Journal Article

DSSTox chemical-index files for exposure-related experiments in ArrayExpress and Gene Expression Omnibus: enabling toxico-chemogenomics data linkages

ClarLynda R. Williams-DeVane, Maritja A. Wolf and Ann M. Richard

in Bioinformatics

Volume 25, issue 5, pages 692-694
Published in print March 2009 | ISSN: 1367-4803
Published online January 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp042
DSSTox chemical-index files for exposure-related experiments in ArrayExpress and Gene Expression Omnibus: enabling toxico-chemogenomics data linkages

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Summary: The Distributed Structure-Searchable Toxicity (DSSTox) ARYEXP and GEOGSE files are newly published, structure-annotated files of the chemical-associated and chemical exposure-related summary experimental content contained in the ArrayExpress Repository and Gene Expression Omnibus (GEO) Series (based on data extracted on September 20, 2008). ARYEXP and GEOGSE contain 887 and 1064 unique chemical substances mapped to 1835 and 2381 chemical exposure-related experiment accession IDs, respectively. The standardized files allow one to assess, compare and search the chemical content in each resource, in the context of the larger DSSTox toxicology data network, as well as across large public cheminformatics resources such as PubChem (http://pubchem.ncbi.nlm.nih.gov).

Availability: Data files and documentation may be accessed online at http://epa.gov/ncct/dsstox/.

Contact: williams.clarlynda@epa.gov

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1923 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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