Learn to use the Rat Genome Database (RGD), a collection of data, tools and resources on the model organism Rattus norvegicus. The rat is a well-characterized model for research on mammalian physiology and human disease. The addition of a characterized rat genome to the mouse and human sequence provides a rich resource for comparative genomics analysis. Any researcher using rat as the model organism for their research would benefit greatly from learning how to use the resources and tools available at the Rat Genome Database. Links to animal collections and husbandry, including colony management tools, are also available at RGD.

You will learn:

  • to perform effective searches and understand the gene, QTL and strain displays
  • to perform advanced searches enabling multifaceted queries
  • to access and use the RGD Disease Portals, alternative entry points to disease-specific rat, human and mouse data
  • to use VCMap, SNPlotyper and other tools and resources associated with RGD


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.

ZFIN: The Zebrafish Information Network

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.


Video Tip of the Week: RGD's OLGA tool, Object List Generator and Analyzer: One of the really persistent issues in genomics is how to either get a list of things, or handle a list of things. or the overlap among the things. I think that was one of the most popular topics we de...

Video Tip of the Week: list of genes associated with a disease: I am currently in Puerto Varas, Chile at an EMBO genomics workshop. The workshop is mainly for grad students and the instructors are, for the most part, alumni of the Bork group. I gave a tutorial on ...

Service Announcement: EMBL-EBI Hinxton data centre offline for scheduled maintenance: Was following a protein information trail that ended in the error message "Sorry! That service is temporarily unavailable. Data centre offline until Monday, Oct 24, 2011" If you were planning on stayin...

Tip of the Week: InterMine for mining "big data": Integrating large data sets for queries within--and across--various collections is one of the arenas that has lately been pretty active in bioinformatics. As more and more "big data" projects yield hu...

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...


Recent BioMed Central research articles citing this resource

Bailey Dondra et al., The essential requirement of an animal heme peroxidase protein during the wing maturation process in Drosophila. BMC Developmental Biology (2017) doi:10.1186/s12861-016-0143-8

Wessler Silja et al., Bacterial serine protease HtrA as a promising new target for antimicrobial therapy?. Cell Communication and Signaling (2017) doi:10.1186/s12964-017-0162-5

Leonhäuser Dorothea et al., Two differentially structured collagen scaffolds for potential urinary bladder augmentation: proof of concept study in a Göttingen minipig model Cell, tissue and gene therapy. Journal of Translational Medicine (2017) doi:10.1186/s12967-016-1112-5

Kuroda Kengo et al., miR-663a regulates growth of colon cancer cells, after administration of antimicrobial peptides, by targeting CXCR4-p21 pathway Cell and molecular biology. BMC Cancer (2017) doi:10.1186/s12885-016-3003-9

Shen Xiaoli et al., HECTD1 controls the protein level of IQGAP1 to regulate the dynamics of adhesive structures. Cell Communication and Signaling (2017) doi:10.1186/s12964-016-0156-8