How are the parameters obtained?
The parameters are obtained from experimental sources such as binding experiments, time-courses of reactions, enzyme assays, immunoblots and just about any other experimental technique that sheds light on the pathway chemistry. Modelers first try to work out a simple chemical reaction scheme that embodies the interactions which they wish to examine. Then each of the parameters in this reaction scheme must be filled in from one experimental source or another. Often the reaction scheme itself must be re-examined on the basis of the available data. A more detailed description of this process is presented in a couple of book chapters: Bhalla, U.S. Simulations of biochemical signaling Computational Neuroscience: Realistic Modeling for Experimentalists. Ed. E. De Schutter. CRC press, 2000 Bhalla, U.S. Use of Kinetikit and GENESIS for modeling Methods in Enzymology. Volume 345 Ed. R. Iyengar and J.D. Hildebrandt. Academic Press. 2002 • How accurate are the models? Each model (and often each p
