Assigning confidence to molecular property prediction

AK Nigam, R Pollice, MFD Hurley… - Expert opinion on …, 2021 - Taylor & Francis
Introduction: Computational modeling has rapidly advanced over the last decades. Recently,
machine learning has emerged as a powerful and cost-effective strategy to learn from …

[HTML][HTML] Structure-based discovery of conformationally selective inhibitors of the serotonin transporter

I Singh, A Seth, CB Billesbølle, J Braz, RM Rodriguiz… - Cell, 2023 - cell.com
The serotonin transporter (SERT) removes synaptic serotonin and is the target of anti-
depressant drugs. SERT adopts three conformations: outward-open, occluded, and inward …

Diversity and chemical library networks of large data sets

TB Dunn, GM Seabra, TD Kim… - Journal of Chemical …, 2021 - ACS Publications
The quantification of chemical diversity has many applications in drug discovery, organic
chemistry, food, and natural product chemistry, to name a few. As the size of the chemical …

Dockey: a modern integrated tool for large-scale molecular docking and virtual screening

L Du, C Geng, Q Zeng, T Huang, J Tang… - Briefings in …, 2023 - academic.oup.com
Molecular docking is a structure-based and computer-aided drug design approach that
plays a pivotal role in drug discovery and pharmaceutical research. AutoDock is the most …

[HTML][HTML] Progress on open chemoinformatic tools for expanding and exploring the chemical space

JL Medina-Franco, N Sánchez-Cruz… - Journal of Computer …, 2022 - Springer
The concept of chemical space is a cornerstone in chemoinformatics, and it has broad
conceptual and practical applicability in many areas of chemistry, including drug design and …

[HTML][HTML] PeruNPDB: The Peruvian natural products database for in silico drug screening

HL Barazorda-Ccahuana, LG Ranilla… - Scientific Reports, 2023 - nature.com
Since the number of drugs based on natural products (NPs) represents a large source of
novel pharmacological entities, NPs have acquired significance in drug discovery. Peru is …

[HTML][HTML] TCMBank: bridges between the largest herbal medicines, chemical ingredients, target proteins, and associated diseases with intelligence text mining

Q Lv, G Chen, H He, Z Yang, L Zhao, HY Chen… - Chemical …, 2023 - pubs.rsc.org
Traditional Chinese Medicine (TCM) has long been viewed as a precious source of modern
drug discovery. AI-assisted drug discovery (AIDD) has been investigated extensively …

Regression-based active learning for accessible acceleration of ultra-large library docking

E Marin, M Kovaleva, M Kadukova… - Journal of chemical …, 2023 - ACS Publications
Structure-based drug discovery is a process for both hit finding and optimization that relies
on a validated three-dimensional model of a target biomolecule, used to rationalize the …

[HTML][HTML] A review of SARS-CoV-2 drug repurposing: Databases and machine learning models

M Elkashlan, RM Ahmad, M Hajar, F Al Jasmi… - Frontiers in …, 2023 - frontiersin.org
The emergence of Severe Acute Respiratory Syndrome Corona Virus 2 (SARS-CoV-2)
posed a serious worldwide threat and emphasized the urgency to find efficient solutions to …

[HTML][HTML] The SwissSimilarity 2021 web tool: novel chemical libraries and additional methods for an enhanced ligand-based virtual screening experience

ME Bragina, A Daina, MAS Perez, O Michielin… - International Journal of …, 2022 - mdpi.com
Hit finding, scaffold hopping, and structure–activity relationship studies are important tasks in
rational drug discovery. Implementation of these tasks strongly depends on the availability of …