About the Expression Atlas

The Expression Atlas provides information on gene expression patterns under different biological conditions such as a gene knock out, a plant treated with a compound, or in a particular organism part or cell. It includes both microarray and RNA-seq data. The data is re-analysed in-house to detect interesting expression patterns under the conditions of the original experiment. There are two components to the Expression Atlas, the Baseline Atlas and the Differential Atlas:

Searches enhanced by ontology-based query expansion

The Expression Atlas interface allows searches by gene, splice variant and protein attribute. Individual genes or gene sets can be searched for. Both the Baseline and Differential Atlas are queried by default.

Sample attributes and experimental conditions can also be searched for. Experimental conditions e.g. cerebellum or breast carcinoma, are mapped to ontology terms from the Experimental Factor Ontology (EFO). Mappings are made either manually by curators or automatically using EBI-developed software called Zooma. The ontology mappings allow for ontology-driven query expansion e.g. searching for 'cancer' will return matches to the keyword and also results for different types of cancer such as 'breast carcinoma' and 'acute myeloid leukemia'.

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