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The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core (Release 1 Candidate)
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  • Published: 02 January 2010

The Systems Biology Markup Language (SBML) Collection

The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core (Release 1 Candidate)

  • Michael Hucka1,
  • Frank Bergmann2,
  • Stefan Hoops3,
  • Sarah Keating1,
  • Sven Sahle4 &
  • …
  • Darren Wilkinson5 

Nature Precedings (2010)Cite this article

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Abstract

This is the specification for Release 1 Candidate of *SBML Level 3 Version 1 Core*, an electronic model representation format for systems biology.SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. SBML is defined neutrally with respect to programming languages and software encoding; however, it is oriented primarily towards allowing models to be encoded using XML. This document contains many examples of SBML models written in XML.More information about SBML and this specification is available online at "http://sbml.org/Documents/Specifications/ ":http://sbml.org/Documents/Specifications/.

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Authors and Affiliations

  1. California Institute of Technology, US

    Michael Hucka & Sarah Keating

  2. University of Washington, US

    Frank Bergmann

  3. Virginia Bioinformatics Institute, US

    Stefan Hoops

  4. University of Heidelberg, DE https://www.nature.com/nature

    Sven Sahle

  5. Newcastle University, GB https://www.nature.com/nature

    Darren Wilkinson

Authors
  1. Michael Hucka
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  2. Frank Bergmann
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  6. Darren Wilkinson
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Correspondence to Michael Hucka.

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Hucka, M., Bergmann, F., Hoops, S. et al. The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core (Release 1 Candidate). Nat Prec (2010). https://doi.org/10.1038/npre.2010.4123.1

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  • Received: 01 January 2010

  • Accepted: 02 January 2010

  • Published: 02 January 2010

  • DOI: https://doi.org/10.1038/npre.2010.4123.1

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Keywords

  • systems biology
  • SBML
  • modeling
  • XML
  • standards
  • biomodels
  • computational models
  • simulation
  • standards paper

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  • An online model composition tool for system biology models

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