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New BioModels Database Release

Hinxton, tuesday 25th September 2007

We are pleased to announce the ninth release of BioModels Database.

This new release sees the the addition of 47 models, 38 entering the curated branch. That brings the public version of BioModels Database to 12482 reactions. As usual, a significant portion of the annotation of existing models has also been uptated. The database now features 7985 cross-references.

Many methods have been added to BioModels Dababase WebServices. You can now retrieve the models using ChEBI, GO, UniProt and Taxonomy information. We welcome any suggestion for new services.

[Download All Models Under SBML L2 V1 Format]

Acknowledgements

BioModels Database is developed by the teams of Nicolas Le Novère (EMBL-EBI, United-Kingdom) and Michael Hucka (SBML Team, Caltech, USA) in collaboration with Upinder Bhalla (DOQCS, National Center for Biological Sciences, India), Herbert Sauro (Keck Graduate Institute, USA), Hiroaki Kitano (Systems Biology Institute, Japan), Hans Westerhoff and Jacky Snoep (JWS Online, Stellenbosch (ZA) and Manchester (UK) Universities and Stellenbosh University, ZA), as part of the BioModels.net initiative. BioModels Database development has benefitted from funds of the European Molecular Biology Laboratory (Le Novère team), the National Institute of General Medical Sciences (SBML team and Le Novère team), and the DARPA (Sauro team).

Model curators and annotators: Harish Dharuri, Enuo He, Nicolas Le Novère, Lu Li, Rainer Machne, Bruce Shapiro (Alumni: Maria Schilstra)

Developers: Mélanie Courtot, Camille Laibe, Chen Li (main developer), Lu Li, Nicolas Rodriguez (Alumni: Marco Donizelli, Arnaud Henry)

External contributors: BioModels Database would not exists without the continuous support of many people, whether by their contribution of models, of software, or by their constructive comments and criticisms. It is unfortunately impossible to acknowledge all of them here, without risking to be unfair. Therefore, a big collective thank-you all.

BioModels Database is built thanks to many third-party free software such as libSBML, Jakarta Tomcat, Xindice, Lucene, Xalan, Xerces, Axis, Jena and MySQL, plus all the free software coming with the GNU/Linux systems.

Main software used to curate models: CellDesigner, COPASI, Jarnac, MathSBML, RoadRunner, SBMLdeSolver, SBMLeditor, SBMLmerge and XPP-Aut.

Statistics


ReleaseModelsSpeciesReactionsCross-references

25/September/2007 19210482 12482 7985
05/June/2007 145 6498 7684 5330
05/January/2007 132 5775 6458 4420
03/October/2006 96 4125 4890 3074
05/June/2006 54 837 1307 3542
31/January/2006 50 761 1163 3126
28/July/2005 44 596 943 2373
01/June/2005 30 425 736 1609
11/April/2005 20 322 631 1084


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