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Computational Biophysics Workshop - Urbana, Oct. 22-26, 2012

• 10/22: Introduction to Protein Structure and Dynamics - Klaus Schulten
  • Opening Remarks (pdf)
  • Structure and Sequence Analysis with VMD (pdf)
    
  • Introduction to Molecular Dynamics with NAMD (pdf)
    
    
• 10/23: Introduction to Bioinformatics - Zan Luthey-Schulten
  
  • Introduction to Evolutionary Concepts in Bioinformatics: MultiSeq in VMD (pdf, pdf)
  • Application of MultiSeq to Evolution of Translation Machinery (pdf)
  
  
• 10/24: Statistical Mechanics of Proteins - Klaus Schulten
• Analysis of Equilibrium and Non-equilibrium Properties of Proteins with NAMD (pdf)
  
• Applications of VMD/NAMD in Modern Research (pdf)
• Introduction to GPU Accelerated NAMD Simulation (pdf)
  


• 10/25: Parameters for Classical Force Fields - Emad Tajkhorshid
  
  • Introduction to Topology, Parameters, and Structure Files (pdf)
  • Examples and Applications (pdf)
    
  
  
• 10/26: Simulating Membrane Channels - Emad Tajkhorshid
  
  • Introduction and Examples (pdf)
  • Transport in Aquaporins; Nanotubes (pdf)