Publication
Generalized Method of Moments for Stochastic Reaction Networks in Equilibrium
Michael Backenköhler; Luca Bortolussi; Verena Wolf
In: Ezio Bartocci; Pietro Lio; Nicola Paoletti (Hrsg.). Computational Methods in Systems Biology. International Conference on Computational Methods in Systems Biology (CMSB-2016), 14th International Conference, CMSB 2016, September 21-23, Cambridge, United Kingdom, Pages 15-29, ISBN 9783319451770, Springer International Publishing, 9/2016.
Abstract
Calibrating parameters is a crucial problem within quantitative modeling approaches to reaction networks. Existing methods for stochastic models rely either on statistical sampling or can only be applied to small systems. Here we present an inference procedure for stochastic models in equilibrium that is based on a moment matching scheme with optimal weighting and that can be used with high-throughput data like the one collected by flow cytometry. Our method does not require an approximation of the underlying equilibrium probability distribution and, if reaction rate constants have to be learned, the optimal values can be computed by solving a linear system of equations. We evaluate the effectiveness of the proposed approach on three case studies.
