Related papers: A first principle (3+1) dimensional model for micr…
In this study we formulate a theoretical approach, based on a Boltzmann-like kinetic equation, to describe pattern formation in two-dimensional mixtures of microtubular filaments and molecular motors. Following the previous work by Aranson…
A model of the three-dimensional rotating compressible Euler equations on the cubed sphere is presented. The model uses a mixed mimetic spectral element discretization which allows for the exact exchanges of kinetic, internal and potential…
We present a 3D finite element solver for the nonlinear Poisson-Nernst-Planck (PNP) equations for electrodiffusion, coupled to the Stokes system of fluid dynamics. The model serves as a building block for the simulation of macromolecule…
Self-organization of kinesin-driven, microtubule-based 3D active fluids relies on the collective dynamics of single microtubules. However, the connection between macroscopic fluid flows and microscopic motion of microtubules remains…
A simple stochastic model which describes microtubule dynamics and explicitly takes into account the relevant biochemical processes is presented. The model incorporates binding and unbinding of monomers and random phosphate release inside…
This paper provides an algorithmic pipeline for studying the intrinsic structure of a finite discrete dynamical system (DDS) modelling an evolving phenomenon. Here, by intrinsic structure we mean, regarding the dynamics of the DDS under…
We consider the 3D cubic nonlinear Schr\"odinger equation (NLS) with a strong toroidal trap. In the first part, we show that as the confinement is strengthened, a large class of global solutions to the time-dependent model can be described…
We examine the physical basis for algorithms to replace mixing-length theory (MLT) in stellar evolutionary computations. Our 321D procedure is based on numerical solutions of the Navier-Stokes equations. These implicit large eddy…
Microtubules, major elements of the cell skeleton are, most of the time, well organized in vivo, but they can also show self-organizing behaviors in time and/or space in purified solutions in vitro. Theoretical studies and models based on…
We derive several kinetic equations to model the large scale, low Fresnel number behavior of the nonlinear Schrodinger (NLS) equation with a rapidly fluctuating random potential. There are three types of kinetic equations the longitudinal,…
This article offers a review of results for solitons in 2D and 3D models of nonlinear dissipative media. The existence of such solitons requires to maintain two balances: between nonlinear self-focusing and linear diffraction and/or…
Microtubule dynamic instability arises from the hydrolysis of GTP bound to the beta-monomer of the tubulin dimer. The conformational change induced by hydrolysis is unknown, but microtubules disassemble into protofilaments of GDP-bound…
We investigate the miscible Rayleigh-Taylor (RT) instability in both 2 and 3 dimensions using direct numerical simulations, where the working fluid is assumed incompressible under the Boussinesq approximation. We first consider the case of…
We study the azimuthal modulational instability of vortices with different topological charges, in the focusing two-dimensional nonlinear Schr{\"o}dinger (NLS) equation. The method of studying the stability relies on freezing the radial…
Microtubules have been in biophysical focus for several decades. Yet the confusing and mutually contradicting results regarding their elasticity and fluctuations have shed some doubts on their present understanding. In this paper we expose…
We propose a stochastic model that accounts for the growth, catastrophe and rescue processes of steady state microtubules assembled from MAP-free tubulin. Both experimentally and theoretically we study the perturbation of microtubule…
For the 3d cubic nonlinear Schr\"odinger (NLS) equation, which has critical (scaling) norms $L^3$ and $\dot H^{1/2}$, we first prove a result establishing sufficient conditions for global existence and sufficient conditions for finite-time…
We consider the existence of a dynamically stable soliton in the one-dimensional cubic-quintic nonlinear Schr\"odinger model with strong cubic nonlinearity management for periodic and random modulations. We show that the predictions of the…
Three-dimensional (3D) high-speed compressible flow is a typical nonlinear, nonequilibrium, and multiscale complex flow. Traditional fluid mechanics models, based on the quasi-continuum assumption and near-equilibrium approximation, are…
Collective behaviour in suspensions of microswimmers is often dominated by the impact of long-ranged hydrodynamic interactions. These phenomena include active turbulence, where suspensions of pusher bacteria at sufficient densities exhibit…