[HTML][HTML] Artificial intelligence–enabled virtual screening of ultra-large chemical libraries with deep docking

F Gentile, JC Yaacoub, J Gleave, M Fernandez… - Nature …, 2022 - nature.com
With the recent explosion of chemical libraries beyond a billion molecules, more efficient
virtual screening approaches are needed. The Deep Docking (DD) platform enables up to …

The impact of supervised learning methods in ultralarge high-throughput docking

CN Cavasotto, JI Di Filippo - Journal of Chemical Information and …, 2023 - ACS Publications
Structure-based virtual screening methods are, nowadays, one of the key pillars of
computational drug discovery. In recent years, a series of studies have reported docking …

Streamlining large chemical library docking with artificial intelligence: the PyRMD2Dock approach

M Roggia, B Natale, G Amendola… - Journal of Chemical …, 2023 - ACS Publications
The present contribution introduces a novel computational protocol called PyRMD2Dock,
which combines the Ligand-Based Virtual Screening (LBVS) tool PyRMD with the popular …

Deep docking: a deep learning platform for augmentation of structure based drug discovery

F Gentile, V Agrawal, M Hsing, AT Ton, F Ban… - ACS central …, 2020 - ACS Publications
Drug discovery is a rigorous process that requires billion dollars of investments and decades
of research to bring a molecule “from bench to a bedside”. While virtual docking can …

[HTML][HTML] Accelerating high-throughput virtual screening through molecular pool-based active learning

DE Graff, EI Shakhnovich, CW Coley - Chemical science, 2021 - pubs.rsc.org
Structure-based virtual screening is an important tool in early stage drug discovery that
scores the interactions between a target protein and candidate ligands. As virtual libraries …

Efficient exploration of chemical space with docking and deep learning

Y Yang, K Yao, MP Repasky, K Leswing… - Journal of Chemical …, 2021 - ACS Publications
With the advent of make-on-demand commercial libraries, the number of purchasable
compounds available for virtual screening and assay has grown explosively in recent years …

Ligand docking and structure-based virtual screening in drug discovery

CN Cavasotto, AJ W Orry - Current topics in medicinal chemistry, 2007 - ingentaconnect.com
Ligand-docking-based methods are starting to play a critical role in lead discovery and
optimization, thus resulting in new 'drug-candidates'. They offer the possibility to go beyond …

[HTML][HTML] Charting a path to success in virtual screening

S Forli - Molecules, 2015 - mdpi.com
Docking is commonly applied to drug design efforts, especially high-throughput virtual
screenings of small molecules, to identify new compounds that bind to a given target …

Uni-Dock: GPU-accelerated docking enables ultralarge virtual screening

Y Yu, C Cai, J Wang, Z Bo, Z Zhu… - Journal of chemical …, 2023 - ACS Publications
Molecular docking, a structure-based virtual screening method, is a reliable tool to enrich
potential bioactive molecules from molecular databases. With the rapid expansion of …

[HTML][HTML] DOVIS: an implementation for high-throughput virtual screening using AutoDock

S Zhang, K Kumar, X Jiang, A Wallqvist, J Reifman - BMC bioinformatics, 2008 - Springer
Background Molecular-docking-based virtual screening is an important tool in drug
discovery that is used to significantly reduce the number of possible chemical compounds to …