Related papers: Helicity modulus in the bilayer XY model by worm a…
We study the XY model on a spherical surface inspired by recently realized spherically confined atomic gases. Instead of a traditional latitude-longitude lattice, we introduce a much more homogeneous spherical lattice, the Fibonacci…
We study response to a twist in the two-dimensional p-state clock model, which has the discrete Zp symmetry. The response is measured in terms of helicity modulus, which is usually defined with respect to an infinitesimal twist. However, we…
A coarse-grained molecular model, which consists of a spherical particle and an orientation vector, is proposed to simulate lipid membrane on a large length scale. The solvent is implicitly represented by an effective attractive interaction…
A worm algorithm is proposed for the two-dimensional spin glasses. The method is based on a low-temperature expansion of the partition function. The low-temperature configurations of the spin glass on square lattice can be viewed as strings…
A skyrmion in frustrated magnetic system has the helicity degree of freedom. A skyrmion string is formed in a frustrated layered system, which is well described by the $XY$ model owing to the exchange coupling between adjacent layers. We…
The dynamics of a folded protein is studied in water and glycerol at a series of temperatures below and above their respective dynamical transition. The system is modeled in two distinct states whereby the protein is decoupled from the bulk…
Matrix valued data has become increasingly prevalent in many applications. Most of the existing clustering methods for this type of data are tailored to the mean model and do not account for the dependence structure of the features, which…
Recent experiments show that periodic modulations of cold atoms in optical lattices may be used to engineer and explore interesting models. We show that double modulation, combining lattice shaking and modulated interactions allows for the…
Molecular dynamics simulations are used to study structure formation in simple model polymer chains that are subject to excluded volume and torsional interactions. The changing conformations exhibited by chains of different lengths under…
A Hamiltonian dynamics is defined for the XY model by adding a kinetic energy term. Thermodynamical properties (total energy, magnetization, vorticity) derived from microcanonical simulations of this model are found to be in agreement with…
We study the effects of discretization on the U(1) symmetric XY model in two dimensions using the Higher Order Tensor Renormalization Group (HOTRG) approach. Regarding the $Z_N$ symmetric clock models as specific discretizations of the XY…
The helicity of a vector field is a measure of the average linking of pairs of integral curves of the field. Computed by a six-dimensional integral, it is widely useful in the physics of fluids. For a divergence-free field tangent to the…
We study a minimal extension of the worm-like chain to describe polypeptides having alpha-helical secondary structure. In this model presence/absence of secondary structure enters as a scalar variable that controls the local chain bending…
The elastic properties of two-component bilayer membranes are studied using a coarse grain model for amphiphilic molecules. The two species of amphiphiles considered here differ only in their length. Molecular Dynamics simulations are…
In this work we propose and analyze a novel Hybrid High-Order discretization of a class of (linear and) nonlinear elasticity models in the small deformation regime which are of common use in solid mechanics. The proposed method is valid in…
We analyse the equilibrium behaviour and non-equilibrium dynamics of sparse Boolean networks with self-interactions that evolve according to synchronous Glauber dynamics. Equilibrium analysis is achieved via a novel application of the…
In bilayers of semiconducting transition metal dichalcogenides, the twist angle between layers can be used to introduce a highly regular periodic potential modulation on a length scale that is large compared to the unit cell. In such…
We present a model for the efficient simulation of generic bilayer membranes. Individual lipids are represented by one head- and two tail-beads. By means of simple pair potentials these robustly self-assemble to a fluid bilayer state over a…
A reduced model, which can fold both helix and sheet structures, is proposed to study the problem of protein folding. The goal of this model is to find an unbiased effective potential that has included the effects of water and at the same…
We investigate a Hamiltonian model of networks. The model is a mirror formulation of the XY model (hence the name) -- instead letting the XY spins vary, keeping the coupling topology static, we keep the spins conserved and sample different…