Jonathan Barnoud

Biotechnology Institute — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

26h-index5.6kcitations81works3.92yr avg
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Research Topics

Protein Structure and Dynamics(20), Lipid Membrane Structure and Behavior(19), Machine Learning in Materials Science(9), Enzyme Structure and Function(8), Nanopore and Nanochannel Transport Studies(8)

Publications81 total

Author response: Martinize2 and Vermouth provide a unified framework for molecular topology generation
2025Open Access
AI-Guided Molecular Simulations in VR: Exploring Strategies for Imitation Learning in Hyperdimensional Molecular Systems
SN Computer Science·2025
NanoVer Server: A Python Package for Serving Real-Time Multi-User Interactive Molecular Dynamics in Virtual Reality
The Journal of Open Source Software·2025· 2 citedOpen Access
Martinize2 and Vermouth: Unified Framework for Topology Generation
2025· 15 citedOpen Access
Author response: Martinize2 and Vermouth: Unified Framework for Topology Generation
2025Open Access
AI-Guided Molecular Simulations in VR: Exploring Strategies for Imitation Learning in Hyperdimensional Molecular Systems
arXiv (Cornell University)·2024Open Access
Reviewer #2 (Public Review): Martinize2 and Vermouth: Unified Framework for Topology Generation
2024Open Access
Author response: Martinize2 and Vermouth: Unified Framework for Topology Generation
2024Open Access
Martinize2 and Vermouth: Unified Framework for Topology Generation
2024· 26 citedOpen Access
Reviewer #3 (Public Review): Martinize2 and Vermouth: Unified Framework for Topology Generation
2024Open Access
Reviewer #1 (Public Review): Martinize2 and Vermouth: Unified Framework for Topology Generation
2024Open Access
Measuring the Limit of Perception of Bond Stiffness of Interactive Molecules in VR via a Gamified Psychophysics Experiment
Lecture notes in computer science·2024· 4 citedOpen Access
Martini 3 Coarse-Grained Force Field for Cholesterol
Journal of Chemical Theory and Computation·2023· 76 citedOpen Access
Free energy along drug-protein binding pathways interactively sampled in virtual reality
Scientific Reports·2023· 12 citedOpen Access
Martini 3 Coarse-Grained Force Field for cholesterol
2023· 6 citedOpen Access
Martinize2 and Vermouth: Unified Framework for Topology Generation
2023· 73 citedOpen Access
Reviewer #2 (Public Review): Martinize2 and Vermouth: Unified Framework for Topology Generation
2023Open Access
Reviewer #1 (Public Review): Martinize2 and Vermouth: Unified Framework for Topology Generation
2023Open Access
Martinize2 and Vermouth provide a unified framework for molecular topology generation
eLife·2023· 24 citedOpen Access
Martini 3 Coarse-Grained Force Field for cholesterol
2023· 1 citedOpen Access
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Frequent Co-authors

‪Siewert J. Marrink(24), Paulo C. T. Souza(12), Luca Monticelli(11), Alex H. de Vries(11), Riccardo Alessandri(7), Giulia Rossi(6), David R. Glowacki(6), Tsjerk A. Wassenaar(5), P. Kroon(5), Richard Gowers(4), Manuel N. Melo(4), Oliver Beckstein(4), Sebastian Thallmair(4), Fabian Grünewald(4), Ilias Patmanidis(4), D. Peter Tieleman(4), Adrian J. Mulholland(4), Tyler Reddy(3), Anders S. Gertsen(3), Pierrick Craveur(3)