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General interest items edited by Janice Flahiff

Comparative Toxicogenomics Database (CTD)© – Resource for Environmental Chemicals/Human Disease Relationships

Comparative Toxicogenomics Database (CTD)© – Resource for Environmental Chemicals/Human Disease Relationships

From the National Library of Medicine (NLM) Fact sheet


The Comparative Toxicogenomics Database (CTD) elucidates molecular mechanisms by which environmental chemicals affect human disease. CTD is a data file on the National Library of Medicine’s (NLM) Toxicology Data Network (TOXNET®). It contains manually curated data describing cross-species chemical–gene/protein interactions and chemical– and gene–disease relationships. The results provide insight into the molecular mechanisms underlying variable susceptibility and environmentally influenced diseases. These data will also provide insights into complex chemical–gene and protein interaction networks. CTD is compiled by the Mount Desert Island Biological Laboratory (MDIBL), with support from the National Institutes of Environmental Health Sciences (NIEHS) and the National Center for Research Resources (NCRR) of the National Institutes of Health (NIH).

Once in the complete CTD site via TOXNET, users can perform several types of searches, for example:

• Browse relationships among chemicals, and obtain detailed information about them, including structure, toxicology data and related genes, diseases, pathways and references. See: Chemicals

• Browse relationships among diseases, and obtain detailed information about them, including related chemicals, genes, pathways and references. See: Diseases

• Browse search for genes from diverse vertebrates and invertebrates by symbol, synonym, accession ID, organism taxon, chemical, interaction type, disease or Gene Ontology annotation. See: Genes

• Search for cross-species chemical–gene and protein interactions curated from the published literature. Interactions may be retrieved by chemical, interaction type, gene, organism or Gene Ontology annotation. See: Chemical–Gene Interactions

• Search for references by gene, organism taxon, chemical, chemical–

gene interaction type, disease, citation information or accession ID. See: References


Further examples of searches that can be conducted once users are in the complete CTD site via TOXNET include:

• Which human diseases are associated with a gene/protein? (Sample query)

• Which human diseases are associated with a chemical? (Sample query)

• Which genes/proteins interact with a chemical? (Sample query)

• Which chemicals interact with a gene/protein? (Sample query)

• Which references report a chemical–gene/protein interaction? (Sample query)
•

Which cellular functions (GO terms) are affected by a chemical? (Sample query)
Users can also easily conduct their CTD search strategy against other databases, e.g., Hazardous Substances Data Bank®, TOXLINE®, and ChemIDplus®.

April 6, 2011 - Posted by | Biomedical Research Resources, Public Health | , ,

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