A practical guide to large-scale docking

BJ Bender, S Gahbauer, A Luttens, J Lyu, CM Webb… - Nature protocols, 2021 - nature.com
Abstract Structure-based docking screens of large compound libraries have become
common in early drug and probe discovery. As computer efficiency has improved and …

Drug discovery with explainable artificial intelligence

J Jiménez-Luna, F Grisoni, G Schneider - Nature Machine Intelligence, 2020 - nature.com
Deep learning bears promise for drug discovery, including advanced image analysis,
prediction of molecular structure and function, and automated generation of innovative …

Concepts of artificial intelligence for computer-assisted drug discovery

X Yang, Y Wang, R Byrne, G Schneider… - Chemical …, 2019 - ACS Publications
Artificial intelligence (AI), and, in particular, deep learning as a subcategory of AI, provides
opportunities for the discovery and development of innovative drugs. Various machine …

Computational approaches in preclinical studies on drug discovery and development

F Wu, Y Zhou, L Li, X Shen, G Chen, X Wang… - Frontiers in …, 2020 - frontiersin.org
Because undesirable pharmacokinetics and toxicity are significant reasons for the failure of
drug development in the costly late stage, it has been widely recognized that drug ADMET …

QSAR modeling: where have you been? Where are you going to?

A Cherkasov, EN Muratov, D Fourches… - Journal of medicinal …, 2014 - ACS Publications
Quantitative structure–activity relationship modeling is one of the major computational tools
employed in medicinal chemistry. However, throughout its entire history it has drawn both …

Jaguar: A high‐performance quantum chemistry software program with strengths in life and materials sciences

AD Bochevarov, E Harder, TF Hughes… - … Journal of Quantum …, 2013 - Wiley Online Library
Jaguar is an ab initio quantum chemical program that specializes in fast electronic structure
predictions for molecular systems of medium and large size. Jaguar focuses on …

Managing the challenge of drug-induced liver injury: a roadmap for the development and deployment of preclinical predictive models

RJ Weaver, EA Blomme, AE Chadwick… - Nature Reviews Drug …, 2020 - nature.com
Drug-induced liver injury (DILI) is a patient-specific, temporal, multifactorial
pathophysiological process that cannot yet be recapitulated in a single in vitro model …

Predicting drug metabolism: experiment and/or computation?

J Kirchmair, AH Göller, D Lang, J Kunze… - Nature reviews Drug …, 2015 - nature.com
Drug metabolism can produce metabolites with physicochemical and pharmacological
properties that differ substantially from those of the parent drug, and consequently has …

In silico ADME/T modelling for rational drug design

Y Wang, J **ng, Y Xu, N Zhou, J Peng… - Quarterly reviews of …, 2015 - cambridge.org
In recent decades, in silico absorption, distribution, metabolism, excretion (ADME), and
toxicity (T) modelling as a tool for rational drug design has received considerable attention …

Mass appeal: metabolite identification in mass spectrometry-focused untargeted metabolomics

WB Dunn, A Erban, RJM Weber, DJ Creek, M Brown… - Metabolomics, 2013 - Springer
Metabolomics has advanced significantly in the past 10 years with important developments
related to hardware, software and methodologies and an increasing complexity of …