ArrayExpress – functional genomics data

ArrayExpress Archive of Functional Genomics Data stores data from high-throughput functional genomics experiments, and provides these data for reuse to the research community.

Latest News

17 January 2018 - Start early: Build up your ArrayExpress submission with Annotare as your electronic "lab book"

If you are doing functional genomics research, sign up now for an Annotare account, and start building an ArrayExpress submission piece by piece as you go through the stages of your experiment. Having your data already archived, will save you time and stress when finalising your paper submission.

Many journals now require accession numbers and access to data at the time of manuscript submission. Annotare provides you with an accession number usually within 24 hours after submission. However, we can only give out reviewer access accounts after the datasets have been curated and approved for deposition in ArrayExpress. The curation team will do their best to ensure timely curation and loading of your data into ArrayExpress. Keep in mind that the processing can take 10 working days or longer in busy times.

There are even more reasons to start the submission process as soon as you have the data:

  • Metadata and experimental details are still "fresh in your mind" right after the experiment. This will make it faster to fill in the forms and introduces fewer errors.
  • We store your uploaded files in Annotare for an unlimited amount of time.
  • There is no need to worry about having to make your data public right away. After submission you can keep your experiment under embargo (private status with reviewer access only) as long as you haven't published the results.


Information about how to search ArrayExpress, understand search results, how to submit data and FAQ can be found in our Help section.

Find out more about the Functional Genomics group.

Tools and Access

Annotare: web-based submission tool for ArrayExpress.

ArrayExpress Bioconductor package: an R package to access ArrayExpress and build data structures.

Programmatic access: query and download data using web services or JSON.

FTP access: data can be downloaded directly from our FTP site.

Related Projects

Discover up and down regulated genes in numerous experimental conditions in the Expression Atlas.

Explore the Experimental Factor Ontology used to support queries and annotation of ArrayExpress data.