BIOL398-01/S11:Week 4: Difference between revisions
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Revision as of 09:18, 3 February 2011
This journal entry is due on Monday, February 07 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.
Individual Journal Assignment
- Store this journal entry as "username Week 4" (i.e., this is the text to place between the square brackets when you link to this page).
- Create the following set of links. (HINT: you can do all of this easily by adding them to your template and then using the template on your pages.)
- Link to your journal entry from your user page.
- Link back from your journal entry to your user page.
- Link to this assignment from your journal entry.
- Don't forget to add the "BIOL398-01/S11" category to the end of your wiki page.
Terminology
- Explain the following terms in your own words.
- The Michaelis-Menten model of enzyme kinetics.
- The experiment required for the Lineweaver-Burk approach to estimating parameters for Michealis-Menten.
- Chemostat reactor.
- Exponential growth.
Applying Michealis-Menten Models
- Consider a single substrate being converted to product.
E + S ↔ ES → E + P with an initial substrate concentration of 1.0 and an initial enzyme concentration of 0.05. Use the Michaelis-Menten matlab model to explore the following.
- Set k1 = 2.0, k-1 = 0.0. Plot the substrate dynamics for k2 = 1.0, k2 = 2.0, k2 = 5.0, k2 = 10.0 all on the same graph to see the effect of this parameter.
- Set k1 = 2.0, k-1 = 1.0. Plot the substrate dynamics for k2 = 1.0, k2 = 2.0, k2 = 5.0, k2 = 10.0 all on the same graph to see the effect of this parameter.
- Set k1 = 2.0, k-1 = 5.0. Plot the substrate dynamics for k2 = 1.0, k2 = 2.0, k2 = 5.0, k2 = 10.0 all on the same graph to see the effect of this parameter.
You may use the matlab code provided at my lionshare folder.
Estimating Michaelis-Menten Parameters
- Consider
- Store your journal entry in the shared Class Journal Week 4 page. If this page does not exist yet, go ahead and create it (congratulations on getting in first :) )
- Link to your journal entry from your user page.
- Link back from the journal entry to your user page.
- Sign your portion of the journal with the standard wiki signature shortcut (
~~~~
). - Add the "BIOL398-01/S11" category to the end of the wiki page (if someone has not already done so).
Reflection
- 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?