Consistent improvement of cross-docking results using binding site ensembles generated with elastic network normal modes.
Rueda M, Bottegoni G, Abagyan R, J Chem Inf Model, 2009 Mar - link

Consistent Improvement of Cross-Docking Results Using Binding Site Ensembles Generated with Elastic Network Normal Modes.
Rueda M, Bottegoni G, Abagyan R, J Chem Inf Model, 2009 Feb 16 - link

Four-dimensional docking: a fast and accurate account of discrete receptor flexibility in ligand docking.
Bottegoni G, Kufareva I, Totrov M, Abagyan R, J Med Chem, 2009 Jan 22 - link

A new method for ligand docking to flexible receptors by dual alanine scanning and refinement (SCARE).
Bottegoni G, Kufareva I, Totrov M, Abagyan R, J Comput Aided Mol Des, 2008 May - link

A comparative study on the application of hierarchical-agglomerative clustering approaches to organize outputs of reiterated docking runs.
Bottegoni G, Cavalli A, Recanatini M, J Chem Inf Model, 2006 Mar-Apr - link