Bgee
Bgee gene expression database logo
Content
DescriptionGene expression across species and conditions
Data types
captured		scRNA-Seq, RNA-Seq, Microarray, In situ and EST Data
OrganismsHuman, Mouse, Rat, Fruit-fly, Chicken, Roundworm, Wild boar, Zebrafish, Cow and others.
Contact
Research centerSwiss Institute of Bioinformatics
University of Lausanne
Primary citationPMID 33037820
Release dateJune 2007
Access
Websitewww.bgee.org
Download URLwww.bgee.org
Sparql endpointwww.bgee.org/sparql/
Tools
WebGene search
TopAnat: Gene Expression Enrichment
Expression comparison
Anatomical homology
Annotation interface
Standalonebioconductor.org/packages/BgeeDB/ bioconductor.org/packages/BgeeCall/
Miscellaneous
LicenseCC0 1.0 Universal
Version15.1
Curation policyManual curation of every study.

Bgee is a database maintained by the Swiss Institute of Bioinformatics and the University of Lausanne for retrieval and comparison of gene expression patterns from RNA-Seq, scRNA-Seq, Microarray, In situ hybridization and EST studies, across multiple animal species.[1][2] Bgee 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 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.

Bgee allows searches by gene, organs / tissue / cell type and developmental stage.

References

  1. ↑ Bastian FB, Parmentier G, Roux J, Moretti S, Laudet V, Robinson-Rechavi M (2008). "Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species". Lecture Notes in Computer Science. 5109: 124–131. doi:10.1007/978-3-540-69828-9_12.
  2. ↑ Bastian FB, Roux J, Niknejad A, Comte A, Fonseca Costa SS, Mendes de Farias T, et al. (Jan 2021). "The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals". Nucleic Acids Research. 49 (D1): D831–D847. doi:10.1093/nar/gkaa793. PMC 7778977. PMID 33037820.

Further reading

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