Format

Send to

Choose Destination
See comment in PubMed Commons below
Mamm Genome. 2008 Mar;19(3):199-208. doi: 10.1007/s00335-008-9098-9. Epub 2008 Feb 27.

An imputed genotype resource for the laboratory mouse.

Author information

1
The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine 04609, USA.

Abstract

We have created a high-density SNP resource encompassing 7.87 million polymorphic loci across 49 inbred mouse strains of the laboratory mouse by combining data available from public databases and training a hidden Markov model to impute missing genotypes in the combined data. The strong linkage disequilibrium found in dense sets of SNP markers in the laboratory mouse provides the basis for accurate imputation. Using genotypes from eight independent SNP resources, we empirically validated the quality of the imputed genotypes and demonstrated that they are highly reliable for most inbred strains. The imputed SNP resource will be useful for studies of natural variation and complex traits. It will facilitate association study designs by providing high-density SNP genotypes for large numbers of mouse strains. We anticipate that this resource will continue to evolve as new genotype data become available for laboratory mouse strains. The data are available for bulk download or query at http://cgd.jax.org /.

PMID:
18301946
PMCID:
PMC2725522
DOI:
10.1007/s00335-008-9098-9
[Indexed for MEDLINE]
Free PMC Article
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for Springer Icon for PubMed Central
    Loading ...
    Support Center