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The Systems Biology Markup Language (SBML): Where It's Been and Where It's Going

Nature Precedings

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Title The Systems Biology Markup Language (SBML): Where It's Been and Where It's Going
 
Date 2007-01-22T04:39:05Z
 
Creator Michael Hucka
 
Subject Biotechnology
Bioinformatics
 
Description A cornerstone of systems biology is the use of computational modeling, by which hypotheses can be cast into a quantitative form that can be tested systematically. The use of computational modeling by biologists promises to pave the way for more rigorous analyses of biological functions, and ultimately will lead to new and better treatments for disease.    A crucial enabler for more widespread use of computational modeling in biology is reaching agreement on how to represent, store, and communicate models between software tools. The Systems Biology Markup Language (SBML) project is an effort to create a machine-readable format for representing computational models in biology. By supporting SBML as an input and output format, different software tools can operate on the same representation of a model, removing chances for errors in translation and assuring a common starting point for analyses and simulations. SBML has become the most successful effort in this direction so far, with over 100 software systems supporting it today.    In this presentation, I will discuss the current state of SBML, including recent developments such as this year's finalization of Version 2 of SBML Level 2. I will also survey some of the software tools that support SBML, and related projects that have arisen to support more effective use of computational models. Lastly, I will discuss expected future developments in SBML.  
 
Identifier http://precedings.nature.com/documents/21/version/1
oai:nature.com:10.1038/npre.2007.21.1
http://dx.doi.org/10.1038/npre.2007.21.1
 
Source Nature Precedings
 
Type Presentation
 
Rights Creative Commons Attribution 3.0 License