is a Data Source.
It is part of the NAMs collection.
Open TG-GATEs is the public release of the toxicogenomics database built by the Japanese Toxicogenomics Project (TGP, 2002-2007) and Toxicogenomics Informatics Project (TGP2, 2007-2012), collaborations of the National Institute of Biomedical Innovation, the National Institute of Health Sciences and Japanese pharmaceutical companies. It covers 170 compounds, with Affymetrix microarray gene expression data (CEL files) from rat liver and kidney in vivo (single and repeated dosing) and from rat and human primary hepatocytes in vitro, linked to pathology, hematology, blood biochemistry, organ and body weight, and cell viability data. The original site is offline; the data were last updated in 2012 and are preserved in the NBDC LSDB Archive and in ArrayExpress.
toxicology, pharmacology, genomics, gene expression profiling
Unknown
No external IDs available
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| open-tggates.archive | Open TG-GATEs LSDB Archive Page | download.html | Graphical Interface | http | NBDC LSDB Archive page for Open TG-GA... |
| open-tggates.download | Open TG-GATEs Download Directory | LATEST | Product | mixed | Download directory of the archived Op... |
| open-tggates.cel-files | Open TG-GATEs Gene Expression Data (CEL Files) | Rat | Product | mixed | Affymetrix GeneChip CEL files (Rat Ge... |
| open-tggates.all-attributes | Open TG-GATEs CEL File Attachments (All Attributes) | Open-tggates_AllAttribute.zip (1.7 MB) | Product | tsv | Combined attribute table for all CEL ... |
| open-tggates.compounds | Open TG-GATEs Compound List | open_tggates_main.zip (6.4 KB) | Product | csv | List of the 170 Open TG-GATEs compoun... |
| open-tggates.pathology | Open TG-GATEs Pathological Items | open_tggates_pathology.zip (89.4 KB) | Product | csv | Histopathological findings for liver ... |
| open-tggates.biochemistry | Open TG-GATEs Biochemistry | open_tggates_biochemistry.zip (666.1 KB) | Product | csv | Blood biochemistry measurements for t... |
| open-tggates.hematology | Open TG-GATEs Hematology | open_tggates_hematology.zip (636.5 KB) | Product | csv | Hematology measurements for the rat i... |
| open-tggates.togodb | Open TG-GATEs TogoDB Simple Search | open_tggates_main | Graphical Interface | http | TogoDB table view of the Open TG-GATE... |
| open-tggates.arrayexpress-rat-in-vitro | Open TG-GATEs in ArrayExpress (Rat In Vitro) | E-MTAB-797 | Product | http | ArrayExpress record E-MTAB-797, Open ... |
| open-tggates.arrayexpress-human-in-vitro | Open TG-GATEs in ArrayExpress (Human In Vitro) | E-MTAB-798 | Product | http | ArrayExpress record E-MTAB-798, Open ... |
| open-tggates.arrayexpress-rat-single-dose | Open TG-GATEs in ArrayExpress (Rat In Vivo Single Dose) | E-MTAB-799 | Product | http | ArrayExpress record E-MTAB-799, Open ... |
| open-tggates.arrayexpress-rat-repeat-dose | Open TG-GATEs in ArrayExpress (Rat In Vivo Repeated Dose) | E-MTAB-800 | Product | http | ArrayExpress record E-MTAB-800, Open ... |
| open-tggates.histopathology-images | Open TG-GATEs Histopathology Images | S-BIAD501 | Product | http | BioImage Archive study S-BIAD501 (rel... |
| open-tggates.original-site ⚠ | Open TG-GATEs Original Web Site | toxico.nibiohn.go.jp | Graphical Interface | http | Original Open TG-GATEs web site of th... |
Open TG-GATEs (Toxicogenomics Project-Genomics Assisted Toxicity Evaluation system) is the public part of TG-GATEs, the toxicogenomics database of the Japanese Toxicogenomics Project (TGP, 2002-2007) and its successor, the Toxicogenomics Informatics Project (TGP2, 2007-2012). In these projects, compounds (mostly drugs) were given to rats or applied to rat and human primary hepatocytes, and gene expression was measured with Affymetrix GeneChips alongside conventional toxicology endpoints.
The release covers 170 compounds across six study designs: human hepatocytes in vitro, rat hepatocytes in vitro, and rat liver and kidney in vivo after single or repeated dosing. For each study the database provides:
The original site at toxico.nibiohn.go.jp went live in 2011 and was last updated in January 2012. It is offline as of 2026-10-05. The full release is preserved in the NBDC LSDB Archive (DOI 10.18908/lsdba.nbdc00954-01-000) as zipped CSV/TSV tables and per-compound CEL file archives, with TogoDB views for simple search. The expression data are also in ArrayExpress (E-MTAB-797, E-MTAB-798, E-MTAB-799 and E-MTAB-800), and the histopathology slide images are in the BioImage Archive (S-BIAD501).
The data are licensed under CC BY-SA 2.1 Japan, with an additional license that requires derived works to carry these license terms and requires publications to cite the database by name and URL.
Created: October 05, 2026 | Last modified: October 19, 2026