Predicting protein-protein interactions on a proteome scale by matching evolutionary and structural similarities at interfaces using PRISM

Structure-based systems biology for analyzing off-target binding

(2011) Lei Xie et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Allostery and population shift in drug discovery

(2010) Gozde Kar et al.   CURRENT OPINION IN PHARMACOLOGY

The HADDOCK web server for data-driven biomolecular docking

(2010) Sjoerd J de Vries et al.   Nature Protocols

HotPoint: hot spot prediction server for protein interfaces

(2010) N. Tuncbag et al.   NUCLEIC ACIDS RESEARCH

Docking by structural similarity at protein-protein interfaces

(2010) Rohita Sinha et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

An integrated suite of fast docking algorithms

(2010) Efrat Mashiach et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Beauty Is in the Eye of the Beholder: Proteins Can Recognize Binding Sites of Homologous Proteins in More than One Way

(2010) Juliette Martin   PLoS Computational Biology

Accuracy of Protein-Protein Binding Sites in High-Throughput Template-Based Modeling

(2010) Petras J. Kundrotas et al.   PLoS Computational Biology

Identification of computational hot spots in protein interfaces: combining solvent accessibility and inter-residue potentials improves the accuracy

(2009) Nurcan Tuncbag et al.   BIOINFORMATICS

Towards inferring time dimensionality in protein–protein interaction networks by integrating structures: the p53 example

(2009) Nurcan Tuncbag et al.   Molecular BioSystems

Human Cancer Protein-Protein Interaction Network: A Structural Perspective

(2009) Gozde Kar et al.   PLoS Computational Biology

3D-Garden: a system for modelling protein–protein complexes based on conformational refinement of ensembles generated with the marching cubes algorithm

(2008) Victor I. Lesk et al.   BIOINFORMATICS

Homology-based modeling of 3D structures of protein–protein complexes using alignments of modified sequence profiles

(2008) Petras J. Kundrotas et al.   INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES

Architectures and Functional Coverage of Protein–Protein Interfaces

(2008) Nurcan Tuncbag et al.   JOURNAL OF MOLECULAR BIOLOGY

Principles of flexible protein-protein docking

(2008) Nelly Andrusier et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein-protein docking benchmark version 3.0

(2008) Howook Hwang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS