Molecular Dynamic
Molecular dynamics (MD) simulations model the movement of atoms and molecules to understand material properties and chemical processes, but are computationally expensive. Current research focuses on accelerating MD through machine learning (ML) force fields, often employing graph neural networks (GNNs) and other deep learning architectures to predict interatomic forces and energies more efficiently than traditional methods. These advancements enable faster and more accurate simulations of complex systems, impacting fields like drug discovery, materials science, and the study of biological processes by providing insights into reaction mechanisms, conformational changes, and thermodynamic properties. Furthermore, active learning and enhanced sampling techniques are being developed to improve the efficiency and accuracy of these ML-driven simulations.
Papers
Learning Collective Variables with Synthetic Data Augmentation through Physics-inspired Geodesic Interpolation
Soojung Yang, Juno Nam, Johannes C. B. Dietschreit, Rafael Gómez-Bombarelli
Conditional Normalizing Flows for Active Learning of Coarse-Grained Molecular Representations
Henrik Schopmans, Pascal Friederich
OpenMM 8: Molecular Dynamics Simulation with Machine Learning Potentials
Peter Eastman, Raimondas Galvelis, Raúl P. Peláez, Charlles R. A. Abreu, Stephen E. Farr, Emilio Gallicchio, Anton Gorenko, Michael M. Henry, Frank Hu, Jing Huang, Andreas Krämer, Julien Michel, Joshua A. Mitchell, Vijay S. Pande, João PGLM Rodrigues, Jaime Rodriguez-Guerra, Andrew C. Simmonett, Sukrit Singh, Jason Swails, Philip Turner, Yuanqing Wang, Ivy Zhang, John D. Chodera, Gianni De Fabritiis, Thomas E. Markland
GPT-4 as an interface between researchers and computational software: improving usability and reproducibility
Juan C. Verduzco, Ethan Holbrook, Alejandro Strachan