Transcript Document

Duke Center for Systems
Biology
Origins
“A systems biologist views biological
problems through the eyes of a systems
engineer”
Timeline
2003
Biological
Networks
Group
formed
2004
2005
2006
First NIH
proposal
submitted
Regular
meetings
and
minitutorials
held
First
DCSB
Systems
Biology
Symposium
2007
Became
IGSP
Center for
Systems
Biology.
Move to
FFSC
space
2008
First annual
Retreat and
SAB review
Named
NIH
National
Center for
Systems
Biology
Core faculty
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Pankaj Agarwal (Computer Science) Q
Philip Benfey (Biology) E
Herbert Edelsbrunner (Computer Science) Q
Steve Haase (Biology) E
John Harer (Mathematics) Q
Alex Hartemink (Computer Science) Q
Paul Magwene (Biology) E/Q
Dave McClay (Biology) E
Sayan Mukherjee (Statistics) Q
Uwe Ohler (IGSP/Bioinformatics) Q
Dave Schaeffer (Mathematics) Q
Josh Socolar (Physics) Q
Mike West (Statistics) Q
Greg Wray (Biology) E
Lingchong You (Biomedical Engineering) E/Q
Philip Benfey
Steve Haase
Mike West
Alex
Hartemink
Paul
Magwene
Uwe Ohler
Lingchong
You
Pankaj
Agarwal
Greg Wray
Sayan
Mukherjee
John Harer
Joshua
Socolar
David
Schaeffer
David
McClay
Center for Systems Biology
Herbert
Edelsbrunner
Philip Benfey
Steve Haase
Mike West
Alex
Hartemink
Paul
Magwene
Uwe Ohler
Lingchong
You
Pankaj
Agarwal
Greg Wray
Sayan
Mukherjee
John Harer
Joshua
Socolar
David
Schaeffer
David
McClay
Herbert
Edelsbrunner
Statistical
Science
Biology
Philip Benfey
Steve Haase
Mike West
Alex
Hartemink
Paul
Magwene
Medicine
Physics
Uwe Ohler
Lingchong
You
Joshua
Socolar
Pankaj
Agarwal
Greg Wray
Sayan
Mukherjee
Computer
Science
Mathematics
John Harer
David
Schaeffer
David
McClay
Herbert
Edelsbrunner
Statistical
Science
Biology
Philip Benfey
Steve Haase
Mike West
Alex
Hartemink
Paul
Magwene
Medicine
Physics
Uwe Ohler
Lingchong
You
Joshua
Socolar
Pankaj
Agarwal
Greg Wray
Sayan
Mukherjee
Computer
Science
Mathematics
John Harer
David
Schaeffer
David
McClay
Computational Biology and Bioinformatics
Herbert
Edelsbrunner
CSB associated faculty
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Jungsang Kim (Electrical Engineering)
Jack Keene (MGM)
Blanche Capel (Cell Biology)
Dewey McCafferty (Chemistry)
Activities
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CSB meetings
Education
Outreach
Faculty recruitment
Research
Regular CSB activities
• Weekly meetings
– “No stupid questions” rule
• Weekly lunches
– Post-docs and grad students
• Journal club
Educational activities
• Grew out of internal mutual education
activities
– Quantitative reasoning for biologists
– Biological processes for quantitative
scientists
Undergraduate
• HHMI grant
– $2 million
• Courses
– Modeling Certificate
– Structure/Function
– Introductory Biology
– Intro to Systems Biology
Mentored research
• Vertically Integrated Partner (VIP) teams
– 2 faculty, 2 grad students, 2 undergraduates
– Summer research
– Independent study
Graduate
• Integration into existing programs
– CBB
– UPGG
– Developmental Biology
– Cell and Molecular Biology
Graduate courses
• Modeling and engineering gene circuits
– Lingchong You
• Computational biology of gene
regulation
– Uwe Ohler
• Computational systems biology
– Alex Hartemink
Outreach
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Annual Systems Biology Symposia
Workshops
Postdoctoral Fellows program
Sabbatical visitors
Partnership with NCCU
• Course: “Complex traits and systems
biology”
• Summer Research Internships
Worldwide Network of
Systems Biology Centers
• Bridging the quantitative/experimental
divide
• Systems biology curriculum development
• Establishing, maintaining and sharing
systems biology databases
Faculty recruitment
• Cluster hire
– Interdisciplinary
– Cross-school
Recruitment
• Over 150 applicants
• Interviewed 10
• Two offers made
– Biology - accepted
– Physics – declined
Research projects
Network dynamics
Time scales
• Cell cycle
– Minutes to hours
• Development
– Hours to months
• Evolution
– Millions of years