Nicklas Nordborg wrote:
> [...]
> I am not sure I understand what you mean. You say you want to use BASE 2
> to find the results... but then that you don't need the full-blown BASE
> 2. Can you clarify? BASE 2 stores it's data in a database already... Do
> you want to copy this data into a second database?
Hello, Nicklas.
Just to clarify our interest in this in NuGO: I would like to be able to
query multiple base2 instances from GenePattern and analyse the results
using R/Java modules. We are also interested in using Taverna/Kepler
workflows. In this respect, it would be useful to have a BioMOBY
compliant web service for base2.
We've done two proof of concept projects on base2/BioMOBY integration
here at RRI, and the work is now being followed up by Chris Evelo's
group at Maastrcht University. It seems useful to me that we try to
minimise duplication of effort in this work. My opinion is that while
base2 is appropriate to use as our microarray LIMS, it would be useful
to have a 'standard' BioMBY compliant query interface to make it easy to
analyse data outside of the base2/base2-plugin environment. For example,
in GenePattern. I'm realise that you support integration of base2 with
TIGR's MeV, but I believe that GenePattern represents a much 'broader'
and flexible microarray data analysis platform :-)
Best wishes,
Tony.
--
Dr. A.J.Travis, | mailto:[EMAIL PROTECTED]
Rowett Research Institute, | http://www.rri.sari.ac.uk/~ajt
Greenburn Road, Bucksburn, | phone:+44 (0)1224 712751
Aberdeen AB21 9SB, Scotland, UK. | fax:+44 (0)1224 716687
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