title: Gene expression atlas at the European bioinformatics institute.
abstract: The Gene Expression Atlas (http://www.ebi.ac.uk/gxa) is an added-value database providing information about gene expression in different cell types, organism parts, developmental stages, disease states, sample treatments and other biological/experimental conditions. The content of this database derives from curation, re-annotation and statistical analysis of selected data from the ArrayExpress Archive of Functional Genomics Data. A simple interface allows the user to query for differential gene expression either (i) by gene names or attributes such as Gene Ontology terms, or (ii) by biological conditions, e.g. diseases, organism parts or cell types. The gene queries return the conditions where expression has been reported, while condition queries return which genes are reported to be expressed in these conditions. A combination of both query types is possible. The query results are ranked using various statistical measures and by how many independent studies in the database show the particular gene-condition association. Currently, the database contains information about more than 200,000 genes from nine species and almost 4500 biological conditions studied in over 30,000 assays from over 1000 independent studies.
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.
authors.forename: Misha
authors.initials: M
authors.lastname: Kapushesky
authors.forename: Ibrahim
authors.initials: I
authors.lastname: Emam
authors.forename: Ele
authors.initials: E
authors.lastname: Holloway
authors.forename: Pavel
authors.initials: P
authors.lastname: Kurnosov
authors.forename: Andrey
authors.initials: A
authors.lastname: Zorin
authors.forename: James
authors.initials: J
authors.lastname: Malone
authors.forename: Gabriella
authors.initials: G
authors.lastname: Rustici
authors.forename: Eleanor
authors.initials: E
authors.lastname: Williams
authors.forename: Helen
authors.initials: H
authors.lastname: Parkinson
authors.forename: Alvis
authors.initials: A
authors.lastname: Brazma
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods* / Q000639:trends; D003196:Computer Graphics; D030541:Databases, Genetic; D030561:Databases, Nucleic Acid; D005060:Europe; D020869:Gene Expression Profiling; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D015233:Models, Statistical; D012984:Software