Graph neural networks for materials science and chemistry

P Reiser, M Neubert, A Eberhard, L Torresi… - Communications …, 2022 - nature.com
Abstract Machine learning plays an increasingly important role in many areas of chemistry
and materials science, being used to predict materials properties, accelerate simulations …

Machine intelligence for chemical reaction space

P Schwaller, AC Vaucher, R Laplaza… - Wiley …, 2022 - Wiley Online Library
Discovering new reactions, optimizing their performance, and extending the synthetically
accessible chemical space are critical drivers for major technological advances and more …

Motif-based graph self-supervised learning for molecular property prediction

Z Zhang, Q Liu, H Wang, C Lu… - Advances in Neural …, 2021 - proceedings.neurips.cc
Predicting molecular properties with data-driven methods has drawn much attention in
recent years. Particularly, Graph Neural Networks (GNNs) have demonstrated remarkable …

Learning substructure invariance for out-of-distribution molecular representations

N Yang, K Zeng, Q Wu, X Jia… - Advances in Neural …, 2022 - proceedings.neurips.cc
Molecule representation learning (MRL) has been extensively studied and current methods
have shown promising power for various tasks, eg, molecular property prediction and target …

Designing microbial cell factories for the production of chemicals

JS Cho, GB Kim, H Eun, CW Moon, SY Lee - Jacs Au, 2022 - ACS Publications
The sustainable production of chemicals from renewable, nonedible biomass has emerged
as an essential alternative to address pressing environmental issues arising from our heavy …

Graph neural networks for automated de novo drug design

J Xiong, Z Xiong, K Chen, H Jiang, M Zheng - Drug discovery today, 2021 - Elsevier
Highlights•GNN has attracted wide attention from the field of designing drug molecules.•The
applications of GNN in molecule scoring, molecule generation and optimization, and …

Improving few-and zero-shot reaction template prediction using modern hopfield networks

P Seidl, P Renz, N Dyubankova, P Neves… - Journal of chemical …, 2022 - ACS Publications
Finding synthesis routes for molecules of interest is essential in the discovery of new drugs
and materials. To find such routes, computer-assisted synthesis planning (CASP) methods …

Retrosynthetic reaction pathway prediction through neural machine translation of atomic environments

UV Ucak, I Ashyrmamatov, J Ko, J Lee - Nature communications, 2022 - nature.com
Designing efficient synthetic routes for a target molecule remains a major challenge in
organic synthesis. Atom environments are ideal, stand-alone, chemically meaningful …

DrugOOD: Out-of-Distribution (OOD) Dataset Curator and Benchmark for AI-aided Drug Discovery--A Focus on Affinity Prediction Problems with Noise Annotations

Y Ji, L Zhang, J Wu, B Wu, LK Huang, T Xu… - arXiv preprint arXiv …, 2022 - arxiv.org
AI-aided drug discovery (AIDD) is gaining increasing popularity due to its promise of making
the search for new pharmaceuticals quicker, cheaper and more efficient. In spite of its …

Molecule edit graph attention network: modeling chemical reactions as sequences of graph edits

M Sacha, M Błaz, P Byrski… - Journal of Chemical …, 2021 - ACS Publications
The central challenge in automated synthesis planning is to be able to generate and predict
outcomes of a diverse set of chemical reactions. In particular, in many cases, the most likely …