Artificial intelligence for drug discovery: Resources, methods, and applications

W Chen, X Liu, S Zhang, S Chen - Molecular Therapy-Nucleic Acids, 2023 - cell.com
Conventional wet laboratory testing, validations, and synthetic procedures are costly and
time-consuming for drug discovery. Advancements in artificial intelligence (AI) techniques …

Deep learning in virtual screening: recent applications and developments

TB Kimber, Y Chen, A Volkamer - International journal of molecular …, 2021 - mdpi.com
Drug discovery is a cost and time-intensive process that is often assisted by computational
methods, such as virtual screening, to speed up and guide the design of new compounds …

Learning functional properties of proteins with language models

S Unsal, H Atas, M Albayrak, K Turhan… - Nature Machine …, 2022 - nature.com
Data-centric approaches have been used to develop predictive methods for elucidating
uncharacterized properties of proteins; however, studies indicate that these methods should …

MolTrans: molecular interaction transformer for drug–target interaction prediction

K Huang, C Xiao, LM Glass, J Sun - Bioinformatics, 2021 - academic.oup.com
Motivation Drug–target interaction (DTI) prediction is a foundational task for in-silico drug
discovery, which is costly and time-consuming due to the need of experimental search over …

[HTML][HTML] Chemical language models for de novo drug design: Challenges and opportunities

F Grisoni - Current Opinion in Structural Biology, 2023 - Elsevier
Generative deep learning is accelerating de novo drug design, by allowing the generation of
molecules with desired properties on demand. Chemical language models–which generate …

DeepDTAF: a deep learning method to predict protein–ligand binding affinity

K Wang, R Zhou, Y Li, M Li - Briefings in Bioinformatics, 2021 - academic.oup.com
Biomolecular recognition between ligand and protein plays an essential role in drug
discovery and development. However, it is extremely time and resource consuming to …

Interpretable bilinear attention network with domain adaptation improves drug–target prediction

P Bai, F Miljković, B John, H Lu - Nature Machine Intelligence, 2023 - nature.com
Predicting drug–target interaction is key for drug discovery. Recent deep learning-based
methods show promising performance, but two challenges remain: how to explicitly model …

Deep learning allows genome-scale prediction of Michaelis constants from structural features

A Kroll, MKM Engqvist, D Heckmann, MJ Lercher - PLoS biology, 2021 - journals.plos.org
The Michaelis constant KM describes the affinity of an enzyme for a specific substrate and is
a central parameter in studies of enzyme kinetics and cellular physiology. As measurements …

Deep drug-target binding affinity prediction with multiple attention blocks

Y Zeng, X Chen, Y Luo, X Li… - Briefings in bioinformatics, 2021 - academic.oup.com
Drug-target interaction (DTI) prediction has drawn increasing interest due to its substantial
position in the drug discovery process. Many studies have introduced computational models …

FusionDTA: attention-based feature polymerizer and knowledge distillation for drug-target binding affinity prediction

W Yuan, G Chen, CYC Chen - Briefings in Bioinformatics, 2022 - academic.oup.com
The prediction of drug-target affinity (DTA) plays an increasingly important role in drug
discovery. Nowadays, lots of prediction methods focus on feature encoding of drugs and …