What is SED-ML?

Welcome to the home page of the Simulation Experiment Description Markup Language (SED-ML). SED-ML is an XML-based format for encoding simulation setups, to ensure exchangeability and reproducibility of simulation experiments. It follows the requirements defined in the MIASE guidelines.

The current version is SED-ML Level 1 Version 2 and covers the description of time course simulation experiments as well as repeated tasks and steady state experiments.

For further specification documents and proposals see the Specifications page.


Lucian Smith elected as SED-ML editor
Lucian Smith has been elected to replace Jonathan Cooper on the SED-ML editorial board.
HARMONY 2016 to be held in Auckland, New Zealand
Come along and join members of the SED-ML community and others from throughout the COMBINE network at HARMONY 2016 to be held June 7-11 in Auckland, New Zealand.
David Nickerson and Brett Olivier elected as SED-ML Editors(2015-01-26)
David Nickerson has been re-elected as SED-ML Editor. The community also elected Brett Olivier as new editor. Thanks again to Frank T. Bergmann and Dagmar Waltemath!
Ion Moraru new SED-ML Editor (2014-01-18)
We welcome Ion Moraru (University of Connecticut Health Center) as new SED-ML editor.
Sven Sahle new SED-ML Editor (2014-01-04)
We welcome Sven Sahle (BIOQUANT, University of Heidelberg) as new SED-ML editor. Three candidates tied for the second position. The vote for the remaining position is open until January 13, 2014.

The SED-ML community

SED-ML is a community project that is under continuous development, currently exploring the extension of SED-ML to cover more simulation experiment types.
The SED-ML community comprises simulation software developers and modelers from the different communities applying computational methods on biology, medicine, neuroscience etc. Several instruments guarantee the open discussion of the SED-ML language development:

The official mailing list for the SED-ML project is sed-ml-discuss. The mailing list is free for everyone to join. It is the place where all issues regarding the SED-ML language are being discussed. Announcements of SED-ML related events and support issues are posted on SED-ML disucss. Requests for new SED-ML features should be made through the mailing list also. Another important function of the mailing list is the voting for SED-ML editors, as well as for SED-ML proposals. Subscription to the mailing list are always welcome.
Sourceforge project site
The SED-ML Sourceforge project site hosts all code related to the SED-ML language, including the SED-ML XML Schema, the SED-ML specification document, SED-ML feature requests and proposals for SED-ML extensions.
SED-ML editors
The SED-ML editors are being elected by the members of the sed-ml-discuss mailing list for a period of three years. SED-ML editors are responsible for hosting all material relevant to SED-ML, coordinating the SED-ML development, maintaining the SED-ML sourceforge website and the SED-ML specification document. The list of current and past SED-ML editors is being made available through the SED-ML web page.
SED-ML meetings
SED-ML is part of the COMBINE effort. The SED-ML community meets twice a year, at the annual COMBINE meeting and at the annual HARMONY meeting.