This release is a beta version. Please be aware that the data will not be archived and should not yet be referenced in publications, expecting long-term retrieval. The SPARQL endpoint was not updated.

Data sources

This page provides information about the data sources used in Bgee 15.beta.

Genomics databases

Description
Source for gene annotations, mappings to the Gene Ontology, mappings to Affymetrix probeset IDs, and cross-references to other databases
Last import
2020-12-01 (release 102)
Description
Source for gene annotations, mappings to the Gene Ontology, mappings to Affymetrix probeset IDs, and cross-references to other databases
Last import
2020-12-01 (release 49)
Description
Source for genome assembly and annotations
Last import
2020-12-01
Description
Source for miRNA families
Last import
2018-11-03 (release 22.1)
Description
Source of gene orthology information
Last import
2020-08-21
Description
Source for genome assembly and annotations
Last import
2020-12-01

RNA-Seq data sources

Description
RNA-Seq data source for various species
Last import
2021-02-08
RNA-Seq data source for various species
RNA-Seq data source for various species
Description
RNA-Seq data source for various species
Last import
2021-02-08
RNA-Seq data source for various species
Description
GTEx RNA-Seq data
Last import
2015-10-03 (release 6.p1)
Description
RNA-Seq data source for various species
Last import
2021-02-08

Affymetrix data sources

Description
Affymetrix data source for various species
Last import
2016-08-21
Description
Affymetrix data source for various species
Last import
2016-08-22

In situ data sources

Description
Drosophila in situ data source
Last import
2020-11-22
Description
Drosophila in situ data source
Last import
2021-03-02
Description
Mouse in situ data source
Last import
2021-03-02
Description
WormBase - Nematode Information Resource
Last import
2020-12-13
Description
Xenopus in situ data source
Last import
2021-03-11
Description
Zebrafish in situ data source
Last import
2021-03-02

EST data sources

Description
EST data for miRNAs
Last import
2009-04-23 (release 2)
Description
EST data source for various species
Last import
2016-12-05

Ontologies

Description
Confidence Information Ontology
Last import
2015-03-10
Description
Collection of developmental and life stage ontologies in animals. Integrated into Uberon.
Last import
2021-03-01
Description
Filtered Gene Ontology
Last import
2021-02-08
Description
Integrated cross-species ontology covering anatomical structures in animals. Use of the subset "composite-metazoan".
Last import
2020-09-16

Other sources

Description
Define evolutionary relations between anatomical entities described in the Uberon ontology
Last import
2016-07-14
Description
Source taxonomy used in Bgee
Last import
2020-12-14

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