UNIT 7.13 Data Storage and Analysis in ArrayExpress and Expression Profiler
Published Online: 1 SEP 2008
Copyright © 2008 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Rustici, G., Kapushesky, M., Kolesnikov, N., Parkinson, H., Sarkans, U. and Brazma, A. 2008. Data Storage and Analysis in ArrayExpress and Expression Profiler. Current Protocols in Bioinformatics. 23:7.13:7.13.1–7.13.27.
- Published Online: 1 SEP 2008
- Published Print: SEP 2008
ArrayExpress at the European Bioinformatics Institute is a public database for MIAME-compliant microarray and transcriptomics data. It consists of two parts: the ArrayExpress Repository, which is a public archive of microarray data, and the ArrayExpress Warehouse of Gene Expression Profiles, which contains additionally curated subsets of data from the Repository. Archived experiments can be queried by experimental attributes, such as keywords, species, array platform, publication details, or accession numbers. Gene expression profiles can be queried by gene names and properties, such as Gene Ontology terms, allowing expression profiles visualization. The data can be exported and analyzed using the online data analysis tool named Expression Profiler. Data analysis components, such as data preprocessing, filtering, differentially expressed gene finding, clustering methods, and ordination-based techniques, as well as other statistical tools are all available in Expression Profiler, via integration with the statistical package R. Curr. Protoc. Bioinform. 23:7.13.1-7.13.27. © 2008 by John Wiley & Sons, Inc.
- gene expression;
- public repository;
- data analysis