491 citations · 4.4k across the 45 of their papers we have counts for
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Density Dependent Cohesion Leads to Controlled Phase Separation in Brownian Suspensions
Gavin Melaugh, Davide Marenduzzo, Alexander Morozov +1
Mechanical interactions between biological cells may be mediated by secreted products, making them dependent on the local particle density. Here, we explore the generic physics of…
Osmosis with active solutes
Thomas W. Lion, Rosalind J. Allen
Despite much current interest in active matter, little is known about osmosis in active systems. Using molecular dynamics simulations, we investigate how active solutes perturb osm…
Inherent variability in the kinetics of autocatalytic protein self-assembly
Juraj Szavits-Nossan, Kym Eden, Ryan J. Morris +3
In small volumes, the kinetics of filamentous protein self-assembly is expected to show significant variability, arising from intrinsic molecular noise. This is not accounted for i…
Scalar field theory for active-particle phase separation
Raphael Wittkowski, Adriano Tiribocchi, Joakim Stenhammar +3
Recent theories predict phase separation among orientationally disordered active particles whose propulsion speed decreases rapidly enough with density. Coarse-grained models of th…
Phase behaviour of active Brownian particles: The role of dimensionality
Joakim Stenhammar, Davide Marenduzzo, Rosalind J. Allen +1
Recently, there has been much interest in activity-induced phase separations in concentrated suspensions of "active Brownian particles" (ABPs), self-propelled spherical particles w…
A continuum theory of phase separation kinetics for active Brownian particles
Joakim Stenhammar, Adriano Tiribocchi, Rosalind J. Allen +2
Active Brownian particles (ABPs), when subject to purely repulsive interactions, are known to undergo activity-induced phase separation broadly resembling an equilibrium (attractio…
Osmosis in a minimal model system
Thomas W. Lion, Rosalind J. Allen
Osmosis plays a central role in the function of living and soft matter systems. While the thermodynamics of osmosis is well understood, the underlying microscopic dynamical mechani…
Computing the local pressure in molecular dynamics simulations
Thomas Lion, Rosalind J. Allen
Computer simulations of inhomogeneous soft matter systems often require accurate methods for computing the local pressure. We present a simple derivation, based on the virial relat…
Nucleation in a sheared Ising model: effects of external field
Rosalind J. Allen, Chantal Valeriani, Sorin Tanase-Nicola
Simulations using the Forward Flux Sampling method have shown a nonmonotonic de- pendence of the homogeneous nucleation rate on the shear rate for a sheared two dimensional Ising m…
Non-equilibrium dynamics of an active colloidal "chucker"
C. Valeriani, R. J. Allen, D. Marenduzzo
We report Monte Carlo simulations of the dynamics of a "chucker": a colloidal particle which emits smaller solute particles from its surface, isotropically and at a constant rate k…
Computing stationary distributions in equilibrium and non-equilibrium systems with Forward Flux Sampling
Chantal Valeriani, Rosalind J. Allen, Marco J. Morelli +2
We present a method for computing stationary distributions for activated processes in equilibrium and non-equilibrium systems using Forward Flux Sampling (FFS). In this method, the…
Statistical physics of a model binary genetic switch with linear feedback
Paolo Visco, Rosalind J. Allen, Martin R. Evans
We study the statistical properties of a simple genetic regulatory network that provides heterogeneity within a population of cells. This network consists of a binary genetic switc…
Homogeneous nucleation under shear in a two-dimensional Ising model: cluster growth, coalescence and breakup
Rosalind J. Allen, Chantal Valeriani, Sorin Tanase-Nicola +2
We compute rates and pathways for nucleation in a sheared two dimensional Ising model with Metropolis spin flip dynamics, using Forward Flux Sampling (FFS). We find a peak in the n…
Simulating rare events in equilibrium or non-equilibrium stochastic systems
Rosalind J. Allen, Daan Frenkel, Pieter Rein ten Wolde
We present three algorithms for calculating rate constants and sampling transition paths for rare events in simulations with stochastic dynamics. The methods do not require a prior…
Kinetic models of ion transport through a nanopore
Jaroslaw Piasecki, Rosalind J. Allen, Jean-Pierre Hansen
Kinetic equations for the stationary state distribution function of ions moving through narrow pores are solved for a number of one-dimensional models of single ion transport. Ions…
Intermittent permeation of cylindrical nanopores by water
Rosalind Allen, Simone Melchionna, Jean-Pierre Hansen
Molecular Dynamics simulations of water molecules in nanometre sized cylindrical channels connecting two reservoirs show that the permeation of water is very sensitive to the chann…