Global Sensitivity Analysis
Boris Shulgin and David Rand in
Institute developed Circadian Watch, a set of analytical tools for Matlab
can be calculated
analytically from the model equations, without the need for
simulation. These are termed Infinitesimal Response Curves, and allow
the estimation of the effects of any hypothetical input pathway
on entrainment, and intelligent steering of parameter
values to achieve user-required changes in the clock phenotype.
The software has now been much updated by Paul
Brown and David Rand. The current version is available for
download from the
Warwick Systems Biology Centre,
The theory behind the analysis is discussed in
the following articles:
D. A. Rand, B. V. Shulgin, D. Salazar & A. J. Millar (2004).
Design principles underlying circadian clocks. Journal of The
Royal Society, Interface. 1(1): 119-130
Rand DA, Shulgin BV, Salazar D, Millar AJ. (2006) Uncovering the design
principles of circadian clocks: mathematical analysis of flexibility and
evolutionary goals. J Theor Biol, 238:616-635.
Published online August 2005. PDF.
D. A. Rand. Mapping the global sensitivity of cellular network
dynamics: Sensitivity heat maps and a global summation law. J.
R. Soc. Interface (2008) doi:10.1098/rsif.2008.0084.focus.
If you want to download the old software, we'd be grateful if
you would spend a moment entering a few details to allow us to build a list of users. This will help us to keep everyone informed of updates.
To install the program, extract the contents of the zip
file to a folder, now
referred to as INSTALL_DIR.
Run Matlab and refer to section 2 of the user
guide for instructions on how to use the program. If you wish to
use the GUI supplied, navigate to the folder INSTALL_DIR\program,
at the Matlab command prompt.
The program has a number of published models
pre-installed, and it is possible for the user to enter their
Please note that Circadian Watch requires Matlab
release 13 or higher. It will now work with release 14.
This software is still under development, and is
supplied for academic research without guarantees or support
either explicit or implied, and is subject to
the Open Source
Initiative Academic Free License 2.0. Please read the terms
of this license below.
A screenshot of the GUI is shown here. The top
panel represents an infinitesimal response curve, produced by
applying brief peturbations to each of the 9 parameters of a
model of the Neurospora clock. The lower panel is time
series data from the same model.
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