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ZIRC

ZFIN Data Reports from: 21 Jul 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
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
127 KB 1,594
Antibody Expressions in wild-type
274 KB 4,918
Fish Fish Components
10 MB 63,175
Gene Expression Expression data for wildtype fish
25 MB 157,217
Expression Environment Description
571 KB 9,005
Expression Experiment-Figure
15 MB 262,714
Zebrafish Gene Expression by Stage and Anatomy Term
23 MB 253,801
ZFIN Antibody Expression Assay Records
999 KB 8,101
ZFIN Genes with Expression Assay Records
9 MB 77,429
Genetic Marker Relationships Genetic Marker Relationships
9 MB 94,784
Genetic Markers Genetic Marker
9 MB 148,160
Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)
1 MB 33,181
SNP Data
133 MB 2,344,750
Genomic Feature Data All Genomic Features
4 MB 39,630
Construct Components
1 MB 8,177
Genomic Features and their affected genes
(alleles, deficiencies, translocations)
2 MB 25,107
Transgenic Insertions
2 MB 27,075
Genotype Data Genotype Backgrounds
437 KB 7,372
Genotype Features
3 MB 21,843
Genotype Features (removed or displaced genes)
20 KB 214
Genotype-Publication relation
1 MB 34,507
Image Data Image-Figure translations
Note: Images are not provided due to copyright restrictions
4 MB 90,816
Knockdown Reagent Data CRISPR
5 KB 43
Morpholino
1 MB 6,826
TALEN
24 KB 178
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 15,183
Mouse and Zebrafish Orthology
1 MB 12,486
Phenotypic Zebrafish genes with Human Orthology
114 KB 2,682
Phenotype Data Genotype-Figure relation
809 KB 22,024
Genotypes with Phenotypes
12 MB 85,061
Genotypes with Phenotypes
18 MB 82,301
Phenotype Environment Description
598 KB 9,884
Phenotype for Zebrafish genes with fin phenotype
258 KB 1,031
Phenotype for Zebrafish genes with Human Orthology
4 MB 36,728
Phenotype of Zebrafish Genes
16 MB 67,067
Previous Names Previous Names
9 MB 131,284
Publications ZFIN Bibliography
3 MB 16,754
ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs
4 MB 65,765
ZFIN Publication IDs: ZFIN IDs to PubMed IDs
550 KB 20,870
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 572
ZFIN Genes with Expression: Ensembl
1 MB 9,685
ZFIN Genes with Phenotype: Ensembl
261 KB 2,418
ZFIN Genes: Ensembl
3 MB 21,392
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 93,974
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 19,704
ZFIN Marker associations to GenBank sequence data
5 MB 119,748
ZFIN Marker associations to GenPept protein data
2 MB 44,651
ZFIN Marker associations to InterPro protein data
128 MB 2,692,453
ZFIN Marker associations to NCBI Gene data
994 KB 21,423
ZFIN Marker associations to RefSeq sequence data
3 MB 62,174
ZFIN Marker associations to Sanger Vega data
2 MB 35,114
ZFIN Marker associations to UniGene sequence data
918 KB 20,438
ZFIN Marker associations to UniProt protein data
2 MB 49,388
Wildtype Lines Wildtype Lines
1006 bytes 29
ZFIN Identifiers ZFIN Identifiers
18 MB 217,588

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