Some aspects of nonlinearity and self-organization in biosystems on examples of localized excitations in the DNA molecule and generalized Fisher-KPP model

This review deals with ideas and approaches to nonlinear phenomena, based on different branches of physics and related to biological systems, that focus on how small impacts can significantly change the state of the system at large spatial scales. This problem is very extensive, and it cannot be fully resolved in this paper. Instead, some selected physical effects are briefly reviewed. We consider sine-Gordon solitons and nonlinear Schrodinger solitons in some models of DNA as examples of self-organization at the molecular level, as well as examine features of their formation and dynamics under the influence of external influences. In addition, the formation of patterns in the generalized Fisher–KPP model is viewed as a simple example of self-organization in a system with nonlocal interaction at the cellular level. Symmetries of model equations are employed to analyze the considered nonlinear phenomena. In this context the possible relations between phenomena considered and released activity effect, which is assessed differently in the literature, are discussed

Symmetry Operators for the Fokker-Plank-Kolmogorov Equation with Nonlocal Quadratic Nonlinearity

The Cauchy problem for the Fokker-Plank-Kolmogorov equation with a nonlocal nonlinear drift term is reduced to a similar problem for the correspondent linear equation. The relation between symmetry operators of the linear and nonlinear Fokker-Plank-Kolmogorov equations is considered. Illustrative examples of the one-dimensional symmetry operators are presented.Comment: This is a contribution to the Vadim Kuznetsov Memorial Issue on Integrable Systems and Related Topics, published in SIGMA (Symmetry, Integrability and Geometry: Methods and Applications) at http://www.emis.de/journals/SIGMA

Local conformational perturbations of the DNA molecule in the SG-model

Within the formalism of the Fokker–Planck equation, the influence of nonstationary external force, random force, and dissipation effects on dynamics local conformational perturbations (kink) propagating along the DNA molecule is investigated. Such waves have an important role in the regulation of important biological processes in living systems at the molecular level. As a dynamic model of DNA was used a modified sine-Gordon equation, simulating the rotational oscillations of bases in one of the chains DNA. The equation of evolution of the kink momentum is obtained in the form of the stochastic differential equation in the Stratonovich sense within the framework of the well-known McLaughlin and Scott energy approach. The corresponding Fokker–Planck equation for the momentum distribution function coincides with the equation describing the Ornstein–Uhlenbek process with a regular nonstationary external force. The influence of the nonlinear stochastic effects on the kink dynamics is considered with the help of the Fokker– Planck nonlinear equation with the shift coefficient dependent on the first moment of the kink momentum distribution function. Expressions are derived for average value and variance of the momentum. Examples are considered which demonstrate the influence of the external regular and random forces on the evolution of the average value and variance of the kink momentum. Within the formalism of the Fokker–Planck equation, the influence of nonstationary external force, random force, and dissipation effects on the kink dynamics is investigated in the sine–Gordon model. The equation of evolution of the kink momentum is obtained in the form of the stochastic differential equation in the Stratonovich sense within the framework of the well-known McLaughlin and Scott energy approach. The corresponding Fokker–Planck equation for the momentum distribution function coincides with the equation describing the Ornstein–Uhlenbek process with a regular nonstationary external force. The influence of the nonlinear stochastic effects on the kink dynamics is considered with the help of the Fokker–Planck nonlinear equation with the shift coefficient dependent on the first moment of the kink momentum distribution function. Expressions are derived for average value and variance of the momentum. Examples are considered which demonstrate the influence of the external regular and random forces on the evolution of the average value and variance of the kink momentum

Semiclassical approach to the nonlocal kinetic model of metal vapor active media

A semiclassical approach based on the WKB–Maslov method is developed for the kinetic ionization equation in dense plasma with approximations characteristic of metal vapor active media excited by a contracted discharge. We develop the technique for constructing the leading term of the semiclassical asymptotics of the Cauchy problem solution for the kinetic equation under the supposition of weak diffusion. In terms of the approach developed, the local cubic nonlinear term in the original kinetic equation is considered in a nonlocal form. This allows one to transform the nonlinear nonlocal kinetic equation to an associated linear partial differential equation with a given accuracy of the asymptotic parameter using the dynamical system of moments of the desired solution of the equation. The Cauchy problem solution for the nonlinear nonlocal kinetic equation can be obtained from the solution of the associated linear partial differential equation and some algebraic equations for the coefficients of the linear equation. Within the developed approach, the plasma relaxation in metal vapor active media is studied with asymptotic solutions expressed in terms of higher transcendental functions. The qualitative analysis of such the solutions is given

Quantum integrable systems in three-dimensional magnetic fields: the Cartesian case

In this paper we construct integrable three-dimensional quantum-mechanical systems with magnetic fields, admitting pairs of commuting second-order integrals of motion. The case of Cartesian coordinates is considered. Most of the systems obtained are new and not related to the separation of variables in the corresponding Schr\"odinger equation.Comment: 8 page

Noncommutative reduction of nonlinear Schrödinger equation on Lie groups

We propose a new approach that allows one to reduce nonlinear equations on Lie groups to equations with a fewer number of independent variables for finding particular solutions of the nonlinear equations. The main idea is to apply the method of noncommutative integration to the linear part of a nonlinear equation, which allows one to find bases in the space of solutions of linear partial differential equations with a set of noncommuting symmetry operators. The approach is implemented for the generalized nonlinear Schrödinger equation on a Lie group in curved space with local cubic nonlinearity. General formalism is illustrated by the example of the noncommutative reduction of the nonstationary nonlinear Schrödinger equation on the motion group E(2) of the two-dimensional plane R2. In this particular case, we come to the usual (1+1)-dimensional nonlinear Schrödinger equation with the soliton solution. Another example provides the noncommutative reduction of the stationary multidimensional nonlinear Schrödinger equation on the four-dimensional exponential solvable group

Determination of component concentrations in models of exhaled air samples using principal component analysis and canonical correlation analysis

We consider the problem of finding concentrations of molecular gases in the models of exhaled air samples in terms of their absorption spectra. We introduce model spectra describing the exhaled air samples as linear combinations of the absorption spectra of individual molecular gases with given coefficients. The absorption spectra are calculated on the basis of the database HITRAN. The concentrations are determined using Principal Component Analysis and Canonical Correlation Analysis

Kalman filtering in the problem of noise reduction in the absorption spectra of exhaled air

We examined possibilities of the Kalman filter for reducing the noise effects in the analysis of absorption spectra of gas samples, in particular, for samples of the exhaled air. It has been shown that when comparing groups of patients with broncho-pulmonary diseases on the basis of the absorption spectra analysis of exhaled air samples the data preprocessing with the Kalman filtering can improve the classification sensitivity using a support vector kernel with mpl