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Dear colleagues,

We are pleased to announce the twenty-first release of BioModels
Database (http://www.ebi.ac.uk/biomodels/).

Important changes are happening or announced in this message, so please
read further.


In this release, 68 new models have been published and numerous existing
models have been updated. The public version of BioModels Database now
contains 409 models in the curated and 420 in the non-curated branch.
Together, these 829 models comprise 130800 species, 151274 relationships
(which include reactions, rate rules, events and assignment rules), and
106210 cross-references.

Along with the data release, we would like to announce several important
changes.


First of all, in addition to the SBML version of each model with
annotations encoded with MIRIAM URNs, BioModels Database now provides a
second SBML file with annotations encoded using Identifiers.org URLs.
Those files can be accessed from the "Download SBML" menu displayed on
the top left of any model page and from the models archives (now
provided from the EBI FTP server).

BioModels Database will serve the URN form as the default until the next
release of the database. Then the URL form will be provided as the
default. The files with the URN annotations will still be available for
a while. We encourage software developers to consider the
Identifiers.org version of MIRIAM URIs for any new development.


Moreover, after consultation with BioModels Database's Scientific
Advisory Board and to be more in agreement with the EBI terms of use, it
was decided that from the next release, the BioModels.net Team will
abandon its copyright on the encoded form of the models and release them
in the public domain.


Finally various improvements were made to the underlying software
infrastructure. The main publicly visible change is the fact that a bug,
dealing with the handling of annotations in the non-curated branch, has
been discovered and subsequently fixed. This results in an major
increase in the number of annotations from models in the non-curated
branch. However, we would like to emphasise that those annotations were
provided during submission and are not checked by our curators.

For more information about this release, please refer to the release notes:
http://www.ebi.ac.uk/biomodels-main/static-pages.do?page=release_20120208


We would like to thank all our collaborators, founders and submitters.
We also want to thank the SBML community for their support and the tools
they develop and provide.

BioModels Database is the result of numerous current and past
collaborations and has received funding from multiple sources. Please
refer to our acknowledgements page for up-to-date details:
http://www.ebi.ac.uk/biomodels-main/acknowledgements

Camille Laibe
on behalf of the BioModels.net team.

--
Camille Laibe
BioModels.net Coordinator
European Bioinformatics Institute, Cambridge (UK)

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• [cellml-discussion] 21st release of BioModels Database, Camille Laibe, 02/09/2012

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