Lecture

Propagation of Fronts in 1D

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In course

BIO-341: Dynamical systems in biology

Life is non-linear. This course introduces dynamical systems as a technique for modelling simple biological processes. The emphasis is on the qualitative and numerical analysis of non-linear dynamical models. Examples are taken from biology and population ...

Description

This lecture covers the propagation of fronts in 1D systems using a mechanical analogy, focusing on bistable systems and the Kolmogorov-Fisher equation. The slides illustrate the concept of bistability, different cases of wave propagation, and the mechanical analogy for the problem f(u) = u(1-u)(u-a). The instructor discusses the existence of fronts in spatial systems, the different cases of propagation velocities, and the quartic potential. The lecture also delves into the Kolmogorov-Fisher equation, the cubic case, and the prediction capabilities of the mechanical analogy. Furthermore, the slides touch upon the concept of heteroclinic orbits and the spatial coordination of the Xenopus cell cycle.

Instructors (2)

Felix Naef

Felix Naef studied theoretical physics at the ETHZ and obtained his PhD from the EPFL in 2000. He then received postdoctoral training at the Center for Studies in Physics and Biology at the Rockefeller University (NYC) under the guidance of Prof. Magnasco. His research focuses on the modeling and interpretation of high-throughput functional data and the study of biomolecular oscillators. He joined ISREC as an associate scientist in early 2004 and is currently Associate Professor in the Institute of Bioengineering (IBI).

Julian Charles Shillcock

Julian received his PhD at Simon Fraser University in Canada for work on Monte Carlo simulations of liquid crystal phase transitions and the elastic properties of fluid and polymerized membranes. He was a Group Leader at the Max Planck Institute of Colloids and Interfaces, Germany for five years applying coarse-grained simulation techniques - principally Dissipative Particle Dynamics (DPD) and Brownian Dynamics - to equilibrium and dynamic properties of fluid lipid membranes. A major target of this research was to reveal the molecular rearrangements that occur during vesicle fusion. During this time, he developed a commercially-available, parallel DPD code that is being used by several universities. He was an Associate Professor at MEMPHYS in the Department of Physics and Chemistry, University of Southern Denmark. He has also worked in industry, designing and writing software for communication satellite simulations (British Aerospace, 1986-1990), and fluid simulation software (Accelrys, Inc., 1998-1999). He joined the Blue Brain Project in 2011, and uses mesoscale simulation techniques, together with theoretical analysis and collaborations with experimentalists, to study the dynamics of cellular processes. Current projects include simulating the formation of the post-synaptic density in dendritic spines and developing theoretical models of the supramolecular organisation of synapses. He also teaches Master's and PhD courses in computational cell biology and biophysics. He wrote and maintains an open source dissipative particle dynamics simulation code: https://github.com/Osprey-DPD/osprey-dpd Orcid: orcid.org/0000-0002-7885-735X

Official source

Related concepts (32)

Propagation constant

The propagation constant of a sinusoidal electromagnetic wave is a measure of the change undergone by the amplitude and phase of the wave as it propagates in a given direction. The quantity being measured can be the voltage, the current in a circuit, or a field vector such as electric field strength or flux density. The propagation constant itself measures the change per unit length, but it is otherwise dimensionless. In the context of two-port networks and their cascades, propagation constant measures the change undergone by the source quantity as it propagates from one port to the next.

Wave

In physics, mathematics, engineering, and related fields, a wave is a propagating dynamic disturbance (change from equilibrium) of one or more quantities. Waves can be periodic, in which case those quantities oscillate repeatedly about an equilibrium (resting) value at some frequency. When the entire waveform moves in one direction, it is said to be a traveling wave; by contrast, a pair of superimposed periodic waves traveling in opposite directions makes a standing wave.

Phase velocity

The phase velocity of a wave is the rate at which the wave propagates in any medium. This is the velocity at which the phase of any one frequency component of the wave travels. For such a component, any given phase of the wave (for example, the crest) will appear to travel at the phase velocity. The phase velocity is given in terms of the wavelength λ (lambda) and time period T as Equivalently, in terms of the wave's angular frequency ω, which specifies angular change per unit of time, and wavenumber (or angular wave number) k, which represent the angular change per unit of space, To gain some basic intuition for this equation, we consider a propagating (cosine) wave A cos(kx − ωt).

Group velocity

The group velocity of a wave is the velocity with which the overall envelope shape of the wave's amplitudes—known as the modulation or envelope of the wave—propagates through space. For example, if a stone is thrown into the middle of a very still pond, a circular pattern of waves with a quiescent center appears in the water, also known as a capillary wave. The expanding ring of waves is the wave group or wave packet, within which one can discern individual waves that travel faster than the group as a whole.

Velocity factor

The velocity factor (VF), also called wave propagation speed or velocity of propagation (VoP or of a transmission medium is the ratio of the speed at which a wavefront (of an electromagnetic signal, a radio signal, a light pulse in an optical fibre or a change of the electrical voltage on a copper wire) passes through the medium, to the speed of light in vacuum. For optical signals, the velocity factor is the reciprocal of the refractive index.

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