Computational Biophysics Workshop - Munich, Mar 25-28, 2014

Program

Locations:

Tue, March 25: Introduction to Protein Structure and Dynamics - Klaus Schulten

09:00-09:10	Opening Remarks
09:10-10:40	Structure and Sequence Analysis with VMD
Coffee Break
11:00-12:00	Introduction to Molecular Dynamics with NAMD
12:00-12:20	Q & A
Lunch Break
14:00-16:00	VMD Tutorial - Using VMD; NAMD Tutorial
Coffee Break
16:20-18:00	VMD Tutorial - Using VMD; NAMD Tutorial

Wed, March 26: Statistical Mechanics of Proteins - Klaus Schulten

09:00-10:30	Analysis of Equilibrium and Non-equilibrium Properties of Proteins with NAMD
Coffee Break
10:50-12:00	Applications of VMD / NAMD in Modern Research
12:00-12:30	Q & A; Group picture
Lunch Break
14:00-16:00	NAMD Tutorial & Stretching Deca-alanine, or Other tutorials from the TCBG website*
Coffee Break
16:20-18:00	NAMD Tutorial & Stretching Deca-alanine, or Other tutorials from the TCBG website*
	* Tutorial texts and related files available here: http://www.ks.uiuc.edu/Training/Tutorials/

Thu, March 27: Introductions to Evolutionary Concepts in Bioinformatics and Network Analysis - Zan Luthey-Schulten

09:00-10:30	Applications of Evolutionary Algorithms in MultiSeq/VMD to Translation:
Coffee Break
10:50-12:00	Introduction to Network Analysis: Dynamics of Recognition in RNA:Protein Complexes
12:00-12:20	Q & A
Lunch Break
14:00-16:00	Tutorials on Evolution of Translation: Class I Aminoacyl-tRNA Synthetases , EF-Tu: tRNA, Ribosome;
Coffee Break
16:20-18:00	Dynamical Network Analysis Tutorial

Fri, March 28: Cell Simulations with Lattice Microbes - Zan Luthey-Schulten

09:00-10:30	Towards in silico Cells: Simulating Biological Processes in Entire Cells
Coffee Break
10:50-12:00	Integrating Systems Biology Approaches with Dynamics
12:00-12:20	Q & A
Lunch Break
14:00-16:00	Lattice Microbes tutorial
Coffee Break
16:20-18:00	Lattice Microbes tutorial More Tutorial texts and related files available at http://www.scs.illinois.edu/schulten/tutorials/index.html

Note: program subject to change. Workshop supported by NIH 9P41GM104601 "Center for Macromolecular Modeling and Bioinformatics".