General Information

ZFIN Data Reports from: 18 Aug 2014

Warranty Disclaimer and Copyright Notice  
ZFIN data reports are updated every day of the week at 10:10pm PST with the exception of the externally hosted files. The format for each file is described below. All files use tab as the field delimiter. The 'Download File' link will display the file in your browser. Click the download button to save the file onto your local system (includes timestamp and header info). If you choose to link to a ZFIN data page from your web site, append the ZFIN ID to the URL
for the 'shha' gene. Please direct questions or requests for additional data to ZFIN.
View Archive Files
Category Download File Download
w Header
Column Headers File Size Number of Records
Anatomical Ontologies Zebrafish Anatomy Term
206 KB 2,884
Zebrafish Anatomy Term Relationships
170 KB 5,456
Zebrafish Anatomy Term Synonyms
140 KB 2,661
Zebrafish Development Stage Terms
315 KB 13,380
Zebrafish Stage Series
2 KB 45
Antibody Data Antibodies
128 KB 1,607
Antibody Expressions in wild-type
276 KB 4,962
Fish Fish Components
10 MB 63,558
Gene Expression Expression data for wildtype fish
25 MB 158,195
Expression Environment Description
579 KB 9,135
Expression Experiment-Figure
15 MB 265,190
Zebrafish Gene Expression by Stage and Anatomy Term
23 MB 256,059
ZFIN Antibody Expression Assay Records
1015 KB 8,229
ZFIN Genes with Expression Assay Records
9 MB 78,290
Genetic Marker Relationships Genetic Marker Relationships
9 MB 94,945
Genetic Markers Genetic Marker
9 MB 148,307
Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)
1 MB 33,189
SNP Data
133 MB 2,344,750
Genomic Feature Data All Genomic Features
4 MB 39,710
Construct Components
1 MB 8,488
Genomic Features and their affected genes
(alleles, deficiencies, translocations)
2 MB 25,116
Transgenic Insertions
2 MB 27,146
Genotype Data Genotype Backgrounds
438 KB 7,392
Genotype Features
3 MB 22,019
Genotype Features (removed or displaced genes)
20 KB 214
Genotype-Publication relation
1 MB 34,810
Image Data Image-Figure translations
Note: Images are not provided due to copyright restrictions
4 MB 91,053
Knockdown Reagent Data CRISPR
8 KB 60
1 MB 6,880
24 KB 181
Mapping Data Mapping Data from the 6 Zebrafish Mapping Panels
1 MB 26,654
Orthology Data Drosophila and Zebrafish Orthology
5 KB 59
Human and Zebrafish Orthology
1 MB 15,206
Mouse and Zebrafish Orthology
1 MB 12,513
Phenotypic Zebrafish genes with Human Orthology
115 KB 2,705
Phenotype Data Genotype-Figure relation
817 KB 22,241
Genotypes with Phenotypes
12 MB 85,955
Genotypes with Phenotypes
18 MB 83,160
Phenotype Environment Description
606 KB 10,025
Phenotype for Zebrafish genes with fin phenotype
258 KB 1,031
Phenotype for Zebrafish genes with Human Orthology
4 MB 37,133
Phenotype of Zebrafish Genes
16 MB 67,580
Previous Names Previous Names
9 MB 131,560
Publications Gene-Publication relation
18 MB 330,426
ZFIN Bibliography
3 MB 16,966
ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs
4 MB 66,218
ZFIN Publication IDs: ZFIN IDs to PubMed IDs
548 KB 21,096
Sequence Coordinates Assembly: Ensembl
166 MB 1,049,576
Complete Assembly Clones: Ensembl
3 MB 33,167
Transgenic Insertion: ENSEMBL
2 MB 15,223
ZFIN Genes with Antibodies: Ensembl
61 KB 577
ZFIN Genes with Expression: Ensembl
1 MB 9,710
ZFIN Genes with Phenotype: Ensembl
264 KB 2,442
ZFIN Genes: Ensembl
3 MB 21,393
ZFIN Morpholinos: Ensembl
530 KB 4,530
Sequence Data Transcripts
4 MB 48,358
ZFIN Gene IDs indirectly and directly associated with Sequence Accessions via cDNA & EST
4 MB 93,986
ZFIN Gene IDs indirectly associated with Sequence Accessions via cDNA & EST
1 MB 41,497
ZFIN Marker associations to Ensembl IDs
(Only associations with 1:1 relationships between ZFIN marker IDs and Ensembl IDs are stored in ZFIN. All associations can be obtained using BioMart
1 MB 19,705
ZFIN Marker associations to GenBank sequence data
5 MB 119,736
ZFIN Marker associations to GenPept protein data
2 MB 44,663
ZFIN Marker associations to InterPro protein data
128 MB 2,692,416
ZFIN Marker associations to NCBI Gene data
994 KB 21,428
ZFIN Marker associations to RefSeq sequence data
3 MB 62,200
ZFIN Marker associations to Sanger Vega data
2 MB 35,114
ZFIN Marker associations to UniGene sequence data
918 KB 20,442
ZFIN Marker associations to UniProt protein data
2 MB 49,388
Wildtype Lines Wildtype Lines
1006 bytes 29
ZFIN Identifiers ZFIN Identifiers
18 MB 217,864

Externally Hosted Files:

The 'File Name'-links point to the latest version. To obtain previous versions you have to check the archive of the external source.
Category Description External Source File Name Update Frequency Format / Header
Gene Ontology Data Gene Ontology (GO) Annotations of Zebrafish Markers
(see also GO Annotation File format at the Gene Ontology Consortium) gene_association.zfin.gz weekly
Anatomical Ontologies Zebrafish Anatomical Ontology in OBO Format Obofoundry zebrafish_anatomy.obo monthly OBO file format