Related papers: Abstract DNA-type systems
A new class of 1D discrete nonlinear Schr${\ddot{\rm{o}}}$dinger Hamiltonians with tunable nonlinerities is introduced, which includes the integrable Ablowitz-Ladik system as a limit. A new subset of equations, which are derived from these…
In this paper we review two concepts directly related to the Lax representations: Darboux transformations and Recursion operators for integrable systems. We then present an extensive list of integrable differential-difference equations…
We review some of the fundamental notions associated to the theory of solitons. More precisely, we focus on the issue of conservation laws via the existence of the Lax pair and also on methods that provide solutions to partial or ordinary…
An integrable semi-discretization of complex and multi-component coupled dispersionless systems via Lax pairs is presented. A Lax pair is proposed for the complex sdCD system. We derive the Lax pair for the multi-component sdCD system…
We consider 1+1 - dimensional non-homogeneous systems of hydrodynamic type that possess Lax representations with movable singularities. We present a construction, which provides a wide class of examples of such systems with arbitrary number…
Domain wall solitons are basic constructs realizing phase transitions in various field-theoretical models and are solutions to some nonlinear ordinary differential equations descending from the corresponding full sets of governing equations…
We provide a familiy of transparent tight-binding models with non-trivial potentials and site-dependent hopping parameters. Their feasibility is discussed in electromagnetic resonators, dielectric slabs and quantum-mechanical traps. In the…
In the study of evolution equations, the method of adiabatic approximation is an essential tool to reduce an infinite-dimensional dynamical system to a simpler, possibly finite-dimensional one. In this paper, we formulate a generic scheme…
A new form of a binary Darboux transformation is used to generate analytical solutions of a nonlinear Liouville-von Neumann equation. General theory is illustrated by explicit examples.
We present four classes of nonlinear systems which may be considered discrete analogues of the Garnier system. These systems arise as discrete isomonodromic deformations of systems of linear difference equations in which the associated Lax…
Novel mathematical models of three different repressilator topologies are introduced. As designable transcription factors have been shown to bind to DNA non-cooperatively, we have chosen models containing non-cooperative elements. The…
A generalized two-component model with peakon solutions is proposed in this paper. It allows an arbitrary function to be involved in as well as including some existing integrable peakon equations as special reductions. The generalized…
Nonlinear molecular excitations in DNA have traditionally been modelled using the nonlinear Schr\"odinger equation (NLSE). An alternative approach is based on the plane-base rotator model and the SU(2)/U(1) generalized spin coherent states,…
The high linear charge density of 20-base-pair oligomers of DNA is shown to lead to a striking non-monotonic dependence of the long-time self-diffusion on the concentration of the DNA in low-salt conditions. This generic non-monotonic…
We obtain multi-soliton solutions of the time-dependent Bogoliubov-de Gennes equations or, equivalently, Gorkov equations that describe the dynamics of a fermionic condensate in the dissipationless regime. There are two kinds of solitons -…
The study of biological cells in terms of mesoscopic, nonequilibrium, nonlinear, stochastic dynamics of open chemical systems provides a paradigm for other complex, self-organizing systems with ultra-fast stochastic fluctuations, short-time…
The interplay between bending of the molecule axis and appearance of disruptions in circular DNA molecules, with $\sim 100$ base pairs, is addressed. Three minicircles with different radii and almost equal content of AT and GC pairs are…
Learning interpretable representations of neural dynamics at a population level is a crucial first step to understanding how observed neural activity relates to perception and behavior. Models of neural dynamics often focus on either…
Roughly speaking a solitary wave is a solution of a field equation whose energy travels as a localized packet and which preserves this localization in time. A soliton is a solitary wave which exhibits some strong form of stability so that…
We conclude that nucleon is a many body complex system whose low-energy behaviour is determined mainly by strong interaction. Non-perturbative approach to QCD, such as QCD sum rule and the QCD based effective theory, and the models such as…