ArrayExpress—a public repository for microarray gene expression data at the EBI.pdf

Nucleic Acids Research, 2005, Vol. 33, Database issue D553–D555 doi:10.1093/nar/gki056 ArrayExpress—a public repository for microarray gene expression data at the EBI H. Parkinson*, U. Sarkans, M. Shojatalab, N. Abeygunawardena, S. Contrino, R. Coulson, A. Farne, G. Garcia Lara, E. Holloway, M. Kapushesky, P. Lilja, G. Mukherjee, A. Oezcimen, T. Rayner, P. Rocca-Serra, A. Sharma, S. Sansone and A. Brazma European Bioinformatics Institute, EMBL-EBI Wellcome Trust Genome Campus, Hinxton CB10 1SD, UK Received September 22, 2004; Revised and Accepted October 1, 2004 ABSTRACT MIAME supportive data-submission tool; (ii) the Array- Express repository that provides public and password- ArrayExpress is a public repository for microarray protected access to the submitted data; (iii) a query optimized data that supports the MIAME (Minimum Informa- data warehouse containing a curated subset of normalized tion About a Microarray Experiment) requirements data; and (iv) Expression Profiler, an integrated online visu- and stores well-annotated raw and normalized data. alization and analysis tool. All the software in the Array- As of November 2004, ArrayExpress contains data Express suite is open source. Here we will focus on describing from 12 000 hybridizations covering 35 species. MIAMExpress, the repository and the data warehouse; Data can be submitted online or directly from Expression Profiler has been reviewed recently