Biological Dynamics & Networks CHE 559 / PHY 559 / AMS 537
Spring 2021 Tu/Th 3:00 - 4:20 PM online
Tom MacCarthy, Course PI
Guest lecturers: Ken Dill, TBA
This course will provide a solid foundation in key theoretical concepts for the study of dynamics in biological systems and networks at different scales ranging from the molecular level to metabolic and gene regulatory networks.
Reference Books
- Ken Dill, Molecular Driving Forces: Statistical Thermodynamics in Biology, Chemistry, Physics, and Nanoscience
- Bernhard Palsson, Systems Biology: simulation of dynamic network states
- Eberhard Voit, A first course in Systems Biology
- Uri Alon, An introduction to Systems Biology
- M.E.J. Newman, Networks: an introduction
Topics | Speakers |
---|---|
Introduction to networks and statistical thermodynamics
|
MacCarthy, Dill |
Statistical thermodynamics II
|
Dill |
Biochemical networks
Reference: Palsson, Chapters 2 and 4 |
MacCarthy |
Enzyme kinetics
Reference: Palsson, Chapter 5 |
MacCarthy |
Network measurements
Reference: Newman, Chapters 6,7 |
MacCarthy |
Large-scale structure of networks
Reference: Newman chapter 8 |
TBA |
Network evolution models
Reference: Newman chapters 12,14 |
TBA |
Metabolic networks I
Reference: Palsson, Chapters 7 and 10 |
MacCarthy |
Metabolic networks II
Reference: Voit, Chapters 3 and 8 |
MacCarthy |
Gene regulatory networks I
Reference: Alon, Chapters 2-4 |
MacCarthy |
Signal transduction systems
Reference: Voit, Chapter 9 |
MacCarthy |
Robustness
Reference: Alon, Chapters 7,8 |
MacCarthy |
Algorithms for network analysis
Reference: Newman, Chapter 11 |
MacCarthy |
Modeling noise
|
TBA |