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  SNP and haplotype mapping for genetic analysis in the rat

Saar, K., Beck, A., Bihoreau, M., Birney, E., Brocklebank D, D., Chen, Y., et al. (2008). SNP and haplotype mapping for genetic analysis in the rat. Nature Genetics, 40(5), 560-566. doi:10.1038/ng.124.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-8007-E Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-8008-C
Genre: Journal Article
Alternative Title : Nat Genet

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Saar, K, Author
Beck, Alfred1, Author              
Bihoreau, MT, Author
Birney, E, Author
Brocklebank D, D, Author
Chen, Y, Author
Cuppen, E, Author
Demonchy, S, Author
Dopazo, J, Author
Flicek, P, Author
Foglio, M, Author
Fujiyama, A, Author
Gut, IG, Author
Gauguier, D, Author
Guigo, R, Author
Guryev, V, Author
Heinig, M, Author
Hummel, O, Author
Jahn, N, Author
Klages, S, Author
Kren, V, AuthorKube, Michael2, Author              Kuhl, Heiner3, Author              Kuramoto, T, AuthorKuroki, Y, AuthorLechner, D, AuthorLee, YA, AuthorLopez-Bigas, N, AuthorLathrop, GM, AuthorMashimo, T, AuthorMedina, I, AuthorMott, R, AuthorPatone, G, AuthorPerrier-Cornet, JA, AuthorPlatzer, M, AuthorPravenec, M, AuthorReinhardt, Richard2, Author              Sakaki, Y, AuthorSchilhabel, M, AuthorSchulz, H, AuthorSerikawa, T, AuthorShikhagaie, M, AuthorTatsumoto, S, AuthorTaudien, S, AuthorToyoda, A, AuthorVoigt, B., AuthorZelenika, D, AuthorZimdahl, H, AuthorHubner, N., AuthorThe STAR Consortium, Editor   more..
Affiliations:
1Computing (Head: Donald Buczek/Peter Marquardt), Scientific Service (Head: Christoph Krukenkamp), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479667              
2High Throughput Technologies, Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433552              
3Sequencing (Head: Bernd Timmermann), Scientific Service (Head: Manuela B. Urban), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479670              

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 Abstract: The laboratory rat is one of the most extensively studied model organisms. Inbred laboratory rat strains originated from limited Rattus norvegicus founder populations, and the inherited genetic variation provides an excellent resource for the correlation of genotype to phenotype. Here, we report a survey of genetic variation based on almost 3 million newly identified SNPs. We obtained accurate and complete genotypes for a subset of 20,238 SNPs across 167 distinct inbred rat strains, two rat recombinant inbred panels and an F2 intercross. Using 81% of these SNPs, we constructed high-density genetic maps, creating a large dataset of fully characterized SNPs for disease gene mapping. Our data characterize the population structure and illustrate the degree of linkage disequilibrium. We provide a detailed SNP map and demonstrate its utility for mapping of quantitative trait loci. This community resource is openly available and augments the genetic tools for this workhorse of physiological studies.

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Language(s): eng - English
 Dates: 2008-04-28
 Publication Status: Published in print
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Title: Nature Genetics
  Alternative Title : Nat Genet
Source Genre: Journal
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Pages: - Volume / Issue: 40 (5) Sequence Number: - Start / End Page: 560 - 566 Identifier: ISSN: 1061-4036