Expression Atlas

Expression Atlas

Content
Description	Gene expression across species and conditions
Data types captured	Microarray Data and other Gene Expression
Organisms	Human, Mouse, Rat, Fruit-fly, Chicken, Roundworm, Wild boar, Zebrafish, Cow and others.
Contact
Research center	EMBL-EBI
Primary citation	PMID 31665515
Release date	March 2020
Access
Website	www.ebi.ac.uk/gxa/home
Tools
Web	Advanced search, bulk retrieval/download
Miscellaneous
Data release frequency	3 to 4 times a year
Curation policy	Manual curation of every study.

The Expression Atlas is a database maintained by the European Bioinformatics Institute that provides information on gene expression patterns from RNA-Seq and Microarray studies, and protein expression from Proteomics studies.^[1] The Expression Atlas allows searches by gene, splice variant, protein attribute, disease, treatment or organism part (cell types/tissues). Individual genes or gene sets can be searched for. All datasets in Expression Atlas have its metadata manually curated and its data analysed through standardised analysis pipelines. There are two components to the Expression Atlas, the Baseline Atlas and the Differential Atlas:

Baseline Atlas

The Baseline Atlas provides information about which gene products are present (and at what abundance) under "normal" conditions. This component of the Expression Atlas consists of RNA-seq experiments from ArrayExpress repositories. It aims to answer questions such as:

• Which genes are specifically expressed in kidney?
• What is the expression pattern for gene SAA4 in normal tissues?

Differential Atlas

The Differential Atlas allows users to identify genes that are up- or down-regulated in different experimental conditions.

See also

• Human Protein Atlas
• The Cancer Genome Atlas

References

1. Papatheodorou I, Moreno P, Manning J, Fuentes AM, George N, Fexova S, et al. (Jan 2020). "Expression Atlas update: from tissues to single cells". Nucleic Acids Research. 48 (D1): D77 – D83. doi:10.1093/nar/gkz947. PMC 7145605. PMID 31665515.

Further reading

• Petryszak R, Burdett T, Fiorelli B, Fonseca NA, Gonzalez-Porta M, Hastings E, et al. (January 2014). "Expression Atlas update--a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments". Nucleic Acids Research. 42 (Database issue). Oxford University Press (OUP): D926-32. doi:10.1093/nar/gkt1270. PMC 3964963. PMID 24304889.
• Kapushesky M, Adamusiak T, Burdett T, Culhane A, Farne A, Filippov A, et al. (January 2012). "Gene Expression Atlas update--a value-added database of microarray and sequencing-based functional genomics experiments". Nucleic Acids Research. 40 (Database issue). Oxford University Press (OUP): D1077-81. doi:10.1093/nar/gkr913. PMC 3245177. PMID 22064864.

External links

• "About Expression Atlas". European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI).