Welcome to Models of Cellular Processes¶
Course material for the lecture Models of Cellular Processes (Modelle zellulärer Prozesse WS19/20) at the Humboldt-University Berlin, Institute for Theoretical Biology (ITB) by Dr. Matthias König.
All code and material available from https://github.com/matthiaskoenig/mcp.
Course overview¶
01. Modelling overview
02. Boolean networks
03. Cellular automata
04. Finite difference equations
05. Ordinary differential equations (ODE)
06. Models of metabolism
07. Stoichiometric matrix
08. Constraint-based analysis (CBA)
09. Sensitivity & Metabolic Control Analysis (MCA)
10. Stochastic processes
11. Signalling pathways
12. Standard formats (reproducibility)
13. Parameter estimation
14. Biological databases
15. Course review
Contents:
- 01 Introduction modeling
- 02 Boolean networks
- Boolean networks code
- 03 Cellular automata
- Cellular automata code
- 04 Finite difference equations
- Finite difference equations code
- 05 Ordinary differential equations (ODE)
- Ordinary differential equations (ODE) code
- 06 Models of metabolism
- 07 Stoichiometric matrix
- 08 Constraint-based analysis (CBA)
- Constraint-based analysis (CBA) code
- 09 Sensitivity analysis
- 10 Stochastic processes
- Stochastic processes code
- 11 Signaling
- Signaling code
- 12 Standard formats
- 13 Parameter fitting
- Parameter fitting code
- 14 Biological databases
- Biological databases code
- 15 Course review