Download Archive: 2013.05.19

ZFIN Data Reports from: 19 May 2013

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.

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Column Headers

File Size

Number of Records

Anatomical Ontologies

Zebrafish Anatomy Term

Show

197 KB

2,748

Zebrafish Anatomy Term Relationships

Show

161 KB

5,169

Zebrafish Anatomy Term Synonyms

Show

85 KB

1,637

Zebrafish Development Stage Terms

Show

315 KB

13,380

Zebrafish Stage Series

Show

2 KB

Antibody Data

Antibodies

Show

97 KB

1,218

Antibody Expressions in wild-type

Show

222 KB

4,004

Fish

Fish Components

Show

8 MB

49,284

Gene Expression

Expression data for wildtype fish

Show

18 MB

145,253

Expression Environment Description

Show

463 KB

7,236

Expression Experiment-Figure

Show

13 MB

229,268

Expression for Zebrafish genes with fin phenotype

Show

422 KB

2,809

Zebrafish Gene Expression by Stage and Anatomy Term

Show

20 MB

222,056

ZFIN Antibody Expression Assay Records

Show

739 KB

5,960

ZFIN Genes with Expression Assay Records

Show

8 MB

66,245

Genetic Marker Relationships

Show

9 MB

87,266

Genetic Markers

Genetic Marker

Show

8 MB

138,053

Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)

Show

1 MB

32,623

SNP Data

Show

123 MB

2,158,820

Genomic Feature Data

All Genomic Features

Show

2 MB

31,119

Genomic Features and their affected genes
(alleles, deficiencies, translocations)

Show

1 MB

17,577

Genotype Data

Genotype Backgrounds

Show

443 KB

6,847

Genotype Features

Show

3 MB

18,385

Genotype Features (removed or displaced genes)

Show

18 KB

195

Genotype-Publication relation

Show

1 MB

30,531

Image Data

Image-Figure translations
Note: Images are not provided due to copyright restrictions

Show

4 MB

85,996

Mapping Data

Mapping Data from the 6 Zebrafish Mapping Panels

Show

1 MB

26,654

Morpholino Data

Morpholino

Show

811 KB

5,877

Orthology Data

Drosophila and Zebrafish Orthology

Show

4 KB

Human and Zebrafish Orthology

Show

1 MB

13,906

Mouse and Zebrafish Orthology

Show

1 MB

11,143

Phenotypic Zebrafish genes with Human Orthology

Show

88 KB

2,069

Phenotype Data

Genotype-Figure relation

Show

666 KB

18,086

Genotypes with Phenotypes

Show

14 MB

68,604

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19
Genotype ID	Genotype Name	Start Stage ID	Start Stage Name	End Stage ID	End Stage Name	Affected Structure or Process 1 superterm ID	Affected Structure or Process 1 superterm Name	Affected Structure or Process 1 subterm ID	Affected Structure or Process 1 subterm Name	Phenotype Keyword ID	Phenotype Keyword Name	Phenotypep Modifier	Affected Structure or Process 2 superterm ID	Affected Structure or Process 2 superterm Name	Affected Structure or Process 2 subterm ID	Affected Structure or Process 2 subterm Name	Publication ID	Environment ID

Genotypes with Phenotypes (obo format)

Show

10 MB

70,660

1	2	3	4	5	6	7	8	9	10	11	12
Genotype ID	Genotype Name	Start Stage OBO ID	End Stage OBO ID	Affected Structure or Process 1 superterm OBO ID	Affected Structure or Process 1 subterm OBO ID	Phenotype Keyword OBO ID	Phenotypep Modifier	Affected Structure or Process 2 superterm OBO ID	Affected Structure or Process 2 subterm OBO ID	Publication ID	Environment ID

Phenotype Environment Description

Show

443 KB

7,320

Phenotype for Zebrafish genes with fin phenotype

Show

189 KB

812

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18
#	Gene ID	E1a ID	E1a	E1b ID	E1b	E2a ID	E2a	E2b ID	E2b	Genotype ID	Genotype Name	MO ID	Stage Start	Stage End	Quality ID	Quality	MO and Background

Phenotype for Zebrafish genes with Human Orthology

Show

2 MB

26,410

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15
Gene ID	Entrez Zebrafish Gene ID	Entrez Human Gene ID	ZFIN Gene Symbol	Affected Structure or Process 1 superterm OBO ID	Affected Structure or Process 1 superterm name	Affected Structure or Process 1 subterm OBO ID	Affected Structure or Process 1 subterm name	Affected Structure or Process 2 superterm OBO ID	Affected Structure or Process 2 superterm name	Affected Structure or Process 2 subterm OBO ID	Affected Structure or Process 2 subterm name	Phenotype Keyword OBO ID	Phenotype Quality	Phenotype Tag

Phenotype of Zebrafish Genes

Show

13 MB

57,675

1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21
ID	Gene Symbol	Gene ID	Affected Structure or Process 1 superterm ID	Affected Structure or Process 1 superterm Name	Affected Structure or Process 1 subterm ID	Affected Structure or Process 1 subterm Name	Affected Structure or Process 2 superterm ID	Affected Structure or Process 2 superterm name	Affected Structure or Process 2 subterm ID	Affected Structure or Process 2 subterm name	Phenotype Keyword ID	Phenotypep Keyword Name	Genotype ID	Genotype Display Name	Morpholino or TALEN ID	Start Stage ID	End Stage ID	Genotype Environment ID	Publication ID	Figure ID

Previous Names

Show

8 MB

113,529

Publications

ZFIN Bibliography

Show

3 MB

14,259

ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs

Show

3 MB

57,061

ZFIN Publication IDs: ZFIN IDs to PubMed IDs

Show

475 KB

18,096

Sequence Coordinates

Assembly: Ensembl

Show

174 MB

1,097,064

Complete Assembly Clones: Ensembl

Show

3 MB

33,167

Transgenic Insertion: ENSEMBL

Show

2 MB

15,223

ZFIN Genes with Antibodies: Ensembl

Show

51 KB

485

ZFIN Genes with Expression: Ensembl

Show

1022 KB

9,256

ZFIN Genes with Phenotype: Ensembl

Show

219 KB

2,024

ZFIN Genes: Ensembl

Show

3 MB

20,321

ZFIN Morpholinos: Ensembl

Show

530 KB

4,530

Sequence Data

Transcripts

Show

3 MB

41,200

ZFIN Gene IDs indirectly and directly associated with Sequence Accessions via cDNA & EST

Show

3 MB

82,668

ZFIN Gene IDs indirectly associated with Sequence Accessions via cDNA & EST

Show

1 MB

41,503

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)

Show

1 MB

18,466

ZFIN Marker associations to GenBank sequence data

Show

5 MB

113,628

ZFIN Marker associations to Gene sequence data

Show

1 MB

22,523

ZFIN Marker associations to GenPept protein data

Show

2 MB

42,952

ZFIN Marker associations to InterPro protein data

Show

106 MB

2,245,810

ZFIN Marker associations to RefSeq sequence data

Show

1 MB

34,564

ZFIN Marker associations to Sanger Vega data

Show

1 MB

30,210

ZFIN Marker associations to UniGene sequence data

Show

1 MB

23,161

ZFIN Marker associations to UniProt protein data

Show

2 MB

46,551

Wildtype Lines

Show

1006 bytes

ZFIN Identifiers

Show

15 MB

196,404

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.