Related papers: Modeling the interaction of DNA with alternating f…
Interfaces between hot and cold magnetized plasmas exist in various astrophysical contexts, for example where hot outflows impinge on an ambient interstellar medium (ISM). It is of interest to understand how the structure of the magnetic…
The two-color laser field scheme for broad-band terahertz (THz) radiation from air has been intensively and broadly investigated due to the simplicity in technology and relative high yield efficiency. Experiments showed that the detected…
When DNA molecules are heated they denature. This occurs locally so that loops of molten single DNA strands form, connected by intact double-stranded DNA pieces. The properties of this "melting" transition have been intensively…
We study under which conditions an overdamped regime can be attained in the dynamic evolution of a quantum field configuration. Using a real-time formulation of finite temperature field theory, we compute the effective evolution equation of…
Thermal oscillations of base pairs in the Peyrard-Bishop-Holstein model are simulated by stochastic fluctuations of base overlap integrals. Numerical investigation of the model is carried out for a hole transfer in $G_1A_2G_3G_4$ sequence…
Friction in atomistic systems is usually described by the classical Prandtl-Tomlinson model suitable for capturing the dragging force of a nanoparticle in a periodic potential. Here we consider the quantum mechanical version of this model…
The driving of vibrational motion by external electric fields is a topic of continued interest, due to the possibility of assessing new or metastable material phases with desirable properties. Here, we combine ab initio molecular dynamics…
We consider two models of interacting DNA molecules: \textit{First} is (four parametric) bubble coalescence model in interacting DNAs (shortly: BCI-DNA). \textit{Second} is (three parametric) bubble coalescence model in a condensed DNA…
We construct a phase field model including hydrodynamics and elasticity in one-component systems. It can be used to investigate solid-liquid and liquid-liquid phase transitions. Upon first-order phase transition, a velocity field is induced…
We study consistently the effects of magnetic field on hot and dense matter. In particular, we look for differences that arise due to assumptions that reproduce the conditions produced in particle collisions or astrophysical scenarios, such…
We investigate melting transition of DNA sequences embedded in a Langevin fluctuation-dissipation thermal bath. Torsional effects are considered by a twist angle $\varphi$ between neighboring base pairs stacked along the molecule backbone.…
The Poland-Scheraga (PS) model for the helix-coil transition of DNA considers the statistical mechanics of the thermally induced binding of two complementary strands of DNA. In this paper, we show how to modify the PS model when a torque is…
The dynamical properties of double-stranded DNA are studied in the framework of the Peyrard-Bishop-Dauxois model using Langevin dynamics. Our simulations are analyzed in terms of two probability functions describing coherently localized…
We consider the scalar sector of the most general renormalizable two-Higgs-doublet model at non-zero temperature. We calculate the largest finite temperature corrections to the free-energy density and study thermal evolution of the ground…
Dynamics of topological solitons describing open states in the DNA double helix are studied in the frameworks of the model which takes into account asymmetry of the helix. It is shown that three types of topological solitons can occur in…
An $XY$ model, generalized by inclusion of up to an infinite number of higher-order pairwise interactions with an exponentially decreasing strength, is studied by spin-wave theory and Monte Carlo simulations. At low temperatures the model…
We update a previous study of the effects of vector interactions in the Nambu--Jona-Lasinio model on the formation of inhomogeneous chiral symmetry breaking condensates. In particular, by properly considering a spatially modulated vector…
A diffuse-interface model for microstructure with an arbitrary number of components and phases was developed from basic thermodynamic and kinetic principles and formalized within a variational framework. The model includes a composition…
The temperature dependence of the nuclear free induction decay in the presence of a magnetic-field gradient was found to exhibit motional narrowing in gases upon heating, a behavior that is opposite to that observed in liquids. This has led…
We consider the problem of heterogeneous nucleation and growth. The system is described by a phase field model in which the temperature is included through thermal noise. We show that this phase field approach is suitable to describe…