EQUIBIND: A geometric deep learning-based protein-ligand binding prediction method

Y Li, L Li, S Wang, X Tang - Drug Discoveries & Therapeutics, 2023 - jstage.jst.go.jp
Structure-based virtual screening plays a critical role in drug discovery. However, numerous
docking programs, such as AutoDock Vina and Glide, are time-consuming due to the …

Exploring protein–ligand binding affinity prediction with electron density-based geometric deep learning

C Isert, K Atz, S Riniker, G Schneider - RSC advances, 2024 - pubs.rsc.org
Rational structure-based drug design relies on accurate predictions of protein–ligand
binding affinity from structural molecular information. Although deep learning-based …

Nonlinear scoring functions for similarity-based ligand docking and binding affinity prediction

M Brylinski - 2013 - ACS Publications
A common strategy for virtual screening considers a systematic docking of a large library of
organic compounds into the target sites in protein receptors with promising leads selected …

Equibind: Geometric deep learning for drug binding structure prediction

H Stärk, O Ganea, L Pattanaik… - International …, 2022 - proceedings.mlr.press
Predicting how a drug-like molecule binds to a specific protein target is a core problem in
drug discovery. An extremely fast computational binding method would enable key …

Advancing Ligand Docking through Deep Learning: Challenges and Prospects in Virtual Screening

X Zhang, C Shen, H Zhang, Y Kang… - Accounts of Chemical …, 2024 - ACS Publications
Conspectus Molecular docking, also termed ligand docking (LD), is a pivotal element of
structure-based virtual screening (SBVS) used to predict the binding conformations and …

XG-DTA: Drug-Target Affinity Prediction Based on Drug Molecular Graph and Protein Sequence combined with XLNet

H Zhou, X Shi, Y Wang, Z Wen… - 2023 IEEE International …, 2023 - ieeexplore.ieee.org
Drug-target affinity (DTA) prediction is critical in drug development. Accurate prediction of
drug-target interactions can accelerate the development of new drugs and improve drug …

DEELIG: A deep learning approach to predict protein-ligand binding affinity

A Ahmed, B Mam… - Bioinformatics and biology …, 2021 - journals.sagepub.com
Protein-ligand binding prediction has extensive biological significance. Binding affinity helps
in understanding the degree of protein-ligand interactions and is a useful measure in drug …

A new paradigm for applying deep learning to protein–ligand interaction prediction

Z Wang, S Wang, Y Li, J Guo, Y Wei, Y Mu… - Briefings in …, 2024 - academic.oup.com
Protein–ligand interaction prediction presents a significant challenge in drug design.
Numerous machine learning and deep learning (DL) models have been developed to …

Predicting protein–ligand docking structure with graph neural network

H Jiang, J Wang, W Cong, Y Huang… - Journal of chemical …, 2022 - ACS Publications
Modern day drug discovery is extremely expensive and time consuming. Although
computational approaches help accelerate and decrease the cost of drug discovery, existing …

DockThor-VS: A Free Platform for Receptor-Ligand Virtual Screening

IA Guedes, MMP da Silva, M Galheigo… - Journal of Molecular …, 2024 - Elsevier
The DockThor-VS platform (https://dockthor. lncc. br/v2/) is a free protein–ligand docking
server conceptualized to facilitate and assist drug discovery projects to perform docking …