Ricardo Ruiz-Baier

Orthotropic active strain models for the numerical simulation of cardiac biomechanics.

A model for the active deformation of cardiac tissue considering orthotropic constitutive laws is introduced and studied. In particular, the passive mechanical properties of the myocardium are described by the Holzapfel-Ogden relation, whereas the activation model is based on the concept of active strain. There, an incompatible intermediate configuration is considered, which entails a multiplicative decomposition between active and passive deformation gradients. The underlying Euler-Lagrange equations for minimizing the total energy are written in terms of these deformation factors, where the active part is assumed to depend, at the cell level, on the electrodynamics and on the specific orientation of the cardiomyocytes. The active strain formulation is compared with the classical active stress model from both numerical and modeling perspectives. The well-posedness of the linear system derived from a generic Newton iteration of the original problem is analyzed, and different mechanical activation functions are considered. Taylor-Hood and MINI finite elements are used in the discretization of the overall mechanical problem. The results of several numerical experiments show that the proposed formulation is mathematically consistent and is able to represent the main features of the phenomenon, while allowing savings in computational costs.

Mathematical modelling of active contraction in isolated cardiomyocytes

We investigate the interaction of intracellular calcium spatio-temporal variations with the self-sustained contractions in cardiac myocytes. A consistent mathematical model is presented considering a hyperelastic description of the passive mechanical properties of the cell, combined with an active-strain framework to explain the active shortening of myocytes and its coupling with cytosolic and sarcoplasmic calcium dynamics. A finite element method based on a Taylor-Hood discretization is employed to approximate the nonlinear elasticity equations, whereas the calcium concentration and mechanical activation variables are discretized by piecewise linear finite elements. Several numerical tests illustrate the ability of the model in predicting key experimentally established characteristics including: (i) calcium propagation patterns and contractility, (ii) the influence of boundary conditions and cell shape on the onset of structural and active anisotropy and (iii) the high localized stress distributions at the focal adhesions. Besides, they also highlight the potential of the method in elucidating some important subcellular mechanisms affecting, e.g. cardiac repolarization.

A Stabilized Finite Volume Element Formulation for Sedimentation-Consolidation Processes

A model of sedimentation-consolidation processes in so-called clarifier-thickener units is given by a parabolic equation describing the evolution of the local solids concentration coupled with a version of the Stokes system for an incompressible fluid describing the motion of the mixture. In cylindrical coordinates, and if an axially symmetric solution is assumed, the original problem reduces to two space dimensions. This poses the difficulty that the subspaces for the construction of a numerical scheme involve weighted Sobolev spaces. A novel finite volume element method is introduced for the spatial discretization, where the velocity field and the solids concentration are discretized on two different dual meshes. The method is based on a stabilized discontinuous Galerkin formulation for the concentration field, and a multiscale stabilized pair of

Adaptive Multiresolution Methods for the Simulation of Waves in Excitable Media

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Analysis of a finite volume element method for the Stokes problem

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Discontinuous finite volume element discretization for coupled flow-transport problems arising in models of sedimentation

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An adaptive finite-volume method for a model of two-phase pedestrian flow

elements for velocity and pressure, respectively. Numerical experiments illustrate properties of the model and the satisfactory p...

Finite volume element approximation of an inhomogeneous Brusselator model with cross-diffusion

We present fully adaptive multiresolution methods for a class of spatially two-dimensional reaction-diffusion systems which describe excitable media and often give rise to the formation of spiral waves. A novel model ingredient is a strongly degenerate diffusion term that controls the degree of spatial coherence and serves as a mechanism for obtaining sharper wave fronts. The multiresolution method is formulated on the basis of two alternative reference schemes, namely a classical finite volume method, and Barkley’s approach (Barkley in Phys. D 49:61–70, 1991), which consists in separating the computation of the nonlinear reaction terms from that of the piecewise linear diffusion. The proposed methods are enhanced with local time stepping to attain local adaptivity both in space and time. The computational efficiency and the numerical precision of our methods are assessed. Results illustrate that the fully adaptive methods provide stable approximations and substantial savings in memory storage and CPU time while preserving the accuracy of the discretizations on the corresponding finest uniform grid.

A priori and a posteriori error analysis of a mixed scheme for the Brinkman problem

In this paper we propose a stabilized conforming finite volume element method for the Stokes equations. On stating the convergence of the method, optimal a priori error estimates in different norms are obtained by establishing the adequate connection between the finite volume and stabilized finite element formulations. A superconvergence result is also derived by using a postprocessing projection method. In particular, the stabilization of the continuous lowest equal order pair finite volume element discretization is achieved by enriching the velocity space with local functions that do not necessarily vanish on the element boundaries. Finally, some numerical experiments that confirm the predicted behavior of the method are provided.

ON A DOUBLY NONLINEAR DIFFUSION MODEL OF CHEMOTAXIS WITH PREVENTION OF OVERCROWDING

The sedimentation-consolidation and flow processes of a mixture of small particles dispersed in a viscous fluid at low Reynolds numbers can be described by a nonlinear transport equation for the solids concentration coupled with the Stokes problem written in terms of the mixture flow velocity and the pressure field. Here both the viscosity and the forcing term depend on the local solids concentration. A semi-discrete discontinuous finite volume element (DFVE) scheme is proposed for this model. The numerical method is constructed on a baseline finite element family of linear discontinuous elements for the approximation of velocity components and concentration field, whereas the pressure is approximated by piecewise constant elements. The unique solvability of both the nonlinear continuous problem and the semi-discrete DFVE scheme is discussed, and optimal convergence estimates in several spatial norms are derived. Properties of the model and the predicted space accuracy of the proposed formulation are illustrated by detailed numerical examples, including flows under gravity with changing direction, a secondary settling tank in an axisymmetric setting, and batch sedimentation in a tilted cylindrical vessel.