Generative models as an emerging paradigm in the chemical sciences

DM Anstine, O Isayev - Journal of the American Chemical Society, 2023 - ACS Publications
Traditional computational approaches to design chemical species are limited by the need to
compute properties for a vast number of candidates, eg, by discriminative modeling …

Integrating QSAR modelling and deep learning in drug discovery: the emergence of deep QSAR

A Tropsha, O Isayev, A Varnek, G Schneider… - Nature Reviews Drug …, 2024 - nature.com
Quantitative structure–activity relationship (QSAR) modelling, an approach that was
introduced 60 years ago, is widely used in computer-aided drug design. In recent years …

Reinvent 4: Modern AI–driven generative molecule design

HH Loeffler, J He, A Tibo, JP Janet, A Voronov… - Journal of …, 2024 - Springer
REINVENT 4 is a modern open-source generative AI framework for the design of small
molecules. The software utilizes recurrent neural networks and transformer architectures to …

LibINVENT: Reaction-based Generative Scaffold Decoration for in Silico Library Design

V Fialková, J Zhao, K Papadopoulos… - Journal of Chemical …, 2021 - ACS Publications
Because of the strong relationship between the desired molecular activity and its structural
core, the screening of focused, core-sharing chemical libraries is a key step in lead …

Sample efficient reinforcement learning with active learning for molecular design

M Dodds, J Guo, T Löhr, A Tibo, O Engkvist… - Chemical Science, 2024 - pubs.rsc.org
Reinforcement learning (RL) is a powerful and flexible paradigm for searching for solutions
in high-dimensional action spaces. However, bridging the gap between playing computer …

DockStream: a docking wrapper to enhance de novo molecular design

J Guo, JP Janet, MR Bauer, E Nittinger… - Journal of …, 2021 - Springer
Recently, we have released the de novo design platform REINVENT in version 2.0. This
improved and extended iteration supports far more features and scoring function …

Reinforcement learning for generative ai: A survey

Y Cao, QZ Sheng, J McAuley, L Yao - arXiv preprint arXiv:2308.14328, 2023 - arxiv.org
Deep Generative AI has been a long-standing essential topic in the machine learning
community, which can impact a number of application areas like text generation and …

Towards holistic compound quality scores (cqs): Extending ligand efficiency indices with compound pharmacokinetic (pk) characteristics

CS Tautermann, JM Borghardt, R Pfau, M Zentgraf… - Drug Discovery …, 2023 - Elsevier
The suitability of small molecules as oral drugs is often assessed by simple physicochemical
rules, the application of ligand efficiency scores or by composite scores based on …

Discovery of Crystallizable Organic Semiconductors with Machine Learning

HM Johnson, F Gusev, JT Dull, Y Seo… - Journal of the …, 2024 - ACS Publications
Crystalline organic semiconductors are known to have improved charge carrier mobility and
exciton diffusion length in comparison to their amorphous counterparts. Certain organic …

Augmented Hill-Climb increases reinforcement learning efficiency for language-based de novo molecule generation

M Thomas, NM O'Boyle, A Bender… - Journal of …, 2022 - Springer
A plethora of AI-based techniques now exists to conduct de novo molecule generation that
can devise molecules conditioned towards a particular endpoint in the context of drug …