Geometric deep learning on molecular representations

K Atz, F Grisoni, G Schneider - Nature Machine Intelligence, 2021 - nature.com
Geometric deep learning (GDL) is based on neural network architectures that incorporate
and process symmetry information. GDL bears promise for molecular modelling applications …

Physics-inspired structural representations for molecules and materials

F Musil, A Grisafi, AP Bartók, C Ortner… - Chemical …, 2021 - ACS Publications
The first step in the construction of a regression model or a data-driven analysis, aiming to
predict or elucidate the relationship between the atomic-scale structure of matter and its …

Pre-training molecular graph representation with 3d geometry

S Liu, H Wang, W Liu, J Lasenby, H Guo… - arXiv preprint arXiv …, 2021 - arxiv.org
Molecular graph representation learning is a fundamental problem in modern drug and
material discovery. Molecular graphs are typically modeled by their 2D topological …

3d infomax improves gnns for molecular property prediction

H Stärk, D Beaini, G Corso, P Tossou… - International …, 2022 - proceedings.mlr.press
Molecular property prediction is one of the fastest-growing applications of deep learning with
critical real-world impacts. Although the 3D molecular graph structure is necessary for …

ComENet: Towards complete and efficient message passing for 3D molecular graphs

L Wang, Y Liu, Y Lin, H Liu, S Ji - Advances in Neural …, 2022 - proceedings.neurips.cc
Many real-world data can be modeled as 3D graphs, but learning representations that
incorporates 3D information completely and efficiently is challenging. Existing methods …

Artificial intelligence for science in quantum, atomistic, and continuum systems

X Zhang, L Wang, J Helwig, Y Luo, C Fu, Y Xie… - arXiv preprint arXiv …, 2023 - arxiv.org
Advances in artificial intelligence (AI) are fueling a new paradigm of discoveries in natural
sciences. Today, AI has started to advance natural sciences by improving, accelerating, and …

Geomol: Torsional geometric generation of molecular 3d conformer ensembles

O Ganea, L Pattanaik, C Coley… - Advances in …, 2021 - proceedings.neurips.cc
Prediction of a molecule's 3D conformer ensemble from the molecular graph holds a key
role in areas of cheminformatics and drug discovery. Existing generative models have …

[HTML][HTML] GEOM, energy-annotated molecular conformations for property prediction and molecular generation

S Axelrod, R Gomez-Bombarelli - Scientific Data, 2022 - nature.com
Abstract Machine learning (ML) outperforms traditional approaches in many molecular
design tasks. ML models usually predict molecular properties from a 2D chemical graph or a …

[HTML][HTML] Neural scaling of deep chemical models

NC Frey, R Soklaski, S Axelrod, S Samsi… - Nature Machine …, 2023 - nature.com
Massive scale, in terms of both data availability and computation, enables important
breakthroughs in key application areas of deep learning such as natural language …

Learning matter: Materials design with machine learning and atomistic simulations

S Axelrod, D Schwalbe-Koda… - Accounts of Materials …, 2022 - ACS Publications
Conspectus Designing new materials is vital for addressing pressing societal challenges in
health, energy, and sustainability. The combination of physicochemical laws and empirical …