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