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University of Wisconsin–Madison
Wisconsin National Primate Research Center
A legacy of life-saving research and humane animal care

Genetics Services – Host Genotyping

WNPRC Genetic Services staff member Hadjer Namous processes a microfluidic chip used for MHC genotyping of nonhuman primates.

WNPRC Genetics Services staff member Hadjer Namous processes a microfluidic chip used for MHC genotyping of nonhuman primates.

COVID-19 pandemic update:

As of 1 June 2020, UW-Madison is beginning a phased reopening of research operations, but limitations on occupancy of campus buildings remain in place. These will continue to impact our ability to provide research support. The situation remains fluid, so we request your patience as we all navigate the process. Please contact us for updates if you wish to initiate a new project or restart one that has been paused due to COVID-19. 

 MHC GEnotyping

Genetics Services provides high-throughput MHC genotyping for investigators using nonhuman primates to study cellular immunity and transplantation tolerance.

The MHC region of macaques is much more complex than the human MHC, with each animal expressing a variable number of MHC class I alleles. To distribute animals appropriately depending on experimental goals, we sequence the most polymorphic segments of MHC genes or full-length transcripts, then group sequences into simplified haplotypes to indicate highly transcribed alleles. These haplotype designations make it possible to identify animals that share multiple MHC alleles. Standard genotyping reports include the full list of detected alleles, in addition to the simplified haplotype designations.

To balance experimental and control groups or determine the degree of MHC mismatch for transplant studies, lineage-level allelic resolution provided by our standard MiSeq assay (that focuses on the most polymorphic segments of MHC genes) is appropriate.  When full resolution of the specific MHC allelic variant is important to discovery, we recommend PacBio SMRT sequencing of full-length MHC transcripts. If you are unsure of which MHC assay is best for your research, please consult Genetics Services staff at

For more information on our approach to MHC genotyping, please see our MHC white paper (pdf).

To request service, please complete the on-line WNPRC Genetic Services Service Request form.

To estimate costs for MHC genotyping, please visit the on-line WNPRC Genetic Services Cost Estimator

Other Immune Loci Genotyping

Many investigators studying cellular immunity in nonhuman primates are interested in loci beyond the MHC. We offer the following genotyping services:

  • TRIM5 genotyping via a MiSeq short amplicon sequence-based assay to detect TRIM5Q, TRIM5TFP, and TRIM5CypA alleles.
  • Fc gamma receptor (FcɣR) genotyping via PacBio Sequel full-length sequencing
  • Killer immunoglobulin-like receptor (KIR) genotyping via PacBio Sequel full-length sequencing

Though FcɣR and KIR assays are still under development for most nonhuman primate populations, we work with investigators interested in prototyping these assays as “early access” clients.

For more information including current pricing, please see our Other Immune Loci white paper (pdf).

Interested in more information? Contact the Genetics Services Host Genotyping group.

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