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 …

[HTML][HTML] Graph neural networks: A review of methods and applications

J Zhou, G Cui, S Hu, Z Zhang, C Yang, Z Liu, L Wang… - AI open, 2020 - Elsevier
Lots of learning tasks require dealing with graph data which contains rich relation
information among elements. Modeling physics systems, learning molecular fingerprints …

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 …

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 …

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 …

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 …

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 …

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 …

Deep learning for molecular design—a review of the state of the art

DC Elton, Z Boukouvalas, MD Fuge… - … Systems Design & …, 2019 - pubs.rsc.org
In the space of only a few years, deep generative modeling has revolutionized how we think
of artificial creativity, yielding autonomous systems which produce original images, music …

Graphaf: a flow-based autoregressive model for molecular graph generation

C Shi, M Xu, Z Zhu, W Zhang, M Zhang… - arxiv preprint arxiv …, 2020 - arxiv.org
Molecular graph generation is a fundamental problem for drug discovery and has been
attracting growing attention. The problem is challenging since it requires not only generating …