Research
General Information
ZIRC

ZFIN Data Reports from: 30 Oct 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 http://zfin.org/
e.g. http://zfin.org/ZDB-GENE-980526-166
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
132 KB 1,658
Antibody Expressions in wild-type
288 KB 5,175
Fish Fish Components
7 MB 64,346
Gene Expression Expression data for wildtype fish
25 MB 161,018
Expression Environment Description
594 KB 9,379
Expression Experiment-Figure
15 MB 271,470
Zebrafish Gene Expression by Stage and Anatomy Term
24 MB 262,197
ZFIN Antibody Expression Assay Records
1 MB 8,586
ZFIN Genes with Expression Assay Records
9 MB 80,228
Genetic Marker Relationships Genetic Marker Relationships
10 MB 95,238
Genetic Markers Genetic Marker
9 MB 148,584
Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)
1 MB 33,268
SNP Data
135 MB 2,370,287
Genomic Feature Data All Genomic Features
4 MB 39,813
Construct Components
1 MB 8,735
Genomic Features and their affected genes
(alleles, deficiencies, translocations)
2 MB 25,159
Transgenic Insertions
2 MB 27,230
Genotype Data Genotype Backgrounds
439 KB 7,405
Genotype Features
3 MB 22,393
Genotype Features (removed or displaced genes)
20 KB 215
Genotype-Publication relation
1 MB 35,374
Image Data Image-Figure translations
Note: Images are not provided due to copyright restrictions
4 MB 91,755
Knockdown Reagent Data CRISPR
8 KB 60
Morpholino
1 MB 7,072
TALEN
25 KB 187
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 15,383
Mouse and Zebrafish Orthology
1 MB 12,698
Phenotypic Zebrafish genes with Human Orthology
109 KB 2,558
Phenotype Data Genotype-Figure relation
836 KB 22,768
Genotypes with Phenotypes
13 MB 88,259
Genotypes with Phenotypes
18 MB 85,354
Phenotype Environment Description
623 KB 10,306
Phenotype for Zebrafish genes with fin phenotype
261 KB 1,041
Phenotype for Zebrafish genes with Human Orthology
3 MB 33,852
Phenotype of Zebrafish Genes
17 MB 69,154
Previous Names Previous Names
9 MB 132,213
Publications Gene-Publication relation
18 MB 334,713
ZFIN Bibliography
4 MB 17,408
ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs
4 MB 67,719
ZFIN Publication IDs: ZFIN IDs to PubMed IDs
561 KB 21,557
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
62 KB 586
ZFIN Genes with Expression: Ensembl
1 MB 9,756
ZFIN Genes with Phenotype: Ensembl
268 KB 2,482
ZFIN Genes: Ensembl
3 MB 21,390
Sequence Data Transcripts
4 MB 48,358
ZFIN Gene IDs indirectly and directly associated with Sequence Accessions via cDNA & EST
4 MB 99,941
ZFIN Gene IDs indirectly associated with Sequence Accessions via cDNA & EST
1 MB 41,496
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 http://www.ensembl.org/biomart/martview)
1 MB 19,705
ZFIN Marker associations to GenBank sequence data
5 MB 120,712
ZFIN Marker associations to GenPept protein data
2 MB 44,884
ZFIN Marker associations to InterPro protein data
128 MB 2,714,542
ZFIN Marker associations to NCBI Gene data
1 MB 22,450
ZFIN Marker associations to RefSeq sequence data
3 MB 72,166
ZFIN Marker associations to Sanger Vega data
2 MB 35,114
ZFIN Marker associations to UniGene sequence data
939 KB 20,902
ZFIN Marker associations to UniProt protein data
2 MB 49,796
Wildtype Lines Wildtype Lines
1006 bytes 29
ZFIN Identifiers ZFIN Identifiers
18 MB 218,607

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)
geneontology.org gene_association.zfin.gz weekly
Anatomical Ontologies Zebrafish Anatomical Ontology in OBO Format Obofoundry zebrafish_anatomy.obo monthly OBO file format