Related papers: Tensegrity structures and data-driven analysis for…
Skeletal muscles are living tissues that can undergo large deformations in short periods of time and that can be activated to produce force. In this paper we use the principles of continuum mechanics to propose a dynamic, fully non-linear,…
Cells self-organize into functional, ordered structures during tissue morphogenesis, a process that is evocative of colloidal self-assembly into engineered soft materials. Understanding how inter-cellular mechanical interactions may drive…
In a recent paper [arXiv:1506.06649 [nlin.CG]], we presented an example of a 3-state cellular automaton which exhibits behaviour analogous to degenerate hyperbolicity often observed in finite-dimensional dynamical systems. We also…
Modeling the 3D structures of cells and tissues is crucial in biology. Sequential cross-sectional images from electron microscopy provide high-resolution intracellular structure information. The segmentation of complex cell structures…
This paper presents a novel approach for simulating plasma instabilities in tokamak plasmas using the piecewise field-aligned finite element method in combination with the particle-in-cell method. Our method traditionally aligns the…
Partition of unity methods, such as the extended finite element method (XFEM) allow discontinuities to be simulated independently of the mesh [1]. This eliminates the need for the mesh to be aligned with the discontinuity or cumbersome…
We investigate a continuum mechanical model for an adherent cell on two dimensional adhesive micropatterned substrates. The cell is modeled as an isotropic and homogeneous elastic material subject to uniform internal contractile stresses.…
The interface dynamics of a 3D cell immersed in a 3D extracellular matrix is investigated. We suggest a 3D generalization of a known 2D minimal phase field model suggested in [1] for the description of keratocyte motility. Our model…
Many mechanical structures, both engineered and biological, combine heavy rigid elements such as bones and beams with lightweight flexible ones such as cables and membranes. These are referred to as tensegrities, reflecting that cables can…
Stress-induced shaping, which deforms thin substrates utilizing stressed surface coatings, has enabled and enhanced a host of applications in past decades. Owing to the touchless fabrication process compatible with modern planar technology,…
Many fundamental biological processes are dependent on cellular migration. Although the mechanical mechanisms of single-cell migration are relatively well understood, those underlying migration of multiple cells adhered to each other in a…
It is established that the mechanical properties of hydrogels control the fate of (stem) cells. However, despite its importance, a one-to-one correspondence between gels' stiffness and cell behaviour is still missing from literature. In…
The task of learning patterns is typically associated with systems that update parameters on fixed architectures, such as neural networks, where learning proceeds through continuous optimization. Here, we demonstrate that pattern learning…
Cardiovascular diseases are among the most important causes of global mortality. Computational Fluid Dynamics (CFD) is a powerful research tool that analyzes the hemodynamics of artery and blood flow patterns. In this study, CFD simulations…
The muscle synergy concept provides the best framework to understand motor control and it has been recently utilised in many applications such as prosthesis control. The current muscle synergy model relies on decomposing multi-channel…
We develop a modeling and simulation framework capable of massively parallel simulation of multicellular systems with spatially resolved stochastic kinetics in individual cells. By the use of operator-splitting we decouple the simulation of…
This chapter provides a brief introduction to the theory and practice of spatial stochastic simulations. It begins with an overview of different methods available for biochemical simulations highlighting their strengths and limitations.…
Cells contain elaborate and interconnected networks of protein polymers which make up the cytoskeleton. The cytoskeleton governs the internal positioning and movement of vesicles and organelles, and controls dynamic changes in cell…
Cosserat theory of elasticity is a generalization of classical elasticity that allows for asymmetry in the stress tensor by taking into account micropolar rotations in the medium. The equations involve a rotation field and associated…
Nonlinearities and instabilities in mechanical structures have shown great promise for embedding advanced functionalities. However, simulating structures subject to nonlinearities can be challenging due to the complexity of their behavior,…