A parallel Voronoi-based approach for mesoscale simulations of cell aggregate electropermeabilization

DOI10.1016/j.jcp.2018.12.009zbMath1451.76078arXiv1802.01781OpenAlexW2787582410WikidataQ128642475 ScholiaQ128642475MaRDI QIDQ2214528

Frédéric Gibou, Pouria A. Mistani, Arthur Guittet, Clair Poignard

Publication date: 9 December 2020

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

Full work available at URL: https://arxiv.org/abs/1802.01781

zbMATH Keywords

finite volume methodVoronoi meshlevel-set methodmathematical biologyelectropermeabilizationquad/oc-tree grids

Mathematics Subject Classification ID

Finite volume methods applied to problems in fluid mechanics (76M12) Cell biology (92C37) Physiological flows (76Z05) Mesh generation, refinement, and adaptive methods for the numerical solution of initial value and initial-boundary value problems involving PDEs (65M50) Finite volume methods for initial value and initial-boundary value problems involving PDEs (65M08)

Related Items

Solving elliptic interface problems with jump conditions on Cartesian grids, Solving inverse-PDE problems with physics-aware neural networks, Efficient calculation of fully resolved electrostatics around large biomolecules, JAX-DIPS: neural bootstrapping of finite discretization methods and application to elliptic problems with discontinuities

Uses Software

• p4est
• Voro++

Cites Work

• An adaptive discretization of incompressible flow using a multitude of moving Cartesian grids
• Less is different: emergence and reduction reconciled
• Emergence, reduction and supervenience: a varied landscape
• A Voronoi interface approach to cell aggregate electropermeabilization
• Parallel level-set methods on adaptive tree-based grids
• Conducting and permeable states of cell membrane submitted to high voltage pulses: mathematical and numerical studies validated by the experiments
• On the efficiency of certain quasi-random sequences of points in evaluating multi-dimensional integrals
• A second order accurate level set method on non-graded adaptive Cartesian grids
• Fronts propagating with curvature-dependent speed: Algorithms based on Hamilton-Jacobi formulations
• An improved low-discrepancy sequence for multidimensional quasi-Monte Carlo integration
• A non-oscillatory Eulerian approach to interfaces in multimaterial flows (the ghost fluid method)
• Tree methods for moving interfaces
• Quad trees: A data structure for retrieval by composite keys
• A review of level-set methods and some recent applications
• Local level set method in high dimension and codimension
• Solving elliptic problems with discontinuities on irregular domains -- the Voronoi interface method
• Relating theories via renormalization
• Geometric integration over irregular domains with application to level-set methods
• p4est: Scalable Algorithms for Parallel Adaptive Mesh Refinement on Forests of Octrees
• Convergence of the ghost fluid method for elliptic equations with interfaces
• A boundary condition capturing method for multiphase incompressible flow.