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ORCIDBibTeX records: Rafael Najmanovich
@article{DBLP:journals/bioinformatics/MailhotMN23,
author = {Olivier Mailhot and
Fran{\c{c}}ois Major and
Rafael Najmanovich},
title = {The DynaSig-ML Python package: automated learning of biomolecular
dynamics-function relationships},
journal = {Bioinform.},
volume = {39},
number = {4},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btad180},
doi = {10.1093/BIOINFORMATICS/BTAD180},
timestamp = {Fri, 22 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MailhotMN23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TeruelBN23,
author = {Nat{\'{a}}lia Teruel and
Vinicius Magalh{\~{a}}es Borges and
Rafael Najmanovich},
title = {Surfaces: a software to quantify and visualize interactions within
and between proteins and ligands},
journal = {Bioinform.},
volume = {39},
number = {10},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btad608},
doi = {10.1093/BIOINFORMATICS/BTAD608},
timestamp = {Sat, 04 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/TeruelBN23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CrownTNB22,
author = {Matthew Crown and
Nat{\'{a}}lia Teruel and
Rafael Najmanovich and
Matthew Bashton},
title = {{SPEAR:} Systematic ProtEin AnnotatoR},
journal = {Bioinform.},
volume = {38},
number = {15},
pages = {3827--3829},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btac391},
doi = {10.1093/BIOINFORMATICS/BTAC391},
timestamp = {Sat, 13 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/CrownTNB22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MailhotFMN22,
author = {Olivier Mailhot and
Vincent Frappier and
Fran{\c{c}}ois Major and
Rafael J. Najmanovich},
title = {Sequence-sensitive elastic network captures dynamical features necessary
for miR-125a maturation},
journal = {PLoS Comput. Biol.},
volume = {18},
number = {12},
pages = {1010777},
year = {2022},
url = {https://doi.org/10.1371/journal.pcbi.1010777},
doi = {10.1371/JOURNAL.PCBI.1010777},
timestamp = {Wed, 17 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/MailhotFMN22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MailhotN21,
author = {Olivier Mailhot and
Rafael Najmanovich},
title = {The {NRGTEN} Python package: an extensible toolkit for coarse-grained
normal mode analysis of proteins, nucleic acids, small molecules and
their complexes},
journal = {Bioinform.},
volume = {37},
number = {19},
pages = {3369--3371},
year = {2021},
url = {https://doi.org/10.1093/bioinformatics/btab189},
doi = {10.1093/BIOINFORMATICS/BTAB189},
timestamp = {Sun, 22 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/MailhotN21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/TeruelMN21,
author = {Nat{\'{a}}lia Teruel and
Olivier Mailhot and
Rafael J. Najmanovich},
title = {Modelling conformational state dynamics and its role on infection
for SARS-CoV-2 Spike protein variants},
journal = {PLoS Comput. Biol.},
volume = {17},
number = {8},
year = {2021},
url = {https://doi.org/10.1371/journal.pcbi.1009286},
doi = {10.1371/JOURNAL.PCBI.1009286},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/TeruelMN21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ChenardGVCTN17,
author = {Thierry Ch{\'{e}}nard and
Fr{\'{e}}d{\'{e}}ric Gu{\'{e}}nard and
Marie{-}Claude Vohl and
Andr{\'{e}} Carpentier and
Andr{\'{e}} Tchernof and
Rafael J. Najmanovich},
title = {Remodeling adipose tissue through in silico modulation of fat storage
for the prevention of type 2 diabetes},
journal = {{BMC} Syst. Biol.},
volume = {11},
number = {1},
pages = {60:1--60:15},
year = {2017},
url = {https://doi.org/10.1186/s12918-017-0438-9},
doi = {10.1186/S12918-017-0438-9},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/ChenardGVCTN17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ChartierAN16,
author = {Matthieu Chartier and
Etienne Adriansen and
Rafael Najmanovich},
title = {IsoMIF Finder: online detection of binding site molecular interaction
field similarities},
journal = {Bioinform.},
volume = {32},
number = {4},
pages = {621--623},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btv616},
doi = {10.1093/BIOINFORMATICS/BTV616},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ChartierAN16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/springsim/BelloliWN16,
author = {Laouen Belloli and
Gabriel A. Wainer and
Rafael Najmanovich},
editor = {Fernando Barros and
Herbert Pr{\"{a}}hofer and
Xiaolin Hu and
Joachim Denil},
title = {Parsing and model generation for biological processes},
booktitle = {Proceedings of the Symposium on Theory of Modeling {\&} Simulation,
{TMS/DEVS} 2016, part of the 2016 Spring Simulation Multiconference,
SpringSim '16, Pasadena, CA, USA, April 3-6, 2016},
pages = {21},
publisher = {{ACM}},
year = {2016},
url = {http://dl.acm.org/citation.cfm?id=2975410},
timestamp = {Sun, 11 Mar 2018 23:56:50 +0100},
biburl = {https://dblp.org/rec/conf/springsim/BelloliWN16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/SamishBN15,
author = {Ilan Samish and
Philip E. Bourne and
Rafael J. Najmanovich},
title = {Editor's Choice: Achievements and challenges in structural bioinformatics
and computational biophysics},
journal = {Bioinform.},
volume = {31},
number = {1},
pages = {146--150},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu769},
doi = {10.1093/BIOINFORMATICS/BTU769},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/SamishBN15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GaudreaultMN15,
author = {Francis Gaudreault and
Louis{-}Philippe Morency and
Rafael J. Najmanovich},
title = {NRGsuite: a PyMOL plugin to perform docking simulations in real time
using FlexAID},
journal = {Bioinform.},
volume = {31},
number = {23},
pages = {3856--3858},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btv458},
doi = {10.1093/BIOINFORMATICS/BTV458},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/GaudreaultMN15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/GaudreaultN15,
author = {Francis Gaudreault and
Rafael J. Najmanovich},
title = {FlexAID: Revisiting Docking on Non-Native-Complex Structures},
journal = {J. Chem. Inf. Model.},
volume = {55},
number = {7},
pages = {1323--1336},
year = {2015},
url = {https://doi.org/10.1021/acs.jcim.5b00078},
doi = {10.1021/ACS.JCIM.5B00078},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/GaudreaultN15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/ChartierN15,
author = {Matthieu Chartier and
Rafael Najmanovich},
title = {Detection of Binding Site Molecular Interaction Field Similarities},
journal = {J. Chem. Inf. Model.},
volume = {55},
number = {8},
pages = {1600--1615},
year = {2015},
url = {https://doi.org/10.1021/acs.jcim.5b00333},
doi = {10.1021/ACS.JCIM.5B00333},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/ChartierN15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/FrappierCN15,
author = {Vincent Frappier and
Matthieu Chartier and
Rafael J. Najmanovich},
title = {ENCoM server: exploring protein conformational space and the effect
of mutations on protein function and stability},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W395--W400},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv343},
doi = {10.1093/NAR/GKV343},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/FrappierCN15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/LarocqueCN14,
author = {Mathieu Larocque and
Thierry Ch{\'{e}}nard and
Rafael Najmanovich},
title = {A curated C. difficile strain 630 metabolic network: prediction of
essential targets and inhibitors},
journal = {{BMC} Syst. Biol.},
volume = {8},
pages = {117},
year = {2014},
url = {https://doi.org/10.1186/s12918-014-0117-z},
doi = {10.1186/S12918-014-0117-Z},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/LarocqueCN14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/FrappierN14,
author = {Vincent Frappier and
Rafael J. Najmanovich},
title = {A Coarse-Grained Elastic Network Atom Contact Model and Its Use in
the Simulation of Protein Dynamics and the Prediction of the Effect
of Mutations},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {4},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003569},
doi = {10.1371/JOURNAL.PCBI.1003569},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/FrappierN14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ChartierGN12,
author = {Matthieu Chartier and
Francis Gaudreault and
Rafael Najmanovich},
title = {Large-scale analysis of conserved rare codon clusters suggests an
involvement in co-translational molecular recognition events},
journal = {Bioinform.},
volume = {28},
number = {11},
pages = {1438--1445},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts149},
doi = {10.1093/BIOINFORMATICS/BTS149},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ChartierGN12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GaudreaultCN12,
author = {Francis Gaudreault and
Matthieu Chartier and
Rafael Najmanovich},
title = {Side-chain rotamer changes upon ligand binding: common, crucial, correlate
with entropy and rearrange hydrogen bonding},
journal = {Bioinform.},
volume = {28},
number = {18},
pages = {423--430},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts395},
doi = {10.1093/BIOINFORMATICS/BTS395},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/GaudreaultCN12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/Campagna-SlaterMNFNS11,
author = {Val{\'{e}}rie Campagna{-}Slater and
Man Wai Mok and
Kong T. Nguyen and
Miklos Feher and
Rafael Najmanovich and
Matthieu Schapira},
title = {Structural Chemistry of the Histone Methyltransferases Cofactor Binding
Site},
journal = {J. Chem. Inf. Model.},
volume = {51},
number = {3},
pages = {612--623},
year = {2011},
url = {https://doi.org/10.1021/ci100479z},
doi = {10.1021/CI100479Z},
timestamp = {Fri, 06 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/Campagna-SlaterMNFNS11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/eccb/NajmanovichKT08,
author = {Rafael Najmanovich and
Natalja Kurbatova and
Janet M. Thornton},
title = {Detection of 3D atomic similarities and their use in the discrimination
of small molecule protein-binding sites},
booktitle = {ECCB'08 Proceedings, Seventh European Conference on Computational
Biology, 22-26 September 2008, Cagliari, Italy},
pages = {105--111},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btn263},
doi = {10.1093/BIOINFORMATICS/BTN263},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/eccb/NajmanovichKT08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/NajmanovichAMDPVPEAT07,
author = {Rafael Najmanovich and
Abdellah Allali{-}Hassani and
Richard J. Morris and
Ludmila Dombrovsky and
Patricia W. Pan and
Masoud Vedadi and
Alexander N. Plotnikov and
Aled M. Edwards and
Cheryl H. Arrowsmith and
Janet M. Thornton},
title = {Analysis of binding site similarity, small-molecule similarity and
experimental binding profiles in the human cytosolic sulfotransferase
family},
journal = {Bioinform.},
volume = {23},
number = {2},
pages = {104--109},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btl292},
doi = {10.1093/BIOINFORMATICS/BTL292},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/NajmanovichAMDPVPEAT07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MorrisNKT05,
author = {Richard J. Morris and
Rafael Najmanovich and
Abdullah Kahraman and
Janet M. Thornton},
title = {Real spherical harmonic expansion coefficients as 3D shape descriptors
for protein binding pocket and ligand comparisons},
journal = {Bioinform.},
volume = {21},
number = {10},
pages = {2347--2355},
year = {2005},
url = {https://doi.org/10.1093/bioinformatics/bti337},
doi = {10.1093/BIOINFORMATICS/BTI337},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MorrisNKT05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/EyalNMES04,
author = {Eran Eyal and
Rafael Najmanovich and
Brendan J. McConkey and
Marvin Edelman and
Vladimir Sobolev},
title = {Importance of solvent accessibility and contact surfaces in modeling
side-chain conformations in proteins},
journal = {J. Comput. Chem.},
volume = {25},
number = {5},
pages = {712--724},
year = {2004},
url = {https://doi.org/10.1002/jcc.10420},
doi = {10.1002/JCC.10420},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/EyalNMES04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/EyalNSE01,
author = {Eran Eyal and
Rafael Najmanovich and
Vladimir Sobolev and
Marvin Edelman},
title = {MutaProt: a web interface for structural analysis of point mutations},
journal = {Bioinform.},
volume = {17},
number = {4},
pages = {381--382},
year = {2001},
url = {https://doi.org/10.1093/bioinformatics/17.4.381},
doi = {10.1093/BIOINFORMATICS/17.4.381},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/EyalNSE01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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