Machine learning interatomic potentials and long-range physics

DM Anstine, O Isayev - The Journal of Physical Chemistry A, 2023 - ACS Publications
Advances in machine learned interatomic potentials (MLIPs), such as those using neural
networks, have resulted in short-range models that can infer interaction energies with near …

Drug design in the exascale era: a perspective from massively parallel QM/MM simulations

B Raghavan, M Paulikat, K Ahmad… - Journal of chemical …, 2023 - ACS Publications
The initial phases of drug discovery–in silico drug design–could benefit from first principle
Quantum Mechanics/Molecular Mechanics (QM/MM) molecular dynamics (MD) simulations …

OpenMM 8: molecular dynamics simulation with machine learning potentials

P Eastman, R Galvelis, RP Peláez… - The Journal of …, 2023 - ACS Publications
Machine learning plays an important and growing role in molecular simulation. The newest
version of the OpenMM molecular dynamics toolkit introduces new features to support the …

How dynamics changes ammonia cracking on iron surfaces

S Perego, L Bonati, S Tripathi, M Parrinello - ACS Catalysis, 2024 - ACS Publications
Being rich in hydrogen and easy to transport, ammonia is a promising hydrogen carrier.
However, a microscopic characterization of the ammonia cracking reaction is still lacking …

Enhancing Protein–Ligand Binding Affinity Predictions Using Neural Network Potentials

F Sabanés Zariquiey, R Galvelis… - Journal of Chemical …, 2024 - ACS Publications
This letter gives results on improving protein–ligand binding affinity predictions based on
molecular dynamics simulations using machine learning potentials with a hybrid neural …

[HTML][HTML] Review of deep learning algorithms in molecular simulations and perspective applications on petroleum engineering

J Liu, T Zhang, S Sun - Geoscience Frontiers, 2024 - Elsevier
In the last few decades, deep learning (DL) has afforded solutions to macroscopic problems
in petroleum engineering, but mechanistic problems at the microscale have not benefited …

[HTML][HTML] How exascale computing can shape drug design: A perspective from multiscale QM/MM molecular dynamics simulations and machine learning-aided …

G Rossetti, D Mandelli - Current Opinion in Structural Biology, 2024 - Elsevier
Molecular simulations are an essential asset in the first steps of drug design campaigns.
However, the requirement of high-throughput limits applications mainly to qualitative …

Incorporating Neural Networks into the AMOEBA Polarizable Force Field

Y Wang, TJ Inizan, C Liu, JP Piquemal… - The Journal of Physical …, 2024 - ACS Publications
Neural network potentials (NNPs) offer significant promise to bridge the gap between the
accuracy of quantum mechanics and the efficiency of molecular mechanics in molecular …

Machine learning heralding a new development phase in molecular dynamics simulations

E Prašnikar, M Ljubič, A Perdih, J Borišek - Artificial intelligence review, 2024 - Springer
Molecular dynamics (MD) simulations are a key computational chemistry technique that
provide dynamic insight into the underlying atomic-level processes in the system under …

Modeling intermolecular interactions with exchange-hole dipole moment dispersion corrections to neural network potentials

NTP Tu, S Williamson, ER Johnson… - The Journal of Physical …, 2024 - ACS Publications
Neural network potentials (NNPs) are an innovative approach for calculating the potential
energy and forces of a chemical system. In principle, these methods are capable of …