Tox-GAN: An Artificial Intelligence Approach Alternative to Animal Studies—A Case Study With Toxicogenomics

Eight ways machine learning is assisting medicine

(2021) Mike May   NATURE MEDICINE

Safer chemicals using less animals: kick-off of the European ONTOX project

(2021) Mathieu Vinken et al.   TOXICOLOGY

Leveraging high-throughput screening data, deep neural networks, and conditional generative adversarial networks to advance predictive toxicology

(2021) Adrian J. Green et al.   PLoS Computational Biology

DeepCellState: An autoencoder-based framework for predicting cell type specific transcriptional states induced by drug treatment

(2021) Ramzan Umarov et al.   PLoS Computational Biology

Quantitative Transcriptional Biomarkers of Xenobiotic Receptor Activation in Rat Liver for The Early Assessment of Drug Safety Liabilities

(2020) Alexei A Podtelezhnikov et al.   TOXICOLOGICAL SCIENCES

De novo generation of hit-like molecules from gene expression signatures using artificial intelligence

(2020) Oscar Méndez-Lucio et al.   Nature Communications

Application of a Rat Liver Drug Bioactivation Transcriptional Response Assay Early in Drug Development that informs Chemically Reactive Metabolite formation and Potential for Drug Induced Liver Injury

(2020) James J Monroe et al.   TOXICOLOGICAL SCIENCES

DeepDILI: Deep Learning-Powered Drug-Induced Liver Injury Prediction Using Model-Level Representation

(2020) Ting Li et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Deep Learning on High-Throughput Transcriptomics to Predict Drug-Induced Liver Injury

(2020) Ting Li et al.   Frontiers in Bioengineering and Biotechnology

Deep Learning-Based Prediction of Drug-Induced Cardiotoxicity

(2019) Chuipu Cai et al.   Journal of Chemical Information and Modeling

Mining Public Toxicogenomic Data Reveals Insights and Challenges in Delineating Liver Steatosis Adverse Outcome Pathways

(2019) Mohamed Diwan M. AbdulHameed et al.   Frontiers in Genetics

Machine learning of toxicological big data enables read-across structure activity relationships (RASAR) outperforming animal test reproducibility

(2018) Thomas Luechtefeld et al.   TOXICOLOGICAL SCIENCES

Mordred: a molecular descriptor calculator

(2018) Hirotomo Moriwaki et al.   Journal of Cheminformatics

Software beats animal tests at predicting toxicity of chemicals

(2018) Richard Van Noorden   NATURE

Toxicogenomics: A 2020 Vision

(2018) Zhichao Liu et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Artificial intelligence in healthcare

(2018) Kun-Hsing Yu et al.   Nature Biomedical Engineering

Development and validation of a high-throughput transcriptomic biomarker to address 21st century genetic toxicology needs

(2017) Heng-Hong Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Lessons Learned from Two Decades of Anticancer Drugs

(2017) Zhichao Liu et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

A transcriptomics data-driven gene space accurately predicts liver cytopathology and drug-induced liver injury

(2017) Pekka Kohonen et al.   Nature Communications

The Comparative Toxicogenomics Database: update 2017

(2016) Allan Peter Davis et al.   NUCLEIC ACIDS RESEARCH

Integrating Publicly Available Data to Generate Computationally Predicted Adverse Outcome Pathways for Fatty Liver

(2016) Shannon M. Bell et al.   TOXICOLOGICAL SCIENCES

Toward Good Read-Across Practice (GRAP) guidance

(2016) Nicholas Ball   ALTEX-Alternatives to Animal Experimentation

Supporting read-across using biological data

(2016) Hao Zhu   ALTEX-Alternatives to Animal Experimentation

Deep learning

(2015) Yann LeCun et al.   NATURE

Open TG-GATEs: a large-scale toxicogenomics database

(2014) Yoshinobu Igarashi et al.   NUCLEIC ACIDS RESEARCH

Animal models: Not close enough

(2012) Jocelyn Rice   NATURE

Advancing Regulatory Science

(2011) M. A. Hamburg   SCIENCE

GOSemSim: an R package for measuring semantic similarity among GO terms and gene products

(2010) G. Yu et al.   BIOINFORMATICS

The Japanese toxicogenomics project: Application of toxicogenomics

(2009) Takeki Uehara et al.   MOLECULAR NUTRITION & FOOD RESEARCH

Are animal models predictive for humans?

(2009) Niall Shanks et al.   Philosophy Ethics and Humanities in Medicine