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 …

Delta machine learning to improve scoring-ranking-screening performances of protein–ligand scoring functions

C Yang, Y Zhang - Journal of chemical information and modeling, 2022 - ACS Publications
Protein–ligand scoring functions are widely used in structure-based drug design for fast
evaluation of protein–ligand interactions, and it is of strong interest to develop scoring …

[HTML][HTML] 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 …

Incorporating explicit water molecules and ligand conformation stability in machine-learning scoring functions

J Lu, X Hou, C Wang, Y Zhang - Journal of chemical information …, 2019 - ACS Publications
Structure-based drug design is critically dependent on accuracy of molecular docking
scoring functions, and there is of significant interest to advance scoring functions with …

[HTML][HTML] Machine learning and AI-based approaches for bioactive ligand discovery and GPCR-ligand recognition

S Raschka, B Kaufman - Methods, 2020 - Elsevier
In the last decade, machine learning and artificial intelligence applications have received a
significant boost in performance and attention in both academic research and industry. The …

Tapping on the black box: how is the scoring power of a machine-learning scoring function dependent on the training set?

M Su, G Feng, Z Liu, Y Li, R Wang - Journal of chemical …, 2020 - ACS Publications
In recent years, protein–ligand interaction scoring functions derived through machine-
learning are repeatedly reported to outperform conventional scoring functions. However …

[HTML][HTML] Virtual Screening with Gnina 1.0

J Sunseri, DR Koes - Molecules, 2021 - mdpi.com
Virtual screening—predicting which compounds within a specified compound library bind to
a target molecule, typically a protein—is a fundamental task in the field of drug discovery …

Supervised machine learning methods applied to predict ligand-binding affinity

GS Heck, VO Pintro, RR Pereira… - Current medicinal …, 2017 - ingentaconnect.com
Background: Calculation of ligand-binding affinity is an open problem in computational
medicinal chemistry. The ability to computationally predict affinities has a beneficial impact …

[HTML][HTML] Prediction of various freshness indicators in fish fillets by one multispectral imaging system

S Khoshnoudi-Nia, M Moosavi-Nasab - Scientific Reports, 2019 - nature.com
In current study, a simple multispectral imaging (430–1010 nm) system along with linear and
non-linear regressions were used to assess the various fish spoilage indicators during 12 …

Improving small molecule virtual screening strategies for the next generation of therapeutics

BM Wingert, CJ Camacho - Current opinion in chemical biology, 2018 - Elsevier
The new generation of post-genomic targets, such as protein–protein interactions (PPIs),
often require new chemotypes not well represented in current compound libraries. This is …