Mouse MD Linkage

The mouse has been increasingly recognized as an optimal animal for the study of the genetics of complex disease traits. Two Mouse Linkage Panels (Mouse Low Density [LD] Linkage and Mouse Medium Density [MD] Linkage) are available for mouse genetics applications. These single nucleotide polymorphism (SNP) panels offer a low-cost, efficient method for attaining genome-wide genetic data to identify quantitative trait loci (QTLs), map candidate genes, and increase genotyping throughput.

Illumina’s Mouse MD Linkage Panel consists of thoroughly screened and validated SNP loci that have been selected from the Wellcome-CTC Mouse Strain SNP Genotype Set. The Panel consists of 1,449 loci and is optimal for various mapping applications that include characterization of transgenic, congenic and knockout animals, and genetic mapping in advanced intercross mouse lines.

Mouse MD Linkage Panel SNP loci were chosen to maximize genetic information across the top ten inbred strains at a higher resolution than the Mouse LD Linkage Panel. SNPs in this panel were chosen to first provide uniform genome distribution at a density of approximately three SNPs per 5 Mb intervals across the genome. At least one SNP per interval was chosen to be informative for crosses involving the C57Bl/6J strain and the remaining two SNPs were selected based on allele frequency and optimal spacing. On average, at least one SNP in each interval is informative for 75% of pairwise strain combinations.

• The Mouse MD Linkage Panel can be used on 12-, 16-, and 32-sample Universal BeadChips or the 96-sample Universal Array Matrix
• SNP sequences are optimized for Illumina's proven GoldenGate Genotyping Assay protocol