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Alignment-based protein mutational landscape prediction: doing more with less

Marina Abakarova , Céline Marquet , Michael Rera , Burkhard Rost , Elodie Laine
2023
Pré-publication, Document de travail hal-04183521v1
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From complete cross-docking to partners identification and binding sites predictions

Chloé Dequeker , Yasser Mohseni Behbahani , Laurent David , Elodie Laine , Alessandra Carbone
PLoS Computational Biology, 2022, 18 (1), pp.e1009825. ⟨10.1371/journal.pcbi.1009825⟩
Article dans une revue hal-03549513v1
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Predicting protein functional motions: an old recipe with a new twist

Sergei Grudinin , Elodie Laine , Alexandre Hoffmann
Biophysical Journal, 2020, 118 (10), pp.2513-2525. ⟨10.1016/j.bpj.2020.03.020⟩
Article dans une revue hal-02291552v1
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Deep Local Analysis evaluates protein docking conformations with locally oriented cubes

Yasser Mohseni Behbahani , Simon Crouzet , Elodie Laine , Alessandra Carbone
Bioinformatics, 2022, 38 (19), pp.4505-4512. ⟨10.1093/bioinformatics/btac551⟩
Article dans une revue hal-03906697v1
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GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects

Elodie Laine , Yasaman Karami , Alessandra Carbone
Molecular Biology and Evolution, 2019, 36 (11), pp.2604-2619. ⟨10.1093/molbev/msz179⟩
Article dans une revue hal-02431792v1
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Functional mapping of N-terminal residues in the yeast proteome uncovers novel determinants for mitochondrial protein import

Salomé Nashed , Houssam El Barbry , Médine Benchouaia , Angélie Dijoux-Maréchal , Thierry Delaveau , et al.
PLoS Genetics, 2023, 19 (8), pp.e1010848. ⟨10.1371/journal.pgen.1010848⟩
Article dans une revue hal-04236040v1
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Hotspot mutations in KIT receptor differentially modulate its allosterically coupled conformational dynamics: impact on activation and drug sensitivity

Ariane Allain , Isaure Chauvot de Beauchêne , Nicolas Panel , Elodie Laine , Alain Trouvé , et al.
PLoS Computational Biology, 2014, 10 (7), pp.e1003749. ⟨10.1371/journal.pcbi.1003749⟩
Article dans une revue hal-01505833v1
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Alignment-based protein mutational landscape prediction: doing more with less

Marina Abakarova , Céline Marquet , Michael Rera , Burkhard Rost , Elodie Laine
2023
Pré-publication, Document de travail hal-03907222v1
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Assessing Conservation of Alternative Splicing with Evolutionary Splicing Graphs

Diego Javier Zea , Sofya Laskina , Alexis Baudin , Hugues Richard , Elodie Laine
Genome Research, In press
Article dans une revue hal-03274456v1
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Analyse de l'activation du facteur oedémateux de Bacillus anthracis par la calmoduline, en vue de la recherche d'inhibiteurs

Elodie Laine
Médicaments. Université Pierre et Marie Curie - Paris VI, 2009. Français. ⟨NNT : ⟩
Thèse tel-00483602v1

Raltegravir flexibility and its impact on recognition by the HIV-1 IN targets.

Rohit Arora , Isaure Chauvot de Beauchêne , Jaroslaw Polansky , Elodie Laine , Luba Tchertanov
Journal of Molecular Recognition, 2013, ⟨10.1002/jmr.2277⟩
Article dans une revue istex hal-01505872v1

Co-operating STAT5 and AKT signaling pathways in chronic myeloid leukemia and mastocytosis: possible new targets of therapy

Isaure Chauvot de Beauchêne , Ariane Allain , Nicolas Panel , Elodie Laine , Alain Trouvé , et al.
Haematologica, 2014, 99 (3), pp.417-429. ⟨10.3324/haematol.2013.098442⟩
Article dans une revue hal-03333851v1
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ASES: visualizing evolutionary conservation of alternative splicing in proteins

Diego Javier Zea , Hugues Richard , Elodie Laine
Bioinformatics, 2022, 38 (9), pp.2615-2616. ⟨10.1093/bioinformatics/btac105⟩
Article dans une revue hal-03695534v1

Decrypting how protein move and change their shape

Elodie Laine
Proceeding of 16th International Symposium on Mathematical and Computational Biology, 2017
Chapitre d'ouvrage hal-01587939v1

Building alternative splicing and evolution-aware sequence-structure maps for protein repeats

Antoine Szatkownik , Diego Javier Zea , Hugues Richard , Elodie Laine
Journal of Structural Biology, In press, ⟨10.1016/j.jsb.2023.107997⟩
Article dans une revue hal-04164296v1

Allosteric pathway identification through network analysis: from molecular dynamics simulations to interactive 2d and 3d graphs

Arian Allain , Isaure Chauvot de Beauchêne , Florent Langenfeld , Yann Guarracino , Elodie Laine , et al.
Faraday Discussions, 2014, ⟨10.1039/c4fd00024b⟩
Article dans une revue hal-01505837v1
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Decrypting protein surfaces by combining evolution, geometry, and molecular docking

Chloé Dequeker , Elodie Laine , Alessandra Carbone
Proteins - Structure, Function and Bioinformatics, 2019, 87 (11), pp.952-965. ⟨10.1002/prot.25757⟩
Article dans une revue hal-02321652v1
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Dissecting protein architecture with communication blocks and communicating segment pairs

Yasaman Karami , Elodie Laine , Alessandra Carbone
BMC Bioinformatics, 2016, 17 (S2), pp.133-148. ⟨10.1186/s12859-015-0855-y⟩
Article dans une revue hal-01260475v1
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Transcripts’ Evolutionary History and Structural Dynamics Give Mechanistic Insights into the Functional Diversity of the JNK Family

Adel Ait-Hamlat , Diego Javier Zea , Antoine Labeeuw , Lélia Polit , Hugues Richard , et al.
Journal of Molecular Biology, 2020, 432 (7), pp.2121-2140. ⟨10.1016/j.jmb.2020.01.032⟩
Article dans une revue hal-02884145v1
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Explaining Conformational Diversity in Protein Families through Molecular Motions

Valentin Lombard , Sergei Grudinin , Elodie Laine
2024
Pré-publication, Document de travail hal-04442287v1
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Local Geometry and Evolutionary Conservation of Protein Surfaces Reveal the Multiple Recognition Patches in Protein-Protein Interactions

Elodie Laine , Alessandra Carbone
PLoS Computational Biology, 2015, 11 (12), pp.e1004580. ⟨10.1371/journal.pcbi.1004580⟩
Article dans une revue hal-01274084v1
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Multiple Profile Models Extract Features from Protein Sequence Data and Resolve Functional Diversity of Very Different Protein Families

R. Vicedomini , J.P. Bouly , E. Laine , A. Falciatore , A. Carbone
Molecular Biology and Evolution, 2022, 39 (4), ⟨10.1093/molbev/msac070⟩
Article dans une revue hal-03850479v1

Mutation D816V alters the internal structure and dynamics of c-KIT receptor cytoplasmic region: implications for dimerization and activation mechanisms

Elodie Laine , Isaure Chauvot de Beauchêne , David Perahia , Christian Auclair , Luba Tchertanov
PLoS Computational Biology, 2011, ⟨10.1371/journal.pcbi.1002068⟩
Article dans une revue hal-01505755v1

Meet-U: Educating through research immersion

Nika Abdollahi , Alexandre Albani , Eric Anthony , Agnes Baud , Mélissa Cardon , et al.
PLoS Computational Biology, 2018, 14 (3), pp.e1005992. ⟨10.1371/journal.pcbi.1005992⟩
Article dans une revue hal-04011118v1

Alignment-based protein mutational landscape prediction: doing more with less

Marina Abakarova , Céline Marquet , Michael Rera , Burkhard Rost , Elodie Laine
2022
Pré-publication, Document de travail hal-03903639v1
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INTerface Builder: a fast protein-protein interface reconstruction tool

Chloé Dequeker , Elodie Laine , Alessandra Carbone
Journal of Chemical Information and Modeling, 2017, ⟨10.1021/acs.jcim.7b00360⟩
Article dans une revue hal-01617113v1
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Targeting Solute Carrier Transporters through Functional Mapping

Claire Colas , Elodie Laine
Trends in Pharmacological Sciences, 2020, ⟨10.1016/j.tips.2020.11.005⟩
Article dans une revue hal-03033584v1

Deep Local Analysis deconstructs protein - protein interfaces and accurately estimates binding affinity changes upon mutation

Yasser Mohseni Behbahani , Elodie Laine , Alessandra Carbone
2023
Pré-publication, Document de travail hal-03972481v1