Related papers: Bethe approximation for a DNA-like self-avoiding w…
The thermodynamic properties of DNA circular molecules are investigated by a new path integral computational method which treats in the real space the fundamental forces stabilizing the molecule. The base pair and stacking contributions to…
A multiscale approach is used to simulate the translocation of DNA through a nanopore. Within this scheme, the interactions of the molecule with the surrounding fluid (solvent) are explicitly taken into account. By generating polymers of…
A mesoscopic model for heterogeneous DNA denaturation is developed in the framework of the path integral formalism. The base pair stretchings are treated as one-dimensional, time dependent paths contributing to the partition function. The…
The recently introduced method of excess collisions (MEC) is modified to estimate diffusion-controlled reaction times inside systems of arbitrary size. The resulting MEC-E equations contain a set of empirical parameters, which have to be…
We point out a new mechanism which can lead to mean field type behaviour in nonequilibrium critical phenomena. We demonstrate this mechanism on a two-dimensional model which can be understood as a stochastic and non-conservative version of…
We define a DNA as a sequence of $1, 2$'s and embed it on a path of Cayley tree in such a way that each vertex of the Cayley tree belongs only to one of DNA and each DNA has its own countably many set of neighboring DNAs. The Hamiltonian of…
We describe an integrable model, related to the Gaudin magnet, and its relation to the matrix model of Brezin, Itzykson, Parisi and Zuber. Relation is based on Bethe ansatz for the integrable model and its interpretation using orthogonal…
A new generalization of the t-J model with a nearest-neigbour hopping is formulated and solved exactly by the Bethe-ansatz method in the thermodymanic limit. The model describes the dymanics of fermions with different spins and with…
Boundary conditions may change the phase diagram of non-equilibrium statistical systems like the one-dimensional asymmetric simple exclusion process with and without particle number conservation. Using the quantum Hamiltonian approach, the…
We theoretically study the molecular-weight dependence of DNA thermophoresis, which arises from mutual advection of the n repeat units of the molecular chain. As a main result we find that the dominant driving forces, i.e., the thermally…
Density matrix embedding theory (DMET) provides a framework to describe ground-state expectation values in strongly correlated systems, but its extension to dynamical quantities is still an open problem. We show one route to obtaining…
We explain a unified approach to a study of ballistic phase for a large family of self-interacting random walks with a drift and self-interacting polymers with an external stretching force. The approach is based on a recent version of the…
Solid-state nanopore DNA sequencers present mechanical and chemical stability, reusability, and large-scale integrability. However, their development is hindered by the absence of a protein-free mechanism for controlling DNA translocation,…
We determine the phase diagram of DNA with inter- and intra-strand native-pair interactions that mimic the compaction of DNA. We show that DNA takes an overall sheet-like structure in the region where an incipient transition to a compact…
Hydrophobic interactions are central to biological self-assembly and soft matter organization, yet their microscopic origins remain debated. A key hallmark is the strengthening of attraction between hydrophobic solutes with increasing…
We theoretically investigate the many-body dynamics of a tight-binding chain with dephasing noise on the infinite interval. We obtain the exact solution of an average particle-density profile for the domain wall and the alternating initial…
DNA is now firmly established as a versatile and robust platform for achieving synthetic nanostructures. While the folding of single molecules into complex structures is routinely achieved through engineering basepair sequences, much less…
In this note we report the results of our study of a 1D integrable spin chain whose critical behaviour is governed by a CFT possessing a continuous spectrum of scaling dimensions. It is argued that the computation of the density of Bethe…
We find that the density operator of non-equilibrium steady state (NESS) of XXZ spin chain with strong ``sink and source" boundary dissipation, can be described in terms of quasiparticles, with renormalized -- dissipatively dressed --…
A new step-by-step diagonalization procedure for evaluating exact solutions of the nuclear deformed mean-field plus pairing interaction model is proposed via a simple Bethe ansatz in each step from which the eigenvalues and corresponding…