Computational Biophysics Workshop - San Francisco, Jun. 26-30, 2005
Program
Locations:
-
All workshop days are held in the Apollo Room
Sun, 6/26: Introduction to Protein
Structure and
Dynamics, K. Schulten
| 08:30-09:00 | Breakfast |
| 09:00-09:30 | Opening Remarks |
| 09:30-10:40 | Molecular Graphics Perspective of Protein Structure and Function |
| Coffee Break | |
| 11:00-11:50 | Molecular Dynamics Method |
| 11:50-12:00 | Daily Q & A |
| Lunch Break | |
| 14:00-14:45 | Overview of Hands-on Sessions |
| 15:00-15:30 | Molecular Graphics Tutorial |
| Coffee Break | |
| 15:45-18:00 | Molecular Graphics Tutorial (continued) |
Mon, 6/27: Statistical Mechanics of Proteins, K. Schulten
| 08:30-09:00 | Breakfast |
| 09:00-10:00 | Molecular Dynamics with NAMD |
| 10:00-10:40 | Equilibrium Properties of Proteins |
| Coffee Break | |
| 11:00-11:50 | Nonequilibrium Properties of Proteins |
| 11:50-12:00 |
Daily Q & A Group photo |
| Lunch Break | |
| 19:00-20:30 | Molecular Dynamics Tutorial |
| Coffee Break | |
| 20:45-23:00 | Molecular Dynamics Tutorial (continued) |
Tue, 6/28: Introduction to Bioinformatics, Z. Luthey-Schulten
| 08:30-09:00 | Breakfast |
| 09:00-10:00 | Introduction to Bioinformatics: Sequence, Structure, and Alignment |
| 10:00-10:40 | Evolutionary Concepts in Bioinformatics |
| Coffee Break | |
| 11:00-11:50 | Application of Bioinformatics |
| 11:50-12:00 | Daily Q & A |
| Lunch Break | |
| 14:00-16:30 | Evolution of Protein Structure - Aspartyl tRNA Synthetase |
| Coffee Break | |
| 16:45-18:00 | Sequence Alignment Algorithms/Bioinformatics Study of Aquaporins |
Wed, 6/29: Parameters for Classical Force Fields, E. Tajkhorshid
| 08:30-09:00 | Breakfast |
| 09:00-10:00 | Introduction to Classical Force Fields |
| 10:00-10:40 | Force Fields Parameterization |
| Coffee Break | |
| 11:00-11:50 | Applications |
| 11:50-12:00 | Daily Q&A |
| Lunch Break | |
| 19:00-21:00 | Paramaterizing a Novel Residue |
| Coffee Break | |
| 21:15-23:00 | Topology File Tutorial |
Thu, 6/30: Simulating Membrane Channels, E. Tajkhorshid
| 08:30-09:00 | Breakfast |
| 09:00-10:00 | Introduction and Examples |
| 10:00-10:40 | Transport in Aquaporins |
| Coffee Break | |
| 11:00-11:50 | Nanotubes |
| 11:50-12:00 | Daily Q&A |
| Lunch Break | |
| 14:00-15:30 | Nanotubes/IMD |
| Coffee Break | |
| 15:45-18:00 | Stretching Deca-alanine/Open tutorial work time |
