FB2024_02 , released April 23, 2024
Current Release Data
 
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Main Data Set
Postgres Chado Database Dump
Sequence Data & XML Files
Synonyms
Item
Chado XML
Other
FlyBase Synonyms
fb_synonym_fb_2024_02.tsv.gz
Genes
Item
Chado XML
Other
Genes data
download
Genetic Interaction table
gene_genetic_interactions_fb_2024_02.tsv.gz
RNA-Seq RPKM values
gene_rpkm_report_fb_2024_02.tsv.gz
RNA-Seq gene-by-RPKM matrix
gene_rpkm_matrix_fb_2024_02.tsv.gz
Physical Interaction table MITAB
physical_interactions_mitab_fb_2024_02.tsv.gz
Functional complementation table
gene_functional_complementation_fb_2024_02.tsv.gz
FBgn ⇔ DB Accession IDs
fbgn_NAseq_Uniprot_fb_2024_02.tsv.gz
FBgn ⇔ Annotation ID
fbgn_annotation_ID_fb_2024_02.tsv.gz
FBgn ⇔ GLEANR IDs
fbgn_gleanr_fb_2024_02.tsv.gz
FBgn ⇔ FBtr ⇔ FBpp IDs
fbgn_fbtr_fbpp_fb_2024_02.tsv.gz
FBgn ⇔ FBtr ⇔ FBpp IDs (expanded)
fbgn_fbtr_fbpp_expanded_fb_2024_02.tsv.gz
FBgn Exons ⇔ Affy1
fbgn_exons2affy1_overlaps.tsv.gz
FBgn Exons ⇔ Affy2
fbgn_exons2affy2_overlaps.tsv.gz
Genes GO data
gene_association.fb.gz
GO gene product information mapping
gp_information.fb.gz
Genes SO annotations
dmel_gene_sequence_ontology_annotations_fb_2024_02.tsv.gz
Genes map table
gene_map_table_fb_2024_02.tsv.gz
Best gene summaries
best_gene_summary_fb_2024_02.tsv.gz
Automated gene summaries
automated_gene_summaries.tsv.gz
Gene snapshots
gene_snapshots_fb_2024_02.tsv.gz
Unique Protein Isoforms
dmel_unique_protein_isoforms_fb_2024_02.tsv.gz
Enzyme Data
Dmel_enzyme_data_fb_2024_02.tsv.gz
Non-coding RNAs (JSON)
ncRNA_genes_fb_2024_02.json.gz
Expression
Item
Other
High-Throughput Gene Expression
high-throughput_gene_expression_fb_2024_02.tsv.gz
Single Cell RNA-Seq Gene Expression
scRNA-Seq_gene_expression_fb_2024_02.tsv.gz
Single Cell RNA-Seq Gene Expression Slim
FlyCellAtlas_slimmed_gene_expression_fb_2024_02.tsv.gz
Gene Groups
Item
Chado XML
Other
Gene group data
gene_group_data_fb_2024_02.tsv.gz
Gene groups with HGNC IDs
gene_groups_HGNC_fb_2024_02.tsv.gz
Pathway group data
pathway_group_data_fb_2024_02.tsv.gz
Interactions
Item
Chado XML
Other
Genetic Interactions
allele_genetic_interactions_fb_2024_02.tsv.gz
Genetic Interaction table
gene_genetic_interactions_fb_2024_02.tsv.gz
Physical Interaction table MITAB
physical_interactions_mitab_fb_2024_02.tsv.gz
Alleles and Stocks
Item
Chado XML
Other
Allele data
download
Stock data
download
stocks_FB2024_02.tsv.gz
Phenotypic data
genotype_phenotype_data_fb_2024_02.tsv.gz
Alleles ⇔ Genes
fbal_to_fbgn_fb_2024_02.tsv.gz
Homologs
Item
Chado XML
Other
D. melanogaster Paralogs
dmel_paralogs_fb_2024_02.tsv.gz
Human Orthologs
dmel_human_orthologs_disease_fb_2024_02.tsv.gz
Human Disease
Item
Chado XML
Other
Human disease model data
disease_model_annotations_fb_2024_02.tsv.gz
Human Orthologs
dmel_human_orthologs_disease_fb_2024_02.tsv.gz
Organisms
Item
Chado XML
Other
Species list
organism_list_fb_2024_02.tsv.gz
Ontology Terms
Frozen Files used for this release of FlyBase
Item
Chado XML
Other
FBbt: (fly_anatomy)
fly_anatomy.obo.gz
FBdv: (fly_development)
fly_development.obo.gz
FBcv: (FlyBase controlled vocabulary)
flybase_controlled_vocabulary.obo.gz
FBsv: (stock ontology)
flybase_stock_vocabulary.obo.gz
GO: (gene ontology)
go-basic.obo.gz
FBbi: (image ontology)
image.obo.gz
SO: (sequence ontology)
so-simple.obo.gz
DO: (human disease ontology)
doid.obo.gz
PSI-MI: (molecular interactions)
psi-mi.obo.gz
Current 'Live' Files
Item
Chado XML
Other
FBbt: (fly_anatomy)
fly_anatomy.obo
FBdv: (fly_development)
fly_development.obo
FBcv: (FlyBase controlled vocabulary)
flybase_controlled_vocabulary.obo
GO: (gene ontology)
go-basic.obo
FBbi: (image ontology)
image.obo
SO: (sequence ontology)
so-simple.obo
DO: (human disease ontology)
doid.obo
PSI-MI: (molecular interactions)
mi.obo
Ontology Versions
Ontology
version/date
ChEBI (chemical entities of biological interest)
2024-03-28
DO (human disease ontology)
2024-01-31
FBbi (image ontology)
2005-08-10
FBbt (fly_anatomy)
2024-02-22
FBdv (fly_development)
2019-10-21
FBcv (FlyBase controlled vocabulary)
2023-08-02
FBsv (stock ontology)
2022-09-26
GO (gene ontology)
2024-01-17
PSI-MI (molecular interactions)
2015-08-11
SO (sequence ontology)
2021-11-22
Genomes: Annotation and Sequence
All Sequenced Drosophila Species
Species Emeriti

FlyBase no longer reflects NCBI annotation or genome assembly updates for non-D. melanogaster fruit fly species. For the status of these gene model annotations, see the NCBI page Eukaryotic genomes annotated at NCBI. The FlyBase archived release FB2017_05 includes the last NCBI annotation update that was imported into FlyBase for these species.

Drosophila melanogaster (Dmel)
Transcripts and Polypeptides
Item
Chado XML
Other
Transcript data
download
Polypeptide data
download
Non-coding RNAs (JSON)
ncRNA_genes_fb_2024_02.json.gz
Transposons, Transgenic Constructs, and Insertions
Item
Chado XML
Other
Insertions
download
Transgenic constructs
download
Transgenic construct maps
construct_maps.zip
Map data for insertions
insertion_mapping_fb_2024_02.tsv.gz
Transposable elements (canonical set)
transposon_sequence_set.fa.gz   transposon_sequence_set.gff.gz
Frequently-used GAL4 drivers table (JSON)
fu_gal4_table_fb_2024_02.json.gz
Aberrations
Item
Chado XML
Other
Aberration data
download
Balancer data
download
Large Dataset Metadata
Item
Chado XML
Other
Dataset metadata members
dataset_metadata_fb_2024_02.tsv.gz
Clones
Item
Chado XML
Other
Clone data
download
cDNAs: FBcl ⇔ acc. ID
cDNA_clone_data_fb_2024_02.tsv.gz
Genomic: FBcl ⇔ acc. ID
genomic_clone_data_fb_2024_02.tsv.gz
References
Item
Chado XML
Other
Combined reference data
download
FlyBase FBrf ⇔ PubMed ID ⇔ PMCID ⇔ DOI
fbrf_pmid_pmcid_doi_fb_2024_02.tsv.gz
FlyBase Entity-Publication Associations
entity_publication_fb_2024_02.tsv.gz
Map Conversion Tables
Item
Chado XML
Other
Cytological ⇔ Sequence
genome-cyto-seq.txt.gz
Cytological ⇔ Genetic
cytotable.txt.gz
Cyto ⇔ Genetic ⇔ Seq
cyto-genetic-seq.tsv.gz
Genes map table
gene_map_table_fb_2024_02.tsv.gz