Version 15.2.0

Discover gene expression data in animals

Bgee is a database for retrieval and comparison of gene expression patterns across multiple animal species. It provides an intuitive answer to the question "where is a gene expressed?" and supports research in cancer and agriculture, as well as evolutionary biology.

comparable
species

52

bulk and single-cell
RNA-Seq libraries

31467

unique annotated
conditions

55997

Bgee hero illustration species and organs

Gene expression

Discover important details about your selected gene, including its expression in various conditions and its orthologs. Gene search

Expression comparison

Compare gene expression for a list of genes in anatomical entities. Compare

Expression enrichment analysis

Tool similar to a GO enrichment test but rather than using Gene Ontology annotations it is based on anatomical annotations. Analyse

Raw data annotations

Explore all libraries in Bgee that match your selected conditions and access their fully annotated raw (unprocessed) data. Explore

Expression calls

Search all present/absent gene expression calls in the Bgee database. Search

Bgee News

2024-05-21

Release of Bgee version 15.2

In this release, we have added hundreds of curated, standardized, and processed single-cell 10X Genomics libraries. You can retrieve them from our raw data interface.

We have also added about 14,000 bulk RNA-Seq libraries to allow for more meaningful gene expression comparisons across species. We targeted specific organs and species for which comparisons were not yet possible.

Of note, these new data are not yet fully integrated in our tools such as the gene expression pages and TopAnat. Thanks to this partial update, we are now able to respond quickly to the need for curation and standardization of new datasets. The full integration of these data in our tools and gene expression pages will be included in the following release.

This release includes the addition of a large number of bulk RNA-Seq libraries in Salmo salar (Atlantic salmon). We also now provide "physiological status", which holds information about the smoltification status of individuals, which is especially relevant for Salmo salar. These new data have been fully integrated in all our tools and gene expression pages, as opposed to the new data added in other species (see point above).

We also provide new information for annotated samples in this release: you can now retrieve free text information provided by the authors, along with the standardized ontology terms to capture information about anatomy, cell type, developmental and life stage. This is especially useful for single-cell RNA-Seq data, where the ontologies are not always able to capture the diversity of cell types identified in such experiments.

Bgee gene expression database indexes
Homo sapiens Genes - Experiments
Mus musculus Genes - Experiments
Danio rerio Genes - Experiments
Drosophila melanogaster Genes - Experiments
Caenorhabditis elegans Genes - Experiments
Canis lupus familiaris Genes - Experiments
Felis catus Genes - Experiments
Equus caballus Genes - Experiments
Sus scrofa Genes - Experiments
Bos taurus Genes - Experiments
Capra hircus Genes - Experiments
Ovis aries Genes - Experiments
Oryctolagus cuniculus Genes - Experiments
Cavia porcellus Genes - Experiments
Gallus gallus Genes - Experiments
Meleagris gallopavo Genes - Experiments
Ornithorhynchus anatinus Genes - Experiments
Callithrix jacchus Genes - Experiments
Cercocebus atys Genes - Experiments
Macaca fascicularis Genes - Experiments
Macaca mulatta Genes - Experiments
Macaca nemestrina Genes - Experiments
Papio anubis Genes - Experiments
Gorilla gorilla Genes - Experiments
Pan paniscus Genes - Experiments
Pan troglodytes Genes - Experiments
Microcebus murinus Genes - Experiments
Chlorocebus sabaeus Genes - Experiments
Manis javanica Genes - Experiments
Rattus norvegicus Genes - Experiments
Heterocephalus glaber Genes - Experiments
Monodelphis domestica Genes - Experiments
Xenopus laevis Genes - Experiments
Xenopus tropicalis Genes - Experiments
Anolis carolinensis Genes - Experiments
Lepisosteus oculatus Genes - Experiments
Anguilla anguilla Genes - Experiments
Astyanax mexicanus Genes - Experiments
Esox lucius Genes - Experiments
Salmo salar Genes - Experiments
Gadus morhua Genes - Experiments
Poecilia reticulata Genes - Experiments
Oryzias latipes Genes - Experiments
Astatotilapia calliptera Genes - Experiments
Neolamprologus brichardi Genes - Experiments
Scophthalmus maximus Genes - Experiments
Gasterosteus aculeatus Genes - Experiments
Nothobranchius furzeri Genes - Experiments
Branchiostoma lanceolatum Genes - Experiments
Latimeria chalumnae Genes - Experiments
Drosophila pseudoobscura Genes - Experiments
Drosophila simulans Genes - Experiments

Images from Wikimedia Commons. In most cases, pictures corresponds to the sequenced strains. Show information about original images.

Homo sapiens picture by Leonardo da Vinci (Life time: 1519) [Public domain]. See H. sapiens picture via Wikimedia Commons

Mus musculus picture by Rasbak [GFDL or CC-BY-SA-3.0], See M. musculus picture via Wikimedia Commons

Danio rerio picture by Azul (Own work) [see page for license], See D. rerio picture via Wikimedia Commons

Drosophila melanogaster picture by André Karwath aka Aka (Own work) [CC-BY-SA-2.5], See D. melanogaster picture via Wikimedia Commons

Caenorhabditis elegans picture by Bob Goldstein, UNC Chapel Hill http://bio.unc.edu/people/faculty/goldstein/ (Own work) [CC-BY-SA-3.0], See C. elegans picture via Wikimedia Commons

Pan troglodytes picture by Thomas Lersch (Own work) [GFDL, CC-BY-SA-3.0 or CC-BY-2.5], See P. troglodytes picture via Wikimedia Commons

Pan paniscus picture by Ltshears (Own work) [CC-BY-SA-3.0 or GFDL], See P. paniscus picture via Wikimedia Commons

Gorilla gorilla picture by Brocken Inaglory (Own work) [CC-BY-SA-3.0 or GFDL], See G. gorilla picture via Wikimedia Commons

Macaca mulatta picture by Aiwok (Own work) [GFDL or CC-BY-SA-3.0-2.5-2.0-1.0], See M. mulatta picture via Wikimedia Commons

Rattus norvegicus picture by Reg Mckenna (originally posted to Flickr as Wild Rat) [CC-BY-2.0], See R. norvegicus picture via Wikimedia Commons

Bos taurus picture by User Robert Merkel on en.wikipedia (US Department of Agriculture) [Public domain], See B. taurus picture via Wikimedia Commons

Sus scrofa picture by Joshua Lutz (Own work) [Public domain], See S. scrofa picture via Wikimedia Commons

Equus caballus picture by Doug Antczak Baker Institute for Animal Health College of Veterinary Medicine Cornell University [Public Domain], See E. caballus picture via Wikimedia Commons

Oryctolagus cuniculus picture by JJ Harrison (Own work) [CC-BY-SA-3.0], See O. cuniculus picture via Wikimedia Commons

Canis lupus familiaris picture by Mood210 (Own work) [CC-BY-SA-3.0], See C. lupus familiaris picture via Wikimedia Commons

Felis catus picture [CC-BY-SA-3.0], See F. catus picture via Wikimedia Commons

Cavia porcellus picture by Variraptor (Own work) [CC-BY-SA-3.0], See C. porcellus picture via Wikimedia Commons

Monodelphis domestica picture by Marsupial Genome Sheds Light on the Evolution of Immunity. Hill E, PLoS Biology Vol. 4/3/2006, e75 http://dx.doi.org/10.1371/journal.pbio.0040075 [CC-BY-2.5], See M. domestica picture via Wikimedia Commons

Ornithorhynchus anatinus picture by Dr. Philip Bethge (private) [GFDL or CC-BY-SA-3.0-2.5-2.0-1.0], See O. anatinus picture via Wikimedia Commons

Gallus gallus picture by Subramanya C K (Own work) [CC-BY-SA-3.0], See G. gallus picture via Wikimedia Commons

Anolis carolinensis picture by PiccoloNamek (Moved from Image:P1010027.jpg) [GFDL or CC-BY-SA-3.0], See A. carolinensis picture via Wikimedia Commons

Xenopus tropicalis picture by Václav Gvoždík (http://calphotos.berkeley.edu) [CC-BY-SA-2.5 or CC-BY-SA-3.0], See X. tropicalis picture via Wikimedia Commons

Xenopus laevis picture by Brian Gratwicke (https://www.flickr.com/photos/19731486@N07/8325732255) [CC-BY-2.0], See X. laevis picture via Wikimedia Commons

Branchiostoma lanceolatum picture by Hans Hillewaert (Own work) [CC-BY-SA-4.0], See B. lanceolatum picture via Wikimedia Commons

Latimeria chalumnae picture by Alberto Fernandez Fernandez (Own work) [GFDL, CC-BY-SA-3.0 or CC-BY-SA-2.5], See L. chalumnae picture via Wikimedia Commons

Lepisosteus oculatus picture by Brian Gratwicke (Own work) [CC-BY-2.5], See L. oculatus picture via Wikimedia Commons

Anguilla anguilla picture by GerardM (http://www.digischool.nl/bi/onderwaterbiologie/) [GFDL or CC-BY-SA-3.0], See A. anguilla picture via Wikimedia Commons

Astyanax mexicanus picture by H. Zell (Own work) [GFDL or CC-BY-SA-3.0], See A. mexicanus picture via Wikimedia Commons

Esox lucius picture by Jik jik (Own work) [GFDL or CC-BY-SA-3.0-2.5-2.0-1.0], See E. lucius picture via Wikimedia Commons

Salmo salar picture by Hans-Petter Fjeld (Own work) [CC-BY-SA-2.5], See S. salar picture via Wikimedia Commons

Gadus morhua picture by Hans-Petter Fjeld (Own work) [CC-BY-SA-2.5], See G. morhua picture via Wikimedia Commons

Poecilia reticulata picture by Per Harald Olsen (Own work) [GFDL or CC-BY-3.0], See P. reticulata picture via Wikimedia Commons

Oryzias latipes picture by NOZO (Own work) [GFDL or CC-BY-3.0], See O. latipes picture via Wikimedia Commons

Astatotilapia calliptera picture by Alexandra Tyers (https://www.flickr.com/photos/52993488@N03/5441877789) [CC-BY-SA-2.0], See A. calliptera picture via Wikimedia Commons

Meleagris gallopavo picture by Riki7 (Own work) [Public domain], See M. gallopavo picture via Wikimedia Commons

Callithrix jacchus picture by Leszek Leszczynski (https://www.flickr.com/photos/leszekleszczynski/6952548339/) [CC-BY-2.0], See C. jacchus picture via Wikimedia Commons

Cercocebus atys picture by Giulio Russo Photography (Own work) [CC-BY-4.0], See C. atys picture via Wikimedia Commons

Macaca fascicularis picture by André Ueberbach (Eigene Aufnahme von André Ueberbach/Own production) [CC-BY-SA-2.0 DE], See M. fascicularis picture via Wikimedia Commons

Macaca nemestrina picture by Hectonichus (Own work) [CC-BY-SA-3.0 or GFDL], See M. nemestrina picture via Wikimedia Commons

Papio anubis picture by Charles J. Sharp (Own work, from Sharp Photography, http://www.sharpphotography.co.uk/) [CC-BY-SA-4.0], See P. anubis picture via Wikimedia Commons

Capra hircus picture by flagstaffotos [at] gmail.com (Own work) [GFDL], See C. hircus picture via Wikimedia Commons

Ovis aries picture by Jacquie Wingate from Recovery, USA (https://www.flickr.com/photos/11948828@N00/2212889583/) [CC-BY-SA-1.0], See O. aries picture via Wikimedia Commons

Manis javanica picture by Frendi Apen Irawan (Own work) [CC-BY-SA-4.0], See M. javanica picture via Wikimedia Commons

Heterocephalus glaber picture by Roman Klementschitz, Wien (Own work) [GFDL or CC-BY-SA-3.0], See H. glaber picture via Wikimedia Commons

Microcebus murinus picture by Charles J. Sharp (Own work, from Sharp Photography, http://www.sharpphotography.co.uk/) [CC-BY-SA-3.0], See M. murinus picture via Wikimedia Commons

Neolamprologus brichardi picture by David Midgley (www.sydneycichlid.com) (Own work) [CC-BY-SA-2.5], See N. brichardi picture via Wikimedia Commons

Scophthalmus maximus picture by Luc Viatour (Own work http://www.lucnix.be/) [GFDL or CC-BY-SA-3.0-2.5-2.0-1.0], See S. maximus picture via Wikimedia Commons

Chlorocebus sabaeus picture by Charles J. Sharp (Own work, from Sharp Photography, http://www.sharpphotography.co.uk/) [CC-BY-SA-4.0], See C. sabaeus picture via Wikimedia Commons

Gasterosteus aculeatus picture by Viridiflavus (Own work) [GFDL or CC-BY-SA-3.0], See G. aculeatus picture via Wikimedia Commons

Nothobranchius furzeri picture by Ugau (Own work, Leibniz Institute for Age Research - Fritz Lipmann Institute (FLI), Jena, Germany) [GFDL or CC-BY-SA-3.0], See N. furzeri picture via Wikimedia Commons

Drosophila pseudoobscura picture, See D. pseudoobscura picture via Ensembl Metazoa

Drosophila simulans picture by Nicolas Gompel [CC BY-NC-SA 2.0 FR], See D. simulans picture via Nicolas Gompel's lab website