What is ArrayExpress?
ArrayExpress is one of the repositories recommended by major scientific journals to archive functional genomics data from microarray and sequencing platforms to support reproducible research. To serve this mission we facilitate submissions in compliance with Minimum Information About A Microarray Experiment (MIAME) and Minimum Information About a Sequencing Experiment (MINSEQE) guidelines. Experiments are submitted directly to ArrayExpress or are imported from the NCBI Gene Expression Omnibus database. For high-throughput sequencing based experiments the raw data is brokered to the European Nucleotide Archive, while the experiment descriptions and processed data are archived in ArrayExpress.
Publications / how to cite
- Citing ArrayExpress database: please use the following publication: Athar A. et al., 2019. ArrayExpress update - from bulk to single-cell expression data. Nucleic Acids Res, doi: 10.1093/nar/gky964. Pubmed ID 30357387.
- Citing ArrayExpress submission in your manuscript: please include your experiment accession number and the URL to ArrayExpress home page, http://www.ebi.ac.uk/arrayexpress. e.g. "Microarray data are available in the ArrayExpress database (http://www.ebi.ac.uk/arrayexpress) under accession number E-MEXP-12345."
- Citing ArrayExpress BioConductor package: please refer to this BioConductor page for more information about the authors and maintainer of the package.
The team behind ArrayExpress
The ArrayExpress team is part of the Functional Genomics group at EMBL-EBI, led by Alvis Brazma. The team consists of about fifteen bioinformaticians, ontologists, software engineers and web developers, split between the production team led by Irene Papatheodorou and development team led by Ugis Sarkans. The production team manages, curates and models all incoming data to ArrayExpress, while the development team looks after all the back-end database infrastructure and the public-facing website.
ArrayExpress and related activities are supported by member states of the European Molecular Biology Laboratory; European Commission: ENGAGE , EurocanPlatform , GEUVADIS , SLING , SYBARIS , EUROCANPLATFORM , CAGEKID , BioMedBridges  and Gen2Phen ; US National Institutes of Health (the National Human Genome Research Institute, National Institute of Biomedical Imaging and Bioengineering and the National Cancer Institute) [P41 HG003619]; National Center for Biomedical Ontology (one of the National Centers for Biomedical Computing supported by the National Human Genome Research Institute, the National Heart, Lung, and Blood Institute, and National Institutes of Health Common Fund [U54-HG004028]); National Science Foundation Award Number .
The ArrayExpress team would like to thank the following companies for their support through the offering of free software licenses:
- JetBrains for the most intelligent Java IDE - IntelliJ IDEA.
- Atlassian for the Bamboo - Continuous Integration and Release Management tool.
- YourKit for their support of open source projects with its full-featured Java Profiler. Please take a look at YourKit's leading software products: YourKit Java Profiler and YourKit .NET Profiler.