• Program

• Instructors

• Lectures

• Tutorials

• Participants

• Photo Gallery

• Evaluation

• Announcement

• Laptop Reqs

• Laptop Setup

• FAQ

• Home

Computational Biophysics Workshop - Urbana, Feb. 11-15, 2012

• 2/11: 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)
    
  
  
• 2/12: Statistical Mechanics of Proteins - Klaus Schulten
• Analysis of Equilibrium and Non-equilibrium Properties of Proteins with NAMD (pdf)
• Exemplary Applications of VMD / NAMD in Modern Research (pdf, pdf)
  


• 2/13: Parameters for Classical Force Fields - Emad Tajkhorshid, Christopher Mayne
  
  • Introduction to Topology, Parameters, and Structure Files (pdf) - Tajkhorshid
  • Examples and Applications (pdf) - Tajkhorshid
    
  • A Brief Overview of the Force Field Toolkit (ffTK) (pdf, pdf) - Mayne
    
  
  
• 2/14: Simulating Membrane Channels - Emad Tajkhorshid
  
  • Introduction and Examples (pdf)
  • Transport in Aquaporins; Nanotubes (pdf)
    
    
• 2/15: Introduction to Bioinformatics - Zan Luthey-Schulten
  
  • Introduction to Evolutionary Concepts in Bioinformatics: MultiSeq in VMD (pdf, pdf) (audio lecture)
  • Application of MultiSeq to Evolution of Translation Machinery (pdf)