Incorporating target-specific pharmacophoric information into deep generative models for fragment elaboration
TE Hadfield, F Imrie, A Merritt, K Birchall… - Journal of chemical …, 2022 - ACS Publications
Despite recent interest in deep generative models for scaffold elaboration, their applicability
to fragment-to-lead campaigns has so far been limited. This is primarily due to their inability …
to fragment-to-lead campaigns has so far been limited. This is primarily due to their inability …
DeepFrag: a deep convolutional neural network for fragment-based lead optimization
Machine learning has been increasingly applied to the field of computer-aided drug
discovery in recent years, leading to notable advances in binding-affinity prediction, virtual …
discovery in recent years, leading to notable advances in binding-affinity prediction, virtual …
Fragment-based approaches identified tecovirimat-competitive novel drug candidate for targeting the F13 protein of the monkeypox virus
Y Ali, H Imtiaz, MM Tahir, F Gul, UAK Saddozai… - Viruses, 2023 - mdpi.com
Monkeypox is a serious public health issue in tropical and subtropical areas. Antivirals that
target monkeypox proteins might lead to more effective and efficient therapy. The F13 …
target monkeypox proteins might lead to more effective and efficient therapy. The F13 …
Scaffold hopping approaches for dual-target antitumor drug discovery: opportunities and challenges
A Mishra, A Thakur, R Sharma, R Onuku… - Expert Opinion on …, 2024 - Taylor & Francis
Introduction Scaffold hopping has emerged as a practical tactic to enrich the synthetic bank
of small molecule antitumor agents. Specifically, it enables the chemist to refine the lead …
of small molecule antitumor agents. Specifically, it enables the chemist to refine the lead …
SeamDock: an interactive and collaborative online docking resource to assist small compound molecular docking
In silico assessment of protein receptor interactions with small ligands is now part of the
standard pipeline for drug discovery, and numerous tools and protocols have been …
standard pipeline for drug discovery, and numerous tools and protocols have been …
Deep Lead Optimization: Leveraging Generative AI for Structural Modification
The idea of using deep-learning-based molecular generation to accelerate discovery of drug
candidates has attracted extraordinary attention, and many deep generative models have …
candidates has attracted extraordinary attention, and many deep generative models have …
BMaps: a web application for fragment-based drug design and compound binding evaluation
DR Bryan, JL Kulp Jr, MK Mahapatra… - Journal of Chemical …, 2023 - ACS Publications
Fragment-based drug design uses data about where, and how strongly, small chemical
fragments bind to proteins, to assemble new drug molecules. Over the past decade, we have …
fragments bind to proteins, to assemble new drug molecules. Over the past decade, we have …
Efficient hit-to-lead searching of kinase inhibitor chemical space via computational fragment merging
GV Andrianov, WJ Gabriel Ong… - Journal of chemical …, 2021 - ACS Publications
In early-stage drug discovery, the hit-to-lead optimization (or “hit expansion”) stage entails
starting from a newly identified active compound and improving its potency or other …
starting from a newly identified active compound and improving its potency or other …
Exploration of potential inhibitors for SARS‐CoV‐2 Mpro considering its mutants via structure‐based drug design, molecular docking, MD simulations, MM/PBSA, and …
A Ghasemlou, V Uskoković… - Biotechnology and …, 2023 - Wiley Online Library
The main protease (Mpro) of SARS‐COV‐2 plays a vital role in the viral life cycle and
pathogenicity. Due to its specific attributes, this 3‐chymotrypsin like protease can be a …
pathogenicity. Due to its specific attributes, this 3‐chymotrypsin like protease can be a …
FragExplorer: GRID-based fragment growing and replacement
S Cross, G Cruciani - Journal of Chemical Information and …, 2022 - ACS Publications
Understanding which chemical modifications can be made to known ligands is a key aspect
of structure-based drug design and one that was pioneered by the software GRID. We …
of structure-based drug design and one that was pioneered by the software GRID. We …