title: Kalman filter parameter estimation for a nonlinear diffusion model of epithelial cell migration using stochastic collocation and the Karhunen-Loeve expansion.
abstract: Several Kalman filter algorithms are presented for data assimilation and parameter estimation for a nonlinear diffusion model of epithelial cell migration. These include the ensemble Kalman filter with Monte Carlo sampling and a stochastic collocation (SC) Kalman filter with structured sampling. Further, two types of noise are considered -uncorrelated noise resulting in one stochastic dimension for each element of the spatial grid and correlated noise parameterized by the Karhunen-Loeve (KL) expansion resulting in one stochastic dimension for each KL term. The efficiency and accuracy of the four methods are investigated for two cases with synthetic data with and without noise, as well as data from a laboratory experiment. While it is observed that all algorithms perform reasonably well in matching the target solution and estimating the diffusion coefficient and the growth rate, it is illustrated that the algorithms that employ SC and KL expansion are computationally more efficient, as they require fewer ensemble members for comparable accuracy. In the case of SC methods, this is due to improved approximation in stochastic space compared to Monte Carlo sampling. In the case of KL methods, the parameterization of the noise results in a stochastic space of smaller dimension. The most efficient method is the one combining SC and KL expansion.
authors.affiliation: Department of Mathematics, University of Pittsburgh, Pittsburgh, PA 15260, USA. Electronic address: jaredb@pitt.edu.
authors.forename: Jared
authors.initials: J
authors.lastname: Barber
authors.affiliation: Department of Mathematics, University of Pittsburgh, Pittsburgh, PA 15260, USA. Electronic address: rot26@pitt.edu.
authors.forename: Roxana
authors.initials: R
authors.lastname: Tanase
authors.affiliation: Department of Mathematics, University of Pittsburgh, Pittsburgh, PA 15260, USA. Electronic address: yotov@math.pitt.edu.
authors.forename: Ivan
authors.initials: I
authors.lastname: Yotov
mesh_terms: D000818:Animals; D002465:Cell Movement; D003198:Computer Simulation; D004847:Epithelial Cells; D006801:Humans; D017711:Nonlinear Dynamics; D013269:Stochastic Processes
keywords: Epithelial cell migration; Kalman filter; Karhunen–Loeve expansion; Parameter estimation; Stochastic collocation