Abstract

The goal of this tutorial is to discuss how to develop models of second messenger pathways and calcium dynamics. The first part of the tutorial explains the equations used to model bimolecular reactions, enzyme reactions, calcium release channels, calcium pumps and diffusion. The second part explains some of the GENESIS, kinetikit and Chemesis objects that implement the appropriate equations. Participants have the opportunity to implement some of these objects to create a simple model ready for simulating.

See the tutorial slides Blackwell-Wambamm2005.ppt (Powerpoint version 14 MB)

See the tutorial slides Blackwell-Wambamm2005.sxi (OpenOffice version 4.9 MB)

See the README file

This contains instructions for running the demonstration scripts, and relates them to slides in the tutorial.

Download the demonstration scripts (gzipped tar file) BlackwellWB05-scripts.tar.gz

Download chemesis 2.0 (compressed tar file) chemesis2.0.tar.gz

"chemesis" contains the new objects and commands to add to GENESIS for use with the demonstration scripts.