scientific article; zbMATH DE number 1258146
Forced motions for nonlinear problems in mechanics (70K40) Vibrations in dynamical problems in solid mechanics (74H45) Introductory exposition (textbooks, tutorial papers, etc.) pertaining to biology (92-01) Research exposition (monographs, survey articles) pertaining to biology (92-02) Biophysics (92C05) Biochemistry, molecular biology (92C40)
As indicated by its title, this book places emphasis upon the physical rather than the biological characteristics of DNA. However, to take into account the interests of a wide range of readers, the monograph begins with a brief excursion into molecular biology by including chapters on the main elements of DNA structure, dynamics, and functioning. Mechanical models of the DNA molecule of varying complexity are presented and are analyzed by classical methods. Experimental procedures used to examine the molecule are discussed. These include neutron, infrared, and Raman scattering , measurements of the speed of sound, microwave absorbtion, nuclear magnetic resonance, and hydrogen-tritium or hydrogen-deuterium exchange. Linear theories of DNA are treated as first approximations to a general theoretical description of the molecule, valid when its internal motions are small. Various nonlinear theories are considered to be second approximations that are required when the motions are larger. Nonlinear theories are categorized as ideal when the effects of the environment, structural inhomogeneity, and helicity are ignored, and nonideal otherwise. Separate chapters are devoted to ideal and nonideal models. Emphasis is placed upon soliton solutions of the equations of motion of these models. Ensembles of solitons produced by several nonlinear excitations are of special interest. Arguments are presented in favor of and against interpretation of experimental data in the framework of nonlinear concepts. Finally the functional properties of DNA are related to its nonlinear dynamics with the help of examples concerning (1) conformational transitions and waves, (2) regulation of transcription, (3) direction of the transcription process, and (4) DNA denaturation.
- Coupled oscillator models with no scale separation
- The possible role of solitonic processes during A to B conformational changes in DNA
- The physics of DNA: Onset of soliton-like excitations, chain relative disorder, and basis for a statistical mechanics of the macromolecule
- Nonlinear charge transport mechanism in periodic and disordered DNA
- Coupled sine-Gordon systems in DNA dynamics
- The stability spectrum for elliptic solutions to the sine-Gordon equation
- Butterfly-shaped and dromion-like optical waves in a tapered graded-index waveguide with variable group-velocity dispersion
- Travelling wave solutions of nonlinear dynamical equations in a double-chain model of DNA
- Dynamics of DNA breathing in the Peyrard-Bishop model with damping and external force
- Distribution of base pair alternations in a periodic DNA chain: application of Pólya counting to a physical system
- Revisiting Salerno's sine-Gordon model of DNA: active regions and robustness
- Breather solutions of a nonlinear DNA model including a longitudinal degree of freedom
- Solitons in a nonlinear DNA model
- Transparent boundary conditions for the sine-Gordon equation: modeling the reflectionless propagation of kink solitons on a line
- Asymmetric scattering between kinks and wobblers
- Kinks in massive non-linear \(\mathbb{S}^1\times\mathbb{S}^1\)-sigma models
- Integration of the sine-Gordon equation with a source and an additional term
- Forming localized waves of the nonlinearity of the DNA dynamics arising in oscillator-chain of Peyrard-Bishop model
- Semi-discrete breather in a helicoidal DNA double chain-model
- Non-topological kink scattering in a two-component scalar field theory model
- Asymmetric kink scattering in a two-component scalar field theory model
- The affective factors on the uncertainty in the collisions of the soliton solutions of the double field sine-Gordon system
- Scattering of metastable lumps in a model with a false vacuum
- Parametric resonance in DNA
- Kink scattering in a hybrid model
- A nonlinear model for DNA dynamics
- Stability of fronts in inhomogeneous wave equations
- Modulational instability and localized breather modes in the discrete nonlinear Schrödinger equation with helicoidal hopping
- Bistability of rotational modes in a system of coupled pendulums
- On the exchange of energy in coupled Klein --- Gordon equations
- On the stochastic dynamics of molecular conformation
- A double-strand elastic rod theory
- Modulational instability of two pairs of counter-propagating waves and energy exchange in a two-component system
- Intermediate processes and critical phenomena: theory, method and progress of fractional operators and their applications to modern mechanics
- A stability criterion for the non-linear wave equation with spatial inhomogeneity
- Occupancy modeling of coverage distribution for whole genome shotgun DNA sequencing
- Solitary oscillations and multiple antikink-kink pairs in the double sine-Gordon model
- Dynamics of kink-soliton solutions of the \((2+1)\)-dimensional sine-Gordon equation
- Kink-antikink collision in the supersymmetric ^4 model
- Scattering of kinks in the \(B\varphi^4\) model
- Torsional Travelling Waves in DNA
- Nonlinear dynamics of DNA with higher order interactions
- Long-range interactions between adjacent and distant bases in a DNA and their impact on the ribonucleic acid polymerase-DNA dynamics
- Propagation of twist solitons in fully inhomogeneous DNA chains
- Nonlinear optical properties of functionalized DNA
- scientific article; zbMATH DE number 4211844 (Why is no real title available?)
- Dynamics of the thermal denaturation of DNA
- Instabilities of multiphase wave trains in coupled nonlinear Schrödinger equations: A bisymplectic framework
- scientific article; zbMATH DE number 4165507 (Why is no real title available?)
- Modelling DNA at the mesoscale: a challenge for nonlinear science?
- Models for DNA in physics
- Theoretical physics of DNA: new ideas and tendencies in the modeling of the DNA nonlinear dynamics
- Solitons in Yakushevich-like models of DNA dynamics with improved intrapair potential
- Solitons in a double pendulums chain model, and DNA roto-torsional dynamics
- NONCLASSIC SOLITONIC STRUCTURES IN DNA's VIBRATIONAL DYNAMICS
- Solitary waves in helicoidal models of DNA dynamics
- scientific article; zbMATH DE number 1183036 (Why is no real title available?)
- Parametric resonance in a mesoscopic discrete DNA model
- Solving nonlinear partial differential equations by the sn-ns method
- Wave-particle duality in nonlinear Klein-Gordon equation
- Nonlinear dynamics of DNA -- Riccati generalized solitary wave solutions
- A novel approach for the potential parameters selection of Peyrard-Bishop model
- scientific article; zbMATH DE number 1064777 (Why is no real title available?)
- scientific article; zbMATH DE number 1972907 (Why is no real title available?)
- Anharmonic Analysis of Resonant Microwave Absorption in DNA
- Necessary conditions for breathers on continuous media to approximate breathers on discrete lattices
- Variety of rotation modes in a small chain of coupled pendulums
- The sine-Gordon equation on time scales
- Nonlinear dynamics and statistical physics of DNA
- Appearance of chaos and hyperchaos in evolving pendulum network
- Stationary multi-kinks in the discrete sine-Gordon equation
- Painlevé approach and its applications to get new exact solutions of three biological models instead of its numerical solutions
- DNA-RNA transcription as an impact of viscosity
- Exact solutions to the sine-Gordon equation
- Changing solitons in classical \& quantum integrable defect and variable mass sine-Gordon model
- Stationary solitary and kink solutions in the helicoidal Peyrard-Bishop model of DNA molecule
- Hawking’s radiation of sine–Gordon black holes in two dimensions
- MODULATION AND DEMODULATION IN DNA MOLECULE
- Fractional dynamics in DNA
- Compacton anti-compacton pair for hydrogen bonds and rotational waves in DNA dynamics
- The Order of Phase Transition of Solvable DNA Melting Models
- Soliton propagation in homogeneous and inhomogeneous models for DNA torsion dynamics
- Helicoidal Peyrard-Bishop model of DNA dynamics
- Moving breathers in a DNA model with competing short- and long-range dispersive interactions
- The Chern‐Simons Current in Systems of DNA‐RNA Transcriptions
- Topological and non-topological kink families in non-linear \((\mathbb{S}^1\times\mathbb{S}^1)\)-sigma models
- Solitons in antiferroelectric liquid crystal and Josephson junction: the double sine-Gordon model
- Kink-antikink collisions in the \(\phi^8\) model: short-range to long-range journey
- Nonlinear dynamics of DNA systems with inhomogeneity effects
- On the unique weak solvability of second-order unconditionally stable difference scheme for the system of sine-Gordon equations
- A minimal model of DNA dynamics in interaction with RNA-polymerase
- Soliton solutions for a quantum particle in one-dimensional boxes
- Fully decoupled and high-order linearly implicit energy-preserving RK-GSAV methods for the coupled nonlinear wave equation
- Nonlinear dynamics of DNA chain
- Conformational B-A-transition in the DNA molecule model
- Can specific THz fields induce collective base-flipping in DNA? A stochastic averaging and resonant enhancement investigation based on a new mesoscopic model
- Modulational instability and exact soliton solutions for a twist-opening model of DNA dynamics
- Mean Lyapunov exponent approach for the helicoidal Peyrard-Bishop model
- On terahertz solitons in DNA
- Nonlinear molecular excitations in a completely inhomogeneous DNA chain
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