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The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models
TLDR
We summarize the Systems Biology Markup Language (SBML) Level 1, a free, open, XML-based format for representing biochemical reaction networks. Expand
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BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models
TLDR
BioModels Database http://www.ebi.ac.uk/biomodels/ is aimed at addressing exactly these needs. Expand
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A community-driven global reconstruction of human metabolism
Multiple models of human metabolism have been reconstructed, but each represents only a subset of our knowledge. Here we describe Recon 2, a community-driven, consensus 'metabolic reconstruction',Expand
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BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems
TLDR
BioModels Database (), part of the international initiative BioModels.net, provides access to published, peer-reviewed, quantitative models of biochemical and cellular systems. Expand
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The Systems Biology Graphical Notation
Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard visual languages that help accelerate work by promoting regularity, removing ambiguity and enabling softwareExpand
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Minimum information requested in the annotation of biochemical models (MIRIAM)
Most of the published quantitative models in biology are lost for the community because they are either not made available or they are insufficiently characterized to allow them to be reused. TheExpand
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Evolving a lingua franca and associated software infrastructure for computational systems biology: the Systems Biology Markup Language (SBML) project.
TLDR
We developed the Systems Biology Markup Language (SBML) in collaboration with an international community of modellers and software developers. Expand
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Systems biology markup language: Level 2 and beyond.
  • A. Finney, M. Hucka
  • Computer Science, Medicine
  • Biochemical Society transactions
  • 1 December 2003
TLDR
We developed an exchange language, the SBML (systems biology markup language) [1], with the help of a community of software developers. Expand
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BioModels: ten-year anniversary
TLDR
BioModels (http://www.ebi.ac.uk/biomodels/) is a repository of mathematical models of biological processes. Expand
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Erratum: Profiling PARP inhibitors
  • E. Demir, M. P. Cary, +86 authors Gary D. Bader
  • Biology
  • Nature Biotechnology
  • 9 September 2010
BioPAX (Biological Pathway Exchange) is a standard language to represent biological pathways at the molecular and cellular level. Its major use is to facilitate the exchange of pathway dataExpand
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