Rat Genome Project

Image source: Reg Mckenna (originally posted to Flickr as Wild Rat) [CC-BY-2.0], via Wikimedia Commons

About the Project

The genome of the Brown Norway rat (Rattus norvegicus) was sequenced by the Rat Genome Sequencing Consortium (RGSC) led by the BCM-HGSC. (1)

This rat is important as a model organism for cardiovascular and psychological research, and has a legacy of decades of study of its physiology in academia and industry.

The BCM-HGSC is currently upgrading the rat genome sequence through various activities. These include finishing BAC clones and selected other regions of the genome, and sequencing of the Y chromosome. 

In addition, a new assembly was produced that incorporates sequence from SOLiD data from the Edwin Cuppen's laboratory.

Early funding for the RGSC came from the National Heart, Lung, and Blood Institute (NHLBI) and the National Human Genome Research Institute (NHGRI) and subsequent activities are supported by the NHGRI.

Genomic Resources

Access to the Data 

BAC-based Data Resources

Additional Resources

Related Publications

Twigger SN, Pruitt KD, Fernandez-Suarez XM, Karolchik D, Worley KC, Maglott DR, et al. What everybody should know about the rat genome and its online resources. Nat Genet. 2008 ;40(5):523-7.

Aitman TJ, Critser JK, Cuppen E, Dominiczak A, Fernandez-Suarez XM, Flint J, et al. Progress and prospects in rat genetics: a community view. Nat Genet. 2008 ;40(5):516-22.

Worley KC, Weinstock GM, Gibbs RA. Rats in the genomic era. Physiol Genomics. 2008 ;32(3):273-82.

Krzywinski M, Wallis J, Gösele C, Bosdet I, Chiu R, Graves T, et al.. Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome. Genome Res. 2004 ;14(4):766-79.

Havlak P, Chen R, K Durbin J, Egan A, Ren Y, Song X-Z, et al. The Atlas genome assembly system. Genome Res. 2004 ;14(4):721-32.

Chen R, Sodergren E, Weinstock GM, Gibbs RA. Dynamic building of a BAC clone tiling path for the Rat Genome Sequencing Project. Genome Res. 2004 ;14(4):679-84.

Zhang Z, Burch PE, Cooney AJ, Lanz RB, Pereira FA, Wu J, et al. Genomic analysis of the nuclear receptor family: new insights into structure, regulation, and evolution from the rat genome. Genome Res. 2004 ;14(4):580-90.

Gibbs RA, Weinstock GM, Metzker ML, Muzny DM, Sodergren EJ, Scherer S, et al. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature. 2004 ;428(6982):493-521.

Fjell CD, Bosdet I, Schein JE, Jones SJM, Marra MA. Internet Contig Explorer (iCE)--a tool for visualizing clone fingerprint maps. Genome Res. 2003 ;13(6A):1244-9.

Dederich DA, Okwuonu G, Garner T, Denn A, Sutton A, Escotto M, et al. Glass bead purification of plasmid template DNA for high throughput sequencing of mammalian genomes. Nucleic Acids Res. 2002 ;30(7):e32.