Course code: BIO-3010

Modelling in Systems Biology I -Metabolic pathway modelling

Campus

Semester / Year Autumn 2013

Credits 5

NOTE! This course belongs to a previous semester/year

About the course

Master course. Maximum participants: 10 (minimum 4)

Modeling 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 modeling of metabolic pathways in this course especially on the reconstruction of kinetic models and simulation techniques. We will discuss limitation of modeling 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 modeling. The integration of gene expression data into the modeling 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.

Objectives of the course

Basic knowledge on metabolic pathway analysis, biomathematical modelling, sensitivity analysis and parameter estimation. Knowledge of tools available for kinetic modeling and knowledge about related databases. Students will be able to reconstruct small metabolic network models and simple kinetic models 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 modeling and its applications to different biological topics. They will furthermore be familiar with available databases and web based tools.

Teaching methods

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

Language of instruction and examination

English

Assessment

Written project work. Pass/Fail.

Error rendering component

Previous years and semesters

Kontakt oss

Responsible unit: Institutt for arktisk og marin biologi

Ines Heiland

Professor

ines.heiland@uit.no

Siv Andreassen

Kontorsjef

siv.andreassen@uit.no