|
|
|
Towards the Virtual Cell
5/6 August 2008 at The Cosener's House, Abingdon
(Organisers: Prof Mark Sansom, Dr Paul Sherwood and Dr Martyn Winn)
Workshop Description
The workshop will explore opportunities for integrated modelling in cellular
biology, with the long-term objective of building a predictive capability for
cellular processes. We seek to build a wide ranging collaboration, addressing
all length scales from the systems biology and whole-cell models down to the
molecular and coarse-grained simulations. The main methodological drivers would
relate to the coupling of the length scales, for example using the detail
provided by atomistic and coarse-grained simulation of individual biochemical
events to complement the experimental input to spatially-resolved mesoscopic and
stochastic models. We would also hope to have a strong component of experimental
imaging (STFC is concurrently developing plans for an Imaging Gateway Centre) to
provide the detail on the internal structure of the target system.
Programme
|
Tuesday 5th August
|
|
12:00
|
Registration
and Lunch
|
|
14:00
|
Welcome
and the Hartree Centre
Richard Blake (STFC)
|
|
14:30
|
Workshop
Aims and Plan
Paul Sherwood (STFC)
|
|
14:45
|
Recent
Developments and Challenges
Mark Sansom (University of
Oxford)
|
|
15:30
|
Towards
the virtual cell: Experimental needs
Marisa Martin-Fernandez (STFC)
|
|
16:00
|
Coffee
|
|
16:30
|
Systems
biology 1 Nicolas Le Novere (EBI)
|
|
17:00
|
Simulation
1 Phil Biggin
(Oxford)
|
|
17:30
|
Break
|
|
17:45
|
Panel
discussion - Grand Challenges in Computational Cell Biology
What
are the scientific, medical, and economic drivers for models of cell function ? For which types of cells, or cell components,
is an integrated model particularly valuable, and for which systems will the
data required for experimental validation be available?
Mark Sansom (chair) with Rebecca Wade, Charlie Laughton, Helen Saibil, and Achillefs Kapanidis
|
|
19:00
|
End of session
|
|
19:30
|
Wine
served in the Bar
|
|
20:00
|
Dinner
|
|
Wednesday 6th August
|
|
09:00
|
Challenges
in Systems Biology Research, CSBE view
Galina Lebedeva
(CSBE)
|
|
09:30
|
Bridging
from molecular simulation to biochemical networks
Rebecca Wade (EML)
|
|
10:15
|
Probing nanoscale
dynamics with single-molecule fluorescence
Achillefs Kapanidis (Oxford)
|
|
10:45
|
Coffee
|
|
11:15
|
Experimental
3 - cryo-EM and electron tomography.
Helen Saibil (Birkbeck)
|
|
11:45
|
Systems
Biology 3 Charlie Hodgman
(Nottingham)
|
|
12:15
|
Challenges
for the Development of Biomolecular Simulation
Charlie Laughton (Nottinhgam)
|
|
12:45
|
Lunch
|
|
14:00
|
Panel Discussion
- Planning to Meet the Challenges
If a
predictive cell model is the long term goal, what is a realistic timetable,
and stretching intermediate goals ? Identifying gaps
in current theory, methodology, and software, choosing international
partners, influencing Hartree Centre hardware choices, and bringing together
the disciplines (experiment, theory, mathematics, computer science, bioinformatics, industry).
Paul
Sherwood (chair) with Mark Sansom, Rebecca Wade,
Charlie Hodgman,
Martyn Winn and Marisa Martin-Fernandez
|
|
15:00
|
Wrap-up
led by Martyn Winn (STFC)
Next
steps for Hartree Centre planning. Future meetings and wider consultation
|
|
15:30
|
Close
|
Objectives
One output of the meeting will be a short report identifying the challenges and opportunities in computational cell biology, specifically:
* appropriate scientific grand challenges
* disciplines required in a multi-disciplinary activity
* available codes and gaps in functionality
* hardware requirements and performance issues
* specific ideas on the next step forwards
While we desire a wide-ranging discussion of the field, the meeting should also focus on these specific issues.
Travel to Cosener's House
Please click here.
Contact Details
All enquiries about this workshop should be directed to...
Paul Sherwood/Martyn Winn
STFC Daresbury Laboratory
Daresbury Science & Innovation Campus
Warrington
WA4 4AD
Email: P.Sherwood@dl.ac.uk/M.D.Winn@dl.ac.uk
Tel: +44 (0)1925 603553/(0)1925 603455
Fax: +44 (0)1925 603634
|
