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

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

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

PF STK; B5
WPF STK; M
WPF BSYT; B5, B7
IMPRS-Students

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