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

JOURNAL OF COMPUTATIONAL PHYSICS

卷:380

Article

Mistani, Pouria¹  Guittet, Arthur¹  Poignard, Clair^3,4  Gibou, Frederic^1,2 

[1] Univ Calif Santa Barbara, Dept Mech Engn, Santa Barbara, CA 93106 USA

[2] Univ Calif Santa Barbara, Dept Comp Sci, Santa Barbara, CA 93106 USA

[3] CNRS, UMR 5251, Inst Math Bordeaux, Team MONC,INRIA Bordeaux Sud Ouest, 351 Cours Liberat, F-33405 Talence, France

[4] Univ Bordeaux, 351 Cours Liberat, F-33405 Talence, France

关键词: Level-set method;    Voronoi mesh;    Finite volume method;    Quad/Oc-tree grids;    Mathematical biology;    Electropermeabilization;   

DOI  :  10.1016/j.jcp.2018.12.009

来源: Elsevier

【 摘 要 】

We introduce a numerical framework that enables unprecedented direct numerical studies of the electropermeabilization effects of a cell aggregate at the meso-scale. Our simulations qualitatively replicate the shadowing effect observed in experiments and reproduce the time evolution of the impedance of the cell sample in agreement with the trends observed in experiments. This approach sets the scene for performing homogenization studies for understanding the effect of tissue environment on the efficiency of electropermeabilization. We employ a forest of Octree grids along with a Voronoi mesh in a parallel environment that exhibits excellent scalability. We exploit the electric interactions between the cells through a nonlinear phenomenological model that is generalized to account for the permeability of the cell membranes. We use the Voronoi Interface Method (VIM) to accurately capture the sharp jump in the electric potential on the cell boundaries. The case study simulation covers a volume of (1 mm)(3) with more than 27,000 well-resolved cells with a heterogeneous mix of morphologies that are randomly distributed throughout a spheroid region. (C) 2018 Elsevier Inc. All rights reserved.

【 授权许可】

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