Related papers: An intermediate phase in DNA melting
Positions of protons in DNA hydrogen bonds are fundamental for the fidelity of the replication process. Because the hydrogen bond is partially covalent the electronic structure of DNA plays an important role in the replication process.…
Bose-Einstein condensation and the $\lambda$-transition are described in molecular detail for bosons interacting with a pair potential. New phenomena are identified that are absent in the usual ideal gas treatment. Monte Carlo simulations…
We separate double stranded lambda phage DNA by applying a fixed force at a constant temperature ranging from 15C to 50C, and measure the minimum force required to separate the two strands, providing the first experimental determination of…
The dynamics of polymer translocation through a pore has been the subject of recent theoretical and experimental works. We have considered theoretical estimates and performed computer simulations to understand the mechanism of DNA uptake…
Mixing in the convective core is quite uncertain in core helium burning stars. In order to explore the overshooting mixing beyond the convective core, we incorporated the $k$-$\omega$ proposed by Li (2012, 2017) into MESA, and investigated…
In this study, we reveal nontrivial quantum physics in an infinite-temperature system. By performing an unbiased quantum Monte Carlo simulation, we study a hybrid model composed of hard-core bosons, whose hopping amplitude is mediated by…
Transition boiling is an intermediate regime occurring between nucleate boiling, where bubbles at the surface efficiently carry heat away, and film boiling, where a layer of vapor formed over the surface insulates the system reducing heat…
A general model for the early recognition and colocalization of homologous DNA sequences is proposed. We show, on a thermodynamic ground, how the distance between two homologous DNA sequences is spontaneously regulated by the concentration…
In the absence of losses the phase of a Bose-Einstein condensate undergoes collapses and revivals in time due to elastic atomic interactions. As experiments necessarily involve inelastic collisions, we develop a model to describe the phase…
The melting-like transition in disordered sodium clusters Na_N, with N=92 and 142 is studied by using a first-principles constant-energy molecular dynamics simulation method. Na_142, whose atoms are distributed in two (surface and inner)…
A new scenario for neutron-star cooling is proposed, based on the correspondence between pion condensation, occurring in neutron matter due to critical spin-isospin fluctuations, and the metal-insulator phase transition in a two-dimensional…
The phase diagram of the prototypical two-dimensional Lennard-Jones system, while extensively investigated, is still debated. In particular, there are controversial results in the literature as concern the existence of the hexatic phase and…
Fluctuations of energy and heat are investigated during the relaxation following the instantaneous temperature quench of an extended system. Results are obtained analytically for the Gaussian model and for the large $N$ model quenched below…
We investigate the two-dimensional melting of deformable polymeric particles with multi-body interactions described by the Voronoi model. We report machine learning evidence for the existence of the intermediate hexatic phase in this…
The lack of molecular-level understanding for the electronic excitation response of DNA to charged particle radiation, such as high-energy protons, remains a fundamental scientific bottleneck in advancing proton and other ion beam cancer…
DNA inside the cellular environment works under a confined space. An intense research of the transcription and replication of DNA in the confined state is structurally significant to command the self assembly of DNA in a chamber or channel.…
Advances in scanning tunneling spectroscopy reveal the presence of superconducting nanoregions well past the bulk thermal transition in strongly disordered superconductors. We use a Monte Carlo tool to capture the spatially differentiated…
We present a computational method to evaluate the end-to-end and the contour length distribution functions of short DNA molecules described by a mesoscopic Hamiltonian. The method generates a large statistical ensemble of possible…
We develop a finite temperature mean field theory in the path integral picture for an extremely dilute system of interacting Fermions in a plane. In the limit of short ranged interactions, the system is shown to undergo a phase transition…
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)…