Predicting solvation free energies with an implicit solvent machine learning potential

S Röcken, AF Burnet, J Zavadlav - arXiv preprint arXiv:2406.00183, 2024 - arxiv.org
Machine learning (ML) potentials are a powerful tool in molecular modeling, enabling ab
initio accuracy for comparably small computational costs. Nevertheless, all-atom simulations …

Improving the Accuracy of Physics-Based Hydration-Free Energy Predictions by Machine Learning the Remaining Error Relative to the Experiment

L Bass, LH Elder, DE Folescu… - Journal of chemical …, 2023 - ACS Publications
The accuracy of computational models of water is key to atomistic simulations of
biomolecules. We propose a computationally efficient way to improve the accuracy of the …

Graph-based approaches for predicting solvation energy in multiple solvents: open datasets and machine learning models

L Ward, N Dandu, B Blaiszik, B Narayanan… - The Journal of …, 2021 - ACS Publications
The solvation properties of molecules, often estimated using quantum chemical simulations,
are important in the synthesis of energy storage materials, drugs, and industrial chemicals …

[HTML][HTML] A general graph neural network based implicit solvation model for organic molecules in water

P Katzberger, S Riniker - Chemical Science, 2024 - pubs.rsc.org
The dynamical behavior of small molecules in their environment can be studied with
classical molecular dynamics (MD) simulations to gain deeper insight on an atomic level …

[HTML][HTML] Machine learning of free energies in chemical compound space using ensemble representations: Reaching experimental uncertainty for solvation

J Weinreich, NJ Browning… - The Journal of Chemical …, 2021 - pubs.aip.org
Free energies govern the behavior of soft and liquid matter, and improving their predictions
could have a large impact on the development of drugs, electrolytes, or homogeneous …

Explainable solvation free energy prediction combining graph neural networks with chemical intuition

K Low, ML Coote, EI Izgorodina - Journal of Chemical Information …, 2022 - ACS Publications
The prediction of a molecule's solvation Gibbs free (Δ G solv) energy in a given solvent is an
important task which has traditionally been carried out via quantum chemical continuum …

[HTML][HTML] Delfos: deep learning model for prediction of solvation free energies in generic organic solvents

H Lim, YJ Jung - Chemical science, 2019 - pubs.rsc.org
Prediction of aqueous solubilities or hydration free energies is an extensively studied area in
machine learning applications in chemistry since water is the sole solvent in the living …

[HTML][HTML] Accurately predicting solvation free energy in aqueous and organic solvents beyond 298 K by combining deep learning and the 1D reference interaction site …

DJ Fowles, RG McHardy, A Ahmad, DS Palmer - Digital Discovery, 2023 - pubs.rsc.org
We report a method to predict the absolute solvation free energy (SFE) of small organic and
druglike molecules in water, carbon tetrachloride and chloroform solvents beyond 298 K by …

[HTML][HTML] Machine learning implicit solvation for molecular dynamics

Y Chen, A Krämer, NE Charron, BE Husic… - The Journal of …, 2021 - pubs.aip.org
Accurate modeling of the solvent environment for biological molecules is crucial for
computational biology and drug design. A popular approach to achieve long simulation time …

Explainable supervised machine learning model to predict solvation gibbs energy

J Ferraz-Caetano, F Teixeira… - Journal of Chemical …, 2023 - ACS Publications
Many challenges persist in developing accurate computational models for predicting
solvation free energy (Δ G sol). Despite recent developments in Machine Learning (ML) …