A poroelastic immersed boundary method with applications to cell biology

DOI10.1016/J.JCP.2014.10.004MaRDI QIDQ728858zbMATH OpenOpenAlexFDO

Authors Wanda Strychalski, Calina A. Copos, Owen L. Lewis, Robert D. Guy

Publication date 20 December 2016

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

Full work available at URL https://doi.org/10.1016/j.jcp.2014.10.004

zbMATH Keywords

blebbingcell crawlingfluid-structure interactionhyperelasticityStokes flow

Mathematics Subject Classification ID

Finite difference methods for initial value and initial-boundary value problems involving PDEs (65M06) Finite difference methods applied to problems in fluid mechanics (76M20) Physiological flows (76Z05) Cell biology (92C37)

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Cites work

• 2–D Parachute Simulation by the Immersed Boundary Method
• A comparison of implicit solvers for the immersed boundary equations
• A computational model of aquatic animal locomotion
• A computational model of bleb formation
• A continuum model of motility in ameboid cells
• A fast, robust, and non-stiff immersed boundary method
• A mls-based lattice spring model for simulating elasticity of materials
• A multigrid method for a model of the implicit immersed boundary equations
• A Simple Mesh Generator in MATLAB
• An efficient semi-implicit immersed boundary method for the Navier-Stokes equations
• An immersed boundary energy-based method for incompressible viscoelasticity
• Biomechanics of the brain: a theoretical and numerical study of Biot's equations of consolidation theory with deformation-dependent permeability
• Cytoplasm dynamics and cell motion: Two-phase flow models
• Efficient solutions to robust, semi-implicit discretizations of the immersed boundary method
• scientific article; zbMATH DE number 3860529 (Why is no real title available?)
• scientific article; zbMATH DE number 3102391 (Why is no real title available?)
• Immersed finite element method and its applications to biological systems
• Implicit second-order immersed boundary methods with boundary mass
• Microstructural Randomness Versus Representative Volume Element in Thermomechanics
• Numerical analysis of blood flow in the heart
• On the hyperelastic formulation of the immersed boundary method
• Rheology of the Cytoskeleton
• The immersed boundary method
• The influence of hindered transport on the development of platelet thrombi under flow
• Unconditionally stable discretizations of the immersed boundary equations

Cited in

(27)

• Modeling viscoelastic networks and cell deformation in the context of the immersed boundary method
• A numerical method for osmotic water flow and solute diffusion with deformable membrane boundaries in two spatial dimension
• A locally gradient-preserving reinitialization for level set functions
• The surrounding cell method based on the S-FEM for analysis of FSI problems dealing with an immersed solid
• An arbitrary Lagrangian-Eulerian method for simulating interfacial dynamics between a hydrogel and a fluid
• Efficient simulation of thermally fluctuating biopolymers immersed in fluids on 1-micron, 1-second scales
• Phase-field model of cellular migration: three-dimensional simulations in fibrous networks
• Immersed finite element method and its applications to biological systems
• Two finite element approaches for Darcy and Darcy-Brinkman flow through deformable porous media-mixed method vs. NURBS based (isogeometric) continuity
• A continuous energy-based immersed boundary method for elastic shells
• Eulerian-Lagrangian treatment of nondilute two-phase gels
• A POROUS VISCOELASTIC MODEL FOR THE CELL CYTOSKELETON
• A Lagrangian method for the treatment of freshly cleared cells in immersed boundary techniques
• Viscoelastic immersed boundary methods for zero Reynolds number flow
• A diffuse interface model for cell blebbing including membrane-cortex coupling with linker dynamics
• General solutions of linear poro-viscoelastic materials in spherical coordinates
• Multiphase modelling of precipitation-induced membrane formation
• Numerical analysis of the immersed boundary method for cell-based simulation
• A Fast Accurate Boundary Integral Method for Potentials on Closely Packed Cells
• Sharp interface analysis of a diffuse interface model for cell blebbing with linker dynamics
• Cardiac perfusion coupled with a structured coronary network tree
• A reciprocal theorem for biphasic poro-viscoelastic materials
• 3D simulation of a viscous flow past a compliant model of arteriovenous-graft annastomosis
• Reticular network as the lymph nodes railroad system: T cells migration modelling by the free energy minimization technique
• A model for contractile stress fibers embedded in bulk actomyosin networks
• Fluid dynamics of multiple fast-firing extrusomes. Fast extrusomes
• An immersed boundary method for mass transfer through porous biomembranes under large deformations

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Uses Software

• DistMesh

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