Papers every group member should know

  • Basic algorithms

    • Murtagh F (2004). “A Survey of Recent Advances in Hierarchical Clustering Algorithms”.
      The Computer Journal 26 : 354-359 doi:10.1093/comjnl/26.4.354.
  • Analysis of Protein Sequences

  • Analysis of Protein Structures

    • Kabsch W, Sander C (1983). “Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features”.
      Biopolymers 22 (12): 2577. doi:10.1002/bip.360221211. PMID 6667333.
    • Zhang Y, Skolnick J (2004). “Scoring function for automated assessment of protein structure template quality”.
      Proteins 57 (4): 702-710 doi:10.1002/prot.20264 PMID 20164152.
  • Proteins : interactions

    • Hubbard RE(2001). “Hydrogen Bonds in Proteins: Role and Strength”.
      ENCYCLOPEDIA OF LIFE SCIENCES
    • Pace CN(2009). “Energetics of protein hydrogen bonds”.
      Nature Structural & Molecular Biology 16 : 681-682
  • Proteins : structure

    • Vogel C, Bashton M, Kerrison ND, Chothia C, Teichmann SA(2004). “Structure, function and evolution of multidomain proteins”.
      Current Opinion in Structural Biology 14 : 208–216 PMID 15093836
  • Molecular modeling

    • Contreras-Moreira B, Fitzjohn PW, Bates PA (2002). “Comparative modelling: an essential methodology for protein structure prediction in the post-genomic era.”.
      Appl Bioinformatics. 1 (4): 177-90. author’s copy PMID 20164152.

    • Grossfield A, Zuckerman DM (2009). “Quantifying uncertainty and sampling quality in biomolecular simulations.”
      Annu Rep Comput Chem. 5:23-48. PMID 20454547