相关论文: Self-avoiding worm-like chain model for dsDNA loop…
The looping of polymers such as DNA is a fundamental process in the molecular biology of living cells, whose interior is characterised by a high degree of molecular crowding. We here investigate in detail the looping dynamics of flexible…
We derive the improved estimators for general interactions and employ these for the continuous-time quantum Monte Carlo method. Using a worm algorithm we show how measuring higher-ordered correlators leads to an improved high-frequency…
We investigate the eigenvalue distribution of the snapshot density matrix (SDM) generated by Monte Carlo simulation for two-dimensional classical spin systems. We find that the distribution in the high-temperature limit is well explained by…
Monte Carlo (MC) algorithms are commonly employed to explore high-dimensional parameter spaces constrained by data. All the statistical information obtained in the output of these analyses is contained in the Markov chains, which one needs…
Recent advances in the understanding of the melting behavior of double-stranded DNA with statistical mechanics methods lead to improved estimates of the weight factors for the dissociation events of the chains, in particular for interior…
We study coarsening phenomena in three different simple exclusion processes with quenched disordered jump rates. In the case of the totally asymmetric process, an earlier phenomenological description is improved, yielding for the time…
We study theoretically the entropic elasticity of a semi-flexible polymer, such as DNA, confined to two dimensions. Using the worm-like-chain model we obtain an exact analytical expression for the partition function of the polymer pulled at…
Using Monte Carlo simulations, we study the hysteresis in unzipping of a double stranded DNA whose ends are subjected to a time dependent periodic force with frequency ($\omega$) and amplitude ($G$). For the static force, i.e., $\omega \to…
It is well-established that many physical properties of DNA at sufficiently long length scales can be understood by means of simple polymer models. One of the most widely used elasticity models for DNA is the twistable worm-like chain…
The one-dimensional (1D) $t$-$J$ model is investigated by using a Gutzwiller-Jastrow-type variation method and the exact diagonalization of small systems. Variational expectation values are estimated by the variational Monte Carlo method…
In this paper, a simply rule that generates scale-free networks with very large clustering coefficient and very small average distance is presented. These networks are called {\bf Multistage Random Growing Networks}(MRGN) as the adding…
We discuss non-reversible Markov-chain Monte Carlo algorithms that, for particle systems, rigorously sample the positional Boltzmann distribution and that have faster than physical dynamics. These algorithms all feature a non-thermal…
We present a study of spin-unpolarized and spin-polarized two-dimensional uniform electron liquids using variational and diffusion quantum Monte Carlo (VMC and DMC) methods with Slater-Jastrow-backflow trial wave functions. Ground-state VMC…
We present an algorithm for generating random networks with arbitrary degree distribution and Clustering (frequency of triadic closure). We use this algorithm to generate networks with exponential, power law, and poisson degree…
The scaling properties of selfavoiding polymerized membranes are studied using renormalization group methods. The scaling exponent \nu is calculated for the first time at two loop order. \nu is found to agree with the Gaussian variational…
We present results of a study of the antiferromagnetic spin-1 chain, subject to the simultaneous presence of single-ion anisotropy and external magnetic fields. Using quantum Monte-Carlo based on the stochastic series expansion method we…
We apply a worm algorithm to simulate the quantum transverse-field Ising model in a path-integral representation of which the expansion basis is taken as the spin component along the external-field direction. In such a representation, a…
We study the dynamic critical behavior of the worm algorithm for the two- and three-dimensional Ising models, by Monte Carlo simulation. The autocorrelation functions exhibit an unusual three-time-scale behavior. As a practical matter, the…
The two dimensional Spin-1 Blume-Capel ferromagnet is studied by Monte Carlo simulation with Metropolis algorithm. Starting from initial ordered spin configuration the reversal of magnetisation is investigated in presence of a magnetic…
We modify and extend the recently developed statistical mechanical model for predicting the thermodynamic properties of chain molecules having noncovalent double-stranded conformations, as in RNA or ssDNA, and $\beta-$sheets in protein, by…