Related papers: Cooperative melting in double-stranded peptide cha…
Cooperative effects in the fluorescence of two dipole-interacting atoms, with macroscopic quantum jumps (light and dark periods), are investigated. The transition rates between different intensity periods are calculated in closed form and…
We elucidate the interplay between diverse two-dimensional melting pathways and establish solid/hexatic and hexatic/liquid transition criteria via the numerical simulations of the melting transition of two- and three-component mixtures of…
The thermodynamic dislocation theory presented in preceding papers is used here to describe shear-banding instabilities. Central ingredients of the theory are a thermodynamically defined effective configurational temperature, and a formula…
We study the nature of melting of a two dimensional (2D) Lennard-Jones solid using large scale Monte Carlo simulation. We use systems of up to 102,400 particles to capture the decay of the correlation functions associated with translational…
Spherical confinement can act either stabilizing or destabilizing on the collapsed state of a semi-flexible polymer. General free-energy arguments suggest that the order of the unconstrained collapse transition is the distinguishing factor:…
Exploring the protein-folding problem has been a long-standing challenge in molecular biology. Protein folding is highly dependent on folding of secondary structures as the way to pave a native folding pathway. Here, we demonstrate that a…
While non-reciprocal couplings are ubiquitous in classical systems, their impact on quantum many-body criticality and entanglement remains largely unexplored. Using exact numerical simulations, we study an interacting fermionic chain…
We reformulate the theory of polycrystalline plasticity, in externally driven, nonequilibrium situations, by writing equations of motion for the flow of energy and entropy associated with dislocations. Within this general framework, and…
The dynamical characterization of proteins is crucial to understand protein function. From a microscopic point of view, protein dynamics is governed by the local atomic interactions that, in turn, trigger the functional conformational…
The asymmetric responses of the system between the external force of right and left directions are called "nonreciprocal". There are many examples of nonreciprocal responses such as the rectification by p-n junction. However, the quantum…
The thermodynamic behavior of collapse transition in a fully flexible coarse-grained model of energy polydisperse polymer (EPP), a statistical model of random heteropolymer, is investigated in an implicit solvent by means of molecular…
What are the molecular mechanisms that dictate protein-protein binding stability and whether those are related to the ones behind protein fold stability are still largely open questions. Indeed, despite many past efforts, we still lack…
We consider the entropy production of a strongly coupled bipartite system. The total entropy production can be partitioned into various components, which we use to define local versions of the Second Law that are valid without the usual…
Phase separation and transitions among different molecular states are ubiquitous in living cells. Such transitions can be governed by local equilibrium thermodynamics or by active processes controlled by biological fuel. It remains largely…
A coarse-grained molecular dynamics model of linear polyethylene-like polymer chain system was built to investigate the responds of structure and mechanical properties during uniaxial deformation. The influence of chain length, temperature,…
This work concerns with a class of chemotaxis models in which external sources, comprising nonlocal and gradient-dependent damping reactions, influence the motion of a cell density attracted by a chemical signal. The mechanism of the two…
By use of the conservation laws a four-site Hubbard model coupled to a particle bath within an external magnetic field in z-direction was diagonalized. The analytical dependence of both the eigenvalues and the eigenstates on the interaction…
We theoretically analyze the efficiency of a protocol for creating mesoscopic superpositions of ion chains, described in [Phys. Rev. A 84, 063821 (2011)], as a function of the temperature of the crystal. The protocol makes use of…
We report the observation of the transition from an ordered solid-like phase to a disordered liquid-like phase of a lattice of spikes on a ferrofluid surface submitted to horizontal sinusoidal vibrations. The melting transition occurs for a…
Fracture processes in multi-phase solids are inherently complex due to multiple competing mechanisms. Here, we investigate the elastic and fracture behaviour of two-phase solids, comprising a fragile phase and a tough phase using a…