Mouse Universal Genotyping Arrays – Platform Information

The Mouse Universal Genotyping Arrays (MUGA) are a series of SNP genotyping arrays for the house mouse (Mus musculus) on the Illumina Infinium platform. Their content is optimized for genetic mapping in the Collaborative Cross and Diveristy Outbred populations; for discriminating haplotypes from common laboratory strains and substrains; and for evaluating the ancestry of wild-caught mice. The MUGA arrays were designed by investigators at the University of North Carolina at Chapel Hill, manufactured by Illumina and distributed on a service basis by Neogen Inc.

For more information, see the UNC Systems Genetics website.

Annotation files

Array Files Notes
MUGA probes (mm9)

clusters

Reference clusters derived from a set of 2,425 Diversity Outbred mice (1309 male, 1116 female) genotyped across multiple batches.
MUGA2 markers A list of all valid markers in the MUGA2 array
MegaMUGA probes (mm9)

clusters

Reference clusters derived from a set of 500 Diversity Outbred mice (250 male, 250 female) genotyped across multiple batches.
GigaMUGA probes (mm10)

clusters

Reference clusters derived from a set of 500 mice spanning classical inbred strains; wild-derived strains; the Collaborative Cross and Diversity Outbred populations; and common laboratory stocks. These samples were processed in 7 batches but genotype-calling was performed on all batches jointly.