Abstract
Cellular networks and processes can be mathematically described and analyzed in various ways. Here, the case example of a MAP kinase (MAPK) cascade is used to detail steps in the formulation of a system of ordinary differential equations governing the temporal behavior of a signal transduction pathway after stimulation. Different analysis methods for the model are explained and demonstrated, such as stoichiometric analysis, sensitivity analysis, or studying the effect of deletions and protein overexpression. Finally, a perspective on standards concerning modeling in systems biology is given.
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Acknowledgments
I thank Dr. Matteo Barberis and Dr. Wolfram Liebermeister for helpful discussions. This work has been supported by the European Community through the projects Quasi, Cellcomput, and UNICELLSYS (http://www.unicellsys.eu/).
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Klipp, E. (2011). Computational Yeast Systems Biology: A Case Study for the MAP Kinase Cascade. In: Castrillo, J., Oliver, S. (eds) Yeast Systems Biology. Methods in Molecular Biology, vol 759. Humana Press. https://doi.org/10.1007/978-1-61779-173-4_19
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DOI: https://doi.org/10.1007/978-1-61779-173-4_19
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