Related papers: Bethe approximation for a DNA-like self-avoiding w…
The discerning behavior of living systems relies on accurate interactions selected from the lot of molecular collisions occurring in the cell. To ensure the reliability of interactions, binding partners are classically envisioned as finely…
We study the properties of moving breathers in a bent DNA-related model with short range interaction, due to the stacking of the base pairs, and long range interaction, due to the finite dipole moment of the bonds within each base pair. We…
We work towards the classification of all one-dimensional exclusion processes with two species of particles that can be solved by a nested coordinate Bethe Ansatz. Using the Yang-Baxter equations, we obtain conditions on the model…
A random walk is performed on a disordered landscape composed of $N$ sites randomly and uniformly distributed inside a $d$-dimensional hypercube. The walker hops from one site to another with probability proportional to $\exp [- \beta…
A new family of exactly solvable models is introduced. These models are generalizations of the XXZ chain where the distance among spins up ($\sigma^z$-basis) cannot be smaller or equal to t (t=0,1,2,...). The case t=0 recovers the standard…
The field of complex self-assembly is moving toward the design of multi-particle structures consisting of thousands of distinct building blocks. To exploit the potential benefits of structures with such `addressable complexity,' we need to…
We investigate the quantum Zeno and anti-Zeno effects in quantum dissipative systems by employing a hierarchical equations of motion approach which is beyond the usual Markovian approximation, the rotating wave approximation, and the…
The statistical physics of homogeneous DNA is investigated by the imaginary time path integral formalism. The base pair stretchings are described by an ensemble of paths selected through a macroscopic constraint, the fulfillement of the…
Considerable insight into the functional activity of proteins and enzymes can be obtained by studying the low-energy conformational distortions that the biopolymer can sustain. We carry out the characterization of these large scale…
We consider a discrete-time random walk on a one-dimensional lattice with space and time-dependent random jump probabilities, known as the Beta random walk. We are interested in the probability that, for a given realization of the jump…
Many thermodynamic instabilities in one dimension (e.g. DNA thermal denaturation, wetting of interfaces) can be described in terms of simple models involving harmonic coupling between nearest neighbors and an asymmetric on-site potential…
The term Bethe Ansatz stands for a multitude of methods in the theory of integrable models in statistical mechanics and quantum field theory that were designed to study the spectra, the thermodynamic properties and the correlation functions…
Literature data on the properties of DNA open states are reviewed and analyzed. These states are formed as a result of strong DNA fluctuations and have a great impact on a number of biochemical processes; among them is charge transfer in…
A simple Langevin approach is used to study stationary properties of the Peyrard-Bishop-Dauxois model for DNA, allowing known properties to be recovered in an easy way. Results are shown for the denaturation transition in homogeneous…
Collective coordinate and direct numerical integration methods are applied to the analysis of a one-dimensional DNA model. A modification of the coupling constant in an extended region is found to be less selective towards the breather it…
A family of multispecies drop-push system on a one-dimensional lattice is investigated. It is shown that this family is solvable in the sense of the Bethe ansatz, provided a nonspectral matrix equation is satisfied. The large-time behavior…
We perform a spatially resolved simulation study of an AND gate based on DNA strand displacement using several lengths of the toehold and the adjacent domains. DNA strands are modelled using a coarse-grained dynamic bonding model {[}C.…
Lattice animals provide a discretized model for the theta transition displayed by branched polymers in solvent. Exact graph enumeration studies have given some indications that the phase diagram of such lattice animals may contain two…
The approach of nonequilibrium evolution thermodynamics earlier offered is developed. It helps to describe the processes of defect formation within the adiabatic approximation. The basic equations system depends on the initial defects…
We calculate the thermophoretic drift of a charged single colloidal particle with hydrodynamically slipping surface immersed in an electrolyte solution in response to a small temperature gradient. Here, we rely on a linearized hydrodynamic…