BIOL398-01/S11:Week 3
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Revision as of 08:37, 25 January 2011 by Ben G. Fitzpatrick (talk | contribs) (bgf added week three assgt)
This journal entry is due on Monday, January 31 at midnight PST (Sunday night/Monday morning). NOTE that the server records the time as Eastern Standard Time (EST). Therefore, midnight will register as 03:00.
Contents
Individual Assignment
Terminology
- Look up the following terms and provide definitions. For each definition, three elements are required: you must quote a source, reference the source, and interpret the definition in your own words.
- dynamical system
- law of mass action
- homeostasis
- equilibrium
- oscillation
- autocatalysis
Applying the Law of Mass Action
- Construct differential equations that model the following reactions. Be sure to define your state variables and rate constants.
- A + B → C
- A + B ↔ C
- A + B ↔ 2C
- 2A + 3B ↔ C+D
Please note that the symbol ↔ is used to denote arrows (reactions) in both directions.
Simulating Reaction Kinetics
- Use the matlab code provided at my lionshare folder to study the simple reaction
- E + S ↔ ES → E + P
that we have studied in class. Set the parameters as follows:
- [S_{0}] = 1.0
- [E_{0}] = 0.2
- [ES_{0}] = 0.0
- [P_{0}] = 0.0
- k_{1} = 2.0
- k_{-1} = 0.0
- k_{2} = 10
Plot the output, and save the plot as an image. Post the image on the wiki as the answer to the question.
- What was the purpose of this assignment?
- What aspect of this assignment came most easily to you?
- What aspect of this assignment was the most challenging for you?
- What (yet) do you not understand?
- What is the relationship between homeostasis and equilibrium?