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.
10 July 2019 - A new Single Cell Expression Atlas is out!
The latest release of Single Cell Expression Atlas is now available! It features 99 individually curated single-cell RNA-seq experiments over 11 different species. The analysis pipelines have been updated and now process data from droplet-based technologies such as 10x Genomics and Drop-Seq. RNA-Seq alignment and quantification are handled by Alevin, while filtering and clustering is handled by Scanpy. Links to both can be found in the Single Cell Expression Atlas release notes.
A number of featured landmark studies are also available such as Tabula muris and the Malaria Cell Atlas.
Highlights from ArrayExpress include:
- Genomic encoding of transcriptional burst kinetics (E-MTAB-6362, E-MTAB-6385 and E-MTAB-7098)
- Single-cell sequencing of lung carcinomas to phenotype stromal cells in the lung tumor microenvironment E-MTAB-6653
- Single-cell reconstruction of the early maternal–fetal interface in humans (E-MTAB-6701 and E-MTAB-6678)
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.
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.