Transcript Imtiaz_Khan_OME_Paris_19May2009

Minimum Information about Cell Lineages And Dynamics
(MICLAD)
A checklist for standardizing dynamic cell behaviour data
Imtiaz Khan
Institut Pasteur, 19 May' 09
Nat Rev Cancer 2008
Molecular – Cellular Translational Gap
“Meso scale” – the proper perspective for abstraction of knowledge about the dynamic process of life
- Sydney Brenner (Nobel laureate, 2002)
Why MICLAD?
Static
Purpose of
Experiment
Standards on Metadata
Header
What was
used
Material
How it was
used
Method
Behaviour
of Cell over
time
Multi Cellular
Daughters
Mother
Standards on Data ?
Mother Daughter
Organelles/Proteins/Molecules
Nucleus
Cytoplasm
Single Cell
Dynamic
Transforming Images to Knowledge – A Bioinformatics Approach
Asymmetry Leading to Population Level Heterogeneity
Event asymmetry
Temporal asymmetry
Spatial asymmetry
Molecular expression asymmetry
Understanding the system through mathematical modelling
Pharmacodynamics (PD) Model
Pharmacokinetics (PK) Model
Towards 5D Data: Closing the Translational Gap
Megason & Fraser, Cell 2007
Contribution to Systems Biology
MICLAD
Integrated view of the biological system
Research
Theme
Materials
Methods
Timeline
Timelapse
Flow
Microarray
TL, MA
TL, FC, MA
Dynamic Proteomics of Individual Cancer Cells in Response to a Drug
Cohen et al., Science 2008
Rules & Language of Engagement
OME @ Cardiff
Cardiff University
Swansea University
Bielefeld University, Germany
School of Medicine
Paul Rees
Jens Stoye
Rachel Errington
Huw Summers
Alex Gouesmann
Paul Smith
Paul Lewis
Tim Nattkemper
Warwick University
David Kipling
School of Computer Sciences
Judith P´erez-Vel´azquez
Istituto di Ricerche
Farmacologiche, Italy
Alex Gray
Michael Chappell
Paolo Ubezio
Monica Lupi
Richard White
Alex Hardisty
School of Biosciences
Glasgow Caledonian
University
Harvard-MIT, USA
Patricia Martin
Anne Carpenter
Scott Jonson
Molecular Devices, USA
Alan Clarke
Oxford University
School of Dentistry
Nick White
Phil Stevens
University of Dundee
School of Optometry
Jason Swedlow
Nick White
GE Healthcare
Nick Thomas
Chris Kier