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Scoring protein interaction decoys using exposed residues (SPIDER): A novel multibody interaction scoring function based on frequent geometric patterns of interfacial residues

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Use of pair potentials across protein interfaces in screening predicted docked complexes

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Protein docking using spherical polar Fourier correlations

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Residue frequencies and pairing preferences at protein-protein interfaces

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Best Practices for QSAR Model Development, Validation, and Exploitation

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A desolvation barrier to hydrophobic cluster formation may contribute to the rate‐limiting step in protein folding

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Anti‐cooperativity and cooperativity in hydrophobic interactions: Three‐body free energy landscapes and comparison with implicit‐solvent potential functions for proteins

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CAPRI: A Critical Assessment of PRedicted Interactions

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Geometric cooperativity and anticooperativity of three‐body interactions in native proteins

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Multibody coarse‐grained potentials for native structure recognition and quality assessment of protein models

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Free energies for coarse-grained proteins by integrating multibody statistical contact potentials with entropies from elastic network models

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Community-Wide Assessment of Protein-Interface Modeling Suggests Improvements to Design Methodology

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Development of Unified Statistical Potentials Describing Protein-Protein Interactions

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Simplicial Neighborhood Analysis of Protein Packing (SNAPP): A Computational Geometry Approach to Studying Proteins

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Scoring by Intermolecular Pairwise Propensities of Exposed Residues (SIPPER): A New Efficient Potential for Protein−Protein Docking

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Combined Application of Cheminformatics- and Physical Force Field-Based Scoring Functions Improves Binding Affinity Prediction for CSAR Data Sets

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Cheminformatics Meets Molecular Mechanics: A Combined Application of Knowledge-Based Pose Scoring and Physical Force Field-Based Hit Scoring Functions Improves the Accuracy of Structure-Based Virtual Screening

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Delaunay Tessellation of Proteins: Four Body Nearest-Neighbor Propensities of Amino Acid Residues

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Development of a four-body statistical pseudo-potential to discriminate native from non-native protein conformations

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D ockground resource for studying protein–protein interfaces

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A new protein–protein docking scoring function based on interface residue properties

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FRODOCK: a new approach for fast rotational protein–protein docking

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The Protein Data Bank

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Efficient mining of frequent subgraphs in the presence of isomorphism

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An accurate, residue‐level, pair potential of mean force for folding and binding based on the distance‐scaled, ideal‐gas reference state

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Improved side‐chain modeling for protein–protein docking

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Molecular simulation study of cooperativity in hydrophobic association

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Computational Design of Proteins Targeting the Conserved Stem Region of Influenza Hemagglutinin

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Mining protein family specific residue packing patterns from protein structure graphs

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QSAR Applicability Domain Estimation by Projection of the Training Set in Descriptor Space: A Review

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Alignment of Non-Covalent Interactions at Protein-Protein Interfaces

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Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Improved prediction of accessible surface area results in efficient energy function application

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iScore: An MPI supported software for ranking protein–protein docking models based on a random walk graph kernel and support vector machines

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Identification of a Substrate-selective Exosite within the Metalloproteinase Anthrax Lethal Factor

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InterEvScore: a novel coarse-grained interface scoring function using a multi-body statistical potential coupled to evolution

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