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


BACKGROUND
Data files and documentation may be accessed online at http://epa.gov/ncct/dsstox/.
Williams-DeVane
ClarLynda R
CR
National Center for Computational Toxicology, Office of Research and Development, US EPA, Research Triangle Park, NC 27711, USA.
Wolf
Maritja A
MA
Richard
Ann M
AM
D019295:Computational Biology / Q000379:methods*; D016208:Databases, Factual; D030541:Databases, Genetic; D015870:Gene Expression; D020869:Gene Expression Profiling / Q000379:methods*; D023281:Genomics / Q000379:methods; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods; D012984:Software; D043922:Toxicogenetics / Q000379:methods*