David W. Ritchie

37 papers A 1Misc 1Journal 28Unranked 6

Year	Rank	Type	Title / Venue / Authors
2021	J	`jnl`	PPIDomainMiner: Inferring domain-domain interactions from multiple sources of protein-protein interactions. PLoS Comput. Biol. Seyed Ziaeddin Alborzi, Amina Ahmed Nacer, Hiba Najjar, David W. Ritchie, Marie-Dominique Devignes
2020	J	`jnl`	GrAPFI: predicting enzymatic function of proteins from domain similarity graphs. BMC Bioinform. Bishnu Sarker, David W. Ritchie, Sabeur Aridhi
2019	J	`jnl`	EROS-DOCK: protein-protein docking using exhaustive branch-and-bound rotational search. Bioinform. Maria Elisa Ruiz Echartea, Isaure Chauvot de Beauchêne, David W. Ritchie
2019	—	`conf`	Functional Annotation of Proteins using Domain Embedding based Sequence Classification. KDIR Bishnu Sarker, David W. Ritchie, Sabeur Aridhi
2018	J	`jnl`	Computational discovery of direct associations between GO terms and protein domains. BMC Bioinform. Seyed Ziaeddin Alborzi, David W. Ritchie, Marie-Dominique Devignes
2018	—	`conf`	Exploiting Complex Protein Domain Networks for Protein Function Annotation. COMPLEX NETWORKS (2) Bishnu Sarker, David W. Ritchie, Sabeur Aridhi
2017	—	`conf`	Associating Gene Ontology Terms with Pfam Protein Domains. IWBBIO (2) Seyed Ziaeddin Alborzi, Marie-Dominique Devignes, David W. Ritchie
2017	J	`jnl`	ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains. BMC Bioinform. Seyed Ziaeddin Alborzi, Marie-Dominique Devignes, David W. Ritchie
2017	J	`jnl`	Neighborhood-Based Label Propagation in Large Protein Graphs. CoRR Sabeur Aridhi, Seyed Ziaeddin Alborzi, Malika Smaïl-Tabbone, Marie-Dominique Devignes, David W. Ritchie
2016	J	`jnl`	Calculating and scoring high quality multiple flexible protein structure alignments. Bioinform. David W. Ritchie
2016	J	`jnl`	Kbdock - Searching and Organising the Structural Space of Protein-Protein Interactions. ERCIM News Marie-Dominique Devignes, Malika Smaïl-Tabbone, David W. Ritchie
2016	J	`jnl`	PEPSI-Dock: a detailed data-driven protein-protein interaction potential accelerated by polar Fourier correlation. Bioinform. Émilie Neveu, David W. Ritchie, Petr Popov, Sergei Grudinin
2015	J	`jnl`	GESSE: Predicting Drug Side Effects from Drug-Target Relationships. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, Michel Souchet, Arnaud Sinan Karaboga, David W. Ritchie
2014	J	`jnl`	GES Polypharmacology Fingerprints: A Novel Approach for Drug Repositioning. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, Arnaud Sinan Karaboga, Michel Souchet, David W. Ritchie
2014	J	`jnl`	KBDOCK 2013: a spatial classification of 3D protein domain family interactions. Nucleic Acids Res. Anisah W. Ghoorah, Marie-Dominique Devignes, Malika Smaïl-Tabbone, David W. Ritchie
2012	J	`jnl`	Detecting Drug Promiscuity Using Gaussian Ensemble Screening. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, Vishwesh Venkatraman, Lazaros Mavridis, David W. Ritchie
2012	J	`jnl`	Fast protein structure alignment using Gaussian overlap scoring of backbone peptide fragment similarity. Bioinform. David W. Ritchie, Anisah W. Ghoorah, Lazaros Mavridis, Vishwesh Venkatraman
2012	J	`jnl`	Predicting Multi-Component Protein Assemblies Using an Ant Colony Approach. Int. J. Swarm Intell. Res. Vishwesh Venkatraman, David W. Ritchie
2011	—	`book`	Algorithmes Haute-Performance pour la Reconnaissance de Formes Moléculaires. (High Performance Algorithms for Molecular Shape Recognition). David W. Ritchie
2011	J	`jnl`	Predicting drug polypharmacology using a novel surface property similarity-based approach. J. Cheminformatics Violeta I. Pérez-Nueno, Vishwesh Venkatraman, Lazaros Mavridis, David W. Ritchie
2011	J	`jnl`	Spatial clustering of protein binding sites for template based protein docking. Bioinform. Anisah W. Ghoorah, Marie-Dominique Devignes, Malika Smaïl-Tabbone, David W. Ritchie
2011	J	`jnl`	Using Consensus-Shape Clustering To Identify Promiscuous Ligands and Protein Targets and To Choose the Right Query for Shape-Based Virtual Screening. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, David W. Ritchie
2011	—	`conf`	Using Kendall-τ Meta-Bagging to Improve Protein-Protein Docking Predictions. PRIB Jérôme Azé, Thomas Bourquard, Sylvie Hamel, Anne Poupon, David W. Ritchie
2010	Misc	`conf`	3D-Blast: 3D Protein Structure Alignment, Comparison, and Classification Using Spherical Polar Fourier Correlations. Pacific Symposium on Biocomputing Lazaros Mavridis, David W. Ritchie
2010	J	`jnl`	Comprehensive Comparison of Ligand-Based Virtual Screening Tools Against the DUD Data set Reveals Limitations of Current 3D Methods. J. Chem. Inf. Model. Vishwesh Venkatraman, Violeta I. Pérez-Nueno, Lazaros Mavridis, David W. Ritchie
2010	J	`jnl`	HexServer: an FFT-based protein docking server powered by graphics processors. Nucleic Acids Res. Gary Macindoe, Lazaros Mavridis, Vishwesh Venkatraman, Marie-Dominique Devignes, David W. Ritchie
2010	—	`conf`	SHREC'10 Track: Protein Model Classification. 3DOR@Eurographics Lazaros Mavridis, Vishwesh Venkatraman, David W. Ritchie, Naoto Morikawa, Rumen Andonov, Alexandre Cornu, Noël Malod-Dognin, Jacques Nicolas, Maja Temerinac-Ott, Marco Reisert, Hans Burkhardt, Apostolos Axenopoulos, Petros Daras
2010	J	`jnl`	Ultra-fast FFT protein docking on graphics processors. Bioinform. David W. Ritchie, Vishwesh Venkatraman
2010	—	`conf`	Using Graphics Processors to Accelerate Protein Docking Calculations. HealthGrid David W. Ritchie, Vishwesh Venkatraman, Lazaros Mavridis
2009	J	`jnl`	Discovery of Novel HIV Entry Inhibitors for the CXCR4 Receptor by Prospective Virtual Screening. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, Sofia Pettersson, David W. Ritchie, José I. Borrell, Jordi Teixidó
2008	J	`jnl`	Accelerating and focusing protein-protein docking correlations using multi-dimensional rotational FFT generating functions. Bioinform. David W. Ritchie, Dima Kozakov, Sandor Vajda
2008	J	`jnl`	Clustering and Classifying Diverse HIV Entry Inhibitors Using a Novel Consensus Shape-Based Virtual Screening Approach: Further Evidence for Multiple Binding Sites within the CCR5 Extracellular Pocket. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, David W. Ritchie, José I. Borrell, Jordi Teixidó
2008	J	`jnl`	Comparison of Ligand-Based and Receptor-Based Virtual Screening of HIV Entry Inhibitors for the CXCR4 and CCR5 Receptors Using 3D Ligand Shape Matching and Ligand-Receptor Docking. J. Chem. Inf. Model. Violeta I. Pérez-Nueno, David W. Ritchie, Obdulia Rabal, Rosalia Pascual, José I. Borrell, Jordi Teixidó
2007	J	`jnl`	Toward High Throughput 3D Virtual Screening Using Spherical Harmonic Surface Representations. J. Chem. Inf. Model. Lazaros Mavridis, Brian D. Hudson, David W. Ritchie
2006	J	`jnl`	Modeling the Structural Basis of Human CCR5 Chemokine Receptor Function: From Homology Model Building and Molecular Dynamics Validation to Agonist and Antagonist Docking. J. Chem. Inf. Model. Alessandra Fano, David W. Ritchie, Antonio Carrieri
1999	J	`jnl`	Fast computation, rotation, and comparison of low resolution spherical harmonic molecular surfaces. J. Comput. Chem. David W. Ritchie, Graham J. L. Kemp
1997	A	`conf`	Modeling Antibody Side Chain Conformations Using Heuristic Database Search. ISMB David W. Ritchie, Graham J. L. Kemp