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 …

Artificial intelligence in the prediction of protein–ligand interactions: recent advances and future directions

A Dhakal, C McKay, JJ Tanner… - Briefings in …, 2022 - academic.oup.com
New drug production, from target identification to marketing approval, takes over 12 years
and can cost around $2.6 billion. Furthermore, the COVID-19 pandemic has unveiled the …

An overview of scoring functions used for protein–ligand interactions in molecular docking

J Li, A Fu, L Zhang - Interdisciplinary Sciences: Computational Life …, 2019 - Springer
Currently, molecular docking is becoming a key tool in drug discovery and molecular
modeling applications. The reliability of molecular docking depends on the accuracy of the …

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 …

From machine learning to deep learning: Advances in scoring functions for protein–ligand docking

C Shen, J Ding, Z Wang, D Cao… - Wiley Interdisciplinary …, 2020 - Wiley Online Library
Molecule docking has been regarded as a routine tool for drug discovery, but its accuracy
highly depends on the reliability of scoring functions (SFs). With the rapid development of …

Forging the basis for developing protein–ligand interaction scoring functions

Z Liu, M Su, L Han, J Liu, Q Yang, Y Li… - Accounts of chemical …, 2017 - ACS Publications
Conspectus In structure-based drug design, scoring functions are widely used for fast
evaluation of protein–ligand interactions. They are often applied in combination with …

TopologyNet: Topology based deep convolutional and multi-task neural networks for biomolecular property predictions

Z Cang, GW Wei - PLoS computational biology, 2017 - journals.plos.org
Although deep learning approaches have had tremendous success in image, video and
audio processing, computer vision, and speech recognition, their applications to three …

Performance of machine-learning scoring functions in structure-based virtual screening

M Wójcikowski, PJ Ballester, P Siedlecki - Scientific Reports, 2017 - nature.com
Classical scoring functions have reached a plateau in their performance in virtual screening
and binding affinity prediction. Recently, machine-learning scoring functions trained on …

Machine learning classification can reduce false positives in structure-based virtual screening

YO Adeshina, EJ Deeds… - Proceedings of the …, 2020 - National Acad Sciences
With the recent explosion in the size of libraries available for screening, virtual screening is
positioned to assume a more prominent role in early drug discovery's search for active …

Machine‐learning scoring functions to improve structure‐based binding affinity prediction and virtual screening

QU Ain, A Aleksandrova, FD Roessler… - Wiley Interdisciplinary …, 2015 - Wiley Online Library
Docking tools to predict whether and how a small molecule binds to a target can be applied
if a structural model of such target is available. The reliability of docking depends, however …