Here you can download pdf versions of recent lecture notes, and other course information.

- Course syllabus.
- Notes on thermodynamics, from J.C.
Slater,
*Introduction to Chemical Physics*, chapters 1-3. - Entropy and the Boltzmann distribution.
**Homework #1**, due in class, Feb. 4: Problems 1.15, 5.1, 5.6 and 6.2.- Build-up procedure for partition
functions, by Herschbach, Johnston and Rapp.
**Homework #2**, due in class, Feb. 11: Problems 10.7, 10.18, 11.6 and 11.16.- Getting free energies from
simulation.
- Proton binding to proteins: pKa calculations
with explicit and implicit solvent models, by Simonson, Carlsson and
Case.
- Notes on molecular dynamics and force fields.
**Homework #3**, due in class on February 25.- Notes on electrostatics and
continuum solvent models.
**Homework #4**, due in class, Mar. 4: Problems 20.7, 20.11, 22.6, and 22.13.- Review on Generalized Born
models.
**Homework #5**, due in class, Mar. 25: Problems 22.2, 23.1, 23.2.- Instructions for the final
project.
*(Updated with the presentation schedule.)* - Slides from guest lecture by Mikolai
Fajer.
**Homework #6**, due by Monday, April 7: choose a paper for your term project, as described in the Instructions above. Send an email to david.case@rutgers.edu with your choice.- Lecture notes on
kinetics.
- Notes on ligand binding and
allostery.
**Homework #7**, due in class, April 22: Problems 23.13, 23.16, 19.9 and 19.12.- Notes on distance geometry.
- Notes on fitting models to data.
- Notes on Singular Value Decomposition.

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