Open TG-GATEs: a large-scale toxicogenomics database.
Bottom Line: 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.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.
Affiliation: Toxicogenomics Informatics Project, National Institute of Biomedical Innovation, Osaka 567-0085, Japan.Show MeSH
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Mentions: Open Toxicogenomics Project-Genomics Assisted Toxicity Evaluation Systems (TG-GATEs) (Figure 1) is a toxicogenomics database that stores gene expression profiles and traditional toxicological data derived from in vivo (rat) and in vitro (primary rat hepatocytes, primary human hepatocytes) exposure to 170 compounds at multiple dosages and time points. The toxicology data is composed of biochemistry, hematology and histopathology findings with pathology imaging from the in vivo studies and cytotoxicity from the in vitro studies. The 170 compounds include representative known liver- and kidney-injuring pharmaceuticals, compounds and chemicals. These data have been generated and analyzed over the course of the 10-year Japanese Toxicogenomics Project (TGP), which was a joint government–private sector project organized by the National Institute of Biomedical Innovation (NIBIO), the National Institute of Health Sciences (NIHS) and 18 pharmaceutical companies (Figure 2).
Affiliation: Toxicogenomics Informatics Project, National Institute of Biomedical Innovation, Osaka 567-0085, Japan.