Whole cell tracking through the optimal control of geometric evolution laws

DOI10.1016/J.JCP.2015.05.014zbMATH Open1349.92006arXiv1504.05399OpenAlexW1588228463WikidataQ58871740 ScholiaQ58871740MaRDI QIDQ2374599FDOQ2374599

Authors: Konstantinos N. Blazakis, Anotida Madzvamuse, C. C. Reyes-Aldasoro, Vanessa Styles, Chandrasekhar Venkataraman 

Publication date: 5 December 2016

Published in: Journal of Computational Physics (Search for Journal in Brave)

Abstract: Cell tracking algorithms which automate and systematise the analysis of time lapse image data sets of cells are an indispensable tool in the modelling and understanding of cellular phenomena. In this study we present a theoretical framework and an algorithm for whole cell tracking. Within this work we consider that "tracking" is equivalent to a dynamic reconstruction of the whole cell data (morphologies) from static image datasets. The novelty of our work is that the tracking algorithm is driven by a model for the motion of the cell. This model may be regarded as a simplification of a recently developed physically meaningful model for cell motility. The resulting problem is the optimal control of a geometric evolution law and we discuss the formulation and numerical approximation of the optimal control problem. The overall goal of this work is to design a framework for cell tracking within which the recovered data reflects the physics of the forward model. A number of numerical simulations are presented that illustrate the applicability of our approach.

Full work available at URL: https://arxiv.org/abs/1504.05399

Recommendations

• Numerical algorithm for tracking cell dynamics in 4D biomedical images
• A Variational Technique for Time Consistent Tracking of Curves and Motion
• Parameter identification problems in the modelling of cell motility
• Nonlinear PDE based numerical methods for cell tracking in zebrafish embryogenesis
• An optimal control problem for controlling the cell volume in dehydration and rehydration process

zbMATH Keywords

finite elementsoptimal controlphase fieldcell trackinggeometric evolution law

Mathematics Subject Classification ID

Discrete approximations in optimal control (49M25) Applications of optimal control and differential games (49N90) Computational methods for problems pertaining to biology (92-08) Cell movement (chemotaxis, etc.) (92C17)

Cites Work

• Modeling cell movement and chemotaxis using pseudopod-based feedback
• Practical mathematical optimization. An introduction to basic optimization theory and classical and new gradient-based algorithms.
• Optimization with PDE Constraints
• Title not available (Why is that?)
• Parabolic optimal control problems on evolving surfaces subject to point-wise box constraints on the control-theory and numerical realization
• Active contours without edges
• Anisotropic motion by mean curvature in the context of Finsler geometry
• Simulating the deformation of vesicle membranes under elastic bending energy in three dimensions
• A modified phase field approximation for mean curvature flow with conservation of the volume
• Title not available (Why is that?)
• Generation and Propagation of Interfaces in Reaction-Diffusion Systems
• The influence of electric fields on nanostructures-simulation and control
• High resolution tracking of cell membrane dynamics in moving cells: an electrifying approach
• Control of nanostructures through electric fields and related free boundary problems

Cited In (11)

• 4D numerical schemes for cell image segmentation and tracking
• Parameter estimation for a morphochemical reaction-diffusion model of electrochemical pattern formation
• Optimal control of volume-preserving mean curvature flow
• Parameter identification problems in the modelling of cell motility
• Projected finite elements for systems of reaction-diffusion equations on closed evolving spheroidal surfaces
• A data‐driven optimal control method for endoplasmic reticulum membrane compartmentalization in budding yeast cells
• Numerical preservation of velocity induced invariant regions for reaction-diffusion systems on evolving surfaces
• Measures for ranking cell trackers without manual validation
• Numerical algorithm for tracking cell dynamics in 4D biomedical images
• Optimal control for a phase field system with a possibly singular potential
• Bayesian parameter identification for Turing systems on stationary and evolving domains

Uses Software

• Chemotaxis
• PhagoSight

This page was built for publication: Whole cell tracking through the optimal control of geometric evolution laws

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q2374599)