Fixed Content Products:
African American Admixture Panel:
This panel contains 1,509 SNPs for admixture mapping studies in African American populations. Markers in the panel are targeted to large single-ancestry derived chromosomal segments, thereby targeting only relevant variance. For more information on admixture mapping and this panel, please click here. For a list of the SNPs in the panel, please click here.
Cancer SNP Panel:
The Cancer SNP panel was selected in conjunction with the SNP500 Cancer project. This product contains 1421 SNPs which interrogate 400 genes know to play a role in cancer. To see the list of SNPs, click here. To see a breakdown of the gene coverage, click here. For other details, click here.
DNA Fingerprinting Panels:
These panels of 96 SNPs have been designed by CIDR with enough polymorphic SNPs to identify samples. One panel has overlap with all of Illumina's GWAS products, the other overlaps with Affymetrix's 6.0 genotyping product. This panel can be used in several ways: 1) as a record of the original genotypes of a sample that may be stored for long periods of time or frequently distributed to other investigators, to help avoid sample mix-ups; 2) as a way of identifying cell lines prior to transformation and passage, to help meet the NIH's new guidelines for cell line authentication; 3) as a pretest for samples of uncertain quality, prior to more extensive genotyping, 4) as a way of insuring that serial samples collected from individuals are indeed from the same individual.
DNA Test Panel:
This panel serves a two-fold purpose. It can be used to pre-screen DNA samples for assay performance before conducting large studies or it can be used to look at population stratification in a set of samples. The panel contains 360 SNPs, thoroughly screened and selected from Illumina's Linkage IVb Panel, distributed across the genome. To see the list of SNPs, click here. For other details, click here.
Human Whole Genome Linkage Panel:
A panel of about 6,000 highly informative SNPs, evenly distributed across the human genome, with an average genetic distance between SNPs of 0.64 cM. The average physical gap is 482 kb (median of 298 kb) between each marker. SNPs have > 43% average heterozygosity in Caucasians >38% in African Americans >36% Asians. The Humanlinkage-12 BeadChip uses the Infinium chemistry. For more details, click here. For a list of SNPs for the Linkage-12 product, click here.
MHC Panels:
Illumina has two Major Histocompatibility Complex (MHC) panels to select from:
- The MHC Exon-Centric Panel contains >1200 SNPs within 10 kb of coding sequences of genes in the MHC. This panel has a mean of 7.7 SNPs per gene in the 160 genes in the region.
- The MHC Mapping Panel contains >1250 SNPs with an average spacing of 3.8 KB across the MHC region. This product is basically evenly spaced across the region, without regard to genes.
The two panels may also be used in combination to achieve a 2 kb average spacing. For more information, click here. For a list of SNPs, click here.
Analysis software: If you wish to use Illumina's Bead Studio software to analyze your data, licenses are available for internal JHU customers for $2,000 each. This does not include the methylation module.