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What Mike is referring to here is:

http://sys-bio.org/generate/edu_caltech_NOMClipboard.asmx

Using SBW we can create Web Services to all available SBW Modules. The NOM
is our Wrapper to libSBML, that makes SBML reading, as well as simple
modifications available to all SBW modules. As such the NOM provides a
simple querying API to the loaded SBML model.

This somehow does not quite sound like that would solve Yves question
though. That said, I'm definitely interested to hear more. (Though perhaps
this should be done off list, as it is not (strictly) an SBML issue.)

Best
Frank

> -----Original Message-----
> From: sbml-discuss-bounces@caltech.edu [mailto:sbml-discuss-
> bounces@caltech.edu] On Behalf Of Michael Hucka
> Sent: Monday, May 07, 2007 2:44 PM
> To: SBML Discussion List
> Subject: Re: [sbml-discuss] SOAP and webservices
>
> You might be interested in checking out the web services
> provided by the SBW group at sys-bio.org. I seem to recall
> there's an SBML interface in the form of a "network object
> model" (NOM).
>
> MH
>
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Hi Yves--

I'm very interested in finding out more about what use cases you've
compiled for your model repository. I've visited a few such sites (EBI
Biomodels, Reactome, 3J, Jigcell) and would very much like to find out
what additional sorts of metadata have been regarded as useful in
organizing and searching for models. Please get in touch and let me know
if you can.

Best--
--Eric
--
Dr. Eric Minch
Senior Research Fellow
Applied Computer Science and Mathematics
Merck Research Laboratories
WP 37B-200
P.O. Box 4
West Point, PA 19486
tel: (215) 652-0194
fax: (215) 993-6016
email: mailto:eric_minch@merck.com

-----Original Message-----
From: sbml-discuss-bounces@caltech.edu
[mailto:sbml-discuss-bounces@caltech.edu] On Behalf Of yves
Sent: Wednesday, July 25, 2007 6:38 PM
To: sbml-discuss@caltech.edu
Subject: Re: [sbml-discuss] SOAP and webservices


we decided the following approach: the webservice will be a way to query
the database to find pathways/reactions of interest (e.g.: "show me all
reactions/pathways that involve Lactose" or "show me all pathways
updated after my last visit on
5/10/2007"). At the end, the user always gets back an ID that points to
a pre-generated SBML file that represents the relevant pathway. We may
extend this granularity one step further to reactions (so that a custom
set of relevant reactions may be embedded in a single SBML-file,
regardless of which pathway they belong to).

The webservice has been developed, however is currently under revision
to coordinate methods with an alternate Java-based API.

As for the SBML-files: my focus is now on how to integrate our custom
annotation in the form of BioPax.

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