Learn to use PhenomicDB , a public resource for the cross-species analysis of phenotypes. It contains a tremendous amount of data on phenotypes, genotypes, and orthologs from numerous model organisms. Over 365,000 phenotypes from various primary source databases are integrated into one convenient site. Direct links to the primary source databases allow users to find more detailed information if necessary. Instead of scouring the individual databases yourself, let PhenomicDB do the work for you.

You will learn:

  • to perform genotype and phenotype searches
  • to find gene orthologs and their associated phenotypes in other species
  • to search via numerous parameters to optimize results


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

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

ZFIN: The Zebrafish Information Network

Gramene: A resource on rice and other grass genomes


Expression : This category may contain various expression data collections, annotation tools, or repositories of expression data.

Variation & Medical : Resources that include information about sequence variation, phenotypes, or medically-relevant conditions.


(one) Video Tip of the Week (to hold them all): Variation and Disease Databases: After again reading Daniel MacArthur's good rundown about the state of databases of human disease-causing variation from last year (One database to hold them all), I thought it might be nice to do a ti...

New and Updated Online Tutorials for PhenomicDB, dbSNP and HapMap: Comprehensive tutorials on the PhenomicDB, dbSNP and HapMap databases enable researchers to quickly and effectively use these invaluable variation resources. Seattle, WA September 2, 2008 -- OpenHelix ...

Tip of the Week: Phenotypic Data from the PhysioNet: One of the things I've been thinking about lately are connections between genotype and phenotype - it is a topic in the news & I have been working on tutorials for the genotype-to-phenotype resources P...


Recent BioMed Central research articles citing this resource

Portales-Casamar Elodie et al., Neurocarta: aggregating and sharing disease-gene relations for the neurosciences Human and rodent genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-129

Malone M Brandon et al., Integrating phenotype and gene expression data for predicting gene function Proceedings of the Sixth Annual MCBIOS Conference. Transformational Bioinformatics: Delivering Value from Genomes Sixth Annual MCBIOS Conference. Transformational Bioinformatics: Delivering Value from Genomes. BMC Bioinformatics (2009) doi:10.1186/1471-2105-10-S11-S20

Groth Philip et al., Mining phenotypes for gene function prediction. BMC Bioinformatics (2008) doi:10.1186/1471-2105-9-136