Predicting protein-ligand binding structure using E (n) Equivariant graph neural networks
Drug design is a costly and time-consuming process, often taking more than 12 years and
costing up to billions of dollars. The COVID-19 pandemic has signified the urgent need for …
costing up to billions of dollars. The COVID-19 pandemic has signified the urgent need for …
How deep learning in antiviral molecular profiling identified anti-SARS-CoV-2 inhibitors
M Ali, IH Park, J Kim, G Kim, J Oh, JS You, J Kim… - Biomedicines, 2023 - mdpi.com
The integration of artificial intelligence (AI) into drug discovery has markedly advanced the
search for effective therapeutics. In our study, we employed a comprehensive computational …
search for effective therapeutics. In our study, we employed a comprehensive computational …
Enabling structure-based drug discovery utilizing predicted models
High-quality predicted structures enable structure-based approaches to an expanding
number of drug discovery programs. We propose that by utilizing free energy perturbation …
number of drug discovery programs. We propose that by utilizing free energy perturbation …
[HTML][HTML] CryoPPP: a large expert-labelled cryo-EM image dataset for machine learning protein particle picking
Cryo-electron microscopy (cryo-EM) is currently the most powerful technique for determining
the structures of large protein complexes and assemblies. Picking single-protein particles …
the structures of large protein complexes and assemblies. Picking single-protein particles …
Solvated interaction energy: from small-molecule to antibody drug design
EO Purisima, CR Corbeil, F Gaudreault… - Frontiers in Molecular …, 2023 - frontiersin.org
Scoring functions are ubiquitous in structure-based drug design as an aid to predicting
binding modes and estimating binding affinities. Ideally, a scoring function should be …
binding modes and estimating binding affinities. Ideally, a scoring function should be …
Decision tree‐based identification of important molecular fragments for protein‐ligand binding
B Li, Y Wang, Z Yin, L Xu, L Xie… - Chemical Biology & Drug …, 2024 - Wiley Online Library
Fragment‐based drug design is an emerging technology in pharmaceutical research and
development. One of the key aspects of this technology is the identification and quantitative …
development. One of the key aspects of this technology is the identification and quantitative …
Neural networks prediction of the protein-ligand binding affinity with circular fingerprints
Z Yin, W Song, B Li, F Wang, L Xie… - Technology and Health …, 2023 - content.iospress.com
BACKGROUND: Protein-ligand binding affinity is of significant importance in structure-based
drug design. Recently, the development of machine learning techniques has provided an …
drug design. Recently, the development of machine learning techniques has provided an …
StackCPA: a stacking model for compound-protein binding affinity prediction based on pocket multi-scale features
Accurately predicting compound-protein binding affinity is a crucial task in drug discovery.
Computational models offer the advantages of short time, low cost and safety compared to …
Computational models offer the advantages of short time, low cost and safety compared to …
CryoSegNet: accurate cryo-EM protein particle picking by integrating the foundational AI image segmentation model and attention-gated U-Net
Picking protein particles in cryo-electron microscopy (cryo-EM) micrographs is a crucial step
in the cryo-EM-based structure determination. However, existing methods trained on a …
in the cryo-EM-based structure determination. However, existing methods trained on a …
FastDTI: drug-target interaction prediction using multimodality and transformers
M Boezer, M Tavakol, Z Sajadi - … of the northern lights deep learning …, 2023 - septentrio.uit.no
Recent advances in machine learning have proved effective in the application of drug
discovery by predicting the drugs that are likely to interact with a protein target of a certain …
discovery by predicting the drugs that are likely to interact with a protein target of a certain …