Deep learning methods for molecular representation and property prediction

Z Li, M Jiang, S Wang, S Zhang - Drug Discovery Today, 2022 - Elsevier
Highlights•The deep learning method could effectively represent the molecular structure and
predict molecular property through diversified models.•One, two, and three-dimensional …

Accelerated chemical science with AI

S Back, A Aspuru-Guzik, M Ceriotti, G Gryn'ova… - Digital …, 2024 - pubs.rsc.org
In light of the pressing need for practical materials and molecular solutions to renewable
energy and health problems, to name just two examples, one wonders how to accelerate …

Calibrated geometric deep learning improves kinase–drug binding predictions

Y Luo, Y Liu, J Peng - Nature Machine Intelligence, 2023 - nature.com
Protein kinases regulate various cellular functions and hold significant pharmacological
promise in cancer and other diseases. Although kinase inhibitors are one of the largest …

Open challenges in develo** generalizable large-scale machine-learning models for catalyst discovery

A Kolluru, M Shuaibi, A Palizhati, N Shoghi, A Das… - ACS …, 2022 - ACS Publications
The development of machine-learned potentials for catalyst discovery has predominantly
been focused on very specific chemistries and material compositions. While they are …

Modeling the solid electrolyte interphase: Machine learning as a game changer?

D Diddens, WA Appiah, Y Mabrouk… - Advanced Materials …, 2022 - Wiley Online Library
The solid electrolyte interphase (SEI) is a complex passivation layer that forms in situ on
many battery electrodes such as lithium‐intercalated graphite or lithium metal anodes. Its …

Calibration and generalizability of probabilistic models on low-data chemical datasets with DIONYSUS

G Tom, RJ Hickman, A Zinzuwadia, A Mohajeri… - Digital …, 2023 - pubs.rsc.org
Deep learning models that leverage large datasets are often the state of the art for modelling
molecular properties. When the datasets are smaller (< 2000 molecules), it is not clear that …

Large-scale evaluation of k-fold cross-validation ensembles for uncertainty estimation

TM Dutschmann, L Kinzel, A Ter Laak… - Journal of …, 2023 - Springer
It is insightful to report an estimator that describes how certain a model is in a prediction,
additionally to the prediction alone. For regression tasks, most approaches implement a …

Explainable uncertainty quantifications for deep learning-based molecular property prediction

CI Yang, YP Li - Journal of Cheminformatics, 2023 - Springer
Quantifying uncertainty in machine learning is important in new research areas with scarce
high-quality data. In this work, we develop an explainable uncertainty quantification method …

Application of message passing neural networks for molecular property prediction

M Tang, B Li, H Chen - Current Opinion in Structural Biology, 2023 - Elsevier
Accurate molecular property prediction, as one of the classical cheminformatics topics, plays
a prominent role in the fields of computer-aided drug design. For instance, property …

MaterialsAtlas. org: a materials informatics web app platform for materials discovery and survey of state-of-the-art

J Hu, S Stefanov, Y Song, SS Omee, SY Louis… - npj Computational …, 2022 - nature.com
The availability and easy access of large-scale experimental and computational materials
data have enabled the emergence of accelerated development of algorithms and models for …