Related papers: Comment on ``Statistical Mechanics of a Nonlinear …
The impact of various types of external potentials to the Peyrard-Bishop DNA denaturation is investigated through statistical mechanics approach. The partition function is obtained using transfer integral method, and further the stretching…
We study theoretically the mechanical failure of a simple model of double stranded DNA under an applied shear. Starting from a more microscopic Hamiltonian that describes a sheared DNA, we arrive at a nonlinear generalization of a ladder…
The influence of decoherence and bonding on the linear conductance of single double-stranded DNA molecules is examined by fitting a phenomenological statistical model developed recently (EPJB {\bf 68}, 237 (2009)) to experimental results.…
It is a standard exercise in mechanical engineering to infer the external forces and torques on a body from its static shape and known elastic properties. Here we apply this kind of analysis to distorted double-helical DNA in complexes with…
We correct some tables and figures in [A.P. Bustamante and R.C. Calleja, Physica D: Nonlinear Phenomena, 395 (2019), pp. 15-23, arXiv:1712.05476]. We also report on the new computations that verify the accuracy of the data and extend the…
The population of dislocation defects in a crystalline material strongly influences its properties, so the ability to analyse this population in experimental samples is of great utility. As a complement to direct counting in the…
The melting transition of deoxyribonucleic acid (DNA), whereby the strands of the double helix structure completely separate at a certain temperature, has been characterized using neutron scattering. A Bragg peak from B-form fibre DNA has…
Some aspects of a recent paper about protein-membrane interaction are inadequate due to lack of structural information.
We study the static and dynamical properties of DNA in the vicinity of its melting transition, i.e. the separation of the two strands upon heating. The investigation is based on a simple mechanical model which includes the helicoidal…
In a recent letter, Christian Beck described a theoretical link between a family of stochastic differential equations and the probability density functions (PDF) derived from the formalism of nonextensive statistical mechanics. He applied…
In this paper we study the cycle descent statistic on permutations. Several involutions on permutations and derangements are constructed. Moreover, we construct a bijection between negative cycle descent permutations and Callan perfect…
This note analyzes the physical basis of J.R. England's paper "Statistical physics of self-replication." [J. Chem. Phys. {\bf 139}, 121923(2013)]. We follow England's use of time-reversal symmetry but replace stochastic by deterministic…
We present a nonlinear dynamical model for DNA thermal denaturation, which is based on the finite stacking enthalpies used in thermodynamical nearest-neighbour calculations. Within this model, the finiteness of stacking enthalpies is shown…
A simple Langevin approach is used to study stationary properties of the Peyrard-Bishop-Dauxois model for DNA, allowing known properties to be recovered in an easy way. Results are shown for the denaturation transition in homogeneous…
The mathematical models used to capture features of complex, biological systems are typically non-linear, meaning that there are no generally valid simple relationships between their outputs and the data that might be used to validate them.…
This comment is devoted to the paper "Exact solutions of nonlinear diffusion-convection-reaction equation: A Lie symmetry approach" (CNSNS, vol. 67 (2019), 253-263) in which several results are not new because were derived much earlier.…
We investigate potential quantum nonlinear corrections to Dirac's equation through its sub-leading effect on neutrino oscillation probabilities. Working in the plane-wave approximation and in the $\mu-\tau$ sector, we explore various…
We propose a dynamical model for the secondary structure of DNA, which is based on the finite stacking enthalpies used in thermodynamics calculations. In this model, the two strands can separate and the bases are allowed to rotate…
A nonlinear inequality is formulated in the paper. An estimate of the rate of growth/decay of solutions to this inequality is obtained. This inequality is of interest in a study of dynamical systems and nonlinear evolution equations. It can…
Image deblurring is an ill-posed problem with multiple plausible solutions for a given input image. However, most existing methods produce a deterministic estimate of the clean image and are trained to minimize pixel-level distortion. These…