CISBAN Software and Tools Standards

SyMBA (Multi-omics (meta)data archive) on SourceForge!

We have just opened up the Systems and Molecular Biology Data and
Metadata Archive (SyMBA, formerly known as the CISBAN DPI) to the
community under the terms of the GNU LGPL. Its new home is SourceForge,
and there is a subversion repository, installation instructions,
mailing list, issue tracker etc available.

The main URL is:

The Project Page on SF (where you can get to screenshots, subversion browsing etc) is here:

changed the name of the project to reflect the wider diversity of
developers now contributing to the project. I
will be sending information, announcements, and answers to questions on
the symba developers mailing list, which everyone can subscribe to:

If you wish to subscribe, please go here:

We'd be happy to have additional developers on the project,
and if there is any feature or bug you'd like to report, please use our
issue trackers:

you'd like to take a more hands-on approach, then please email me your
sourceforge user id, and I'll add you as a developer on the project.

SyMBA was initially developed (and is still mainly developed) by the Integrative Bioinformatics Group, headed by Neil Wipat and part of CISBAN. Many thanks to all who have helped, via code or comment, and also to the current SourceForge Developers listed below:

Allyson Lister (CISBAN)
Olly Shaw (CISBAN)
Dan Swan (Newcastle Bioinformatics Support Unit)
Frank Gibson (CARMEN Neuroscience Project)

SyMBA is also being evaluated by other members of the CARMEN project and by CSBE.

sandbox to play around with SyMBA is now up again at after a major disk malfunction on the old server. I'll transfer
all old logins in the old system now having logins on the new one, and
if you'd like a login once the new server is up, please drop me a line.
In the meantime, please have a look around the new SourceForge site and
also the code, if you like! All comments and suggestions welcome.

Some general information:
The Centre for Integrated Systems Biology of Ageing and Nutrition has developed a data archive and
(SyMBA) based on Milestone 3 of the
Functional Genomics Experiment (FuGE)
Object Model (FuGE-OM), and which archives, stores, and retrieves raw high-throughput data. Until now,
published systems have successfully integrated multiple omics data types and information about
in a single database. SyMBA is the first published implementation of FuGE that includes a database
expert and standard interfaces, and a Life Science Identifier (LSID) Resolution and Assigning service to
identify objects and provide programmatic access to the database. Having a central data repository
deletion, loss, or accidental modification of primary data, while giving convenient access to the data
publication and analysis. It also provides a central location for storage of metadata for the
high-throughput data sets, and will facilitate subsequent data integration strategies.

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By Allyson Lister

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