RGD provides a variety of tools to search and analyze both the data within RGD and data generated from rat research in the lab. The list below identifies the major tools provided at RGD. Click a tool's name to start using the tool.
| Using a sequence name, gene name, locus, oligonucleotide (15 bp minimum) or other landmark you can search for its location on the rat genome. |
The Virtual Comparative Map (VCMap) tool was originally developed to explore the syntenic relationships between rat, mouse and human genomes. A new version of VCMap is now available which also incorporates cow, pig and chicken, expanding both the versatility and utility of this valuable tool. |
 |
|
 Genome Viewer |
|
| SNPlotyper is a visualization and analysis tool for Rat SNP and microsatellite data. Containing data for over 400 strains, 21,000 SNPs and 7800 Microsatellites, it enables users to view haplotype blocks shared between strains and identify informative (polymorphic) markers between two or more strains. |
Gviewer provides users with complete genome view of gene and QTL annotated to a function, biological process, cellular component, phenotype, disease, or pathway. The tool will search for matching terms from the Gene Ontology, Mammalian Phenotype Ontology, Disease Ontology or Pathway Ontology. |
|
|
| BioMart
|
|
| BioMart is a generic data management system which offers a range of advanced query interfaces and administration tools. BioMart provides users with the ability to conduct fast, powerful queries using either web, graphical, or text based applications. |
This tool will run RHMAPPER and create a RH placement map of your submitted RH Vectors based on the 1999 RH Framework of the Rat. |
|
|
| ACP Haplotyper creates a visual haplotype that can be used to identify conserved and non-conserved chromosomal regions between any of the 48 rat strains characterized as part of the ACP project. For the selected chromosome and between the selected strains, the tool compares the allele size data for microsatellite markers on the selected genetic or RH map |
This tool is designed to assist researchers in selecting polymorphic markers for a genome scan of a cross between two strains. It uses the Allele Characterization Project dataset in combination with various genetic and Radiation Hybrid maps. |
