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We consider the problem of estimating the dynamic latent states of an intracellular multiscale stochastic reaction network from time-course measurements of fluorescent reporters. We first prove that accurate solutions to the filtering problem can be constructed by solving the filtering problem for a reduced model that represents the dynamics as a hybrid process. The model reduction is based on exploiting the time-scale separations in the original network, and it can greatly reduce the computational effort required to simulate the dynamics. This enables us to develop efficient particle filters to solve the filtering problem for the original model by applying particle filters to the reduced model. We illustrate the accuracy and the computational efficiency of our approach using a numerical example.
In the past few decades, the development of fluorescent technologies and microscopic techniques has greatly improved scientists ability to observe real-time single-cell activities. In this paper, we consider the filtering problem associate with these
The probability distribution describing the state of a Stochastic Reaction Network evolves according to the Chemical Master Equation (CME). It is common to estimated its solution using Monte Carlo methods such as the Stochastic Simulation Algorithm (
This study concerns online inference (i.e., filtering) on the state of reaction networks, conditioned on noisy and partial measurements. The difficulty in deriving the equation that the conditional probability distribution of the state satisfies stem
Biochemical reaction networks frequently consist of species evolving on multiple timescales. Stochastic simulations of such networks are often computationally challenging and therefore various methods have been developed to obtain sensible stochastic
Leaping methods show great promise for significantly accelerating stochastic simulations of complex biochemical reaction networks. However, few practical applications of leaping have appeared in the literature to date. Here, we address this issue usi