An imputed genotype resource for the laboratory mouse.

@article{citeulike:2535364, 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 /.}, address = {The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine, 04609, USA.}, author = {Szatkiewicz, Jin P. and Beane, Glen L. and Ding, Yueming and Hutchins, Lucie and Pardo-Manuel de Villena, Fernando and Churchill, Gary A. }, citeulike-article-id = {2535364}, doi = {10.1007/s00335-008-9098-9}, issn = {0938-8990}, journal = {Mamm Genome}, keywords = {animal}, month = {February}, posted-at = {2008-03-15 03:39:56}, priority = {2}, title = {An imputed genotype resource for the laboratory mouse.}, url = {http://dx.doi.org/10.1007/s00335-008-9098-9}, year = {2008} }

TY - JOUR ID - citeulike:2535364 L3 - citeulike-article-id:2535364 TI - An imputed genotype resource for the laboratory mouse. JF - Mamm Genome AD - The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine, 04609, USA. SN - 0938-8990 N2 - 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 /. KW - animal AU - Szatkiewicz, Jin AU - Beane, Glen AU - Ding, Yueming AU - Hutchins, Lucie AU - Pardo-Manuel de Villena, Fernando AU - Churchill, Gary PY - 2008/02/27/ UR - http://dx.doi.org/10.1007/s00335-008-9098-9 ER -