Workshop on Systems Biology, Wed, 07 Nov, 2007
Speaker: Edda Klipp
Abstract
Investigation of cellular systems is more and more supported by computational methods like bioinformatics and mathematical modeling, which is an important aspect of Systems Biology. A frequently used method is the description of reaction systems by sets of ordinary differential equations. The structure of the equations is established based on the knowledge about the network structure, i.e. about the relevant pathways and protein-protein interactions, while the parameters are determined from experimental observations, preferentially time course measurements.
Using the power of such models, we investigate stress response processes in the yeast Saccharomyces cerevisiae. The adaptation of the cells to environmental changes like nutrient supply, pheromone stimulation or osmotic stress is mediated by signaling pathways that eventually regulate the expression of many genes. The products of such genes, in turn, regulate the metabolism or the cell cycle progression in order to compensate for or adapt to the external stimuli. The predictions of the models can be compared with experimental results obtained under different stress conditions or using certain mutants. Simulations reveal properties of the signaling process and enlighten the roles of different components in the adaptation process. The presented examples show that mathematical models are helpful to formulate experimental knowledge in a testable form, to explain hitherto unsolved phenomena, and to even predict the outcome of new experiments.
URL: www.ricam.oeaw.ac.at/specsem/ssqbm/participants/abstracts/index.php
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