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.
Bgee is a database for retrieval and comparison of gene expression patterns across multiple animal species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data) and from multiple data sets (including GTEx data).
Bgee is based exclusively on curated "normal", healthy wild-type, expression data (e.g., no gene knock-out, no treatment, no disease), to provide a comparable reference of normal gene expression.
Bgee produces calls of presence/absence of expression, and of differential over-/under-expression, integrated along with information of gene orthology, and of homology between organs. This allows comparisons of expression patterns between species.
H. sapiens
human
M. musculus
mouse
D. rerio
zebrafish
D. melanogaster
fruit fly
C. elegans
nematode
P. troglodytes
chimpanzee
P. paniscus
bonobo
G. gorilla
gorilla
M. mulatta
macaque
R. norvegicus
rat
B. taurus
cattle
S. scrofa
pig
E. caballus
horse
O. cuniculus
rabbit
C. lupus familiaris
dog
F. catus
cat
C. porcellus
guinea pig
E. europaeus
hedgehog
M. domestica
opossum
O. anatinus
platypus
G. gallus
chicken
A. carolinensis
green anole
X. tropicalis
western clawed frog
D. ananassae
Drosophila ananassae
D. mojavensis
Drosophila mojavensis
D. pseudoobscura
Drosophila pseudoobscura
D. simulans
Drosophila simulans
D. virilis
Drosophila virilis
D. yakuba
Drosophila yakuba
This is an incremental update of Bgee, improving data coverage mostly for animals of agronomic and veterinary relevance, and adding new functionalities to the website:
We have added new RNA-Seq libraries to Bgee. For animals of agronomic and veterinary relevance:
For other species in Bgee:
All calls of presence/absence of expression, expression scores, and all the Bgee tools and download files, have been updated accordingly.
Other changes in this release:
This is an incremental update of Bgee, with an updated RNA-Seq dataset, using the same genomes and ontologies as for the previous version Bgee 14.0. New RNA-Seq libraries have been added; some libraries previously integrated in Bgee have been discarded following corrections and improvements of quality controls. The Affymetrix, in situ hybridization, and EST datasets, are the same as for the previous release of Bgee 14.0. All calls of presence/absence of expression, expression scores, and all the Bgee tools and download files, have been updated accordingly.
For most species in Bgee, notably non-human primates and farm and domestic animals, this represents a major improvement of the anatomy and life stage coverage of the data, making all Bgee tools much more useful, notably TopAnat and the gene pages.
You can still access Bgee version 14.0 at https://bgee.org/bgee14.
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
Erinaceus europaeus picture by Michael Gäbler (Own work) [CC-BY-SA-3.0], See E. europaeus 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, CC-BY-SA-2.5 or CC-BY-SA-3.0], See X. tropicalis picture via Wikimedia Commons
Drosophila ananassae picture by Nicolas Gompel [CC BY-NC-SA 2.0 FR], See D. ananassae picture via Nicolas Gompel's lab website
Drosophila mojavensis picture by Nicolas Gompel [CC BY-NC-SA 2.0 FR], See D. mojavensis picture via Nicolas Gompel's lab website
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
Drosophila virilis picture by Nicolas Gompel [CC BY-NC-SA 2.0 FR], See D. virilis picture via Nicolas Gompel's lab website
Drosophila yakuba picture by Nicolas Gompel [CC BY-NC-SA 2.0 FR], See D. yakuba picture via Nicolas Gompel's lab website