Topology-based Abstraction of Complex Biologiical Systems: Application to the Golgi Apparatus

Abstract : Many complex cellular processes involve major changes in topology and geometry. We have developed a method using topology-based geometric modelling in which the edge labels of an n-dimensional generalized map (a sub-class of graphs) represent the relations between neighbouring biological compartments. We illustrate our method using two topological models of the Golgi apparatus. These models can be animated using transformation rules which depend on geometric and/or biochemical data and which modify both these data and the topology. Both models constitute plausible topological representations of the Golgi apparatus, but only the model based on a recent hypothesis about the Golgi apparatus is fully compatible with data from electron microscopy. Finally, we outline how our method may help biologists choose between different hypotheses.
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Theorie in den Biowissenschaften / Theory in Biosciences, Springer Verlag, 2008, 127 (2), pp.79-88
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Mathieu Poudret, Agnès Arnould, Jean-Paul Comet, Pascale Le Gall, Philippe Meseure, et al.. Topology-based Abstraction of Complex Biologiical Systems: Application to the Golgi Apparatus. Theorie in den Biowissenschaften / Theory in Biosciences, Springer Verlag, 2008, 127 (2), pp.79-88. 〈hal-00352003〉

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