Abstract
The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or protein of interest is expressed. Expression Atlas brings together data from >4500 expression studies from >65 different species, across different conditions and tissues. It makes these data freely available in an easy to visualise form, after expert curation to accurately represent the intended experimental design, re-analysed via standardised pipelines that rely on open-source community developed tools. Each study's metadata are annotated using ontologies. The data are re-analyzed with the aim of reproducing the original conclusions of the underlying experiments. Expression Atlas is currently divided into Bulk Expression Atlas and Single Cell Expression Atlas. Expression Atlas contains data from differential studies (microarray and bulk RNA-Seq) and baseline studies (bulk RNA-Seq and proteomics), whereas Single Cell Expression Atlas is currently dedicated to Single Cell RNA-Sequencing (scRNA-Seq) studies. The resource has been in continuous development since 2009 and it is available at https://www.ebi.ac.uk/gxa.
Highlights
Expression Atlas is an addedvalue bioinformatics resource for gene and protein expression
While the resource has significantly grown in data, the user interface of Single Cell Expression Atlas has been improved for many different communities such as COVID, plants, Human Cell Atlas (HCA), mouse, and fly researchers
As datasets from many different human tissues are becoming available via the HCA, we have developed new features that enable an easy visualization of cell type specific gene expression
Summary
Expression Atlas (https://www.ebi.ac.uk/gxa) is an addedvalue bioinformatics resource for gene and protein expression. This has contributed to data from a wider selection of species in the Single Cell Expression Atlas.
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