The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models

The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models

Molecular biotechnology now makes it possible to build elaborate systems models, but the systems biology community needs information standards if models are to be shared, evaluated and developed cooperatively. We summarize the Systems Biology Markup Language (SBML) Level 1, a free, open, XML-based f...

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Veröffentlicht in:Bioinformatics (Oxford, England) England), 2003-03, Vol.19 (4), p.524-531
Hauptverfasser: HUCKA, M, FINNEY, A, SAURO, H. M, BOLOURI, H, DOYLE, J. C, KITANO, H
Format: Artikel
Sprache:eng
Schlagworte:
Biological and medical sciences
Database Management Systems
Databases, Factual
Documentation
Fundamental and applied biological sciences. Psychology
Gene Expression Regulation - physiology
General aspects
Hypermedia
Information Storage and Retrieval - methods
Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects)
Metabolism - physiology
Models, Biological
Models, Chemical
Programming Languages
Software
Software Design
Terminology as Topic
Vocabulary, Controlled
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Zusammenfassung:Molecular biotechnology now makes it possible to build elaborate systems models, but the systems biology community needs information standards if models are to be shared, evaluated and developed cooperatively. We summarize the Systems Biology Markup Language (SBML) Level 1, a free, open, XML-based format for representing biochemical reaction networks. SBML is a software-independent language for describing models common to research in many areas of computational biology, including cell signaling pathways, metabolic pathways, gene regulation, and others. The specification of SBML Level 1 is freely available from http://www.sbml.org/
ISSN:1367-4803
1367-4811
DOI:10.1093/bioinformatics/btg015