A new approach to the design of time varying control systems with application to the space shuttle booster

A general approach toward the analysis and design of closed loop control for slowly time-varying linear systems was investigated. The approach is by the method of generalized multiple scales, in which slow and fast dynamics are systematically separated by employing different clocks which measure time at varying rates. The clocks, which are necessarily nonlinear functions of time, so that the system dynamics are asymptotically invariant with respect to the new time scale. A transfer function relating the output to the input for general linear slowly time-varying systems is developed and represents the actual system under certain conditions. The clock functions are shown to satisfy an algebraic characteristic equation and can be determined in general in terms of the coefficients

Stochastic Dynamics of Bionanosystems: Multiscale Analysis and Specialized Ensembles

An approach for simulating bionanosystems, such as viruses and ribosomes, is presented. This calibration-free approach is based on an all-atom description for bionanosystems, a universal interatomic force field, and a multiscale perspective. The supramillion-atom nature of these bionanosystems prohibits the use of a direct molecular dynamics approach for phenomena like viral structural transitions or self-assembly that develop over milliseconds or longer. A key element of these multiscale systems is the cross-talk between, and consequent strong coupling of, processes over many scales in space and time. We elucidate the role of interscale cross-talk and overcome bionanosystem simulation difficulties with automated construction of order parameters (OPs) describing supra-nanometer scale structural features, construction of OP dependent ensembles describing the statistical properties of atomistic variables that ultimately contribute to the entropies driving the dynamics of the OPs, and the derivation of a rigorous equation for the stochastic dynamics of the OPs. Since the atomic scale features of the system are treated statistically, several ensembles are constructed that reflect various experimental conditions. The theory provides a basis for a practical, quantitative bionanosystem modeling approach that preserves the cross-talk between the atomic and nanoscale features. A method for integrating information from nanotechnical experimental data in the derivation of equations of stochastic OP dynamics is also introduced.Comment: 24 page

Cellular signaling networks function as generalized Wiener-Kolmogorov filters to suppress noise

Cellular signaling involves the transmission of environmental information through cascades of stochastic biochemical reactions, inevitably introducing noise that compromises signal fidelity. Each stage of the cascade often takes the form of a kinase-phosphatase push-pull network, a basic unit of signaling pathways whose malfunction is linked with a host of cancers. We show this ubiquitous enzymatic network motif effectively behaves as a Wiener-Kolmogorov (WK) optimal noise filter. Using concepts from umbral calculus, we generalize the linear WK theory, originally introduced in the context of communication and control engineering, to take nonlinear signal transduction and discrete molecule populations into account. This allows us to derive rigorous constraints for efficient noise reduction in this biochemical system. Our mathematical formalism yields bounds on filter performance in cases important to cellular function---like ultrasensitive response to stimuli. We highlight features of the system relevant for optimizing filter efficiency, encoded in a single, measurable, dimensionless parameter. Our theory, which describes noise control in a large class of signal transduction networks, is also useful both for the design of synthetic biochemical signaling pathways, and the manipulation of pathways through experimental probes like oscillatory input.Comment: 15 pages, 5 figures; to appear in Phys. Rev.

Sound propagation through nonuniform ducts

Methods of determining the transmission and attenuation of sound propagating in nonuniform ducts with and without mean flows are discussed. The approaches reviewed include purely numerical techniques, quasi-one-dimensional approximations, solutions for slowly varying cross sections, solutions for weak wall undulations, approximation of the duct by a series of stepped uniform cross sections, variational methods and solutions for the mode envelopes

Contributions of plasma physics to chaos and nonlinear dynamics

This topical review focusses on the contributions of plasma physics to chaos and nonlinear dynamics bringing new methods which are or can be used in other scientific domains. It starts with the development of the theory of Hamiltonian chaos, and then deals with order or quasi order, for instance adiabatic and soliton theories. It ends with a shorter account of dissipative and high dimensional Hamiltonian dynamics, and of quantum chaos. Most of these contributions are a spin-off of the research on thermonuclear fusion by magnetic confinement, which started in the fifties. Their presentation is both exhaustive and compact. [15 April 2016

Dimension reduction for systems with slow relaxation

We develop reduced, stochastic models for high dimensional, dissipative dynamical systems that relax very slowly to equilibrium and can encode long term memory. We present a variety of empirical and first principles approaches for model reduction, and build a mathematical framework for analyzing the reduced models. We introduce the notions of universal and asymptotic filters to characterize `optimal' model reductions for sloppy linear models. We illustrate our methods by applying them to the practically important problem of modeling evaporation in oil spills.Comment: 48 Pages, 13 figures. Paper dedicated to the memory of Leo Kadanof

Nonlinear Propagation of Light in One Dimensional Periodic Structures

We consider the nonlinear propagation of light in an optical fiber waveguide as modeled by the anharmonic Maxwell-Lorentz equations (AMLE). The waveguide is assumed to have an index of refraction which varies periodically along its length. The wavelength of light is selected to be in resonance with the periodic structure (Bragg resonance). The AMLE system considered incorporates the effects non-instantaneous response of the medium to the electromagnetic field (chromatic or material dispersion), the periodic structure (photonic band dispersion) and nonlinearity. We present a detailed discussion of the role of these effects individually and in concert. We derive the nonlinear coupled mode equations (NLCME) which govern the envelope of the coupled backward and forward components of the electromagnetic field. We prove the validity of the NLCME description and give explicit estimates for the deviation of the approximation given by NLCME from the {\it exact} dynamics, governed by AMLE. NLCME is known to have gap soliton states. A consequence of our results is the existence of very long-lived {\it gap soliton} states of AMLE. We present numerical simulations which validate as well as illustrate the limits of the theory. Finally, we verify that the assumptions of our model apply to the parameter regimes explored in recent physical experiments in which gap solitons were observed.Comment: To appear in The Journal of Nonlinear Science; 55 pages, 13 figure