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Genomic Sequencing to Establish a Macaque Genotype and Phenotype Research Resource

Grant Number: R24OD021324

Research Emphasis/ObjectivesONPRC Rhesus monkeys

The Macaque Genotype and Phenotype (mGAP) resource provides genome-wide variant data from thousands of rhesus macaques, enabling access to, and comparison of, macaque genotype data across major captive populations, including the National Primate Research Centers (NPRCs). This resource expedites macaque genotype–phenotype analysis, enables the discovery of new nonhuman primate (NHP) models for human disease, and facilitates incorporation of genomic data into existing NHP studies.

Services Provided

The mGAP research resource (mgap.ohsu.edu) contains roughly 53 million sequence variants identified in 3,400 rhesus macaques primarily located at six NPRCs. The website allows flexible queries over variant data, based on either macaque or human reference coordinates. The variants undergo an extensive annotation process, enhancing variant interpretation and allowing users to search variants based on these annotations. Unlike most public genomic datasets, mGAP’s samples are derived from captive colonies. Therefore, in addition to identifying variants of interest, it is often possible to identify specific individuals that carry that genotype.

AnimalsmGAP - the macaque genotype and phenotype resource

Rhesus macaques (Macaca mulatta)
Japanese macaques (Macaca fuscata)

Biological Materials

N/A

Genotyping

Single-nucleotide variants (SNVs) are identified from both whole-genome and whole-exome data using a standardized NHP-adapted variant calling pipeline. Raw variant data are available for download, in addition to many web-based query tools. Structural variants identified using PacBio long-read sequencing are available for a subset of animals.

Contact Information

Oregon National Primate Research Center
Oregon Health & Science University
505 N.W. 185th Avenue
Beaverton, OR 97006-3499
ONPRC | OHSU
mGAP | OHSU

Principal Investigator

Benjamin (Ben) Bimber, Ph.D.
Assistant Professor
[email protected]

Jeffrey Wall, Ph.D.
[email protected]

Center Director

Rudolf (Skip) Bohm, D.V.M., DACLAM
ONPRC Director
Phone: 503-346-5005
[email protected]