Circadian Clock Model Visualisation Tools

Moving 2/3D plots and network diagram of an ode model of the circadian clock gene network

Description

This program presents the solution to an ode model of the circadian clock, published by Locke et al (2005) 'http://www.nature.com/msb/journal/v1/n1/full/msb4100018.html', in two different ways.
A moving plot can show either time series or a limit cycle in 2D or 3D mode, with the user able to select which of the model outputs is represented on each axis.
A dynamic moving network diagram of the model can also be displayed. In this case, the blocks representing the model species and the arrows representing species interactions vary in size periodically, corresponding to the varying species levels as the model oscillates. A corresponding time series plot appears alongside the network.
GUI controls allow the user to alter model parameters during a simulation in order to immediately observe the effect on model behaviour.
It is possible for the user to record their own avi files of simulations.
This program should prove particulary useful in the teaching of circadian biology, but should also be useful for gaining a greater understanding of model dynamics and the effect of perturbations.

• MATLAB release: MATLAB 7.0.1 (R14SP1)