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What funding? Building an multi- and interdisciplinary research program in Canada
1. What funding?
Building a multi- and
interdisciplinary
research program
in Canada
Michel Dumontier, PhD
Associate Professor of Bioinformatics
Department of Biology, Institute of Biochemistry, School of Computer Science, Ottawa
Institute of Systems Biology, Ottawa-Carleton Institute of Biomedical Engineering
Carleton University
Schachter Memorial Lecture, University of Toronto, June 17, 2009
2. Past, Present and Future
• multidisciplinary beginnings
• graduate specialization
• interdisciplinary research
• next steps
3. Research Assistant: University of Manitoba
An extraordinary and eye-opening opportunity
The Golgi Apparatus : 3D reconstruction from serial-section TEM
4. Research Associate: Max Planck Institute
Learning and having fun while doing research
Role of small GTPase Rac in signalling and morphology
11. Quick n Dirty
Estimating the number of human genes
Jan 24, 2001
35000
y = 3995.4Ln(x) - 55156
30000
32000
25000
Number of Genes
20000
15000
10000
5000
0
1.00E+05 1.00E+06 1.00E+07 1.00E+08 1.00E+09 1.00E+10
Genom e Size (bp)
Feb 15, 2001 - 30,000–40,000 March 9, 2009 : 32,484
12. Knowledge Discovery:
A family of species-specific predictive tools
1
0.8
0.6 0.6
0.4 0.4
0.2 0.2
0 0
-0.2 -0.2
-0.4 -0.4
-0.6 -0.6
TYR VAL TYR
THR TRP
PRO SER SER
LYS MET PHE
ILE LEU -0.8
GLY HIS MET
GLN GLU
ASP CYS
ARG ASN ILE
S1
ALA -1
2D
ALA
ARG
ASN
GLU
ASP
CYS
GLN
GLU
GLY
HIS
ILE
LEU
ASP
LYS
MET
PHE
PRO
SER
THR
TRP
TYR
ALA
PEP
VAL
1D
3D
19. You’re ready when you’re
pretty much independent
(and your committee agrees)
20. Post-Doc: Blueprint Initiative
Protein Small
Molecule Interactions
Hardware Accelerated
Protein Identification for Chemical Ontology
Tandem Mass Spectrometry
21. The Post-Doc
• chart a new direction
• result-oriented projects
• learn to write grants
• collaborate
• network
43. Paraphrasing
“unrealistic and overly ambitious research”
“proposes to solve problems that have been
worked on for decades”
“nothing particularly novel from a CS POV”
“requires a ontologist”
68. Plan for the future, but take it one step at a time
Develop your skills and expertise
Target an emerging area
Check your ambition
Think big.
69. My thanks to
• Family • Dumontier Lab
• Hogue Lab – Leonid Chepelev
– Natalia Villanueva-Rosales
• Advisory Committee – Alex De Leon
• Biochem Faculty – Mykola Konyk
– Jose Cruz
• BGSU – Glen Newton
• Drinking buddies – Alison Callahan
• Collaborators
• Carleton Faculty – Jim Green
– Jim Cheetham – Bill Willmore
– Bijan Parsia
– Carole Yauk & Paul White
– W3C HCLSIG /OWLWG
Slides - Scott Brinker @ Chief Marketing Technologies