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The comparative toxicogenomics database: a cross-species resource for building chemical-gene interaction networks.

Chemicals in the environment play a critical role in the etiology of many human diseases. Despite their prevalence, the molecular mechanisms of action and the effects of chemicals on susceptibility to disease are not well understood. To promote understanding of these mechanisms, the Comparative Toxicogenomics Database (CTD; http://ctd.mdibl.org/) presents scientifically reviewed and curated information on chemicals, relevant genes and proteins, and their interactions in vertebrates and invertebrates. CTD integrates sequence, reference, species, microarray, and general toxicology information to provide a unique centralized resource for toxicogenomic research. The database also provides visualization capabilities that enable cross-species comparisons of gene and protein sequences. These comparisons will facilitate understanding of structure-function correlations and the genetic basis of susceptibility. Manual curation and integration of cross-species chemical-gene and chemical-protein interactions from the literature are now underway. These data will provide information for building complex interaction networks. New CTD features include (1) cross-species gene, rather than sequence, query and visualization capabilities; (2) integrated cross-links to microarray data from chemicals, genes, and sequences in CTD; (3) a reference set related to chemical-gene and protein interactions identified by an information retrieval system; and (4) a "Chemicals in the News" initiative that provides links from CTD chemicals to environmental health articles from the popular press. Here we describe these new features and our novel cross-species curation of chemical-gene and chemical-protein interactions.

Pubmed ID: 16675512

Authors

  • Mattingly CJ
  • Rosenstein MC
  • Davis AP
  • Colby GT
  • Forrest JN
  • Boyer JL

Journal

Toxicological sciences : an official journal of the Society of Toxicology

Publication Data

August 7, 2006

Associated Grants

  • Agency: NCRR NIH HHS, Id: P20 RR-016463
  • Agency: NIEHS NIH HHS, Id: R01 ES014065
  • Agency: NIEHS NIH HHS, Id: R33 ES011267
  • Agency: NIEHS NIH HHS, Id: R33 ES011267

Mesh Terms

  • Animals
  • Databases, Factual
  • Environmental Health
  • Humans
  • Toxicogenetics