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Computational Biophysics Workshop - San Diego, Jul. 12-16, 2010

• Mon, 7/12: Introduction to Protein Structure and Dynamics, K. Schulten 
  • Opening Remarks (pdf)
  • Structure and Sequence Analysis with VMD (pdf)
  • Introduction to Molecular Dynamics with NAMD (pdf)
  • Case Studies: Light Harvesting Complex II (pdf), Ubiquitin (pdf)
  
  
• Tue, 7/13: Statistical Mechanics of Proteins, K. Schulten 
  • Analysis of Equilibrium and Non-equilibrium Properties of Proteins with NAMD (pdf, pdf)  
  • Exemplary Applications of VMD / NAMD in Modern Research (pdf)
  
  
• Wed, 7/14: Introduction to Bioinformatics, Z. Luthey-Schulten
  •  Introduction to Evolutionary Concepts in Bioinformatics: MultiSeq in VMD (pdf)  
  • Application of MultiSeq to Evolution of Translation Machinery (pdf)
  
  
• Thu, 7/15: Parameters for Classical Force Fields, E. Tajkhorshid
  • Introduction to Topology, Parameters, and Structure Files (pdf)
  • Examples and Applications (pdf)
  
  
• Fri, 7/16: Simulating Membrane Channels, E. Tajkhorshid
  • Introduction and Examples (pdf)
  • Nanotubes (pdf)