Pierre Tufféry

Publication Activity (10 Years)

Years Active: 1988-2023
Publications (10 Years): 14

Top Topics

Protein Structure

Tandem Mass Spectrometry

Top Venues

Nucleic Acids Res.

Database J. Biol. Databases Curation

J. Chem. Inf. Model.

Publications

Yasaman Karami, Samuel Murail, Julien Giribaldi, Benjamin Lefranc, Florian Defontaine, Olivier Lesouhaitier, Jérôme Leprince, Sjoerd Jacob de Vries, Pierre Tufféry
Exploring a Structural Data Mining Approach to Design Linkers for Head-to-Tail Peptide Cyclization. J. Chem. Inf. Model. 63 (20) (2023)
Julien Rey, Samuel Murail, Sjoerd Jacob de Vries, Philippe Derreumaux, Pierre Tufféry
PEP-FOLD4: a pH-dependent force field for peptide structure prediction in aqueous solution. Nucleic Acids Res. 51 (W1) (2023)
Florent Barbault, Éric Brémond, Julien Rey, Pierre Tufféry, François Maurel
DockSurf: A Molecular Modeling Software for the Prediction of Protein/Surface Adhesion. J. Chem. Inf. Model. 63 (16) (2023)
Pierre Tufféry, Philippe Derreumaux
A refined pH-dependent coarse-grained model for peptide structure prediction in aqueous solution. Frontiers Bioinform. 3 (2023)
Guillaume Postic, Jessica Andreani, Julien Marcoux, Victor Reys, Raphaël Guérois, Julien Rey, Emmanuelle Mouton-Barbosa, Yves Vandenbrouck, Sarah Cianférani, Odile Burlet-Schiltz, Gilles Labesse, Pierre Tufféry
Proteo3Dnet: a web server for the integration of structural information with interactomics data. Nucleic Acids Res. 49 (Webserver-Issue) (2021)
Chloé Quignot, Guillaume Postic, Hélène Bret, Julien Rey, Pierre Granger, Samuel Murail, Pablo Chacón, Jessica Andreani, Pierre Tufféry, Raphaël Guérois
InterEvDock3: a combined template-based and free docking server with increased performance through explicit modeling of complex homologs and integration of covariation-based contact maps. Nucleic Acids Res. 49 (Webserver-Issue) (2021)
Julien Rey, Inès Rasolohery, Pierre Tufféry, Frédéric Guyon, Gautier Moroy
PatchSearch: a web server for off-target protein identification. Nucleic Acids Res. 47 (Webserver-Issue) (2019)
Yasaman Karami, Julien Rey, Guillaume Postic, Samuel Murail, Pierre Tufféry, Sjoerd J. de Vries
DaReUS-Loop: a web server to model multiple loops in homology models. Nucleic Acids Res. 47 (Webserver-Issue) (2019)
Chloé Quignot, Julien Rey, Jinchao Yu, Pierre Tufféry, Raphaël Guérois, Jessica Andreani
InterEvDock2: an expanded server for protein docking using evolutionary and biological information from homology models and multimeric inputs. Nucleic Acids Res. 46 (Webserver-Issue) (2018)
Sjoerd J. de Vries, Julien Rey, Christina E. M. Schindler, Martin Zacharias, Pierre Tufféry
The pepATTRACT web server for blind, large-scale peptide-protein docking. Nucleic Acids Res. 45 (Webserver-Issue) (2017)
Marie-Amandine Laurent, Dominique Bonnier, Nathalie Théret, Pierre Tufféry, Gautier Moroy
In silico characterization of the interaction between LSKL peptide, a LAP-TGF-beta derived peptide, and ADAMTS1. Comput. Biol. Chem. 61 (2016)
Alexis Lamiable, Pierre Thévenet, Pierre Tufféry
A critical assessment of hidden markov model sub-optimal sampling strategies applied to the generation of peptide 3D models. J. Comput. Chem. 37 (21) (2016)
Jinchao Yu, Marek Vavrusa, Jessica Andreani, Julien Rey, Pierre Tufféry, Raphaël Guérois
InterEvDock: a docking server to predict the structure of protein-protein interactions using evolutionary information. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
Alexis Lamiable, Pierre Thévenet, Julien Rey, Marek Vavrusa, Philippe Derreumaux, Pierre Tufféry
PEP-FOLD3: faster de novo structure prediction for linear peptides in solution and in complex. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
Frédéric Guyon, François Martz, Marek Vavrusa, Jérôme Bécot, Julien Rey, Pierre Tufféry
BCSearch: fast structural fragment mining over large collections of protein structures. Nucleic Acids Res. 43 (Webserver-Issue) (2015)
Céline M. Labbé, Julien Rey, David Lagorce, Marek Vavrusa, Jérôme Bécot, Olivier Sperandio, Bruno O. Villoutreix, Pierre Tufféry, Maria A. Miteva
MTiOpenScreen: a web server for structure-based virtual screening. Nucleic Acids Res. 43 (Webserver-Issue) (2015)
Jinchao Yu, Géraldine Picord, Pierre Tufféry, Raphaël Guérois
HHalign-Kbest: exploring sub-optimal alignments for remote homology comparative modeling. Bioinform. 31 (23) (2015)
Julien Rey, Patrick Deschavanne, Pierre Tufféry
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes. Database J. Biol. Databases Curation 2014 (2014)
Adrien Saladin, Julien Rey, Pierre Thévenet, Martin Zacharias, Gautier Moroy, Pierre Tufféry
PEP-SiteFinder: a tool for the blind identification of peptide binding sites on protein surfaces. Nucleic Acids Res. 42 (Webserver-Issue) (2014)
Frédéric Guyon, Pierre Tufféry
Fast protein fragment similarity scoring using a Binet-Cauchy kernel. Bioinform. 30 (6) (2014)
Julien Rey, Patrick Deschavanne, Pierre Tufféry
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes. Database J. Biol. Databases Curation 2014 (2014)
Pierre Thévenet, Pierre Tufféry
Exploring a Sub-optimal Hidden Markov Model Sampling Approach for De Novo Peptide Structure Modeling. BIOINFORMATICS (2014)
Pierre Thévenet, Yimin Shen, Julien Maupetit, Frédéric Guyon, Philippe Derreumaux, Pierre Tufféry
structure prediction server for both linear and disulfide bonded cyclic peptides. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
David Lagorce, Julien Maupetit, Jonathan B. Baell, Olivier Sperandio, Pierre Tufféry, Maria A. Miteva, Hervé Galons, Bruno O. Villoutreix
The FAF-Drugs2 server: a multistep engine to prepare electronic chemical compound collections. Bioinform. 27 (14) (2011)
Maria A. Miteva, Frédéric Guyon, Pierre Tufféry
Frog2: Efficient 3D conformation ensemble generator for small compounds. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Peter Schmidtke, Vincent Le Guilloux, Julien Maupetit, Pierre Tufféry
fpocket: online tools for protein ensemble pocket detection and tracking. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Hervé Ménager, Vivek Gopalan, Bertrand Néron, Sandrine Larroudé, Julien Maupetit, Adrien Saladin, Pierre Tufféry, Yentram Huyen, Bernard Caudron
Bioinformatics Applications Discovery and Composition with the Mobyle Suite and MobyleNet. RED (2010)
Julien Maupetit, Philippe Derreumaux, Pierre Tufféry
peptide and miniprotein structure prediction. J. Comput. Chem. 31 (4) (2010)
Edouard Strauser, Mikaël Naveau, Hervé Ménager, Julien Maupetit, Zoé Lacroix, Pierre Tufféry
Semantic Map for Structural Bioinformatics: Enhanced Service Discovery Based on High Level Concept Ontology. RED (2010)
Bertrand Néron, Hervé Ménager, Corinne Maufrais, Nicolas Joly, Julien Maupetit, Sébastien Letort, Sébastien Carrère, Pierre Tufféry, Catherine Letondal
Mobyle: a new full web bioinformatics framework. Bioinform. 25 (22) (2009)
Olivier Sperandio, Michel Petitjean, Pierre Tufféry
wwLigCSRre: a 3D ligand-based server for hit identification and optimization. Nucleic Acids Res. 37 (Web-Server-Issue) (2009)
Flavien Quintus, Olivier Sperandio, Julien Grynberg, Michel Petitjean, Pierre Tufféry
Ligand scaffold hopping combining 3D maximal substructure search and molecular similarity. BMC Bioinform. 10 (2009)
Vincent Le Guilloux, Peter Schmidtke, Pierre Tufféry
Fpocket: An open source platform for ligand pocket detection. BMC Bioinform. 10 (2009)
Julien Maupetit, Philippe Derreumaux, Pierre Tufféry
peptide structure prediction. Nucleic Acids Res. 37 (Web-Server-Issue) (2009)
Leslie Regad, Frédéric Guyon, Julien Maupetit, Pierre Tufféry, Anne-Claude Camproux
A Hidden Markov Model applied to the protein 3D structure analysis. Comput. Stat. Data Anal. 52 (6) (2008)
Hervé Ménager, Zoé Lacroix, Pierre Tufféry
Bioinformatics Services Discovery Using Ontology Classification. IEEE SCW (2007)
Ludovic Autin, Pierre Tufféry
PMG: online generation of high-quality molecular pictures and storyboarded animations. Nucleic Acids Res. 35 (Web-Server-Issue) (2007)
T. Bohme Leite, D. Gomes, Maria A. Miteva, Jacques Chomilier, Bruno O. Villoutreix, Pierre Tufféry
Frog: a FRee Online druG 3D conformation generator. Nucleic Acids Res. 35 (Web-Server-Issue) (2007)
Julien Maupetit, R. Gautier, Pierre Tufféry
SABBAC: online Structural Alphabet-based protein BackBone reconstruction from Alpha-Carbon trace. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Pierre Tufféry, Zoé Lacroix, Hervé Ménager
Semantic Map of Services for Structural Bioinformatics. SSDBM (2006)
Maria A. Miteva, Stephanie Violas, Matthieu Montès, David Gomez, Pierre Tufféry, Bruno O. Villoutreix
FAF-Drugs: free ADME/tox filtering of compound collections. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Maria A. Miteva, Pierre Tufféry, Bruno O. Villoutreix
PCE: web tools to compute protein continuum electrostatics. Nucleic Acids Res. 33 (Web-Server-Issue) (2005)
Cédric Binisti, Ahmed Ali Salim, Pierre Tufféry
PPG: online generation of protein pictures and animations. Nucleic Acids Res. 33 (Web-Server-Issue) (2005)
Pierre Tufféry, Frédéric Guyon, Philippe Derreumaux
Improved greedy algorithm for protein structure reconstruction. J. Comput. Chem. 26 (5) (2005)
C. Alland, F. Moreews, D. Boens, Mathilde Carpentier, S. Chiusa, Mathieu Lonquety, N. Renault, Y. Wong, Hubert Cantalloube, Jacques Chomilier, Joëlle Hochez, Joël Pothier, Bruno O. Villoutreix, Jean-François Zagury, Pierre Tufféry
RPBS: a web resource for structural bioinformatics. Nucleic Acids Res. 33 (Web-Server-Issue) (2005)
Frédéric Guyon, Anne-Claude Camproux, Joëlle Hochez, Pierre Tufféry
SA-Search: a web tool for protein structure mining based on a Structural Alphabet. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
R. Gautier, Anne-Claude Camproux, Pierre Tufféry
SCit: web tools for protein side chain conformation analysis. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
R. Gautier, Pierre Tufféry
Critical assessment of side-chain conformational space sampling procedures designed for quantifying the effect of side-chain environment. J. Comput. Chem. 24 (15) (2003)
Pierre Tufféry
CS-PSeq-Gen: Simulating the evolution of protein sequence under constraints. Bioinform. 18 (7) (2002)
Marie-Hélène Mucchielli-Giorgi, Serge A. Hazout, Pierre Tufféry
PredAcc: prediction of solvent accessibility. Bioinform. 15 (2) (1999)
Pierre Tufféry, Catherine Etchebest, Serge A. Hazout, Richard Lavery
A critical comparison of search algorithms applied to the optimization of protein side-chain conformations. J. Comput. Chem. 14 (7) (1993)
Pierre Tufféry, Philippe Dessen, C. Mugnier, Serge A. Hazout
Restriction map construction using a 'complete sentences compatibility' algorithm. Comput. Appl. Biosci. 4 (1) (1988)