computer Science Applications lcsh:Biology (General) Data exchange Modeling and Simulation User interface business Metabolic Networks and Pathways |
| Zdroj: | BMC Systems Biology BMC Systems Biology, Vol 5, Iss 1, p 20 (2011) |
| ISSN: | 1752-0509 |
| Popis: | Background Recent advances in genomic sequencing have enabled the use of genome sequencing in standard biological and biotechnological research projects. The challenge is how to integrate the large amount of data in order to gain novel biological insights. One way to leverage sequence data is to use genome-scale metabolic models. We have therefore designed and implemented a bioinformatics platform which supports the development of such metabolic models. Results MEMOSys (MEtabolic MOdel research and development System) is a versatile platform for the management, storage, and development of genome-scale metabolic models. It supports the development of new models by providing a built-in version control system which offers access to the complete developmental history. Moreover, the integrated web board, the authorization system, and the definition of user roles allow collaborations across departments and institutions. Research on existing models is facilitated by a search system, references to external databases, and a feature-rich comparison mechanism. MEMOSys provides customizable data exchange mechanisms using the SBML format to enable analysis in external tools. The web application is based on the Java EE framework and offers an intuitive user interface. It currently contains six annotated microbial metabolic models. Conclusions We have developed a web-based system designed to provide researchers a novel application facilitating the management and development of metabolic models. The system is freely available at http://www.icbi.at/MEMOSys. |
| Databáze: | OpenAIRE |
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