A 3D generative model for structure-based drug design

S Luo, J Guan, J Ma, J Peng - Advances in Neural …, 2021 - proceedings.neurips.cc
We study a fundamental problem in structure-based drug design---generating molecules
that bind to specific protein binding sites. While we have witnessed the great success of …

[HTML][HTML] Generating 3D molecules conditional on receptor binding sites with deep generative models

M Ragoza, T Masuda, DR Koes - Chemical science, 2022 - pubs.rsc.org
The goal of structure-based drug discovery is to find small molecules that bind to a given
target protein. Deep learning has been used to generate drug-like molecules with certain …

Advances and challenges in de novo drug design using three-dimensional deep generative models

W Xie, F Wang, Y Li, L Lai, J Pei - Journal of Chemical Information …, 2022 - ACS Publications
A persistent goal for de novo drug design is to generate novel chemical compounds with
desirable properties in a labor-, time-, and cost-efficient manner. Deep generative models …

ResGen is a pocket-aware 3D molecular generation model based on parallel multiscale modelling

O Zhang, J Zhang, J Jin, X Zhang, RL Hu… - Nature Machine …, 2023 - nature.com
Most molecular generative models based on artificial intelligence for de novo drug design
are ligand-centric and do not consider the detailed three-dimensional geometries of protein …

Generating 3d molecular structures conditional on a receptor binding site with deep generative models

T Masuda, M Ragoza, DR Koes - arXiv preprint arXiv:2010.14442, 2020 - arxiv.org
Deep generative models have been applied with increasing success to the generation of
two dimensional molecules as SMILES strings and molecular graphs. In this work we …

[HTML][HTML] Structure-based de novo drug design using 3D deep generative models

Y Li, J Pei, L Lai - Chemical science, 2021 - pubs.rsc.org
Deep generative models are attracting much attention in the field of de novo molecule
design. Compared to traditional methods, deep generative models can be trained in a fully …

Learning subpocket prototypes for generalizable structure-based drug design

Z Zhang, Q Liu - International Conference on Machine …, 2023 - proceedings.mlr.press
Generating molecules with high binding affinities to target proteins (aka structure-based
drug design) is a fundamental and challenging task in drug discovery. Recently, deep …

Deep generative models for 3D linker design

F Imrie, AR Bradley, M van der Schaar… - Journal of chemical …, 2020 - ACS Publications
Rational compound design remains a challenging problem for both computational methods
and medicinal chemists. Computational generative methods have begun to show promising …

Data-driven approach to encoding and decoding 3-d crystal structures

J Hoffmann, L Maestrati, Y Sawada, J Tang… - arXiv preprint arXiv …, 2019 - arxiv.org
Generative models have achieved impressive results in many domains including image and
text generation. In the natural sciences, generative models have led to rapid progress in …

Molecule generation for target protein binding with structural motifs

Z Zhang, Y Min, S Zheng, Q Liu - The Eleventh International …, 2023 - openreview.net
Designing ligand molecules that bind to specific protein binding sites is a fundamental
problem in structure-based drug design. Although deep generative models and geometric …