wk |
# |
Date |
Topic |
Readings/Due Dates |
Module 1: Metabolism |
1 |
1 |
1/20/09 |
Module 1: 1st Law of Thermodynamics |
Haynie: Chapters 1 &2
Wrigglesworth: Chapter 2 |
1 |
2 |
1/23/07 |
Module 1: Enthalpy (Reactions) and Calorimetry
Guest lecture by Germano S. Iannacchione |
|
2 |
3 |
1/27/07 |
Module 1: Discuss papers |
1) Energy metabolism rate equation for fasting and postabsorptive subjects
2) Human food consumption: a primer on
nonequilibrium thermodynamics for college physics |
2 |
4 |
1/30/07 |
Module 1: Work |
|
3 |
5 |
2/2/07 |
Module 1: Work |
|
3 |
6 |
2/6/07 |
Module 1: Discuss Draft |
Draft of Module 1 Paper Due & Discussed |
Module 2: Molecular Dynamics and Disease |
4 |
7 |
2/10/07 |
Module 2: Review 1st law topics / Intro to Molecular Dynamics (MD) (N. Hammond)
|
|
4 |
8 |
2/13/07 |
Module 2: 2nd law and Gibbs free energy / MD eqns of motion, data structures (N. Hammond) |
Module 1 Paper Due
Haynie: Chapter 3 |
|
|
2/17/07 |
No class – Olin Monday |
|
5 |
9 |
2/20/07 |
Module 2: Boltzmann distribution / Steered MD and umbrella sampling (N. Hammond) |
Haynie: Chapter 4
Lab 1: Protein visualization Due |
6 |
10 |
2/24/07 |
Module 2: Thermodynamic cycles, chemical equilibrium
Work on final project (N. Hammond) |
Haynie: Chapter 6C
Lab 2: MD equilibration Due |
6 |
11 |
2/27/07 |
Module 2: Entropy calculations
Work on final project (N. Hammond) |
Lab 3: Protein unfolding Due |
7 |
12 |
3/3/07 |
Module 2: Work in class (N. Hammond) |
|
7 |
13 |
3/6/07 |
Module 2: Discuss Draft (N. Hammond) |
Draft of Module 2 Paper Due |
Module 3: Phase Transitions |
8 |
14 |
3/10/07 |
Module 3: Phase Equilibrium, Phase Transitions, and Cataracts, Discuss experimental protocol |
Read Chaper 3 of Atkins and de Paula "Physical Chemistry for the Life Sciences" |
8 |
15 |
3/13/07 |
Module 3: Start Laboratory Proceedure
|
Module 2 Paper Due
|
March 16-March 20 – Spring Break |
10 |
16 |
3/24/07 |
Module 3: Do experiments |
Read at least 2 of the posted cataract papers |
10 |
17 |
3/27/07 |
Module 3: Do experiments |
After class -- Write up materials and methods and results |
11 |
18 |
3/31/07 |
Module 3: Phase transitions, continued + Work in class |
|
11 |
19 |
4/3/07 |
Module 3: Continue lab work in class |
(meet with professors to prepare for presentations) |
Module 4: Self Assembly and Choose Your Own Project |
12 |
20 |
4/7/07 |
Module 4: Project Brainstorming Session |
|
12 |
21 |
4/10/07 |
Oral Presenatations of Module 3 in class |
Module 3 Presentations |
13 |
22 |
4/14/07 |
Discuss proposals for Module 4 |
|
13 |
23 |
4/17/07 |
Finalize proposals Module 4 |
|
14 |
24 |
4/21/07 |
Module 4 Work |
|
14 |
25 |
4/24/07 |
Module 4 Work |
|
15 |
26 |
4/28/07 |
Oral Presentation of Module 4 |
|
