Use of molecular docking computational tools in drug discovery

F Stanzione, I Giangreco, JC Cole - Progress in medicinal chemistry, 2021 - Elsevier
Molecular docking has become an important component of the drug discovery process.
Since first being developed in the 1980s, advancements in the power of computer hardware …

Machine learning for perovskite solar cells and component materials: key technologies and prospects

Y Liu, X Tan, J Liang, H Han, P Xiang… - Advanced Functional …, 2023 - Wiley Online Library
Data‐driven epoch, the development of machine learning (ML) in materials and device
design is an irreversible trend. Its ability and efficiency to handle nonlinear and game …

Better informed distance geometry: using what we know to improve conformation generation

S Riniker, GA Landrum - Journal of chemical information and …, 2015 - ACS Publications
Small organic molecules are often flexible, ie, they can adopt a variety of low-energy
conformations in solution that exist in equilibrium with each other. Two main search …

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 …

[HTML][HTML] Molecular geometry prediction using a deep generative graph neural network

E Mansimov, O Mahmood, S Kang, K Cho - Scientific reports, 2019 - nature.com
A molecule's geometry, also known as conformation, is one of a molecule's most important
properties, determining the reactions it participates in, the bonds it forms, and the …

Pharmit: interactive exploration of chemical space

J Sunseri, DR Koes - Nucleic acids research, 2016 - academic.oup.com
Abstract Pharmit (http://pharmit. csb. pitt. edu) provides an online, interactive environment for
the virtual screening of large compound databases using pharmacophores, molecular …

Anthraquinone derivatives in aqueous flow batteries

MR Gerhardt, L Tong… - Advanced energy …, 2017 - Wiley Online Library
Anthraquinone derivatives are being considered for large scale energy storage applications
because of their chemical tunability and rapid redox kinetics. The authors investigate four …

POVME 3.0: software for mapping binding pocket flexibility

JR Wagner, J Sørensen, N Hensley… - Journal of chemical …, 2017 - ACS Publications
We present a substantial update to the open-source POVME binding pocket analysis
software. New capabilities of POVME 3.0 include a flexible chemical coloring scheme for …

Improvements, trends, and new ideas in molecular docking: 2012–2013 in review

E Yuriev, J Holien, PA Ramsland - Journal of Molecular …, 2015 - Wiley Online Library
Molecular docking is a computational method for predicting the placement of ligands in the
binding sites of their receptor (s). In this review, we discuss the methodological …

Docking and virtual screening in drug discovery

M Kontoyianni - Proteomics for drug discovery: Methods and protocols, 2017 - Springer
Stages in a typical drug discovery organization include target selection, hit identification,
lead optimization, preclinical and clinical studies. Hit identification and lead optimization are …