Related papers: DNA melting in poor solvent
We study 2D solids with weak substrate disorder, using Coulomb gas renormalisation. The melting transition is found to be replaced by a sharp crossover between a high $T$ liquid with thermally induced dislocations, and a low $T$ glassy…
We have studied, using molecular dynamics simulations, the pressure-induced melting in a monolayer of soft repulsive spherocylinders whose centers of mass are constrained to move on the surface of a sphere. We show that the orientational…
The hybridization and dehybridization of DNA subject to tension is relevant to fundamental genetic processes and to the design of DNA-based mechanobiology assays. While strong tension accelerates DNA melting and decelerates DNA annealing,…
We present the results of a computer simulation study of the melting scenario of two-dimensional soft-disk systems with potential $U(r)=\varepsilon(\sigma/r)^n$, $n=12$ and $n=1024$, both in the presence of random pinning and without it.…
The zero point kinetic energy of protons in water is large on the scale of chemical interaction energies(29 Kj/mol in bulk room temperature water). Its value depends upon the structure of the hydrogen bond network, and can change as the…
We consider a superconductor under external perturbation, which forces Cooper pairs to develop with a finite total momentum $q$. The condensation energy of such a state decreases with $q$ and vanishes at a critical $q_c$. We analyze how…
The competition between toroidal and rod-like conformations as possible ground states for DNA condensation is studied as a function of the stiffness, the length of the DNA and the form of the long-range interactions between neighboring…
According to the Kosterlitz-Thouless-Theory two-dimensional solid films melt by the unbinding of dislocation pairs. A model including quenched random impurities was already studied by Nelson [Phys. Rev. B 27 (1983) 2902], who predicted a…
We inspect signatures of dynamical quantum phase transitions driven by two types of quenches acting on a correlated quantum dot embedded between superconducting and metallic reservoirs. Under stationary conditions the proximity induced…
Studying the properties of the solvent around proteins, we propose a much more sophisticated model of solvation than temperature-independent pairwise interactions between monomers, as is used commonly in lattice representations. We applied…
In this paper, we show that the coarse grain model for DNA, which has been proposed recently by Knotts, Rathore, Schwartz and de Pablo (J. Chem. Phys. 126, 084901 (2007)), can be adapted to describe the thermal and mechanical denaturation…
The formation and melting of a mono-layered charged dust particle crystal in a DC glow discharge Argon plasma is studied. The nature of the melting/formation process is established as a first order phase transition from the nature of the…
A phenomenological model is proposed for melting of a vortex lattice, based on screening of the elastic shear modulus by mobile or partially pinned dislocations. A first-order softening line is found and ends at a critical point beyond…
We study secondary structures of random RNA molecules by means of a renormalized field theory based on an expansion in the sequence disorder. We show that there is a continuous phase transition from a molten phase at higher temperatures to…
DNA denaturation has long been a subject of intense study due to its relationship to DNA transcription and its fundamental importance as a nonlinear, structural transition. Many aspects of this phenomenon, however, remain poorly understood.…
The approach for the description of the DNA conformational transformations on the mesoscopic scales in the frame of the double helix is presented. Due to consideration of the joint motions of DNA structural elements along the conformational…
Melting in 2D is described by the celebrated Kosterlitz-Thouless-Halperin-Nelson-Young (KTHNY) theory. The unbinding of two different types of topological defects destroys translational and orientational order at different temperatures. The…
In this paper, we apply the method of breaking quantum double symmetries to some cases of defect mediated melting. The formalism allows for a systematic classification of possible defect condensates and the subsequent confinement and/or…
The presence of a thermodynamic phase of a three-stranded DNA, namely, a mixed phase of bubbles of two bound strands and a single one, is established for large dimensions ($d\geq 5$) by using exact real space renormalization group (RG)…
Using large scale quantum Monte Carlo simulations of lattice bosonic models, we precisely investigate the effect of weak Josephson tunneling between 2D superfluid or superconducting layers. In the clean case, the Kosterlitz-Thouless…