Pushing structural information into the yeast interactome by high-throughput protein docking experiments.
Mosca R, Pons C, Fernandez-Recio J, Aloy P, PLoS Comput Biol, 2009 Aug - link

Automated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking.
Aloy P, Querol E, Aviles FX, Sternberg MJ, J Mol Biol, 2001 Aug 10 - link

Modelling repressor proteins docking to DNA.
Aloy P, Moont G, Gabb HA, Querol E, Aviles FX, Sternberg MJ, Proteins, 1998 Dec 1 - link

A computational system for modelling flexible protein-protein and protein-DNA docking.
Sternberg MJ, Aloy P, Gabb HA, Jackson RM, Moont G, Querol E, Aviles FX, Proc Int Conf Intell Syst Mol Biol, 1998 - link