Drug discovery with explainable artificial intelligence
Deep learning bears promise for drug discovery, including advanced image analysis,
prediction of molecular structure and function, and automated generation of innovative …
prediction of molecular structure and function, and automated generation of innovative …
Autonomous discovery in the chemical sciences part I: Progress
This two‐part Review examines how automation has contributed to different aspects of
discovery in the chemical sciences. In this first part, we describe a classification for …
discovery in the chemical sciences. In this first part, we describe a classification for …
Interpretation of quantitative structure–activity relationship models: past, present, and future
P Polishchuk - Journal of Chemical Information and Modeling, 2017 - ACS Publications
This paper is an overview of the most significant and impactful interpretation approaches of
quantitative structure–activity relationship (QSAR) models, their development, and …
quantitative structure–activity relationship (QSAR) models, their development, and …
Explainable machine learning for property predictions in compound optimization: miniperspective
R Rodríguez-Pérez, J Bajorath - Journal of medicinal chemistry, 2021 - ACS Publications
The prediction of compound properties from chemical structure is a main task for machine
learning (ML) in medicinal chemistry. ML is often applied to large data sets in applications …
learning (ML) in medicinal chemistry. ML is often applied to large data sets in applications …
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 …
property prediction and de novo molecule generation. However, these models are …
A perspective on explanations of molecular prediction models
GP Wellawatte, HA Gandhi, A Seshadri… - Journal of Chemical …, 2023 - ACS Publications
Chemists can be skeptical in using deep learning (DL) in decision making, due to the lack of
interpretability in “black-box” models. Explainable artificial intelligence (XAI) is a branch of …
interpretability in “black-box” models. Explainable artificial intelligence (XAI) is a branch of …
Chemical-informatics approach to COVID-19 drug discovery: Exploration of important fragments and data mining based prediction of some hits from natural origins as …
As the world struggles against current global pandemic of novel coronavirus disease
(COVID-19), it is challenging to trigger drug discovery efforts to search broad-spectrum …
(COVID-19), it is challenging to trigger drug discovery efforts to search broad-spectrum …
Benchmarks for interpretation of QSAR models
M Matveieva, P Polishchuk - Journal of cheminformatics, 2021 - Springer
Abstract Interpretation of QSAR models is useful to understand the complex nature of
biological or physicochemical processes, guide structural optimization or perform …
biological or physicochemical processes, guide structural optimization or perform …
Comparison of the predictive performance and interpretability of random forest and linear models on benchmark data sets
RL Marchese Robinson, A Palczewska… - Journal of chemical …, 2017 - ACS Publications
The ability to interpret the predictions made by quantitative structure–activity relationships
(QSARs) offers a number of advantages. While QSARs built using nonlinear modeling …
(QSARs) offers a number of advantages. While QSARs built using nonlinear modeling …
Benchmarking molecular feature attribution methods with activity cliffs
J Jiménez-Luna, M Skalic… - Journal of Chemical …, 2022 - ACS Publications
Feature attribution techniques are popular choices within the explainable artificial
intelligence toolbox, as they can help elucidate which parts of the provided inputs used by …
intelligence toolbox, as they can help elucidate which parts of the provided inputs used by …