Illumina GoldenGate

At the heart of Illumina's custom genotyping system, the GoldenGate assay employs highly multiplexed, allele-specific extension/ ligation methodology and universal-primer PCR amplification reactions. SNP interrogation occurs before amplification using genomic or whole genome amplified DNA as template, and therefore specificity is not hybridization-based. The Genetic Analysis Platform offers custom-designed and fixed content Illumina SNP genotyping assays of 384-plex, 768-plex, 1536-plex or 3072-plex. All GoldenGate assays are processed in an automated, LIMS-based production environment with Illumina’s BeadStudio software for accurate and automated allele calling.

For more information from Illumina about this custom genotyping system, click here.

To ensure quality control, each new custom OPA (Oligos Pool All) shipment is tested on a panel of HapMap samples of known quality before high-throughput processing of project samples begins. Also, one sample of a HapMap trio is included on each plate in rotating locations, to verify concordance with HapMap genotypes.

Assays available

• Fixed array (e.g., Human Linkage Panel, African American Admixture Panel)
• Custom array (content with an assay scale of 384, 768, 1536 or 3072 SNPs)

Minimum requirements

A minimum of 480 samples is required for Illumina GoldenGate custom genotyping.