Targeted protein degradation: advances, challenges, and prospects for computational methods

B Mostofian, HJ Martin, A Razavi, S Patel… - Journal of Chemical …, 2023 - ACS Publications
The therapeutic approach of targeted protein degradation (TPD) is gaining momentum due
to its potentially superior effects compared with protein inhibition. Recent advancements in …

[HTML][HTML] Industrializing AI/ML during the end-to-end drug discovery process

J Yoo, TY Kim, IS Joung, SO Song - Current Opinion in Structural Biology, 2023 - Elsevier
Drug discovery aims to select proper targets and drug candidates to address unmet clinical
needs. The end-to-end drug discovery process includes all stages of drug discovery from …

PharmaBench: Enhancing ADMET benchmarks with large language models

Z Niu, X Xiao, W Wu, Q Cai, Y Jiang, W Jin, M Wang… - Scientific Data, 2024 - nature.com
Abstract Accurately predicting ADMET (Absorption, Distribution, Metabolism, Excretion, and
Toxicity) properties early in drug development is essential for selecting compounds with …

Artificial intelligence-based quantitative structure–property relationship model for predicting human intestinal absorption of compounds with serotonergic activity

N Czub, J Szlęk, A Pacławski… - Molecular …, 2023 - ACS Publications
Oral medicines represent the largest pharmaceutical market area. To achieve a therapeutic
effect, a drug must penetrate the intestinal walls, the main absorption site for orally delivered …

Building machine learning small molecule melting points and solubility models using CCDC melting points dataset

X Zhu, VR Polyakov, K Bajjuri, H Hu… - Journal of Chemical …, 2023 - ACS Publications
Predicting solubility of small molecules is a very difficult undertaking due to the lack of
reliable and consistent experimental solubility data. It is well known that for a molecule in a …

Will we ever be able to accurately predict solubility?

P Llompart, C Minoletti, S Baybekov, D Horvath… - Scientific Data, 2024 - nature.com
Accurate prediction of thermodynamic solubility by machine learning remains a challenge.
Recent models often display good performances, but their reliability may be deceiving when …

High-throughput solubility determination for data-driven materials design and discovery in redox flow battery research

Y Liang, H Job, R Feng, F Parks, A Hollas… - Cell Reports Physical …, 2023 - cell.com
Solubility is crucial for redox flow batteries because it affects their energy density. A data-
driven approach based on artificial intelligence/machine learning models can accelerate the …

Revisiting the application of machine learning approaches in predicting aqueous solubility

T Zheng, JBO Mitchell, S Dobson - ACS omega, 2024 - ACS Publications
The solubility of chemical substances in water is a critical parameter in pharmaceutical
development, environmental chemistry, agrochemistry, and other fields; however, accurately …

From coding to curing. functions, implementations, and correctness in deep learning

N Angius, A Plebe - Philosophy & Technology, 2023 - Springer
This paper sheds light on the shift that is taking place from the practice of 'coding', namely
developing programs as conventional in the software community, to the practice of 'curing' …

Be aware of overfitting by hyperparameter optimization!

IV Tetko, R van Deursen, G Godin - Journal of Cheminformatics, 2024 - Springer
Hyperparameter optimization is very frequently employed in machine learning. However, an
optimization of a large space of parameters could result in overfitting of models. In recent …