Jonathan Barnoud

Affiliations

Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, The Netherlands.

Publications (14)

Size-dependent aggregation of hydrophobic nanoparticles in lipid membranes.

Nanoscale

Avec: Enrico Lavagna , Jonathan Barnoud , Giulia Rossi , Luca Monticelli

Martini 3 Coarse-Grained Force Field for Cholesterol.

Journal of chemical theory and computation

Avec: Luís Borges-Araújo , Ana C Borges-Araújo , Tugba Nur Ozturk , Daniel P Ramirez-Echemendia , Balázs Fábián , Timothy S Carpenter , Sebastian Thallmair , Jonathan Barnoud , Helgi I Ingólfsson , Gerhard Hummer , D Peter Tieleman , Siewert J Marrink , Paulo C T Souza , Manuel N Melo

Interactive Molecular Dynamics in Virtual Reality Is an Effective Tool for Flexible Substrate and Inhibitor Docking to the SARS-CoV-2 Main Protease.

Journal of chemical information and modeling

Avec: Helen M Deeks , Rebecca K Walters , Jonathan Barnoud , David R Glowacki , Adrian J Mulholland

Sex and Ontogenetic Variation in the Crest of Numida meleagris: Implications for Crested Vertebrates.

Anatomical record (Hoboken, N.J. : 2007)

Avec: Delphine Angst , Jonathan Barnoud , Raphaël Cornette , Anusuya Chinsamy

Sharing Data from Molecular Simulations.

Journal of chemical information and modeling

Avec: Mark Abraham , Rossen Apostolov , Jonathan Barnoud , Paul Bauer , Christian Blau , Alexandre M J J Bonvin , Matthieu Chavent , John Chodera , Karmen Čondić-Jurkić , Lucie Delemotte , Helmut Grubmüller , Rebecca J Howard , E Joseph Jordan , Erik Lindahl , O H Samuli Ollila , Jana Selent , Daniel G A Smith , Phillip J Stansfeld , Johanna K S Tiemann , Mikael Trellet , Christopher Woods , Artem Zhmurov

Coupling Coarse-Grained to Fine-Grained Models via Hamiltonian Replica Exchange.

Journal of chemical theory and computation

Avec: Yang Liu , Weria Pezeshkian , Jonathan Barnoud , Alex H de Vries , Siewert J Marrink

Martini 3: a general purpose force field for coarse-grained molecular dynamics.

Nature methods

Avec: Paulo C T Souza , Riccardo Alessandri , Jonathan Barnoud , Sebastian Thallmair , Ignacio Faustino , Fabian Grünewald , Ilias Patmanidis , Haleh Abdizadeh , Bart M H Bruininks , Tsjerk A Wassenaar , Peter C Kroon , Josef Melcr , Vincent Nieto , Valentina Corradi , Hanif M Khan , Jan Domański , Matti Javanainen , Hector Martinez-Seara , Nathalie Reuter , Robert B Best , Ilpo Vattulainen , Luca Monticelli , Xavier Periole , D Peter Tieleman , Alex H de Vries , Siewert J Marrink

Dual Resolution Membrane Simulations Using Virtual Sites.

The journal of physical chemistry. B

Avec: Yang Liu , Alex H De Vries , Jonathan Barnoud , Weria Pezeshkian , Josef Melcr , Siewert J Marrink

Gangliosides Destabilize Lipid Phase Separation in Multicomponent Membranes.

Biophysical journal

Avec: Yang Liu , Jonathan Barnoud , Siewert J Marrink

The emerging potential of interactive virtual reality in drug discovery.

Expert opinion on drug discovery

Avec: Rebecca K Walters , Ella M Gale , Jonathan Barnoud , David R Glowacki , Adrian J Mulholland

Free energy along drug-protein binding pathways interactively sampled in virtual reality.

Scientific reports

Avec: Helen M Deeks , Kirill Zinovjev , Jonathan Barnoud , Adrian J Mulholland , Marc W van der Kamp , David R Glowacki

Titratable Martini model for constant pH simulations.

The Journal of chemical physics

Avec: Fabian Grünewald , Paulo C T Souza , Haleh Abdizadeh , Jonathan Barnoud , Alex H de Vries , Siewert J Marrink

Capturing Choline-Aromatics Cation-π Interactions in the MARTINI Force Field.

Journal of chemical theory and computation

Avec: Hanif M Khan , Paulo C T Souza , Sebastian Thallmair , Jonathan Barnoud , Alex H de Vries , Siewert J Marrink , Nathalie Reuter

Piezo1 Forms Specific, Functionally Important Interactions with Phosphoinositides and Cholesterol.

Biophysical journal

Avec: Amanda Buyan , Charles D Cox , Jonathan Barnoud , Jinyuan Li , Hannah S M Chan , Boris Martinac , Siewert J Marrink , Ben Corry

Réseau de co-auteurs

Siewert J Marrink 8 collaborations

Paulo C T Souza 4 collaborations

Alex H de Vries 4 collaborations

Sebastian Thallmair 3 collaborations

David R Glowacki 3 collaborations

Adrian J Mulholland 3 collaborations

Yang Liu 3 collaborations

Luca Monticelli 2 collaborations

D Peter Tieleman 2 collaborations

Helen M Deeks 2 collaborations

Rebecca K Walters 2 collaborations

Weria Pezeshkian 2 collaborations

Fabian Grünewald 2 collaborations

Haleh Abdizadeh 2 collaborations

Josef Melcr 2 collaborations

Hanif M Khan 2 collaborations

Nathalie Reuter 2 collaborations

Enrico Lavagna 1 collaboration

Giulia Rossi 1 collaboration

Luís Borges-Araújo 1 collaboration

Ana C Borges-Araújo 1 collaboration

Tugba Nur Ozturk 1 collaboration

Daniel P Ramirez-Echemendia 1 collaboration

Balázs Fábián 1 collaboration

Timothy S Carpenter 1 collaboration

Helgi I Ingólfsson 1 collaboration

Gerhard Hummer 1 collaboration

Manuel N Melo 1 collaboration

Delphine Angst 1 collaboration

Raphaël Cornette 1 collaboration

Anusuya Chinsamy 1 collaboration

Mark Abraham 1 collaboration

Rossen Apostolov 1 collaboration

Paul Bauer 1 collaboration

Christian Blau 1 collaboration

Alexandre M J J Bonvin 1 collaboration

Matthieu Chavent 1 collaboration

John Chodera 1 collaboration

Karmen Čondić-Jurkić 1 collaboration

Lucie Delemotte 1 collaboration

Helmut Grubmüller 1 collaboration

Rebecca J Howard 1 collaboration

E Joseph Jordan 1 collaboration

Erik Lindahl 1 collaboration

O H Samuli Ollila 1 collaboration

Jana Selent 1 collaboration

Daniel G A Smith 1 collaboration

Phillip J Stansfeld 1 collaboration

Johanna K S Tiemann 1 collaboration

Mikael Trellet 1 collaboration

Christopher Woods 1 collaboration

Artem Zhmurov 1 collaboration

Riccardo Alessandri 1 collaboration

Ignacio Faustino 1 collaboration

Ilias Patmanidis 1 collaboration

Bart M H Bruininks 1 collaboration

Tsjerk A Wassenaar 1 collaboration

Peter C Kroon 1 collaboration

Vincent Nieto 1 collaboration

Valentina Corradi 1 collaboration

Jan Domański 1 collaboration

Matti Javanainen 1 collaboration

Hector Martinez-Seara 1 collaboration

Robert B Best 1 collaboration

Ilpo Vattulainen 1 collaboration

Xavier Periole 1 collaboration

Alex H De Vries 1 collaboration

Ella M Gale 1 collaboration

Kirill Zinovjev 1 collaboration

Marc W van der Kamp 1 collaboration

Amanda Buyan 1 collaboration

Charles D Cox 1 collaboration

Jinyuan Li 1 collaboration

Hannah S M Chan 1 collaboration

Boris Martinac 1 collaboration

Ben Corry 1 collaboration