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The Zebrafish Information Network

Abbreviation:ZFIN

Recommended

General Information

The Zebrafish Information Network, ZFIN, serves as the primary community database resource for the laboratory use of zebrafish. We develop and support integrated zebrafish genetic, genomic, developmental and physiological information and link this information extensively to corresponding data in other model organism and human databases.

Homepage https://zfin.org/

Countries that developed this resource United States

Created in 1997

Taxonomic range

Danio rerio

Knowledge Domains

Subjects

In the following recommendations:

How to cite this record FAIRsharing.org: ZFIN; The Zebrafish Information Network; DOI: https://doi.org/10.25504/FAIRsharing.ybxnhg; Last edited: March 15, 2021, 2:20 p.m.; Last accessed: Oct 25 2021 11:44 a.m.

Publication for citation The Zebrafish Information Network: new support for non-coding genes, richer Gene Ontology annotations and the Alliance of Genome Resources. Ruzicka L,Howe DG,Ramachandran S,Toro S,Van Slyke CE,Bradford YM,Eagle A,Fashena D,Frazer K,Kalita P,Mani P,Martin R,Moxon ST,Paddock H,Pich C,Schaper K,Shao X,Singer A,Westerfield M; Nucleic Acids Res ; 2018; 10.1093/nar/gky1090;

This record is maintained by doughowe ORCID

Record updated: March 15, 2021, 1:41 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.ybxnhg' by 'The FAIRsharing Team' at 13:41, 15 Mar 2021 (approved):

	'supportLinks' has been modified:
		Before:
			email|zfinadmn@zfin.org
			online documentation|https://wiki.zfin.org/display/general/ZFIN+Zebrafish+Nomenclature+Conventions
			twitter|@zfinmod
		After:
			email|zfinadmn@zfin.org
			email|zfinadmin@uoregon.edu
			help|https://wiki.zfin.org/display/general/ZFIN+Tips
			help|https://zfin.org/zf_info/glossary.html
			online documentation|https://zfin.atlassian.net/wiki/spaces/news/overview
			online documentation|https://wiki.zfin.org/display/general/ZFIN+Zebrafish+Nomenclature+Conventions
			twitter|@zfinmod
			wikipedia|https://en.wikipedia.org/wiki/Zebrafish_Information_Network
		Added:
			email|zfinadmin@uoregon.edu
			help|https://wiki.zfin.org/display/general/ZFIN+Tips
			help|https://zfin.org/zf_info/glossary.html
			online documentation|https://zfin.atlassian.net/wiki/spaces/news/overview
			wikipedia|https://en.wikipedia.org/wiki/Zebrafish_Information_Network
		Removed:

	'licences' has been modified:
		Before:
		After:
			ZFIN Terms of Use|https://wiki.zfin.org/display/general/WARRANTY+AND+LIABILITY+DISCLAIMER%2C+OWNERSHIP%2C+AND+LIMITS+ON+USE|Data
		Added:
			ZFIN Terms of Use|https://wiki.zfin.org/display/general/WARRANTY+AND+LIABILITY+DISCLAIMER%2C+OWNERSHIP%2C+AND+LIMITS+ON+USE|Data
		Removed:

	'tools' has been modified:
		Before:
			BLAST||http://zfin.org/action/blast/blast
			submit||http://zfin.org/zf_info/submissions.html
			GBrowse|2.55|https://zfin.org/action/gbrowse/
		After:
		Added:
		Removed:
			BLAST||http://zfin.org/action/blast/blast
			submit||http://zfin.org/zf_info/submissions.html
			GBrowse|2.55|https://zfin.org/action/gbrowse/

	'onto_disciplines' has been modified:
		Before:
			Life Science
		After:
			Animal Physiology
			Developmental Biology
			Genetics
			Genomics
		Added:
			Animal Physiology
			Developmental Biology
			Genetics
			Genomics
		Removed:
			Life Science

	'onto_domains' has been modified:
		Before:
			Bibliography
			Gene expression data
			allele
			disease process modeling objective
			gene
			genome
			mutation
			phenotype
		After:
			Bibliography
			Gene expression data
			Model organisms
			allele
			disease process modeling objective
			gene
			genome
			mutation
			phenotype
		Added:
			Model organisms
		Removed:

	'dataProcesses' has been modified:
		Before:
			Download, data access, http://zfin.org/downloads
		After:
			Download, data release, https://zfin.org/downloads
			BLAST, data access, https://zfin.org/action/blast/blast
			GBrowse, data access, https://zfin.org/action/gbrowse/
			Submit, data curation, https://zfin.org/action/submit-data
			Search, data access, https://zfin.org/search?category=&q=
			Gene Search, data access, https://zfin.org/action/marker/search
			Mutant Search, data access, https://zfin.org/action/fish/search
			Gene Expression Data Search, data access, https://zfin.org/action/expression/search
			Antibody Search, data access, https://zfin.org/action/antibody/search
			Publication Search, data access, https://zfin.org/action/publication/search
		Added:
			Download, data release, https://zfin.org/downloads
			BLAST, data access, https://zfin.org/action/blast/blast
			GBrowse, data access, https://zfin.org/action/gbrowse/
			Submit, data curation, https://zfin.org/action/submit-data
			Search, data access, https://zfin.org/search?category=&q=
			Gene Search, data access, https://zfin.org/action/marker/search
			Mutant Search, data access, https://zfin.org/action/fish/search
			Gene Expression Data Search, data access, https://zfin.org/action/expression/search
			Antibody Search, data access, https://zfin.org/action/antibody/search
			Publication Search, data access, https://zfin.org/action/publication/search
		Removed:
			Download, data access, http://zfin.org/downloads

	'publications' has been modified:
		Before:
			The Zebrafish Information Network: the zebrafish model organism database.|Sprague J, Bayraktaroglu L, Clements D, Conlin T, Fashena D, Frazer K, Haendel M, Howe DG, Mani P, Ramachandran S, Schaper K, Segerdell E, Song P, Sprunger B, Taylor S, Van Slyke CE, Westerfield M.|Nucleic Acids Res.|2006
			ZFIN: enhancements and updates to the Zebrafish Model Organism Database.|Bradford Y, Conlin T, Dunn N, Fashena D, Frazer K, Howe DG, Knight J, Mani P,  Martin R, Moxon SA, Paddock H, Pich C, Ramachandran S, Ruef BJ, Ruzicka L, Bauer  Schaper H, Schaper K, Shao X, Singer A, Sprague J, Sprunger B, Van Slyke C, Westerfield M.|Nucleic Acids Res.|2011
			Data extraction, transformation, and dissemination through ZFIN.|Howe DG, Frazer K, Fashena D, Ruzicka L, Bradford Y, Ramachandran S, Ruef BJ,  Van Slyke C, Singer A, Westerfield M.|Methods Cell Biol.|2011
			ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics.|Howe DG, Bradford YM, Conlin T, Eagle AE, Fashena D, Frazer K, Knight J, Mani  P, Martin R, Moxon SA, Paddock H, Pich C, Ramachandran S, Ruef BJ, Ruzicka L, Schaper K, Shao X, Singer A, Sprunger B, Van Slyke CE, Westerfield M.|Nucleic Acids Res.|2013
			The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes.|Sprague J., Bayraktaroglu L., Bradford Y., Conlin T., Dunn N., Fashena D., Frazer K., Haendel M., Howe DG., Knight J., Mani P., Moxon SA., Pich C., Ramachandran S., Schaper K., Segerdell E., Shao X., Singer A., Song P., Sprunger B., Van Slyke CE., Westerfield M., |Nucleic Acids Res.|2008
			Exploring zebrafish genomic, functional and phenotypic data using ZFIN.|Ramachandran S,Ruef B,Pich C,Sprague J|Curr Protoc Bioinformatics|2010
			The Zebrafish Information Network (ZFIN): the zebrafish model organism database.|Sprague J,Clements D,Conlin T,Edwards P,Frazer K,Schaper K,Segerdell E,Song P,Sprunger B,Westerfield M|Nucleic Acids Res|2003
			Zebrafish in the Net.|Westerfield M,Doerry E,Douglas S|Trends Genet|1999
		After:
			The Zebrafish Information Network: the zebrafish model organism database.|Sprague J, Bayraktaroglu L, Clements D, Conlin T, Fashena D, Frazer K, Haendel M, Howe DG, Mani P, Ramachandran S, Schaper K, Segerdell E, Song P, Sprunger B, Taylor S, Van Slyke CE, Westerfield M.|Nucleic Acids Res.|2006
			ZFIN: enhancements and updates to the Zebrafish Model Organism Database.|Bradford Y, Conlin T, Dunn N, Fashena D, Frazer K, Howe DG, Knight J, Mani P,  Martin R, Moxon SA, Paddock H, Pich C, Ramachandran S, Ruef BJ, Ruzicka L, Bauer  Schaper H, Schaper K, Shao X, Singer A, Sprague J, Sprunger B, Van Slyke C, Westerfield M.|Nucleic Acids Res.|2011
			Data extraction, transformation, and dissemination through ZFIN.|Howe DG, Frazer K, Fashena D, Ruzicka L, Bradford Y, Ramachandran S, Ruef BJ,  Van Slyke C, Singer A, Westerfield M.|Methods Cell Biol.|2011
			ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics.|Howe DG, Bradford YM, Conlin T, Eagle AE, Fashena D, Frazer K, Knight J, Mani  P, Martin R, Moxon SA, Paddock H, Pich C, Ramachandran S, Ruef BJ, Ruzicka L, Schaper K, Shao X, Singer A, Sprunger B, Van Slyke CE, Westerfield M.|Nucleic Acids Res.|2013
			The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes.|Sprague J., Bayraktaroglu L., Bradford Y. et al.|Nucleic Acids Res.|2008
			Exploring zebrafish genomic, functional and phenotypic data using ZFIN.|Ramachandran S,Ruef B,Pich C,Sprague J|Curr Protoc Bioinformatics|2010
			The Zebrafish Information Network (ZFIN): the zebrafish model organism database.|Sprague J,Clements D,Conlin T,Edwards P,Frazer K,Schaper K,Segerdell E,Song P,Sprunger B,Westerfield M|Nucleic Acids Res|2003
			Zebrafish in the Net.|Westerfield M,Doerry E,Douglas S|Trends Genet|1999
			The Zebrafish Information Network: new support for non-coding genes, richer Gene Ontology annotations and the Alliance of Genome Resources.|Ruzicka L,Howe DG,Ramachandran S,Toro S,Van Slyke CE,Bradford YM,Eagle A,Fashena D,Frazer K,Kalita P,Mani P,Martin R,Moxon ST,Paddock H,Pich C,Schaper K,Shao X,Singer A,Westerfield M|Nucleic Acids Res|2018
		Added:
			The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes.|Sprague J., Bayraktaroglu L., Bradford Y. et al.|Nucleic Acids Res.|2008
			The Zebrafish Information Network: new support for non-coding genes, richer Gene Ontology annotations and the Alliance of Genome Resources.|Ruzicka L,Howe DG,Ramachandran S,Toro S,Van Slyke CE,Bradford YM,Eagle A,Fashena D,Frazer K,Kalita P,Mani P,Martin R,Moxon ST,Paddock H,Pich C,Schaper K,Shao X,Singer A,Westerfield M|Nucleic Acids Res|2018
		Removed:
			The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes.|Sprague J., Bayraktaroglu L., Bradford Y., Conlin T., Dunn N., Fashena D., Frazer K., Haendel M., Howe DG., Knight J., Mani P., Moxon SA., Pich C., Ramachandran S., Schaper K., Segerdell E., Shao X., Singer A., Song P., Sprunger B., Van Slyke CE., Westerfield M., |Nucleic Acids Res.|2008

	'homepage' has been modified:
		Before: http://zfin.org/
		After: https://zfin.org/

Edits to 'https://fairsharing.org/FAIRsharing.ybxnhg' by 'doughowe' at 21:48, 09 Feb 2018 (approved):

	'description' has been modified:
		Before: The Zebrafish Model Organism Database, ZFIN, serves as the primary community database resource for the laboratory use of zebrafish.  We develop and support integrated zebrafish genetic, genomic, developmental and physiological information and link this information extensively to corresponding data in other model organism and human databases.
		After: The Zebrafish Information Network, ZFIN, serves as the primary community database resource for the laboratory use of zebrafish.  We develop and support integrated zebrafish genetic, genomic, developmental and physiological information and link this information extensively to corresponding data in other model organism and human databases.

Edits to 'https://fairsharing.org/FAIRsharing.ybxnhg' by 'doughowe' at 21:47, 09 Feb 2018 (approved):

	'name' has been modified:
		Before: The Zebrafish Model Organism Database
		After: The Zebrafish Information Network

Edits to 'https://fairsharing.org/FAIRsharing.ybxnhg' by 'doughowe' at 21:46, 09 Feb 2018 (approved):

	'miriam_url' has been modified:
		Before: None
		After:

In Collections

NIH-supported data repositories

Data Citation Implementation

Open Science Prize

Support

General

support email	General Contact
support email	General Contact
help	Help and Tips
help	ZFIN Glossary
online documentation	News
online documentation	Zebrafish Nomenclature Conventions
twitter	@zfinmod
wikipedia	Wikipedia Entry

Additional Information

Contact

Doug Howe ORCID

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

ZFIN Terms of Use

Data Release

Download

https://zfin.org/downloads

Data Curation

Submit

https://zfin.org/action/submit-data

Data Access

BLAST	https://zfin.org/action/blast/blast
GBrowse	https://zfin.org/action/gbrowse/
Search	https://zfin.org/search?category=&q=
Gene Search	https://zfin.org/action/marker/search
Mutant Search	https://zfin.org/action/fish/search
Gene Expression Data Search	https://zfin.org/action/expression/search
Antibody Search	https://zfin.org/action/antibody/search
Publication Search	https://zfin.org/action/publication/search

Publications

The Zebrafish Information Network: the zebrafish model organism database.

Sprague J, Bayraktaroglu L, Clements D, Conlin T, Fashena D, Frazer K, Haendel M, Howe DG, Mani P, Ramachandran S, Schaper K, Segerdell E, Song P, Sprunger B, Taylor S, Van Slyke CE, Westerfield M.
Nucleic Acids Res. 2006

View Paper (PubMed)

ZFIN: enhancements and updates to the Zebrafish Model Organism Database.

Bradford Y, Conlin T, Dunn N, Fashena D, Frazer K, Howe DG, Knight J, Mani P, Martin R, Moxon SA, Paddock H, Pich C, Ramachandran S, Ruef BJ, Ruzicka L, Bauer Schaper H, Schaper K, Shao X, Singer A, Sprague J, Sprunger B, Van Slyke C, Westerfield M.
Nucleic Acids Res. 2011

View Paper (PubMed) View Publication

Data extraction, transformation, and dissemination through ZFIN.

Howe DG, Frazer K, Fashena D, Ruzicka L, Bradford Y, Ramachandran S, Ruef BJ, Van Slyke C, Singer A, Westerfield M.
Methods Cell Biol. 2011

View Paper (PubMed) View Publication

ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics.

Howe DG, Bradford YM, Conlin T, Eagle AE, Fashena D, Frazer K, Knight J, Mani P, Martin R, Moxon SA, Paddock H, Pich C, Ramachandran S, Ruef BJ, Ruzicka L, Schaper K, Shao X, Singer A, Sprunger B, Van Slyke CE, Westerfield M.
Nucleic Acids Res. 2013

View Paper (PubMed) View Publication

The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes.

Sprague J., Bayraktaroglu L., Bradford Y. et al.
Nucleic Acids Res. 2008

View Paper (PubMed)

Exploring zebrafish genomic, functional and phenotypic data using ZFIN.

Ramachandran S,Ruef B,Pich C,Sprague J
Curr Protoc Bioinformatics 2010

View Paper (PubMed) View Publication

The Zebrafish Information Network (ZFIN): the zebrafish model organism database.

Sprague J,Clements D,Conlin T,Edwards P,Frazer K,Schaper K,Segerdell E,Song P,Sprunger B,Westerfield M
Nucleic Acids Res 2003

View Paper (PubMed)

Zebrafish in the Net.

Westerfield M,Doerry E,Douglas S
Trends Genet 1999

View Paper (PubMed)

The Zebrafish Information Network: new support for non-coding genes, richer Gene Ontology annotations and the Alliance of Genome Resources.

Ruzicka L,Howe DG,Ramachandran S,Toro S,Van Slyke CE,Bradford YM,Eagle A,Fashena D,Frazer K,Kalita P,Mani P,Martin R,Moxon ST,Paddock H,Pich C,Schaper K,Shao X,Singer A,Westerfield M
Nucleic Acids Res 2018

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

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Models and Formats

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No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

Credit

Record Maintainer

This record is maintained by doughowe ORCID

Maintains

University of Oregon, USA (University) Lead

The Zebrafish Information Network

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