This page lists the accumulated Versions (and Releases within Versions) of the SBML Level 3 Core specification and Level 3 package specifications.
Although RELAX NG Schemas are available for SBML Level 3, the schemas only capture the basic syntax of the format. Semantics and correct usage are not captured by the schemas and can only be understood by reading the specification documents.
SBML Level 3 Version 2 Core
Release 2 is the current stable release of SBML Level 3 Version 2 Core:
Specification
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core
This is Release 2 of
the specification for SBML Level 3
Version 2, made available on 2019-03-29.
How to cite the publication:
Michael Hucka, Frank T. Bergmann, Claudine Chaouiya, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Matthias König, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Rahuman Sheriff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson, and Fengkai Zhang (2019). The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core Release 2. Journal of Integrative Bioinformatics, 16(2), 20190021
BibTeX
RIS
Release 1 (for historical reference):
Specification
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core
This is Release 1 of
the specification for SBML Level 3
Version 2, made available on 2017-12-05.
How to cite the publication:
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicholas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, and Darren J. Wilkinson. (2017). The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core. Journal of Integrative Bioinformatics, 15(1), 20170081
BibTeX
RIS
SBML Level 3 Version 1 Core
Release 3 is the current stable release of SBML Level 3 Version 1 Core:
Specification
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core
This is Release 3 of
the specification for SBML Level 3
Version 1, made available on 2019-03-29.
This specification does not have a journal publication associated with it. Suggested citation:
Michael Hucka, Frank T. Bergmann, Claudine Chaouiya, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Matthias König, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Rahuman Sheriff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson and Fengkai Zhang. (2019). The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. Retrieved from COMBINE, http://identifiers.org/combine.specifications/sbml.level-3.version-1.release-3
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RIS
Release 2 (for historical reference):
Specification
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core
This is Release 2 of
the specification for SBML Level 3
Version 1, made available on 2016-12-28.
How to cite the publication:
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicholas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, and Darren J. Wilkinson. (2018). The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. Journal of Integrative Bioinformatics, 15(1), 20170080
BibTeX
RIS
Release 1 (for historical reference):
Specification
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core
This is Release 1 of
the specification for SBML Level 3
Version 1, made available on 2010-10-06.
How to cite the publication:
Michael Hucka, Frank T. Bergmann, Stefan Hoops, Sarah M. Keating, Sven Sahle, James C. Schaff, Lucian P. Smith, and Darren J. Wilkinson. (2015). The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. Journal of Integrative Bioinformatics, 12(2), 382-549
BibTeX
RIS
SBML Level 3 Packages
Each Level 3 package effort has its own detailed status page. Please follow the links below for more information, including any specifications that may be available. This list is in alphabetical order by package label. The information in this table is drawn from the master table for Level 3 package statuses.
Note that packages are developed by separate groups apart from the SBML Editors. If you use an SBML Level 3 Package in your software or your work, please cite the publication associated with the package to give credit to the package developers. Citation information is given in the package detail pages, linked below.
| Package | Nickname | Description | Status |
|---|---|---|---|
| Arrays | arrays | Support for expressing arrays of things | Draft available |
| Hierarchical Model Composition | comp | Supports the creation of models from other complete models or from model fragments | Released |
| Distributions | distrib | Support for encoding models that sample values from statistical distributions | Released |
| Dynamic Structures | dyn | Support for creating and destroying entities during a simulation | Draft available |
| Flux Balance Constraints | fbc | Support for constraint-based (a.k.a. steady-state) models | Released |
| Groups | groups | A means for grouping elements | Released |
| Layout | layout | Support for storing the spatial topology of a network diagram; adjunct to the render package | Released |
| Extended MathML | math | A suite of packages that collectively allow MathML beyond the subset allowed in SBML core | Not started |
| Multistate, Multicomponent and Multicompartment Species | multi | Object structures for representing entity pools with multiple states and composed of multiple components, and reaction rules involving them | Released |
| Qualitative Models | qual | Support for models wherein species do not represent quantity of matter & processes are not reactions per se | Released |
| Rendering | render | Support for defining the graphical symbols and glyphs used in a diagram of the model; adjunct to the layout package | Released |
| Spatial Processes | spatial | Support for describing processes that involve a spatial component, and describing the geometries involved | Released |
SBML Level 3 package specification documents are written using a standardized LaTeX template developed by the SBML Team for this purpose. The template is freely available for use by other efforts.