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ORCIDBibTeX records: Pierre Tufféry
@article{DBLP:journals/fbinf/TufferyD23,
author = {Pierre Tuff{\'{e}}ry and
Philippe Derreumaux},
title = {A refined pH-dependent coarse-grained model for peptide structure
prediction in aqueous solution},
journal = {Frontiers Bioinform.},
volume = {3},
year = {2023},
url = {https://doi.org/10.3389/fbinf.2023.1113928},
doi = {10.3389/FBINF.2023.1113928},
timestamp = {Fri, 18 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/fbinf/TufferyD23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/BarbaultBRTM23,
author = {Florent Barbault and
{\'{E}}ric Br{\'{e}}mond and
Julien Rey and
Pierre Tuff{\'{e}}ry and
Fran{\c{c}}ois Maurel},
title = {DockSurf: {A} Molecular Modeling Software for the Prediction of Protein/Surface
Adhesion},
journal = {J. Chem. Inf. Model.},
volume = {63},
number = {16},
pages = {5220--5231},
year = {2023},
url = {https://doi.org/10.1021/acs.jcim.3c00569},
doi = {10.1021/ACS.JCIM.3C00569},
timestamp = {Sat, 14 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/BarbaultBRTM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/KaramiMGLDLLVT23,
author = {Yasaman Karami and
Samuel Murail and
Julien Giribaldi and
Benjamin Lefranc and
Florian Defontaine and
Olivier Lesouhaitier and
J{\'{e}}r{\^{o}}me Leprince and
Sjoerd Jacob de Vries and
Pierre Tuff{\'{e}}ry},
title = {Exploring a Structural Data Mining Approach to Design Linkers for
Head-to-Tail Peptide Cyclization},
journal = {J. Chem. Inf. Model.},
volume = {63},
number = {20},
pages = {6436--6450},
year = {2023},
url = {https://doi.org/10.1021/acs.jcim.3c00865},
doi = {10.1021/ACS.JCIM.3C00865},
timestamp = {Sun, 10 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/KaramiMGLDLLVT23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ReyMVDT23,
author = {Julien Rey and
Samuel Murail and
Sjoerd Jacob de Vries and
Philippe Derreumaux and
Pierre Tuff{\'{e}}ry},
title = {{PEP-FOLD4:} a pH-dependent force field for peptide structure prediction
in aqueous solution},
journal = {Nucleic Acids Res.},
volume = {51},
number = {{W1}},
pages = {432--437},
year = {2023},
url = {https://doi.org/10.1093/nar/gkad376},
doi = {10.1093/NAR/GKAD376},
timestamp = {Sat, 19 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ReyMVDT23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/QuignotPBRGMCAT21,
author = {Chlo{\'{e}} Quignot and
Guillaume Postic and
H{\'{e}}l{\`{e}}ne Bret and
Julien Rey and
Pierre Granger and
Samuel Murail and
Pablo Chac{\'{o}}n and
Jessica Andreani and
Pierre Tuff{\'{e}}ry and
Rapha{\"{e}}l Gu{\'{e}}rois},
title = {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},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Webserver-Issue},
pages = {277--284},
year = {2021},
url = {https://doi.org/10.1093/nar/gkab358},
doi = {10.1093/NAR/GKAB358},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/QuignotPBRGMCAT21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/PosticAMRGRMVCB21,
author = {Guillaume Postic and
Jessica Andreani and
Julien Marcoux and
Victor Reys and
Rapha{\"{e}}l Gu{\'{e}}rois and
Julien Rey and
Emmanuelle Mouton{-}Barbosa and
Yves Vandenbrouck and
Sarah Cianf{\'{e}}rani and
Odile Burlet{-}Schiltz and
Gilles Labesse and
Pierre Tuff{\'{e}}ry},
title = {Proteo3Dnet: a web server for the integration of structural information
with interactomics data},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Webserver-Issue},
pages = {567--572},
year = {2021},
url = {https://doi.org/10.1093/nar/gkab332},
doi = {10.1093/NAR/GKAB332},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/PosticAMRGRMVCB21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ReyRTGM19,
author = {Julien Rey and
In{\`{e}}s Rasolohery and
Pierre Tuff{\'{e}}ry and
Fr{\'{e}}d{\'{e}}ric Guyon and
Gautier Moroy},
title = {PatchSearch: a web server for off-target protein identification},
journal = {Nucleic Acids Res.},
volume = {47},
number = {Webserver-Issue},
pages = {W365--W372},
year = {2019},
url = {https://doi.org/10.1093/nar/gkz478},
doi = {10.1093/NAR/GKZ478},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ReyRTGM19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/KaramiRPMTV19,
author = {Yasaman Karami and
Julien Rey and
Guillaume Postic and
Samuel Murail and
Pierre Tuff{\'{e}}ry and
Sjoerd Jacob de Vries},
title = {DaReUS-Loop: a web server to model multiple loops in homology models},
journal = {Nucleic Acids Res.},
volume = {47},
number = {Webserver-Issue},
pages = {W423--W428},
year = {2019},
url = {https://doi.org/10.1093/nar/gkz403},
doi = {10.1093/NAR/GKZ403},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/KaramiRPMTV19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/QuignotRYTGA18,
author = {Chlo{\'{e}} Quignot and
Julien Rey and
Jinchao Yu and
Pierre Tuff{\'{e}}ry and
Rapha{\"{e}}l Gu{\'{e}}rois and
Jessica Andreani},
title = {InterEvDock2: an expanded server for protein docking using evolutionary
and biological information from homology models and multimeric inputs},
journal = {Nucleic Acids Res.},
volume = {46},
number = {Webserver-Issue},
pages = {W408--W416},
year = {2018},
url = {https://doi.org/10.1093/nar/gky377},
doi = {10.1093/NAR/GKY377},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/QuignotRYTGA18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/VriesRSZT17,
author = {Sjoerd Jacob de Vries and
Julien Rey and
Christina E. M. Schindler and
Martin Zacharias and
Pierre Tuff{\'{e}}ry},
title = {The pepATTRACT web server for blind, large-scale peptide-protein docking},
journal = {Nucleic Acids Res.},
volume = {45},
number = {Webserver-Issue},
pages = {W361--W364},
year = {2017},
url = {https://doi.org/10.1093/nar/gkx335},
doi = {10.1093/NAR/GKX335},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/VriesRSZT17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/candc/LaurentBTTM16,
author = {Marie{-}Amandine Laurent and
Dominique Bonnier and
Nathalie Th{\'{e}}ret and
Pierre Tuff{\'{e}}ry and
Gautier Moroy},
title = {In silico characterization of the interaction between {LSKL} peptide,
a LAP-TGF-beta derived peptide, and {ADAMTS1}},
journal = {Comput. Biol. Chem.},
volume = {61},
pages = {155--161},
year = {2016},
url = {https://doi.org/10.1016/j.compbiolchem.2016.01.012},
doi = {10.1016/J.COMPBIOLCHEM.2016.01.012},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/candc/LaurentBTTM16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/LamiableTT16,
author = {Alexis Lamiable and
Pierre Th{\'{e}}venet and
Pierre Tuff{\'{e}}ry},
title = {A critical assessment of hidden markov model sub-optimal sampling
strategies applied to the generation of peptide 3D models},
journal = {J. Comput. Chem.},
volume = {37},
number = {21},
pages = {2006--2016},
year = {2016},
url = {https://doi.org/10.1002/jcc.24422},
doi = {10.1002/JCC.24422},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcc/LamiableTT16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LamiableTRVDT16,
author = {Alexis Lamiable and
Pierre Th{\'{e}}venet and
Julien Rey and
Marek Vavrusa and
Philippe Derreumaux and
Pierre Tuff{\'{e}}ry},
title = {{PEP-FOLD3:} faster de novo structure prediction for linear peptides
in solution and in complex},
journal = {Nucleic Acids Res.},
volume = {44},
number = {Webserver-Issue},
pages = {W449--W454},
year = {2016},
url = {https://doi.org/10.1093/nar/gkw329},
doi = {10.1093/NAR/GKW329},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/LamiableTRVDT16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/YuVARTG16,
author = {Jinchao Yu and
Marek Vavrusa and
Jessica Andreani and
Julien Rey and
Pierre Tuff{\'{e}}ry and
Rapha{\"{e}}l Gu{\'{e}}rois},
title = {InterEvDock: a docking server to predict the structure of protein-protein
interactions using evolutionary information},
journal = {Nucleic Acids Res.},
volume = {44},
number = {Webserver-Issue},
pages = {W542--W549},
year = {2016},
url = {https://doi.org/10.1093/nar/gkw340},
doi = {10.1093/NAR/GKW340},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/YuVARTG16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YuPTG15,
author = {Jinchao Yu and
G{\'{e}}raldine Picord and
Pierre Tuff{\'{e}}ry and
Rapha{\"{e}}l Gu{\'{e}}rois},
title = {HHalign-Kbest: exploring sub-optimal alignments for remote homology
comparative modeling},
journal = {Bioinform.},
volume = {31},
number = {23},
pages = {3850--3852},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btv441},
doi = {10.1093/BIOINFORMATICS/BTV441},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/YuPTG15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GuyonMVBRT15,
author = {Fr{\'{e}}d{\'{e}}ric Guyon and
Fran{\c{c}}ois Martz and
Marek Vavrusa and
J{\'{e}}r{\^{o}}me B{\'{e}}cot and
Julien Rey and
Pierre Tuff{\'{e}}ry},
title = {BCSearch: fast structural fragment mining over large collections of
protein structures},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W378--W382},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv492},
doi = {10.1093/NAR/GKV492},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GuyonMVBRT15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LabbeRLVBSVTM15,
author = {C{\'{e}}line M. Labb{\'{e}} and
Julien Rey and
David Lagorce and
Marek Vavrusa and
J{\'{e}}r{\^{o}}me B{\'{e}}cot and
Olivier Sperandio and
Bruno O. Villoutreix and
Pierre Tuff{\'{e}}ry and
Maria A. Miteva},
title = {MTiOpenScreen: a web server for structure-based virtual screening},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W448--W454},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv306},
doi = {10.1093/NAR/GKV306},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/LabbeRLVBSVTM15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/ReyDT14,
author = {Julien Rey and
Patrick Deschavanne and
Pierre Tuff{\'{e}}ry},
title = {BactPepDB: a database of predicted peptides from a exhaustive survey
of complete prokaryote genomes},
journal = {Database J. Biol. Databases Curation},
volume = {2014},
year = {2014},
url = {https://doi.org/10.1093/database/bau106},
doi = {10.1093/DATABASE/BAU106},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodb/ReyDT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/ReyDT14a,
author = {Julien Rey and
Patrick Deschavanne and
Pierre Tuff{\'{e}}ry},
title = {BactPepDB: a database of predicted peptides from a exhaustive survey
of complete prokaryote genomes},
journal = {Database J. Biol. Databases Curation},
volume = {2014},
year = {2014},
url = {https://doi.org/10.1093/database/bau119},
doi = {10.1093/DATABASE/BAU119},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/biodb/ReyDT14a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GuyonT14,
author = {Fr{\'{e}}d{\'{e}}ric Guyon and
Pierre Tuff{\'{e}}ry},
title = {Fast protein fragment similarity scoring using a Binet-Cauchy kernel},
journal = {Bioinform.},
volume = {30},
number = {6},
pages = {784--791},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btt618},
doi = {10.1093/BIOINFORMATICS/BTT618},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/GuyonT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SaladinRTZMT14,
author = {Adrien Saladin and
Julien Rey and
Pierre Th{\'{e}}venet and
Martin Zacharias and
Gautier Moroy and
Pierre Tuff{\'{e}}ry},
title = {PEP-SiteFinder: a tool for the blind identification of peptide binding
sites on protein surfaces},
journal = {Nucleic Acids Res.},
volume = {42},
number = {Webserver-Issue},
pages = {221--226},
year = {2014},
url = {https://doi.org/10.1093/nar/gku404},
doi = {10.1093/NAR/GKU404},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/SaladinRTZMT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/biostec/ThevenetT14,
author = {Pierre Th{\'{e}}venet and
Pierre Tuff{\'{e}}ry},
editor = {Oscar Pastor and
Christine Sinoquet and
Guy Plantier and
Tanja Schultz and
Ana L. N. Fred and
Hugo Gamboa},
title = {Exploring a Sub-optimal Hidden Markov Model Sampling Approach for
De Novo Peptide Structure Modeling},
booktitle = {{BIOINFORMATICS} 2014 - Proceedings of the International Conference
on Bioinformatics Models, Methods and Algorithms, ESEO, Angers, Loire
Valley, France, 3-6 March, 2014},
pages = {24--30},
publisher = {SciTePress},
year = {2014},
url = {https://doi.org/10.5220/0004750000240030},
doi = {10.5220/0004750000240030},
timestamp = {Thu, 21 Jan 2021 13:58:22 +0100},
biburl = {https://dblp.org/rec/conf/biostec/ThevenetT14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ThevenetSMGDT12,
author = {Pierre Th{\'{e}}venet and
Yimin Shen and
Julien Maupetit and
Fr{\'{e}}d{\'{e}}ric Guyon and
Philippe Derreumaux and
Pierre Tuff{\'{e}}ry},
title = {{PEP-FOLD:} an updated \emph{de novo} structure prediction server
for both linear and disulfide bonded cyclic peptides},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Web-Server-Issue},
pages = {288--293},
year = {2012},
url = {https://doi.org/10.1093/nar/gks419},
doi = {10.1093/NAR/GKS419},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ThevenetSMGDT12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/LagorceMBSTMGV11,
author = {David Lagorce and
Julien Maupetit and
Jonathan B. Baell and
Olivier Sperandio and
Pierre Tuff{\'{e}}ry and
Maria A. Miteva and
Herv{\'{e}} Galons and
Bruno O. Villoutreix},
title = {The FAF-Drugs2 server: a multistep engine to prepare electronic chemical
compound collections},
journal = {Bioinform.},
volume = {27},
number = {14},
pages = {2018--2020},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr333},
doi = {10.1093/BIOINFORMATICS/BTR333},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/LagorceMBSTMGV11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/MaupetitDT10,
author = {Julien Maupetit and
Philippe Derreumaux and
Pierre Tuff{\'{e}}ry},
title = {A fast method for large-scale \emph{De Novo} peptide and miniprotein
structure prediction},
journal = {J. Comput. Chem.},
volume = {31},
number = {4},
pages = {726--738},
year = {2010},
url = {https://doi.org/10.1002/jcc.21365},
doi = {10.1002/JCC.21365},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcc/MaupetitDT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SchmidtkeGMT10,
author = {Peter Schmidtke and
Vincent Le Guilloux and
Julien Maupetit and
Pierre Tuff{\'{e}}ry},
title = {fpocket: online tools for protein ensemble pocket detection and tracking},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Web-Server-Issue},
pages = {582--589},
year = {2010},
url = {https://doi.org/10.1093/nar/gkq383},
doi = {10.1093/NAR/GKQ383},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/SchmidtkeGMT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MitevaGT10,
author = {Maria A. Miteva and
Fr{\'{e}}d{\'{e}}ric Guyon and
Pierre Tuff{\'{e}}ry},
title = {Frog2: Efficient 3D conformation ensemble generator for small compounds},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Web-Server-Issue},
pages = {622--627},
year = {2010},
url = {https://doi.org/10.1093/nar/gkq325},
doi = {10.1093/NAR/GKQ325},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/MitevaGT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/red/MenagerGNLMSTHC10,
author = {Herv{\'{e}} M{\'{e}}nager and
Vivek Gopalan and
Bertrand N{\'{e}}ron and
Sandrine Larroud{\'{e}} and
Julien Maupetit and
Adrien Saladin and
Pierre Tuff{\'{e}}ry and
Yentram Huyen and
Bernard Caudron},
editor = {Zo{\'{e}} Lacroix and
Maria{-}Esther Vidal},
title = {Bioinformatics Applications Discovery and Composition with the Mobyle
Suite and MobyleNet},
booktitle = {Resource Discovery - Third International Workshop, {RED} 2010, Paris,
France, November 5, 2010, Revised Selected Papers},
series = {Lecture Notes in Computer Science},
volume = {6799},
pages = {11--22},
publisher = {Springer},
year = {2010},
url = {https://doi.org/10.1007/978-3-642-27392-6\_2},
doi = {10.1007/978-3-642-27392-6\_2},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/red/MenagerGNLMSTHC10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/red/StrauserNMMLT10,
author = {Edouard Strauser and
Mika{\"{e}}l Naveau and
Herv{\'{e}} M{\'{e}}nager and
Julien Maupetit and
Zo{\'{e}} Lacroix and
Pierre Tuff{\'{e}}ry},
editor = {Zo{\'{e}} Lacroix and
Maria{-}Esther Vidal},
title = {Semantic Map for Structural Bioinformatics: Enhanced Service Discovery
Based on High Level Concept Ontology},
booktitle = {Resource Discovery - Third International Workshop, {RED} 2010, Paris,
France, November 5, 2010, Revised Selected Papers},
series = {Lecture Notes in Computer Science},
volume = {6799},
pages = {57--70},
publisher = {Springer},
year = {2010},
url = {https://doi.org/10.1007/978-3-642-27392-6\_5},
doi = {10.1007/978-3-642-27392-6\_5},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/red/StrauserNMMLT10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/NeronMMJMLCTL09,
author = {Bertrand N{\'{e}}ron and
Herv{\'{e}} M{\'{e}}nager and
Corinne Maufrais and
Nicolas Joly and
Julien Maupetit and
S{\'{e}}bastien Letort and
S{\'{e}}bastien Carr{\`{e}}re and
Pierre Tuff{\'{e}}ry and
Catherine Letondal},
title = {Mobyle: a new full web bioinformatics framework},
journal = {Bioinform.},
volume = {25},
number = {22},
pages = {3005--3011},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp493},
doi = {10.1093/BIOINFORMATICS/BTP493},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/NeronMMJMLCTL09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/GuillouxST09,
author = {Vincent Le Guilloux and
Peter Schmidtke and
Pierre Tuff{\'{e}}ry},
title = {Fpocket: An open source platform for ligand pocket detection},
journal = {{BMC} Bioinform.},
volume = {10},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-168},
doi = {10.1186/1471-2105-10-168},
timestamp = {Mon, 26 Sep 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/GuillouxST09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/QuintusSGPT09,
author = {Flavien Quintus and
Olivier Sperandio and
Julien Grynberg and
Michel Petitjean and
Pierre Tuff{\'{e}}ry},
title = {Ligand scaffold hopping combining 3D maximal substructure search and
molecular similarity},
journal = {{BMC} Bioinform.},
volume = {10},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-245},
doi = {10.1186/1471-2105-10-245},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/QuintusSGPT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MaupetitDT09,
author = {Julien Maupetit and
Philippe Derreumaux and
Pierre Tuff{\'{e}}ry},
title = {{PEP-FOLD:} an online resource for \emph{de novo} peptide structure
prediction},
journal = {Nucleic Acids Res.},
volume = {37},
number = {Web-Server-Issue},
pages = {498--503},
year = {2009},
url = {https://doi.org/10.1093/nar/gkp323},
doi = {10.1093/NAR/GKP323},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MaupetitDT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SperandioPT09,
author = {Olivier Sperandio and
Michel Petitjean and
Pierre Tuff{\'{e}}ry},
title = {wwLigCSRre: a 3D ligand-based server for hit identification and optimization},
journal = {Nucleic Acids Res.},
volume = {37},
number = {Web-Server-Issue},
pages = {504--509},
year = {2009},
url = {https://doi.org/10.1093/nar/gkp324},
doi = {10.1093/NAR/GKP324},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/SperandioPT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/csda/RegadGMTC08,
author = {Leslie Regad and
Fr{\'{e}}d{\'{e}}ric Guyon and
Julien Maupetit and
Pierre Tuff{\'{e}}ry and
Anne{-}Claude Camproux},
title = {A Hidden Markov Model applied to the protein 3D structure analysis},
journal = {Comput. Stat. Data Anal.},
volume = {52},
number = {6},
pages = {3198--3207},
year = {2008},
url = {https://doi.org/10.1016/j.csda.2007.09.010},
doi = {10.1016/J.CSDA.2007.09.010},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/csda/RegadGMTC08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AutinT07,
author = {Ludovic Autin and
Pierre Tuff{\'{e}}ry},
title = {{PMG:} online generation of high-quality molecular pictures and storyboarded
animations},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {483--488},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm277},
doi = {10.1093/NAR/GKM277},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/AutinT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LeiteGMCVT07,
author = {T. Bohme Leite and
D. Gomes and
Maria A. Miteva and
Jacques Chomilier and
Bruno O. Villoutreix and
Pierre Tuff{\'{e}}ry},
title = {Frog: a FRee Online druG 3D conformation generator},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {568--572},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm289},
doi = {10.1093/NAR/GKM289},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/LeiteGMCVT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/IEEEscc/MenagerLT07,
author = {Herv{\'{e}} M{\'{e}}nager and
Zo{\'{e}} Lacroix and
Pierre Tuff{\'{e}}ry},
title = {Bioinformatics Services Discovery Using Ontology Classification},
booktitle = {2007 {IEEE} International Conference on Services Computing - Workshops
{(SCW} 2007), 9-13 July 2007, Salt Lake City, Utah, {USA}},
pages = {106--113},
publisher = {{IEEE} Computer Society},
year = {2007},
url = {https://doi.org/10.1109/SERVICES.2007.20},
doi = {10.1109/SERVICES.2007.20},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/IEEEscc/MenagerLT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MaupetitGT06,
author = {Julien Maupetit and
R. Gautier and
Pierre Tuff{\'{e}}ry},
title = {{SABBAC:} online Structural Alphabet-based protein BackBone reconstruction
from Alpha-Carbon trace},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Web-Server-Issue},
pages = {147--151},
year = {2006},
url = {https://doi.org/10.1093/nar/gkl289},
doi = {10.1093/NAR/GKL289},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MaupetitGT06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MitevaVMGTV06,
author = {Maria A. Miteva and
Stephanie Violas and
Matthieu Mont{\`{e}}s and
David Gomez and
Pierre Tuff{\'{e}}ry and
Bruno O. Villoutreix},
title = {FAF-Drugs: free ADME/tox filtering of compound collections},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Web-Server-Issue},
pages = {738--744},
year = {2006},
url = {https://doi.org/10.1093/nar/gkl065},
doi = {10.1093/NAR/GKL065},
timestamp = {Thu, 12 Nov 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MitevaVMGTV06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ssdbm/TufferyLM06,
author = {Pierre Tuff{\'{e}}ry and
Zo{\'{e}} Lacroix and
Herv{\'{e}} M{\'{e}}nager},
title = {Semantic Map of Services for Structural Bioinformatics},
booktitle = {18th International Conference on Scientific and Statistical Database
Management, {SSDBM} 2006, 3-5 July 2006, Vienna, Austria, Proceedings},
pages = {217--224},
publisher = {{IEEE} Computer Society},
year = {2006},
url = {https://doi.org/10.1109/SSDBM.2006.47},
doi = {10.1109/SSDBM.2006.47},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ssdbm/TufferyLM06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/TufferyGD05,
author = {Pierre Tuff{\'{e}}ry and
Fr{\'{e}}d{\'{e}}ric Guyon and
Philippe Derreumaux},
title = {Improved greedy algorithm for protein structure reconstruction},
journal = {J. Comput. Chem.},
volume = {26},
number = {5},
pages = {506--513},
year = {2005},
url = {https://doi.org/10.1002/jcc.20181},
doi = {10.1002/JCC.20181},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/TufferyGD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AllandMBCCLRWCCHPVZT05,
author = {C. Alland and
F. Moreews and
D. Boens and
Mathilde Carpentier and
S. Chiusa and
Mathieu Lonquety and
N. Renault and
Y. Wong and
Hubert Cantalloube and
Jacques Chomilier and
Jo{\"{e}}lle Hochez and
Jo{\"{e}}l Pothier and
Bruno O. Villoutreix and
Jean{-}Fran{\c{c}}ois Zagury and
Pierre Tuff{\'{e}}ry},
title = {{RPBS:} a web resource for structural bioinformatics},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {44--49},
year = {2005},
url = {https://doi.org/10.1093/nar/gki477},
doi = {10.1093/NAR/GKI477},
timestamp = {Fri, 07 May 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/AllandMBCCLRWCCHPVZT05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BinistiST05,
author = {C{\'{e}}dric Binisti and
Ahmed Ali Salim and
Pierre Tuff{\'{e}}ry},
title = {{PPG:} online generation of protein pictures and animations},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {320--323},
year = {2005},
url = {https://doi.org/10.1093/nar/gki392},
doi = {10.1093/NAR/GKI392},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/BinistiST05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MitevaTV05,
author = {Maria A. Miteva and
Pierre Tuff{\'{e}}ry and
Bruno O. Villoutreix},
title = {{PCE:} web tools to compute protein continuum electrostatics},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {372--375},
year = {2005},
url = {https://doi.org/10.1093/nar/gki365},
doi = {10.1093/NAR/GKI365},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MitevaTV05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GautierCT04,
author = {R. Gautier and
Anne{-}Claude Camproux and
Pierre Tuff{\'{e}}ry},
title = {SCit: web tools for protein side chain conformation analysis},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {508--511},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh388},
doi = {10.1093/NAR/GKH388},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GautierCT04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GuyonCHT04,
author = {Fr{\'{e}}d{\'{e}}ric Guyon and
Anne{-}Claude Camproux and
Jo{\"{e}}lle Hochez and
Pierre Tuff{\'{e}}ry},
title = {SA-Search: a web tool for protein structure mining based on a Structural
Alphabet},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {545--548},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh467},
doi = {10.1093/NAR/GKH467},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GuyonCHT04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/GautierT03,
author = {R. Gautier and
Pierre Tuff{\'{e}}ry},
title = {Critical assessment of side-chain conformational space sampling procedures
designed for quantifying the effect of side-chain environment},
journal = {J. Comput. Chem.},
volume = {24},
number = {15},
pages = {1950--1961},
year = {2003},
url = {https://doi.org/10.1002/jcc.10334},
doi = {10.1002/JCC.10334},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcc/GautierT03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Tuffery02,
author = {Pierre Tuff{\'{e}}ry},
title = {CS-PSeq-Gen: Simulating the evolution of protein sequence under constraints},
journal = {Bioinform.},
volume = {18},
number = {7},
pages = {1015--1016},
year = {2002},
url = {https://doi.org/10.1093/bioinformatics/18.7.1015},
doi = {10.1093/BIOINFORMATICS/18.7.1015},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Tuffery02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Mucchielli-GiorgiHT99,
author = {Marie{-}H{\'{e}}l{\`{e}}ne Mucchielli{-}Giorgi and
Serge A. Hazout and
Pierre Tuff{\'{e}}ry},
title = {PredAcc: prediction of solvent accessibility},
journal = {Bioinform.},
volume = {15},
number = {2},
pages = {176--177},
year = {1999},
url = {https://doi.org/10.1093/bioinformatics/15.2.176},
doi = {10.1093/BIOINFORMATICS/15.2.176},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Mucchielli-GiorgiHT99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/TufferyEHL93,
author = {Pierre Tuff{\'{e}}ry and
Catherine Etchebest and
Serge A. Hazout and
Richard Lavery},
title = {A critical comparison of search algorithms applied to the optimization
of protein side-chain conformations},
journal = {J. Comput. Chem.},
volume = {14},
number = {7},
pages = {790--798},
year = {1993},
url = {https://doi.org/10.1002/jcc.540140705},
doi = {10.1002/JCC.540140705},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/TufferyEHL93.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TufferyDMH88,
author = {Pierre Tuff{\'{e}}ry and
Philippe Dessen and
C. Mugnier and
Serge A. Hazout},
title = {Restriction map construction using a 'complete sentences compatibility'
algorithm},
journal = {Comput. Appl. Biosci.},
volume = {4},
number = {1},
pages = {103--110},
year = {1988},
url = {https://doi.org/10.1093/bioinformatics/4.1.103},
doi = {10.1093/BIOINFORMATICS/4.1.103},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/TufferyDMH88.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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