Expression Atlas update: gene and protein expression in multiple species

Pablo Moreno(European Bioinformatics Institute), Silvie Fexová(European Bioinformatics Institute), Nancy George(European Bioinformatics Institute), Jonathan Manning(European Bioinformatics Institute), Zhichao Miao(European Bioinformatics Institute), Suhaib Mohammed(European Bioinformatics Institute), Alfonso Muñoz-Pomer Fuentes(European Bioinformatics Institute), Anja Füllgrabe(European Bioinformatics Institute), Yalan Bi(European Bioinformatics Institute), Natassja G. Bush(European Bioinformatics Institute), Haider Iqbal(European Bioinformatics Institute), Upendra Kumbham(European Bioinformatics Institute), Andrey G. Solovyev(European Bioinformatics Institute), Lingyun Zhao(European Bioinformatics Institute), Ananth Prakash(European Bioinformatics Institute), David García‐Seisdedos(European Bioinformatics Institute), Deepti J Kundu(European Bioinformatics Institute), Shengbo Wang(European Bioinformatics Institute), Mathias Walzer(European Bioinformatics Institute), Laura Clarke(European Bioinformatics Institute), David Osumi-Sutherland(European Bioinformatics Institute), Marcela K Tello-Ruiz(Cold Spring Harbor Laboratory), Sunita Kumari(Cold Spring Harbor Laboratory), Doreen Ware(Cold Spring Harbor Laboratory), Jana Eliasova(Wellcome Sanger Institute), Mark J. Arends(Edinburgh Cancer Research), Martijn C. Nawijn(University Medical Center Groningen), Kerstin B. Meyer(Wellcome Sanger Institute), Tony Burdett(European Bioinformatics Institute), John C. Marioni(European Bioinformatics Institute), Sarah A. Teichmann(Wellcome Sanger Institute), Juan Antonio Vizcaíno(European Bioinformatics Institute), Alvis Brāzma(European Bioinformatics Institute), Irene Papatheodorou(European Bioinformatics Institute)
Nucleic Acids Research
November 19, 2021
10.1093/nar/gkab1030
Cited by 236Open Access
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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.

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