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Nucleic Acids Res. 2015 Jan;43(Database issue):D921-7. doi: 10.1093/nar/gku955. Epub 2014 Oct 13.

Open TG-GATEs: a large-scale toxicogenomics database.

Author information

1
Toxicogenomics Informatics Project, National Institute of Biomedical Innovation, Osaka 567-0085, Japan.
2
Toxicogenomics Informatics Project, National Institute of Biomedical Innovation, Osaka 567-0085, Japan Hitachi, Ltd. Information & Telecommunication Systems Company, Government & Public Corporation Information Systems Division, Tokyo 136-8832, Japan.
3
National Institute of Health and Sciences, Tokyo 158-0098, Japan.
4
Toxicogenomics Informatics Project, National Institute of Biomedical Innovation, Osaka 567-0085, Japan Department of Pathophysiology, Faculty of Pharmaceutical Sciences, Doshisha Women's College of Liberal Arts, Kyoto 610-0332, Japan.
5
Toxicogenomics Informatics Project, National Institute of Biomedical Innovation, Osaka 567-0085, Japan h-yamada@nibio.go.jp.

Abstract

Toxicogenomics focuses on assessing the safety of compounds using gene expression profiles. Gene expression signatures from large toxicogenomics databases are expected to perform better than small databases in identifying biomarkers for the prediction and evaluation of drug safety based on a compound's toxicological mechanisms in animal target organs. Over the past 10 years, the Japanese Toxicogenomics Project consortium (TGP) has been developing a large-scale toxicogenomics database consisting of data from 170 compounds (mostly drugs) with the aim of improving and enhancing drug safety assessment. Most of the data generated by the project (e.g. gene expression, pathology, lot number) are freely available to the public via Open TG-GATEs (Toxicogenomics Project-Genomics Assisted Toxicity Evaluation System). Here, we provide a comprehensive overview of the database, including both gene expression data and metadata, with a description of experimental conditions and procedures used to generate the database. Open TG-GATEs is available from http://toxico.nibio.go.jp/english/index.html.

PMID:
25313160
PMCID:
PMC4384023
DOI:
10.1093/nar/gku955
[Indexed for MEDLINE]
Free PMC Article

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