W3C home > Mailing lists > Public > public-semweb-lifesci@w3.org > March 2012

Franco du Preez @ Systems Biology Task Force - Wed 28th Mar at 11AM EDT

From: Helena Deus <helenadeus@gmail.com>
Date: Tue, 27 Mar 2012 14:56:14 +0100
Message-ID: <CAPkJ_9mW0T1xOqMTihfN8cugwd0BC2mk_8OXncM_ebWGmf+sZw@mail.gmail.com>
To: W3C HCLSIG hcls <public-semweb-lifesci@w3.org>, Jonas S Almeida <jalmeida@uab.edu>, Laleh.Kazemzadeh@deri.org
Dear All,

Please join me tomorrow at the Systems Biology Task force, where Franco du
Preez will give us an overview of the work going on at SysmoDB.

*PLEASE NOTE:* We will attempt to use webex for slide sharing, so I will
share the webex link on IRC tomorrow.

*OneStop: Access point to SBML, SBGN and MIRIAM compliant annotation for
users of the SysMO SEEK*

Franco B. Du Preez(1), Stuart Owen(2), Katherine Wolstencroft(2), Olga
Krebs(3), Wolfgang Müller(3), Carole Goble(2) & Jacky L. Snoep(4)

We have developed an online model constructor and validator called OneStop,
which provides users of the SysMO SEEK platform with easy access to
modeling standards such as SBGN, SBML and MIRIAM compliant annotation. Key
distinctions between OneStop and many existing model constructors include a
human readable input form as well as live visualization of the reaction
network during the construction phase in SBGN as well as it being an online
system, accessible from any machine with a compatible browser. Error
feedback is provided iteratively at the appropriate sites in the model,
simplifying the debugging process significantly and guiding the efforts of
new users in a step by step fashion. OneStop is tightly integrated with the
JWS Online model repository and simulator and also facilitates the import
of models from the BioModels database.

1.Manchester Interdisciplinary Biocentre, University of Manchester, UK
2.School of Computer Science, University of Manchester, UK
3.Heidelberg Institute for Theoretical Studies (Hits), gGmbH, Germany
4.Department of Biochemistry, Stellenbosch University, South Africa



About the Speaker:

Im a member of the SysMO-DB group at the University of Manchester, which is
part of a larger consortium studying the Systems Biology of MicroOrganisms
(SysMO). My work is centered around the modeling aspects of the SysMO SEEK
platform, such as model curation, model simulation and analysis tools and
standards, such as SBML, SBGN and MIRIAM compliant annotation. My current
research relates to the recalibration and reuse of existing detailed
kinetic models to describe new experimental data.
*
*
*
*
*Conference Details
*Systems Biology
http://www.w3.org/wiki/HCLSIG/SysBio

 Date of Call: Wednesday March 28 2012
 Time of Call: 11:00am - 12:00pm EDT
 Dial-In #: +1.617.761.6200 (Cambridge, MA)
 Dial-In #: +33.4.26.46.79.03 (Paris, France)
 Dial-In #: +44.203.318.0479 (London, UK)
 Participant Access Code: 4257 ("HCLS")
 IRC Channel: irc.w3.org port 6665 channel #HCLS (see [
http://www.w3.org/Project/IRC/ W3C IRC page] for details, or see [
http://cgi.w3.org/member-bin/irc/irc.cgi Web IRC])
 Mibbit quick start: Click on [
http://www.mibbit.com/chat/?server=irc.w3.org:6665&channel=%23hcls mibbit]
for instant IRC access
 Duration: 1h
 Convener: Helena F Deus

*Agenda
** Franco talk
* Ideas about next invited speakers
* Adding more tools and publications to the wiki -
http://www.w3.org/wiki/HCLSIG/SysBio
* Next Steps - Identify a small network for proteins as an excuse to start
exploring the TCGA data



-- 
Helena F. Deus
Post-Doctoral Researcher at DERI/NUIG
http://lenadeus.info/
Received on Tuesday, 27 March 2012 13:57:21 GMT

This archive was generated by hypermail 2.3.1 : Tuesday, 26 March 2013 18:01:06 GMT