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A High-throughput Assay for the Prediction of Chemical Toxicity by Automated Phenotypic Profiling of Caenorhabditis elegans
Published on: March 14, 2019
CEBS--Chemical Effects in Biological Systems: a public data repository integrating study design and toxicity data
Michael Waters1, Stanley Stasiewicz, B Alex Merrick
1NIEHS, National Center for Toxicogenomics, PO Box 12233, Research Triangle Park, NC 27709, USA.
Nucleic Acids Research
|October 27, 2007
Summary
The Chemical Effects in Biological Systems (CEBS) repository offers integrated toxicogenomics data, including study design, clinical chemistry, histopathology, and molecular data. It enables querying by study conditions and subject responses for gene signature and pathway analysis.
Area of Science:
- Toxicogenomics
- Bioinformatics
- Environmental Health
Background:
- Toxicogenomics research generates vast datasets requiring integrated public repositories.
- Existing data repositories may lack comprehensive integration of study design, molecular, and clinical findings.
- Standardized data management is crucial for reproducible toxicological research.
Purpose of the Study:
- To introduce the Chemical Effects in Biological Systems (CEBS) repository as an integrated public resource for toxicogenomics data.
- To describe the structure and capabilities of CEBS for querying and analyzing toxicogenomics data.
- To highlight the inclusion of the Biomedical Investigation Database (BID) for enhanced data management.
Main Methods:
- CEBS integrates toxicogenomics data including study design, clinical chemistry, histopathology, microarray, and proteomics data.
- Data is organized to allow querying by study conditions and subject responses.
- Includes tools for gene signature and pathway analysis on microarray data.
- The Biomedical Investigation Database (BID) supports data curation and novel data types like PCR.
Main Results:
- CEBS currently houses data from studies on rats, mice, and Caenorhabditis elegans, with capacity for human data.
- Contains over 4000 microarray hybridizations and 75 annotated 2D gel images.
- Includes clinical chemistry and histopathology findings from over 1500 animals.
- BID has been shared with regulatory agencies like Health Canada and the US EPA.
Conclusions:
- CEBS provides a comprehensive, integrated platform for toxicogenomics data access and analysis.
- The repository facilitates research by enabling detailed querying and molecular analysis.
- CEBS and BID are valuable resources for the toxicogenomics community and regulatory bodies.
