Systems Theory and Automatic Control

Modelling and Analysis in Systems Biology

Modelling and Analysis in Systems Biology

This course provides an introduction to the biological and theoretical concepts of Systems Biology. It covers the biological basics, benefits and limitations of mathematical modelling of biochemical networks and gives an introduction to model parametrization, simulation and analysis.

The following topics will be covered in the run of the course:

  • What is Systems Biology?
  • Biological basics in a nutshell
  • Biochemical fundamentals
  • Benefits and limitations of mathematical modelling in Biology
  • Mathematical models in Systems Biology
  • Dynamic modelling of biochemical networks, reaction kinetics
  • Model parametrization, simulation and analysis


Priv.-Doz. Dr. sc. techn. ETH Eric Bullinger
Laboratory for Systems Theory and Automatic Control, Institute for Automation Engineering

Prof. Dr. rer. nat. Fred Schaper
Institute for Biology

Lecture Period

Thursday 15:00-17:00 Room G28-027
Friday 15:00-17:00 Room G28-027

Structure of the course

The course consists of three parts:

  • introductory lectures: 11.10.2018
  • lectures covering bio(chemical) aspects given by F. Schaper: first third of semester, starting 11.10.2018
  • lectures covering theoretical aspects given by E. Bullinger: second and final third of semester

Detailed schedule

Date Lecturer Topic
1 Th 08/10 EB,FS Introduction    
FS Biology part 1
2 Th 15/10 FS Biology part 2
3 Th 18/10 FS Biology part 3
4 Th 25/10 FS Biology part 4
5 Fr 26/10 FS Biology part 5
6 Th 01/11 FS Biology part 6
7 Fr 02/11 FS Biology part 7
8 Th 08/11 EB Theory part 1 Introduction to mathematical modelling, types of models
9 Th 15/11 EB Theory part 2 Reactions, flows, stoichiometry, ODE models
10 Fr 16/11 EB Theory part 3 Nonlinear properties of ODE models
11 Th 22/11 EB Theory part 4 Conserved moieties, elementary modes
12 Fr 23/11 EB Theory part 5 Positive systems
13 Th 06/12 EB Theory part 6 Sensitivity, robustness
14 Fr 07/12 EB Theory part 7 Kinetic proofreading, optimality in metabolism
15 Th 13/12 EB Theory part 8 Stochastic models
16 Fr 14/12 EB Theory part 9 Properties of stochastic models
17 Th 20/12 EB Theory part 10 Spatial and PKPD models
18 Th 10/01 EB Theory part 11 Population models
19 Fr 11/01 EB Theory part 12 Boolean models
20 Th 17/01 EB Theory part 13 Discrete-time models, networks
21 Fr 18/01 EB Theory part 14 Summary and Outlook, exam colloquium
22 Do 24/01 FS Biology part 8 Exam colloquium



Course Material

Link to download material (password protected, for details contact Priv.-Doz. Dr. sc. techn. ETH Eric Bullinger)