Many people have helped develop SBML as a community standard. This page lists individuals and groups who have made notable contributions to the evolution of SBML and the SBML-using community, but this short list is not meant to diminish the contributions of the broader community of people and companies developing software systems that use SBML.
The following is an attempt to credit everyone (other than the SBML Team) who has developed written proposals and/or specifications for SBML. Please notify email@example.com with notices of any omissions, so that we can make this list as accurate as possible.
|Daniel Lucio, James Schaff, John Wagner||Virtual Cell Team, Univ. of Connecticut Health Center, USA||Representing spatial geometry||3rd Forum|
|Eric Mjolsness, Bruce Shapiro||Machine Learning Systems NASA Jet Propulsion Lab, USA||Support for arrays||3rd Forum|
|Martin Ginkel, Jörg Stelling||Gilles group MPI Magdeburg, Germany||Modularity of models||3rd Forum|
|Nicolas Le Novère, Tom Shimizu||Bray Group University of Cambridge, UK||Multistate molecules & complex species||3rd Forum|
|Igor Goryanin, Hugh Spence||GlaxoSmithKline UK||Miscellaneous SBML extensions proposal||3rd Forum|
|Naoki Tanimura, Maki Nakayama, Yuichiro Inagaki, Takayuki Saito, Akira Funahashi||Systems Biology Institute Japan||Representation of graphical diagrams||5th Forum|
|Sven Sahle, Ralph Gauges, Ursula Rost, Katja Wegner||EML Research gGmbH Germany||Diagram layout||8th Forum|
|Claudine Chaouiya, Elisabeth Remy, Denis Thieffry||LGPD/IBDM/IML France||Logical regulatory networks||9th Forum|
|Michael Blinov||T-10 group Los Alamos National Laboratory, USA||Rule-based models||9th Forum|
|Colin Gillespie, Darren Wilkinson, Richard Boys, Carole Proctor, Daryl Shanley, Tom Kirkwood, Stuart Moodie, Maciej Swat|| BASIS Group Newcastle University, UK, |
Comp. Neuroscience Group EMBL-EBI, UK
|Frank Bergmann||Sauro Group Keck Graduate Institute, USA||Render extension||10th Forum|
|Karthik Raman||Indian Institute of Science India||Flux balance models||11th Forum|
|Ranjit Randhawa, Cliff Shaffer||JigCell Group Virginia Tech, USA||Model composition||ICSB 2006|
|Stefan Hoops||COPASI Team, Virginia Bioinformatics Institute, USA||Hierarchical model composition||12th Forum|
|Anika Oellrich, Nicolas Le Novère||Comp. Neuroscience Group EMBL-EBI, UK||Multicomponent & multistate species||13th Forum|
|Duncan Berenguier, Nicolas Le Novère, Martijn van Iersel, Claudine Chaouiya|| Comp. Neuroscience Group EMBL-EBI, UK
Inst. Gulbenkian de Ciência Oeiras, Portugal
|Qualitative models||13th Forum|
|Frank Bergmann, Brett Olivier||Univ. of Washington and VU University Amsterdam USA and The Netherlands||Flux Balance||14th Forum|
|Dagmar Waltemath, Neil Swainston, Allyson Lister||University of Rostock, University of Manchester and Newcastle University Germany and the UK||Annotations||2010 workshop|
|Chris Myers||University of Utah USA||(1) Arrays and (2) dynamical structures||COMBINE 2011|
|Fengkai Zhang||Simmune Group, NIH NIAID USA||Restarted effort for multicomponent & multistate species||COMBINE 2012|
|Harold Goméz||Laboratory of Computational Immunology, Boston University USA||Restarted effort for dynamic processes||HARMONY 2014|
Summer of Code
Google Summer of Code 2016
In 2016, we have been fortunate to have 5 projects involving SBML. They are listed below in alphabetical order by student's last name.
|Hovakim Grabski||Russian-Armenian University, Armenia||Java support for Deviser, a code generation system for SBML libraries||Blog|
|Kaito Li||Funahashi Lab, Keio University, Japan||Interconvertible Layout program for CellDesigner||Blog|
|Devesh Khandelwal||Cluster Innovation Centre, University of Delhi||SBGN-ML and SBML to Escher Converter||Blog|
|Tramy Nguyen||Myers Research Group, University of Utah, USA||Interconversion between the systems biology modeling formats SBML and BioPAX||Blog|
|Roman Schulte||University of Tuebingen, Tübingen, Germany||JSBML Validation System||Blog|
NRNB Academy 2015
The National Resource for Network Biology runs a year-long program similar to Google Summer of Code, and in 2015, we had the privilege of having a student work on an SBML-related project under NRNB's auspices.
|Matthias König||Charité Universitätsmedizin Berlin, Germany||Porting cysbml to Cytoscape 3||GitHub|
Google Summer of Code 2014
In 2014, we were fortunate to have 3 SBML-related projects. They are listed in alphabetical order by student's last name.
|Victor Kofia||Bader Lab, University of Toronto, Canada||Redesign the implementation of mathematical formulas in JSBML||Blog|
|Ibrahim Y. Vazirabad||Milwaukee School of Engineering, USA||Improving the plug-in interface for CellDesigner||Blog|
|Leandro Watanabe||Myers Research Group, University of Utah, USA||Arrays package for JSBML||Blog|
Organizing and hosting community events that involve SBML is a large effort. It requires funding, resources, and personal time investment by the organizers. The SBML community owes a large debt to the people who have made these events happen.
A history of the beginnings of SBML is provided on a separate page.