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ZIRC

ZFIN Data Reports from: 23 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 1,654
Antibody Expressions in wild-type
287 KB 5,153
Fish Fish Components
7 MB 64,297
Gene Expression Expression data for wildtype fish
25 MB 160,873
Expression Environment Description
594 KB 9,367
Expression Experiment-Figure
15 MB 271,117
Zebrafish Gene Expression by Stage and Anatomy Term
24 MB 261,868
ZFIN Antibody Expression Assay Records
1 MB 8,552
ZFIN Genes with Expression Assay Records
9 MB 80,140
Genetic Marker Relationships Genetic Marker Relationships
10 MB 95,226
Genetic Markers Genetic Marker
9 MB 148,571
Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)
1 MB 33,263
SNP Data
135 MB 2,370,287
Genomic Feature Data All Genomic Features
4 MB 39,810
Construct Components
1 MB 8,724
Genomic Features and their affected genes
(alleles, deficiencies, translocations)
2 MB 25,159
Transgenic Insertions
2 MB 27,227
Genotype Data Genotype Backgrounds
439 KB 7,404
Genotype Features
3 MB 22,373
Genotype Features (removed or displaced genes)
20 KB 215
Genotype-Publication relation
1 MB 35,332
Image Data Image-Figure translations
Note: Images are not provided due to copyright restrictions
4 MB 91,753
Knockdown Reagent Data CRISPR
8 KB 60
Morpholino
1 MB 7,064
TALEN
25 KB 186
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 15,357
Mouse and Zebrafish Orthology
1 MB 12,667
Phenotypic Zebrafish genes with Human Orthology
109 KB 2,555
Phenotype Data Genotype-Figure relation
835 KB 22,732
Genotypes with Phenotypes
13 MB 88,166
Genotypes with Phenotypes
18 MB 85,269
Phenotype Environment Description
622 KB 10,289
Phenotype for Zebrafish genes with fin phenotype
261 KB 1,040
Phenotype for Zebrafish genes with Human Orthology
3 MB 33,772
Phenotype of Zebrafish Genes
17 MB 69,100
Previous Names Previous Names
9 MB 132,162
Publications Gene-Publication relation
18 MB 334,363
ZFIN Bibliography
4 MB 17,373
ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs
4 MB 67,680
ZFIN Publication IDs: ZFIN IDs to PubMed IDs
560 KB 21,522
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 586
ZFIN Genes with Expression: Ensembl
1 MB 9,756
ZFIN Genes with Phenotype: Ensembl
268 KB 2,480
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 99,936
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 http://www.ensembl.org/biomart/martview)
1 MB 19,705
ZFIN Marker associations to GenBank sequence data
5 MB 120,708
ZFIN Marker associations to GenPept protein data
2 MB 44,884
ZFIN Marker associations to InterPro protein data
129 MB 2,714,542
ZFIN Marker associations to NCBI Gene data
1 MB 22,452
ZFIN Marker associations to RefSeq sequence data
3 MB 72,161
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 49,797
Wildtype Lines Wildtype Lines
1006 bytes 29
ZFIN Identifiers ZFIN Identifiers
18 MB 218,532

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