poster: Challenges in reproducing an ODE vesicle transport model with particles in continuous space
speaker: Philipp Henning (University of Rostock)abstract: Executable models of biological processes are a powerful tool toward a further understanding of these systems. In contrast to wet-lab experiments, a model allows scanning of a parameter space and fast testing of hypotheses. However depending on the chosen modeling approach (e.g., ODE, PDE or particle-based methods), the models provide different insights into the biological processes. Hence, it is sometimes necessary to reproduce a simple model in a more advanced approach to gain further information about the system.
We will show the process of reproducing the results of a simple vesicle transport model, defined as ODE, with our particle based approach ML-Force. Several problems have occurred during the translation of the model, such as the necessity of additional parameters. In this case, the payoff of this work is a better understanding of the motion of vesicles. Our research reveals that a spatial particle based approach is not automatically able to reproduce the results of a non-spatial model. For example, for the given simple ODE model, directed movement is essential, as realized in ML-Force by external forces.
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