Parent pages: SBML.org

About

1 The SBML Editors and the Chair
2 The SBML Team
3 Past Members of the SBML Team
4 Original Principal Investigators
5 Funding
6 Ownership

SBML is the result of many people's efforts. This page lists individuals who've had specific roles and responsibilities, 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 SBML Editors and the Chair

The SBML Editors are devoted experts who write official specification documents, correct errata, assess proposals, and manage revisions to SBML. They are elected by the SBML community and serve for 3-year terms as volunteers. There are five Editors plus one Chair. The Chair is the leader of the SBML Team and is not elected, but has lower voting power compared to the Editors.

Stefan Hoops, Ph.D. in Mathematical Physics, is a Senior Project Associate at the Virginia Bioinformatics Institute. He's the lead software engineer for COPASI and is involved in projects such as Dome and B-Net. His interests include reverse engineering biochemical data from experimental data.	(Chair) Michael Hucka, Ph.D. in Computer Science and Engineering, is a Senior Research Fellow at Caltech. He co-directs the Beckman Institute BNMC (Biological Network Modeling Center) and works on all aspects of SBML. He's also involved with BioModels.net consortium efforts such as BioModels Database.	Sarah M. Keating, Ph.D. in Electronic and Electrical Engineering, is a Research Programmer at Caltech and a member of the BNMC. Previously, she was at the University of Hertfordshire and has worked in several areas including biosensors, microprocessor design, and telecommunications. She was also a secondary school teacher for many years.
Nicolas Le Novère, Ph.D. in Molecular and Cellular Pharmacology, leads the Computational Neurobiology group at the European Bioinformatics Institute (EBI). His interests include neural signal transduction and computational modeling of signaling pathways. He also leads the development of BioModels Database, the Systems Biology Ontology, MIRIAM, and others. He's also a developer of StochSim.	Sven Sahle, Ph. D. in Theoretical Chemistry, is a junior group leader in the department for modeling of biological processes at the University of Heidelberg. He's one of the lead software engineers of COPASI. His interests include the dynamic properties of biochemical models.	Darren J. Wilkinson, Ph.D. in Bayesian statistics, is Professor of Stochastic Modelling in the School of Stochastic Modelling at the University of Newcastle Upon Tyne, UK. He is involved in a variety of systems biology projects at Newcastle, including the Centre for Integrated Systems Biology of Ageing and Nutrition (CISBAN).

The SBML Team

The SBML Team strives to support the development and evolution of SBML. In particular, the team is responsible for (1) maintaining this website, the SBML mailing lists, electronic surveys, and other resources; (2) arranging for the development and support of critical software, including libSBML, the SBML Validator, and the SBML Test Suite; (3) organizing SBML events, including the SBML Forum Meetings and SBML Hackathons; and (4) seeking funding for all of the above.

Michael Hucka, (BNMC, Caltech) is the current SBML Team leader. He works on all aspects of SBML development, as well as contributing to libSBML and other software efforts, writing grants, organizing workshops, maintaining the SBML.org website and back-end servers, and other odd jobs.	Sarah M. Keating, (BNMC, Caltech) is the current lead developer for libSBML and the SBMLToolbox. She is also developing the SBML Test Suite and the upcoming new SBML Reference Implementation project.	Bruce E. Shapiro, (BNMC, Caltech) is the co-director of the BNMC with Mike. Bruce developed MathSBML and Cellerator, and is involved in many activities including the upcoming new SBML Reference Implementation project. His current interests include computational neuroscience and modeling of signal transduction networks.
Akiya Jouraku, Ph.D. in Computer Science, is a Research Assistant in the Dept. of Biosciences and Informatics at Keio University, Japan. He is a developer of libSBML, CellDesigner and KEGG2SBML. His current research interests include systems biology, interconnection networks, and parallel processing.	Akira Funahashi, Ph.D. in Computer Science, is an Assistant Professor in the Dept. of Biosciences and Informatics at Keio University. He is a developer of KEGG2SBML and CellDesigner. He was previously a researcher in the Kitano Symbiotic Systems Project and The SBI. His research interests include systems biology, interconnection networks, and parallel processing.	Kimberly Begley, has degrees in both Computer Science and Biology and is a Bioinformatics Consultant working in Australia. She has over a decade of experience developing database and XML systems for groups including QFAB, MDS Proteomics, Blueprint, and Lilly Systems Biology. She is currently developing the SBML Test Suite software.

Past Members of the SBML Team

The SBML effort has greatly benefitted from the involvement of many talented individuals over the years. They have moved on to other exciting work, but their contributions are certainly not forgotten.

Hamid Bolouri was the leader of the SBML & SBW Team from 2000 until sometime in 2003–2004. It can be fairly said that it was thanks to his clear-headed and steady team leadership that SBML grew into prominence as the de facto standard for computational models in systems biology. He continues to perform prominent research in systems biology and recently finished a new book.
Andrew M. Finney was a member of the SBML Team from the beginning. Until his return to industry, he was one of SBML's chief architects and greatest contributors. Andrew continues to be involved in the development of SBML Level 3.
Herbert M. Sauro was another original member of the SBML Team and the implementor of the earliest SBML-aware simulation software, Jarnac and JDesigner. He is now faculty at the University of Washington.
Ben Bornstein is a software engineer at the NASA Jet Propulsion Laboratory. He is the architect of libSBML and for a long time was its primary developer; he also developed the second generation of the SBML online validator.
Maria J. Schilstra developed CellML2SBML and made many other contributions to SBML over the years. She is currently the group leader of the Biological and Neural Computation Laboratory at the University of Hertfordshire, UK.
Joanne Matthews was a research programmer at the University of Hertfordshire, UK, in Maria Schilstra's group. Among other things, she worked on CellML2SBML as well as the first generation of the SBML.org online tools.
Ben Kovitz is a freelance software engineer who worked on many things in SBML and SBW, including having written the wiki engine that ran the sbml.org website from 2002 to 2008, parts of libSBML, and RFC 3823 defining the MIME type for SBML. He is back in school pursuing his Ph.D.
Enuo He was a visiting student in the BNMC during 2007. She worked on both developing test cases for the SBML Test Suite and on curating models for BioModels Database. She is now back in Germany pursuing her Ph.D.

Original Principal Investigators

The principal investigators on the project that lead to the development of the first specification of SBML were Hiroaki Kitano and John C. Doyle. After the end of the JST-funded project, Hiroaki Kitano, John C. Doyle, Hamid Bolouri, and Roger Brent at different times obtained funding from various agencies in the USA, Japan and UK to support staff and meetings aimed at continuing the development of SBML and associated resources. Since 2005, Michael Hucka has been the principal investigator on the grants directly funding development of SBML.

Funding

We are grateful for the funding agencies and organizations that have supported SBML in the past and continue to support it today. Without them, SBML would not exist. Our acknowledgments page provides a full list of who they are.

Ownership

No one—not the principal investigators, nor the SBML Editors, nor the SBML Team, nor the funding agencies or anyone else—owns SBML; it is a free and open community effort that extends beyond any single group, and we view ourselves only as organizers and fellow developers.

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This page was last modified 20:49, 4 March 2008.