Bgee

Bgee database for gene expression evolution

Bgee is a database to retrieve and compare gene expression patterns between animal species. Bgee first maps heterogeneous expression data (currently EST, Affymetrix, and in situ hybridization data) on anatomical and developmental ontologies. Then, in order to perform automated cross species comparisons, homology relationships across anatomical ontologies, and comparison criteria between developmental ontologies, are designed.

IDBgee
AccDB-0133
Homehttp://bgee.unil.ch
EDAM topicGene family or system
EDAM topicGene expression and regulation
EDAM topicGene expression profiling
CategoryGene expression databases
Taxonall

Available data

Data Format Query Link
Gene annotation HTML UniProt accession http://bgee.unil.ch/bgee/bgee?uniprot_id=%s
Gene annotation HTML Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=gene&action=expression&gene_id=%s
Gene expression profile HTML Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=gene&action=expression&gene_id=%s
Gene annotation (expression) HTML Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=data&gene_id=%s
Gene annotation (expressed gene list) {Bgee ID file} Text Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=genes&search_by=1&organ_children=on&gene_organ_stage_information=on&attribut_list=species_name&attribut_list=gene_name&attribut_list=gene_id&gene_id=%s&display_type=tsv
Gene annotation (expressed gene list) {Bgee ID file with expression data} Text Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=genes&search_by=1&organ_children=on&gene_organ_stage_information=on&attribut_list=species_name&attribut_list=gene_name&attribut_list=gene_id&gene_id=%s&display_type=tsv&gene_information=2
Gene annotation (expressed gene list) {Bgee ID file with expression data count} Text Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=genes&search_by=1&organ_children=on&gene_organ_stage_information=on&attribut_list=species_name&attribut_list=gene_name&attribut_list=gene_id&gene_id=%s&display_type=tsv&gene_information=1
Gene annotation (expressed gene list) {Bgee ID file} HTML Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=genes&search_by=1&organ_children=on&gene_organ_stage_information=on&attribut_list=species_name&attribut_list=gene_name&attribut_list=gene_id&gene_id=%s
Gene annotation (expressed gene list) {Bgee ID file with expression data} HTML Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=genes&search_by=1&organ_children=on&gene_organ_stage_information=on&attribut_list=species_name&attribut_list=gene_name&attribut_list=gene_id&gene_id=%s&gene_information=2
Gene annotation (expressed gene list) {Bgee ID file with expression data count} HTML Gene ID (Ensembl) http://bgee.unil.ch/bgee/bgee?page=expression&action=genes&search_by=1&organ_children=on&gene_organ_stage_information=on&attribut_list=species_name&attribut_list=gene_name&attribut_list=gene_id&gene_id=%s&gene_information=1

Example queries

Data Format Query Example
Gene annotation HTML Gene ID (Ensembl) ENSG00000091831
Gene expression profile HTML Gene ID (Ensembl) ENSG00000091831
Gene annotation (expression) HTML Gene ID (Ensembl) ENSG00000091831
Gene annotation (expressed gene list) {Bgee ID file} Text Gene ID (Ensembl) ENSG00000091831
Gene annotation (expressed gene list) {Bgee ID file with expression data} Text Gene ID (Ensembl) ENSG00000091831
Gene annotation (expressed gene list) {Bgee ID file with expression data count} Text Gene ID (Ensembl) ENSG00000091831
Gene annotation (expressed gene list) {Bgee ID file} HTML Gene ID (Ensembl) ENSG00000091831
Gene annotation (expressed gene list) {Bgee ID file with expression data} HTML Gene ID (Ensembl) ENSG00000091831
Gene annotation (expressed gene list) {Bgee ID file with expression data count} HTML Gene ID (Ensembl) ENSG00000091831
Gene annotation HTML UniProt accession P32234