autumn 2015

BIO-8011 Modelling in Systems Biology I -Metabolic pathway modelling - 5 stp

Last changed: 03.03.2015

The course is administrated by

Faculty of Biosciences, Fisheries and Economics


Tromsø |

Application deadline

Registration deadline for PhD students at UiT - The Arctic University of Norway: September 1st.

Application deadline for external applicants: June 1st.

Type of course

Single course PhD, master students can participate if sufficient places are available.

Admission requirements

Use this application form to register on the course and send it to Ingjerd Gauslaa Nilsen at BFE Faculty, University of Tromsø:
Admission PhD Courses


Maximum participants: 10 (minimum 4)

Course contents

Modelling is an important tool in current biology. It is widely used to help experimental design, in drug target prediction and in the prediction of disease related changes. We will focus on the modelling of metabolic pathways in this course, especially on the reconstruction of kinetic models and simulation techniques. We will discuss limitation of modelling approaches due to limited parameter availability and perform parameter estimation based on available experimental data. In the practical part students will be introduced to different programs available for stoichiometric and kinetic modelling. The integration of gene expression data into the modelling approach will be an essential part of the course. Furthermore, several related databases such as BioCyc, KEGG, BRENDA and Biomodels will be introduced during the course.

Objective of the course

Basic knowledge on metabolic pathway analysis, biomathematical modelling, sensitivity analysis and parameter estimation. Knowledge of tools available for kinetic modelling and knowledge about related databases. Students will be able to reconstruct small metabolic network models and simple kinetic model,s and perform time courses simulations as well as parameter estimation from biological data. Students will furthermore be able to perform stoichiometric analysis and simple flux balance analysis with tools available in the internet. The goal is that the students have a general understanding of modelling and its applications to different biological topics. They will furthermore be familiar with available databases and web based tools.

Language of instruction


Teaching methods

Intensive course 1 week, 40 hours combined lectures and computer practicals


Written project work. Pass/Fail.


Recommended reading/syllabus

Available on request.
Lectures Autumn 2015
Schedule: Same schedule as BIO-3010.


Ines Heiland

Professor for Molecular Biology and Bioinformatics
Phone: +4777646889

Profilbilde Tonje E Eriksen.jpg

Tonje Engevik Eriksen

Phone: +4777623314