General Information

ZFIN Data Reports from: 15 Sep 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
207 KB 2,896
Zebrafish Anatomy Term Relationships
171 KB 5,493
Zebrafish Anatomy Term Synonyms
141 KB 2,674
Zebrafish Development Stage Terms
315 KB 13,380
Zebrafish Stage Series
2 KB 45
Antibody Data Antibodies
129 KB 1,626
Antibody Expressions in wild-type
282 KB 5,070
Fish Fish Components
10 MB 63,880
Gene Expression Expression data for wildtype fish
25 MB 159,190
Expression Environment Description
585 KB 9,229
Expression Experiment-Figure
15 MB 267,843
Zebrafish Gene Expression by Stage and Anatomy Term
24 MB 258,545
ZFIN Antibody Expression Assay Records
1 MB 8,408
ZFIN Genes with Expression Assay Records
9 MB 79,067
Genetic Marker Relationships Genetic Marker Relationships
10 MB 95,052
Genetic Markers Genetic Marker
9 MB 148,419
Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)
1 MB 33,207
SNP Data
135 MB 2,370,287
Genomic Feature Data All Genomic Features
4 MB 39,754
Construct Components
1 MB 8,621
Genomic Features and their affected genes
(alleles, deficiencies, translocations)
2 MB 25,142
Transgenic Insertions
2 MB 27,188
Genotype Data Genotype Backgrounds
439 KB 7,396
Genotype Features
3 MB 22,182
Genotype Features (removed or displaced genes)
20 KB 215
Genotype-Publication relation
1 MB 35,080
Image Data Image-Figure translations
Note: Images are not provided due to copyright restrictions
4 MB 91,361
Knockdown Reagent Data CRISPR
8 KB 59
1 MB 6,931
25 KB 184
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 15,263
Mouse and Zebrafish Orthology
1 MB 12,564
Phenotypic Zebrafish genes with Human Orthology
107 KB 2,531
Phenotype Data Genotype-Figure relation
824 KB 22,434
Genotypes with Phenotypes
12 MB 86,706
Genotypes with Phenotypes
18 MB 83,866
Phenotype Environment Description
612 KB 10,115
Phenotype for Zebrafish genes with fin phenotype
259 KB 1,032
Phenotype for Zebrafish genes with Human Orthology
3 MB 33,180
Phenotype of Zebrafish Genes
16 MB 68,086
Previous Names Previous Names
9 MB 131,768
Publications Gene-Publication relation
18 MB 331,225
ZFIN Bibliography
4 MB 17,153
ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs
4 MB 66,643
ZFIN Publication IDs: ZFIN IDs to PubMed IDs
554 KB 21,291
Sequence Coordinates Assembly: Ensembl
8 MB 56,754
Complete Assembly Clones: Ensembl
3 MB 33,167
Transgenic Insertion: ENSEMBL
2 MB 15,223
ZFIN Genes with Antibodies: Ensembl
62 KB 584
ZFIN Genes with Expression: Ensembl
1 MB 9,717
ZFIN Genes with Phenotype: Ensembl
266 KB 2,459
ZFIN Genes: Ensembl
3 MB 21,390
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 94,021
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 119,775
ZFIN Marker associations to GenPept protein data
2 MB 44,670
ZFIN Marker associations to InterPro protein data
127 MB 2,691,047
ZFIN Marker associations to NCBI Gene data
994 KB 21,430
ZFIN Marker associations to RefSeq sequence data
3 MB 62,206
ZFIN Marker associations to Sanger Vega data
2 MB 35,114
ZFIN Marker associations to UniGene sequence data
918 KB 20,445
ZFIN Marker associations to UniProt protein data
2 MB 49,367
Wildtype Lines Wildtype Lines
1006 bytes 29
ZFIN Identifiers ZFIN Identifiers
18 MB 218,129

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