Transformer-based deep learning for predicting protein properties in the life sciences

A Chandra, L Tünnermann, T Löfstedt, R Gratz - Elife, 2023 - elifesciences.org
Recent developments in deep learning, coupled with an increasing number of sequenced
proteins, have led to a breakthrough in life science applications, in particular in protein …

Attention is all you need: utilizing attention in AI-enabled drug discovery

Y Zhang, C Liu, M Liu, T Liu, H Lin… - Briefings in …, 2024 - academic.oup.com
Recently, attention mechanism and derived models have gained significant traction in drug
development due to their outstanding performance and interpretability in handling complex …

AttentionMGT-DTA: A multi-modal drug-target affinity prediction using graph transformer and attention mechanism

H Wu, J Liu, T Jiang, Q Zou, S Qi, Z Cui, P Tiwari… - Neural Networks, 2024 - Elsevier
The accurate prediction of drug-target affinity (DTA) is a crucial step in drug discovery and
design. Traditional experiments are very expensive and time-consuming. Recently, deep …

[HTML][HTML] Advancing drug discovery with deep attention neural networks

A Lavecchia - Drug Discovery Today, 2024 - Elsevier
In the dynamic field of drug discovery, deep attention neural networks are revolutionizing our
approach to complex data. This review explores the attention mechanism and its extended …

GPCNDTA: prediction of drug-target binding affinity through cross-attention networks augmented with graph features and pharmacophores

L Zhang, CC Wang, Y Zhang, X Chen - Computers in Biology and Medicine, 2023 - Elsevier
Drug-target affinity prediction is a challenging task in drug discovery. The latest
computational models have limitations in mining edge information in molecule graphs …

DataDTA: a multi-feature and dual-interaction aggregation framework for drug–target binding affinity prediction

Y Zhu, L Zhao, N Wen, J Wang, C Wang - Bioinformatics, 2023 - academic.oup.com
Motivation Accurate prediction of drug–target binding affinity (DTA) is crucial for drug
discovery. The increase in the publication of large-scale DTA datasets enables the …

PMF-CPI: assessing drug selectivity with a pretrained multi-functional model for compound–protein interactions

N Song, R Dong, Y Pu, E Wang, J Xu, F Guo - Journal of Cheminformatics, 2023 - Springer
Compound–protein interactions (CPI) play significant roles in drug development. To avoid
side effects, it is also crucial to evaluate drug selectivity when binding to different targets …

[HTML][HTML] A brief review of protein–ligand interaction prediction

L Zhao, Y Zhu, J Wang, N Wen, C Wang… - Computational and …, 2022 - Elsevier
The task of identifying protein–ligand interactions (PLIs) plays a prominent role in the field of
drug discovery. However, it is infeasible to identify potential PLIs via costly and laborious in …

Application of transformers in cheminformatics

KD Luong, A Singh - Journal of Chemical Information and …, 2024 - ACS Publications
By accelerating time-consuming processes with high efficiency, computing has become an
essential part of many modern chemical pipelines. Machine learning is a class of computing …

Predicting the hallucinogenic potential of molecules using artificial intelligence

F Urbina, T Jones, JS Harris, SH Snyder… - ACS Chemical …, 2024 - ACS Publications
The development of new drugs addressing serious mental health and other disorders
should avoid the psychedelic experience. Analogs of psychedelic drugs can have clinical …