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Contents
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Introduction
Importance of second messenger pathways
Importance of calcium
Biochemical reactions
Bimolecular reactions
Enzymatic reactions
Sets of biochemical reactions
When to model biochemical reactions
Example 1: Metabotropic Glutamate Receptor to PLC to IP3
Equations Describing Reactions
Calcium
Importance of Calcium Dynamics
Control of Calcium Dynamics
Calcium Current
Calcium diffusion
Calcium release
Calcium pumps and buffers
Example 2: Calcium dynamics
Computational modeling of second messenger pathways in neurons
Appendix: Summary of GENESIS objects used for modeling diffusion and kinetics
GENESIS Objects
Compartment-like objects
Other calcium objects, found only in Chemesis
Multi-functional Genesis Calcium Objects
References
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