IlluminaSNPgenotyping.pdf

Illumina SNP Genotyping Technologies BeadArray and BeadChip Platform SNP Genotyping Assay and SNP Multiplexing Level per Sample ? GoldenGate Assay OPA synthesis containing 48, 96, 144, 192, 384, 768, 1536, or 3072-plex SNPs per sample assay ? Infinium Assay Custom made iSelect chips to assay 3072 up to 1M SNPs per sample. 5Infinium products targeted toward Agricultural markets BovineHD BeadChip – 8 samples, 777,962 SNPs BovineSNP50 BeadChip – 24 samples, 54,609 SNPs CanineHD BeadChip – 12 samples, 172,115 SNPs OvineSNP50 BeadChip – 12 samples, 54,241 SNPs PorcineSNP60 BeadChip – 12-samples, 62,163 SNPs MaizeSNP50 BeadChip – 24 samples, 56,110 SNPs iSelect Custom Panels 6iSelect BeadChip Formats and Supported Marker Densities BeadChip Format 24-sample 12-sample 4-sample Previous plex range 3,072 – 60,800 60,801 – 200,000 n/a New plex range 3,072 – 90,000 90,001 – 250,000 250,001 – 1M Add-on content range* Up to limit of 90,000 Up to limit of 250,000 Up to limit of 1M *Add-on content range allowed = (maximum attempted beadtypes on BeadChip) MINUS (existing beadtypes in original pool) 7Rat Citrus Wheat Honey Bee Armadillo acao Rhesus Cat Canol a Rice Atlantic Cod Lettuce False Brome SheepSwine HorseCattle Human PeachPoplar Rye grass Turkey Soy Bean BarleyCitrus Cotton Rapeseed Spruce MouseCornPine Chicken Dog Tomato Atlantic Salmon Grape Vine Sweet Sorghum P. falciparum Zebra Finch Zebra Fish Applications Custom Genotyping on the Infinium Assay Genome-wide selection Genetic Prediction SNP discovery Commercial Agriculture screening panels Targeted follow-up studies after GWAS Targeted disease panels Targeted rare variant panels Sample QC and tracking panels Consumer Genomics Forensics The Right Content Lets You Capture More Biology 8BeadArray technology and BeadChip manufacturing 9photo- resist silicon wafer plasma etching cleaning Microfabrication of BeadChip Wells 2 μm beads in wells 11 Beads and BeadTypes Full-length Oligos (~800,000/bead) Bead