Northwestern University Feinberg School of Medicine

Center for Genetic Medicine

Whole Genome Genotyping

High density SNP analysis can be used to perform linkage analysis, association studies, LOH and copy number studies. The Core principally processes arrays available from both the Affymetrix and Illumina systems.

Illumina Infinium HD BeadChips — Omni and Core Families

Illumina Infinium HD BeadChips Omni and Core beadchip families can analyze from 250,000 to 5,000,000 SNPs per sample. Infinium HD process technology uses hybridization of fragmented genomic DNA combined with single-base extension staining to reliably and accurately call SNP identities. For custom mid- to high-density genotyping, the newest chip— iSelect Infinium Genotyping Beadchip—can include 3,000-1,000,000 SNPs of interest across 24 or 4 samples, respectively. All Illumina staining and extension setups are automated using the Tecan Freedom EVO system.

Affymetrix GeneChips

Affymetrix offers an array of high density GeneChips including SNP 6.0. Click here to learn more on the Affymetrix site. Affymetrix projects require a minimum project size of 100 samples. Please contact the Core for further information on designing a project for the Affymetrix system.