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authIdHal_s : massimiliano-bonomi
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Multi-replica biased sampling for photoswitchable π-conjugated polymers

Mariagrazia Fortino , Concetta Cozza , Massimiliano Bonomi , Adriana Pietropaolo
Journal of Chemical Physics, 2021, 154, pp.174108
Journal articles hal-03151767v1

Integrative structure modeling with the Integrative Modeling Platform

Benjamin Webb , Shruthi Viswanath , Massimiliano Bonomi , Riccardo Pellarin , Charles Greenberg , et al.
Protein Science, 2018, Special Issue: Special Issue on Tools for Protein Science, 27 (1), pp.245-258. ⟨10.1002/pro.3311⟩
Journal articles pasteur-02406448v1
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Coronaviruses with a SARS-CoV-2-like receptor-binding domain allowing ACE2-mediated entry into human cells isolated from bats of Indochinese peninsula

Sarah Temmam , Khamsing Vongphayloth , Eduard Baquero Salazar , Sandie Munier , Massimiliano Bonomi , et al.
Preprints, Working Papers, ... hal-03417488v1
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Editorial: Experiments and simulations: a pas de deux to unravel biological function

Maya Topf , Edina Rosta , Gregory R Bowman , Massimiliano Bonomi
Frontiers in Molecular Biosciences, 2021, 8 (799406), ⟨10.3389/fmolb.2021.799406⟩
Journal articles hal-03417985v1
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Small-molecule sequestration of amyloid-β as a drug discovery strategy for Alzheimer’s disease

Gabriella T Heller , Francesco A Aprile , Thomas C T Michaels , Ryan Limbocker , Michele Perni , et al.
Science Advances , 2020, 6 (45), pp.eabb5924. ⟨10.1126/sciadv.abb5924⟩
Journal articles hal-02999939v1
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Describing Inhibitor Specificity for the Amino Acid Transporter LAT1 from Metainference Simulations

Keino Hutchinson , Dina Buitrago Silva , Joshua Bohlke , Chase Clausen , Allen A. Thomas , et al.
Preprints, Working Papers, ... hal-03834205v1

SARS‐CoV‐2‐related bat virus behavior in human‐relevant models sheds light on the origin of COVID‐19

Sarah Temmam , Xavier Montagutelli , Cécile Herate , Flora Donati , Béatrice Regnault , et al.
EMBO Reports, 2023, 24 (4), pp.e56055. ⟨10.15252/embr.202256055⟩
Journal articles pasteur-04072738v1
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What will computational modelling approaches have to say in the era of atomistic cryo-EM data?

James S Fraser , Kresten Lindorff-Larsen , Massimiliano Bonomi
Journal of Chemical Information and Modeling, 2020, 60 (5), pp.2410-2412. ⟨10.1021/acs.jcim.0c00123⟩
Journal articles hal-02999942v1

Bayesian Weighing of Electron Cryo-Microscopy Data for Integrative Structural Modeling

Massimiliano Bonomi , Samuel Hanot , Charles Greenberg , Andrej Sali , Michael Nilges , et al.
Structure, 2019, 27 (1), pp.175-188.e6. ⟨10.1016/j.str.2018.09.011⟩
Journal articles pasteur-02404465v1
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Simultaneous Determination of Protein Structure and Dynamics Using Cryo-Electron Microscopy

Massimiliano Bonomi , Riccardo Pellarin , Michele Vendruscolo
Biophysical Journal, 2018, 114 (7), pp.1604-1613. ⟨10.1016/j.bpj.2018.02.028⟩
Journal articles pasteur-02404467v1
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Exploring the conformational diversity of proteins

Avner Schlessinger , Massimiliano Bonomi
eLife, 2022, 11, pp.e75751. ⟨10.7554/eLife.78549⟩
Journal articles hal-03834203v1
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Virus Pop—Expanding Viral Databases by Protein Sequence Simulation

Julia Kende , Massimiliano Bonomi , Sarah Temmam , Béatrice Regnault , Philippe Pérot , et al.
Viruses, 2023, 15 (6), pp.1227. ⟨10.3390/v15061227⟩
Journal articles pasteur-04106241v1
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HARIBOSS: a curated database of RNA-small molecules structures to aid rational drug design

F. P. Panei , R. Torchet , H. Menager , P. Gkeka , M. Bonomi
Bioinformatics, 2022, 38 (17), pp.4185-4193. ⟨10.1093/bioinformatics/btac483⟩
Journal articles hal-03834209v2
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Promoting transparency and reproducibility in enhanced molecular simulations

Massimiliano Bonomi , Giovanni Bussi , Carlo Camilloni , Gareth A. Tribello , Pavel Banáš , et al.
Nature Methods, 2019, 16 (8), pp.670-673. ⟨10.1038/s41592-019-0506-8⟩
Journal articles hal-03135913v1
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Solid-State NMR and MD Study of the Structure of the Statherin Mutant SNa15 on Mineral Surfaces

Erika Buckle , Arushi Prakash , Massimiliano Bonomi , Janani Sampath , Jim Pfaendtner , et al.
Journal of the American Chemical Society, 2019, 141 (5), pp.1998-2011. ⟨10.1021/jacs.8b10990⟩
Journal articles hal-03135860v1
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Bat coronaviruses related to SARS-CoV-2 and infectious for human cells

Sarah Temmam , Khamsing Vongphayloth , Eduard Baquero , Sandie Munier , Massimiliano Bonomi , et al.
Nature, 2022, 604 (7905), pp.330-336. ⟨10.1038/s41586-022-04532-4⟩
Journal articles pasteur-03661247v1
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Determination of the structure and dynamics of the fuzzy coat of an amyloid fibril of IAPP using cryo-electron microscopy

Z. Faidon Brotzakis , Thomas Löhr , Steven Truong , Samuel E. Hoff , Massimiliano Bonomi , et al.
Preprints, Working Papers, ... hal-03834207v1
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Rational design of ASCT2 inhibitors using an integrated experimental-computational approach

Rachel-Ann A. Garibsingh , Elias Ndaru , Alisa A. Garaeva , Yueyue Shi , Laura Zielewicz , et al.
Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (37), pp.e2104093118. ⟨10.1073/pnas.2104093118⟩
Journal articles hal-03417486v2