Expression Atlas

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:

Expression Atlas
Content
DescriptionGene expression across species and conditions
Data types
captured		Microarray Data and other Gene Expression
OrganismsHuman, Mouse, Rat, Fruit-fly, Chicken, Roundworm, Wild boar, Zebrafish, Cow and others.
Contact
Research centerEMBL-EBI
Primary citationPMID 31665515
Release dateMarch 2020
Access
Websitewww.ebi.ac.uk/gxa/home
Tools
WebAdvanced search, bulk retrieval/download
Miscellaneous
Data release
frequency		3 to 4 times a year
Curation policyManual curation of every study.

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.

gollark: What do you mean localised?
gollark: https://osmarks.tk/lorem
gollark: And you can only access some of them with keyboard shortcuts, voice commands, the web API (which is automatically exposed directly to the internet), the companion USB control device, by hovering over random areas for a few seconds, by emailing customer support, or for one of them by closing and reopening the program 10 times within 20 seconds.
gollark: There are actually some controls which hide some controls, add new ones, randomly change existing ones, shuffle them all around, that sort of thing.
gollark: It's not like I make mine easy. The buttons are all unlabelled.

See also

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
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