Purified genomic DNA. Genomic DNA isolated using standard genomic
DNA isolation kit, such as Qiagen's DNeasy Blood & Tissue kit or
similar kits is compatible with Illumina genotyping. SABiosciences
recommends 1.5 micrograms of DNA per sample at a concentration higher than
100 nanograms per microliter (DNA concentration measured using picogreen
assay; if a NanoDrop is used, please indicate in sample submission form). A
260:280 ratio of 1.7 or greater is required. Customers should check sample
integrity by agarose gel electrophoresis before sending samples to
SABiosciences. Sample gel pictures, if available, should accompany the
submitted samples. For the Infinium assay, the recommend fragments should
be greater than 2 kb. For samples of lower quality (OD ratio, degradation
etc.) or amount, consult a SABiosciences technical support representative. When
sample number is above 48, customers are encouraged to submit samples in 96
deep well plate (sealed) format. One blank position should be left on each
96 well plate for SABiosciences to include a positive control sample.
Customers also have the option of including one duplicate sample (for
duplication error analysis) on every or every other 96 well plate. The
blank/positive control well position should be indicated on the sample
manifest sheets (Excel format preferred, containing the following
information: sample ID, concentration, OD260/280, OD260/230, total volume,
total DNA amount).
Saliva/Buccal cells. SABiosciences recommends the Oragene DNA
sample collection kit (DNAgenotek) and the manufacturer's DNA isolation
procedure. Purified DNA should be resuspended in TE (10 mM Tris, 1 mM EDTA).
Alternatively, saliva containing buccal cells can be collected in an
Oragene DNA sample collection kit. Saliva mixed with the stabilization
fluid should be shipped to the Service Core in the sample collection tube
closed with the small cap (No refrigeration or freezing is required).
Customers can ship buccal cell pellets on dry ice via overnight mail.
Blood. A sample of at least 0.5 milliliters of whole blood
treated with citrate, heparin or EDTA can be submitted on dry ice. Buffy
coat sample (a minimum of 200 microliters per sample) and lymphocytes (a
minimum of 5x10^6 per sample) can also be submitted on dry ice.
Other Samples. Please contact Technical Services at (301)
682-9200 or your local distributor for International Customers.
Samples should be shipped with overnight delivery to our Service Core on
dry ice. Currently for GWAS studies, only purified genomic DNA samples can
be received at the service core.
Illumina Genotyping Sample Protocol
Genomic DNA samples are then processed by SABiosciences for Illumina
analysis using the following outline:
Amplification, Fragmentation, Precipitation and Resuspension,
Hybridization, X-stain, Imaging and Data Analysis.
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