Open-source machine learning in computational chemistry

A Hagg, KN Kirschner - Journal of Chemical Information and …, 2023 - ACS Publications
The field of computational chemistry has seen a significant increase in the integration of
machine learning concepts and algorithms. In this Perspective, we surveyed 179 open …

Machine learning force fields for molecular liquids: Ethylene Carbonate/Ethyl Methyl Carbonate binary solvent

IB Magdău, DJ Arismendi-Arrieta, HE Smith… - npj Computational …, 2023 - nature.com
Highly accurate ab initio molecular dynamics (MD) methods are the gold standard for
studying molecular mechanisms in the condensed phase, however, they are too expensive …

A quantum chemical interaction energy dataset for accurately modeling protein-ligand interactions

SA Spronk, ZL Glick, DP Metcalf, CD Sherrill… - Scientific Data, 2023 - nature.com
Fast and accurate calculation of intermolecular interaction energies is desirable for
understanding many chemical and biological processes, including the binding of small …

Robust and scalable uncertainty estimation with conformal prediction for machine-learned interatomic potentials

Y Hu, J Musielewicz, ZW Ulissi… - … Learning: Science and …, 2022 - iopscience.iop.org
Uncertainty quantification (UQ) is important to machine learning (ML) force fields to assess
the level of confidence during prediction, as ML models are not inherently physical and can …

Neat, simple, and wrong: Debunking electrostatic fallacies regarding noncovalent interactions

JM Herbert - The Journal of Physical Chemistry A, 2021 - ACS Publications
Multipole moments such as charge, dipole, and quadrupole are often invoked to rationalize
intermolecular phenomena, but a low-order multipole expansion is rarely a valid description …

DL_FFLUX: a parallel, quantum chemical topology force field

BCB Symons, MK Bane… - Journal of Chemical Theory …, 2021 - ACS Publications
DL_FFLUX is a force field based on quantum chemical topology that can perform molecular
dynamics for flexible molecules endowed with polarizable atomic multipole moments (up to …

Comprehensive basis-set testing of extended symmetry-adapted perturbation theory and assessment of mixed-basis combinations to reduce cost

M Gray, JM Herbert - Journal of Chemical Theory and …, 2022 - ACS Publications
Hybrid or “extended” symmetry-adapted perturbation theory (XSAPT) replaces traditional
SAPT's treatment of dispersion with better performing alternatives while at the same time …

Canonical coupled cluster binding benchmark for nanoscale noncovalent complexes at the hundred-atom scale

KU Lao - The Journal of Chemical Physics, 2024 - pubs.aip.org
In this study, we introduce two datasets for nanoscale noncovalent binding, featuring
complexes at the hundred-atom scale, benchmarked using coupled cluster with single …

An expedited route to optical and electronic properties at finite temperature via unsupervised learning

F Perrella, F Coppola, N Rega, A Petrone - Molecules, 2023 - mdpi.com
Electronic properties and absorption spectra are the grounds to investigate molecular
electronic states and their interactions with the environment. Modeling and computations are …

Incorporating Noncovalent Interactions in Transfer Learning Gaussian Process Regression Models for Molecular Simulations

ML Brown, BK Isamura, JM Skelton… - Journal of Chemical …, 2024 - ACS Publications
FFLUX is a quantum chemical topology-based multipolar force field that uses Gaussian
process regression machine learning models to predict atomic energies and multipole …