Quo vadis, virtual screening? A comprehensive survey of prospective applications

P Ripphausen, B Nisius, L Peltason… - Journal of medicinal …, 2010 - ACS Publications
Virtual screening (VSa) of compound databases has become a popular hit identification
technique and a major playground for computational method development. 1 Relevant …

[HTML][HTML] Empirical scoring functions for structure-based virtual screening: applications, critical aspects, and challenges

IA Guedes, FSS Pereira, LE Dardenne - Frontiers in pharmacology, 2018 - frontiersin.org
Structure-based virtual screening (VS) is a widely used approach that employs the
knowledge of the three-dimensional structure of the target of interest in the design of new …

Decision making in structure-based drug discovery: visual inspection of docking results

A Fischer, M Smiesko, M Sellner… - Journal of Medicinal …, 2021 - ACS Publications
Molecular docking is a computational method widely used in drug discovery. Due to the
inherent inaccuracies of molecular docking, visual inspection of binding modes is a crucial …

Combining docking and molecular dynamic simulations in drug design

H Alonso, AA Bliznyuk… - Medicinal research reviews, 2006 - Wiley Online Library
A rational approach is needed to maximize the chances of finding new drugs, and to exploit
the opportunities of potential new drug targets emerging from genomic and proteomic …

[图书][B] Chemoinformatics approaches to virtual screening

A Varnek, A Tropsha - 2008 - books.google.com
Chemoinformatics is broadly a scientific discipline encompassing the design, creation,
organization, management, retrieval, analysis, dissemination, visualization and use of …

Challenges and advances in computational docking: 2009 in review

E Yuriev, M Agostino… - Journal of Molecular …, 2011 - Wiley Online Library
Docking is a computational technique that places a small molecule (ligand) in the binding
site of its macromolecular target (receptor) and estimates its binding affinity. This review …

Docking screens: right for the right reasons?

P Kolb, JJ Irwin - Current topics in medicinal chemistry, 2009 - ingentaconnect.com
Whereas docking screens have emerged as the most practical way to use protein structure
for ligand discovery, an inconsistent track record raises questions about how well docking …

Outstanding challenges in protein–ligand docking and structure‐based virtual screening

B Waszkowycz, DE Clark… - Wiley Interdisciplinary …, 2011 - Wiley Online Library
With an ever‐increasing number of protein structures being solved by X‐ray crystallography,
the use of protein–ligand docking algorithms to assess candidate ligands for a binding site …

Docking and scoring-Theoretically easy, practically impossible?

B Coupez, RA Lewis - Current medicinal chemistry, 2006 - ingentaconnect.com
Structure-based Drug Design (SBDD) is an essential part of the modern medicinal
chemistry, and has led to the acceleration of many projects, and even to drugs on the …

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 …