Library screening by fragment-based docking.
Huang D, Caflisch A, J Mol Recognit, 2009 Aug 28 - link

Flaviviral protease inhibitors identified by fragment-based library docking into a structure generated by molecular dynamics.
Ekonomiuk D, Su XC, Ozawa K, Bodenreider C, Lim SP, Otting G, Huang D, Caflisch A, J Med Chem, 2009 Aug 13 - link

Discovery of plasmepsin inhibitors by fragment-based docking and consensus scoring.
Friedman R, Caflisch A, ChemMedChem, 2009 Aug - link

Discovery of a non-peptidic inhibitor of west nile virus NS3 protease by high-throughput docking.
Ekonomiuk D, Su XC, Ozawa K, Bodenreider C, Lim SP, Yin Z, Keller TH, Beer D, Patel V, Otting G, Caflisch A, Huang D, PLoS Negl Trop Dis, 2009 - link

Discovery of kinase inhibitors by high-throughput docking and scoring based on a transferable linear interaction energy model.
Kolb P, Huang D, Dey F, Caflisch A, J Med Chem, 2008 Mar 13 - link

Automatic and efficient decomposition of two-dimensional structures of small molecules for fragment-based high-throughput docking.
Kolb P, Caflisch A, J Med Chem, 2006 Dec 14 - link

Discovery of cell-permeable non-peptide inhibitors of beta-secretase by high-throughput docking and continuum electrostatics calculations.
Huang D, Luthi U, Kolb P, Edler K, Cecchini M, Audetat S, Barberis A, Caflisch A, J Med Chem, 2005 Aug 11 - link

Automated docking of highly flexible ligands by genetic algorithms: a critical assessment.
Cecchini M, Kolb P, Majeux N, Caflisch A, J Comput Chem, 2004 Feb - link

Fragment-Based flexible ligand docking by evolutionary optimization.
Budin N, Majeux N, Caflisch A, Biol Chem, 2001 Sep - link

Efficient electrostatic solvation model for protein-fragment docking.
Majeux N, Scarsi M, Caflisch A, Proteins, 2001 Feb 1 - link

Exhaustive docking of molecular fragments with electrostatic solvation.
Majeux N, Scarsi M, Apostolakis J, Ehrhardt C, Caflisch A, Proteins, 1999 Oct 1 - link

Monte Carlo docking of oligopeptides to proteins.
Caflisch A, Niederer P, Anliker M, Proteins, 1992 Jul - link