Machine learning methods for small data challenges in molecular science

B Dou, Z Zhu, E Merkurjev, L Ke, L Chen… - Chemical …, 2023 - ACS Publications
Small data are often used in scientific and engineering research due to the presence of
various constraints, such as time, cost, ethics, privacy, security, and technical limitations in …

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 …

Uni-mol: A universal 3d molecular representation learning framework

G Zhou, Z Gao, Q Ding, H Zheng, H Xu, Z Wei, L Zhang… - 2023 - chemrxiv.org
Molecular representation learning (MRL) has gained tremendous attention due to its critical
role in learning from limited supervised data for applications like drug design. In most MRL …

Accurate prediction of molecular properties and drug targets using a self-supervised image representation learning framework

X Zeng, H Xiang, L Yu, J Wang, K Li… - Nature Machine …, 2022 - nature.com
The clinical efficacy and safety of a drug is determined by its molecular properties and
targets in humans. However, proteome-wide evaluation of all compounds in humans, or …

Contrastive learning of subject-invariant EEG representations for cross-subject emotion recognition

X Shen, X Liu, X Hu, D Zhang… - IEEE Transactions on …, 2022 - ieeexplore.ieee.org
EEG signals have been reported to be informative and reliable for emotion recognition in
recent years. However, the inter-subject variability of emotion-related EEG signals still poses …

Explainable graph wavelet denoising network for intelligent fault diagnosis

T Li, C Sun, S Li, Z Wang, X Chen… - IEEE Transactions on …, 2022 - ieeexplore.ieee.org
Deep learning (DL)-based intelligent fault diagnosis methods have greatly promoted the
development of the field of fault diagnosis due to their powerful feature extraction ability for …

Mole-bert: Rethinking pre-training graph neural networks for molecules

J Xia, C Zhao, B Hu, Z Gao, C Tan, Y Liu, S Li, SZ Li - 2023 - chemrxiv.org
Recent years have witnessed the prosperity of pre-training graph neural networks (GNNs)
for molecules. Typically, atom types as node attributes are randomly masked and GNNs are …

A survey of graph neural networks in various learning paradigms: methods, applications, and challenges

L Waikhom, R Patgiri - Artificial Intelligence Review, 2023 - Springer
In the last decade, deep learning has reinvigorated the machine learning field. It has solved
many problems in computer vision, speech recognition, natural language processing, and …

Fractional denoising for 3d molecular pre-training

S Feng, Y Ni, Y Lan, ZM Ma… - … Conference on Machine …, 2023 - proceedings.mlr.press
Coordinate denoising is a promising 3D molecular pre-training method, which has achieved
remarkable performance in various downstream drug discovery tasks. Theoretically, the …

Equivariant graph neural networks for toxicity prediction

J Cremer, L Medrano Sandonas… - Chemical Research …, 2023 - ACS Publications
Predictive modeling of toxicity is a crucial step in the drug discovery pipeline. It can help filter
out molecules with a high probability of failing in the early stages of de novo drug design …