A point cloud-based deep learning strategy for protein–ligand binding affinity prediction

Y Wang, S Wu, Y Duan, Y Huang - Briefings in bioinformatics, 2022 - academic.oup.com
There is great interest to develop artificial intelligence-based protein–ligand binding affinity
models due to their immense applications in drug discovery. In this paper, PointNet and …

Planet: a multi-objective graph neural network model for protein–ligand binding affinity prediction

X Zhang, H Gao, H Wang, Z Chen… - Journal of Chemical …, 2023 - ACS Publications
Predicting protein–ligand binding affinity is a central issue in drug design. Various deep
learning models have been published in recent years, where many of them rely on 3D …

A cascade graph convolutional network for predicting protein–ligand binding affinity

H Shen, Y Zhang, C Zheng, B Wang… - International journal of …, 2021 - mdpi.com
Accurate prediction of binding affinity between protein and ligand is a very important step in
the field of drug discovery. Although there are many methods based on different …

AK-score: accurate protein-ligand binding affinity prediction using an ensemble of 3D-convolutional neural networks

Y Kwon, WH Shin, J Ko, J Lee - International journal of molecular …, 2020 - mdpi.com
Accurate prediction of the binding affinity of a protein-ligand complex is essential for efficient
and successful rational drug design. Therefore, many binding affinity prediction methods …

Development of a graph convolutional neural network model for efficient prediction of protein-ligand binding affinities

J Son, D Kim - PloS one, 2021 - journals.plos.org
Prediction of protein-ligand interactions is a critical step during the initial phase of drug
discovery. We propose a novel deep-learning-based prediction model based on a graph …

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 …

DLSSAffinity: protein–ligand binding affinity prediction via a deep learning model

H Wang, H Liu, S Ning, C Zeng, Y Zhao - Physical Chemistry Chemical …, 2022 - pubs.rsc.org
Evaluating the protein–ligand binding affinity is a substantial part of the computer-aided drug
discovery process. Most of the proposed computational methods predict protein–ligand …

Onionnet: a multiple-layer intermolecular-contact-based convolutional neural network for protein–ligand binding affinity prediction

L Zheng, J Fan, Y Mu - ACS omega, 2019 - ACS Publications
Computational drug discovery provides an efficient tool for helping large-scale lead
molecule screening. One of the major tasks of lead discovery is identifying molecules with …

Deepbindgcn: Integrating molecular vector representation with graph convolutional neural networks for protein–ligand interaction prediction

H Zhang, KM Saravanan, JZH Zhang - Molecules, 2023 - mdpi.com
The core of large-scale drug virtual screening is to select the binders accurately and
efficiently with high affinity from large libraries of small molecules in which non-binders are …

Sfcnn: a novel scoring function based on 3D convolutional neural network for accurate and stable protein–ligand affinity prediction

Y Wang, Z Wei, L Xi - BMC bioinformatics, 2022 - Springer
Background Computer-aided drug design provides an effective method of identifying lead
compounds. However, success rates are significantly bottlenecked by the lack of accurate …