Abstract
Modelling biochemical systems has received considerable attention over the last decade from scientists and engineers across a number of fields, including biochemistry, computer science, and mathematics. Due to the complexity of biochemical systems, it is natural to construct models of the biochemical systems incrementally in a piecewise manner. This paper proposes a hybrid approach which applies an evolutionary algorithm to select and compose pre-defined building blocks from a library of atomic models, mutating their products, thus generating complex systems in terms of topology, and employs a global optimization algorithm to fit the kinetic rates. Experiments using two signalling pathways show that given target behaviours it is feasible to explore the model space by this hybrid approach, generating a set of synthetic models with alternative structures and similar behaviours to the desired ones.
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Wu, Z., Yang, S., Gilbert, D. (2012). A Hybrid Approach to Piecewise Modelling of Biochemical Systems. In: Coello, C.A.C., Cutello, V., Deb, K., Forrest, S., Nicosia, G., Pavone, M. (eds) Parallel Problem Solving from Nature - PPSN XII. PPSN 2012. Lecture Notes in Computer Science, vol 7491. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-32937-1_52
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DOI: https://doi.org/10.1007/978-3-642-32937-1_52
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