Learn to use Zebrafish Information Network, or ZFIN, a collection of data, tools, and resources on the zebrafish (Danio rerio), a popular model organism for developmental biology and genetics research. ZFIN integrates genes, gene expression data, mutant genotypes, transgenic strains, and sequence analysis tools with links to additional genomic, educational, and community resources. ZFIN is an essential resource that serves as the zebrafish model organism database and provides a centralized web-based interface and community resource for the laboratory use of zebrafish.

You will learn:

  • to perform effective searches and understand the displays
  • to access advanced searches enabling multifaceted queries
  • to use the various databases of genes and markers, expression data, mutant genotype/phenotype details, ontologies, and more
  • to investigate the many related resources associated with ZFIN


This tutorial is a part of the tutorial group Model organisms. You might find the other tutorials in the group interesting:

TAIR: The Arabidopsis Information Resource

Saccharomyces Genome Database (SGD): Saccharomyces Genome Database

PhenomicDB: Phenotypes database

WormBase: Molecular and genetic information on Caenorhabditis elegans and related species

FlyBase: A resource for the genes, genome and molecular biology of Drosophila melanogaster and related species.

Mouse Genome Informatics (MGI): The Mouse Genome Informatics resource provides data, tools, and analyses for the mouse model organism.

Rat Genome Database (RGD): Rat Genome Database

Gramene: A resource on rice and other grass genomes


Genome Databases (euk) : Genomic databases or repositories primarily aimed at eukaryotic organisms. Some may contain prokaryotic data as well.


Tip of the Week: LAMHDI for animal models: At the Experimental Biology conference last week, we were "booth neighbors" with a group providing a database that we hadn't heard of--LAMHDI. Of course, we love to explore new software that serves ne...

Tip of the Week: Ratmine: Ratmine is a 'data warehouse' that allows the user to construct queries across different areas of biological knowledge from SNPs to Pathways. It's developed by the people at RGD and uses Intermine a p...

Tip of the Week: Model Organism Database tutorials: For the tip of the week today, we'd like to point out a number of new (free to you) tutorials on model organism database resources. These seven tutorials (include flash movie tutorial, slides for downl...

Tip of the Week: Genomic Data Resources: Today's tip isn't on just one resource or a part of one, it's a whirlwind tour of many! In fact, in less than 5 minutes I'll put you through ALL of the resources online on genomics. Ok, well, not all. ...

New Online Tutorials on ZFIN, SGD, PlantGDB and GBrowse Resources: Comprehensive tutorials on the model organism databases ZFIN, SGD and PlantGDB and GBrowse, a model organism genome browser, enable researchers to quickly and effectively use these invaluable resources...


Recent BioMed Central research articles citing this resource

Li Shuai et al., IPLaminator: an ImageJ plugin for automated binning and quantification of retinal lamination Imaging, image analysis and data visualization. BMC Bioinformatics (2016) doi:10.1186/s12859-016-0876-1

Yoshizawa Masato et al., Distinct genetic architecture underlies the emergence of sleep loss and prey-seeking behavior in the Mexican cavefish. BMC Biology (2015) doi:10.1186/s12915-015-0119-3

Harty L Breanne et al., Defining the gene repertoire and spatiotemporal expression profiles of adhesion G protein-coupled receptors in zebrafish Non-human and non-rodent vertebrate genomics. BMC Genomics (2015) doi:10.1186/s12864-015-1296-8

Di Paolo Carolina et al., The value of zebrafish as an integrative model in effect-directed analysis - a review. Environmental Sciences Europe (2015) doi:10.1186/s12302-015-0040-y

Salisbury P Joseph et al., The central nervous system transcriptome of the weakly electric brown ghost knifefish ( Apteronotus leptorhynchus de novo assembly, annotation, and proteomics validation Non-human and non-rodent vertebrate genomics. BMC Genomics (2015) doi:10.1186/s12864-015-1354-2