Computational Biophysics Workshop - Chicago, Jun. 9-13, 2005
Program
Locations:
-
All workshops are held in the Buckingham/Westminster Room, except for Friday evening lab, which is held in the Adams Room
Thu, 6/9: 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) |
Fri, 6/10: 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 | |
| 19:00-19:30 | Evolution of Protein Structure - Aspartyl tRNA Synthetase |
| Coffee Break | |
| 19:45-21:00 | Evolution of Protein Structure - Aspartyl tRNA Synthetase (continued) |
| 21:00-23:00 | Sequence Alignment Algorithms/Bioinformatics Study of Aquaporins |
Sat, 6/11: 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 |
| Lunch Break | |
| 19:00-20:30 | Molecular Dynamics Tutorial |
| Coffee Break | |
| 20:45-23:00 | Molecular Dynamics Tutorial (continued) |
Sun, 6/12: 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 | |
| 14:00-15:30 | Paramaterizing a Novel Residue |
| Coffee Break | |
| 15:45-18:00 | Topology File Tutorial |
Mon, 6/13: 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 |
| Coffee Break | |
| 15:45-18:00 | Stretching Deca-alanine/Open tutorial work time |