[HTML][HTML] Drug discovery with explainable artificial intelligence

J Jiménez-Luna, F Grisoni, G Schneider - Nature Machine Intelligence, 2020 - nature.com
Deep learning bears promise for drug discovery, including advanced image analysis,
prediction of molecular structure and function, and automated generation of innovative …

Machine learning directed drug formulation development

P Bannigan, M Aldeghi, Z Bao, F Häse… - Advanced Drug Delivery …, 2021 - Elsevier
Abstract Machine learning (ML) has enabled ground-breaking advances in the healthcare
and pharmaceutical sectors, from improvements in cancer diagnosis, to the identification of …

Machine learning: new ideas and tools in environmental science and engineering

S Zhong, K Zhang, M Bagheri, JG Burken… - Environmental …, 2021 - ACS Publications
The rapid increase in both the quantity and complexity of data that are being generated daily
in the field of environmental science and engineering (ESE) demands accompanied …

[HTML][HTML] A gentle introduction to graph neural networks

B Sanchez-Lengeling, E Reif, A Pearce, AB Wiltschko - Distill, 2021 - staging.distill.pub
A Gentle Introduction to Graph Neural Networks Distill About Prize Submit A Gentle Introduction
to Graph Neural Networks Neural networks have been adapted to leverage the structure and …

[HTML][HTML] Constrained Bayesian optimization for automatic chemical design using variational autoencoders

RR Griffiths, JM Hernández-Lobato - Chemical science, 2020 - pubs.rsc.org
Automatic Chemical Design is a framework for generating novel molecules with optimized
properties. The original scheme, featuring Bayesian optimization over the latent space of a …

Learning molecular representations for medicinal chemistry: miniperspective

KV Chuang, LM Gunsalus… - Journal of Medicinal …, 2020 - ACS Publications
The accurate modeling and prediction of small molecule properties and bioactivities depend
on the critical choice of molecular representation. Decades of informatics-driven research …

Multi-objective molecule generation using interpretable substructures

W Jin, R Barzilay, T Jaakkola - International conference on …, 2020 - proceedings.mlr.press
Drug discovery aims to find novel compounds with specified chemical property profiles. In
terms of generative modeling, the goal is to learn to sample molecules in the intersection of …

[PDF][PDF] Evaluating attribution for graph neural networks

B Sanchez-Lengeling, J Wei, B Lee… - Advances in neural …, 2020 - proceedings.neurips.cc
Interpretability of machine learning models is critical to scientific understanding, AI safety, as
well as debugging. Attribution is one approach to interpretability, which highlights input …

Impossibility theorems for feature attribution

B Bilodeau, N Jaques, PW Koh… - Proceedings of the …, 2024 - National Acad Sciences
Despite a sea of interpretability methods that can produce plausible explanations, the field
has also empirically seen many failure cases of such methods. In light of these results, it …

Coloring molecules with explainable artificial intelligence for preclinical relevance assessment

J Jiménez-Luna, M Skalic, N Weskamp… - Journal of Chemical …, 2021 - ACS Publications
Graph neural networks are able to solve certain drug discovery tasks such as molecular
property prediction and de novo molecule generation. However, these models are …