ArticleNucleic acids research2020
ToxicoDB: an integrated database to mine and visualize large-scale toxicogenomic datasets.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- ToxiTaRGET: a multi-omics database for toxicant-responsive molecular targets.Nature communications · 2026Article
- predicTox: an integrated database of clinical risk frequencies and human gene expression signatures for cardiotoxic drugs.Database : the journal of biological databases and curation · 2026Article
- ToxAssay: a hierarchical model-driven tool for advanced toxicogenomics biomarker discovery.Bioinformatics (Oxford, England) · 2025Article
- Comprehensive analysis of high-throughput transcriptomics to distinguish drug-induced liver injury (DILI) phenotypes.Archives of toxicology · 2025Review
- Computational toxicology in drug discovery: applications of artificial intelligence in ADMET and toxicity prediction.Briefings in bioinformatics · 2025Review
- Progress in toxicogenomics to protect human health.Nature reviews. Genetics · 2025Review
- Article
- A strategy to detect metabolic changes induced by exposure to chemicals from large sets of condition-specific metabolic models computed with enumeration techniques.BMC bioinformatics · 2024Article
- Artificial intelligence integration in the drug lifecycle and in regulatory science: policy implications, challenges and opportunities.Frontiers in pharmacology · 2024Article
- Metabolic modeling of sex-specific liver tissue suggests mechanism of differences in toxicological responses.PLoS computational biology · 2023Article
- State of the Art of Genomic Technology in Toxicology: A Review.International journal of molecular sciences · 2023Review
- Metabolic modeling of sex-specific tissue predicts mechanisms of differences in toxicological responses.bioRxiv : the preprint server for biology · 2023Article
- TOXRIC: a comprehensive database of toxicological data and benchmarks.Nucleic acids research · 2023Article
- Application of transfer learning to predict drug-induced human in vivo gene expression changes using rat in vitro and in vivo data.PloS one · 2023Article
- Machine Learning and Artificial Intelligence in Toxicological Sciences.Toxicological sciences : an official journal of the Society of Toxicology · 2022Review
- Orchestrating and sharing large multimodal data for transparent and reproducible research.Nature communications · 2021Article
- MexicanNutrients · 2020Article
Corrections and comments
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In the past few decades, major initiatives have been launched around the world to address chemical safety testing. These efforts aim to innovate and improve the efficacy of existing methods with the long-term goal of developing new risk assessment paradigms. The transcriptomic and toxicological profiling of mammalian cells has resulted in the creation of multiple toxicogenomic datasets and corresponding tools for analysis. To enable easy access and analysis of these valuable toxicogenomic data, we have developed ToxicoDB (toxicodb.ca), a free and open cloud-based platform integrating data from large in vitro toxicogenomic studies, including gene expression profiles of primary human and rat hepatocytes treated with 231 potential toxicants. To efficiently mine these complex toxicogenomic data, ToxicoDB provides users with harmonized chemical annotations, time- and dose-dependent plots of compounds across datasets, as well as the toxicity-related pathway analysis. The data in ToxicoDB have been generated using our open-source R package, ToxicoGx (github.com/bhklab/ToxicoGx). Altogether, ToxicoDB provides a streamlined process for mining highly organized, curated, and accessible toxicogenomic data that can be ultimately applied to preclinical toxicity studies and further our understanding of adverse outcomes.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.