Convergence and combination of methods in protein-protein docking.
Vajda S, Kozakov D, Curr Opin Struct Biol, 2009 Apr - link

DARS (Decoys As the Reference State) potentials for protein-protein docking.
Chuang GY, Kozakov D, Brenke R, Comeau SR, Vajda S, Biophys J, 2008 Nov 1 - link

Accelerating and focusing protein-protein docking correlations using multi-dimensional rotational FFT generating functions.
Ritchie DW, Kozakov D, Vajda S, Bioinformatics, 2008 Sep 1 - link

Discrimination of near-native structures in protein-protein docking by testing the stability of local minima.
Kozakov D, Schueler-Furman O, Vajda S, Proteins, 2008 Aug 15 - link

Docking with PIPER and refinement with SDU in rounds 6-11 of CAPRI.
Shen Y, Brenke R, Kozakov D, Comeau SR, Beglov D, Vajda S, Proteins, 2007 Dec 1 - link

PIPER: an FFT-based protein docking program with pairwise potentials.
Kozakov D, Brenke R, Comeau SR, Vajda S, Proteins, 2006 Nov 1 - link

Optimal clustering for detecting near-native conformations in protein docking.
Kozakov D, Clodfelter KH, Vajda S, Camacho CJ, Biophys J, 2005 Aug - link