Generative models as an emerging paradigm in the chemical sciences

DM Anstine, O Isayev - Journal of the American Chemical Society, 2023 - ACS Publications
Traditional computational approaches to design chemical species are limited by the need to
compute properties for a vast number of candidates, eg, by discriminative modeling …

Generative models for molecular discovery: Recent advances and challenges

C Bilodeau, W **, T Jaakkola… - Wiley …, 2022 - Wiley Online Library
Abstract Development of new products often relies on the discovery of novel molecules.
While conventional molecular design involves using human expertise to propose …

Graph neural networks: foundation, frontiers and applications

L Wu, P Cui, J Pei, L Zhao, X Guo - … of the 28th ACM SIGKDD conference …, 2022 - dl.acm.org
The field of graph neural networks (GNNs) has seen rapid and incredible strides over the
recent years. Graph neural networks, also known as deep learning on graphs, graph …

Invalid SMILES are beneficial rather than detrimental to chemical language models

MA Skinnider - Nature Machine Intelligence, 2024 - nature.com
Generative machine learning models have attracted intense interest for their ability to
sample novel molecules with desired chemical or biological properties. Among these …

Deep neural networks for the evaluation and design of photonic devices

J Jiang, M Chen, JA Fan - Nature Reviews Materials, 2021 - nature.com
The data-science revolution is poised to transform the way photonic systems are simulated
and designed. Photonic systems are, in many ways, an ideal substrate for machine learning …

Graph-based semi-supervised learning: A comprehensive review

Z Song, X Yang, Z Xu, I King - IEEE Transactions on Neural …, 2022 - ieeexplore.ieee.org
Semi-supervised learning (SSL) has tremendous value in practice due to the utilization of
both labeled and unlabelled data. An essential class of SSL methods, referred to as graph …

SELFIES and the future of molecular string representations

M Krenn, Q Ai, S Barthel, N Carson, A Frei, NC Frey… - Patterns, 2022 - cell.com
Artificial intelligence (AI) and machine learning (ML) are expanding in popularity for broad
applications to challenging tasks in chemistry and materials science. Examples include the …

Self-referencing embedded strings (SELFIES): A 100% robust molecular string representation

M Krenn, F Häse, AK Nigam, P Friederich… - Machine Learning …, 2020 - iopscience.iop.org
The discovery of novel materials and functional molecules can help to solve some of
society's most urgent challenges, ranging from efficient energy harvesting and storage to …

A comprehensive survey on graph neural networks

Z Wu, S Pan, F Chen, G Long, C Zhang… - IEEE transactions on …, 2020 - ieeexplore.ieee.org
Deep learning has revolutionized many machine learning tasks in recent years, ranging
from image classification and video processing to speech recognition and natural language …

Informed machine learning–a taxonomy and survey of integrating prior knowledge into learning systems

L Von Rueden, S Mayer, K Beckh… - … on Knowledge and …, 2021 - ieeexplore.ieee.org
Despite its great success, machine learning can have its limits when dealing with insufficient
training data. A potential solution is the additional integration of prior knowledge into the …