Mapping 250K/500K SNP assay

248 GeneChip ® Mapping 500K Assay Manual
Genomic DNA Preparation
PREPARATION OF GENOMIC DNA
REAGENTS
The concentration of the genomic DNA should be determined and the
working stocks diluted to 50 ng/µL using reduced EDTA TE buffer
(0.1 mM EDTA, 10 mM Tris HCL, pH 8.0). Diluted genomic DNA
can be aliquoted at this point. For high throughput assays (2 or more
96-well plates), make multiple replicates of each plate.
An elevated EDTA level is not recommended as it may interfere
with subsequent reactions.
• Reduced EDTA TE Buffer (10 mM Tris HCL, 0.1 mM EDTA,
pH 8.0):TEKnova, P/N T0223
STEP 1: Reagent Preparation and Storage
The reagents necessary for the restriction digestion, ligation and PCR
steps should be stored in the pre-PCR clean room (or area for the DNA
template and free of PCR products) to minimize cross contamination
between samples. To avoid re-entering the pre-PCR clean room after
entering either the PCR-Staging Room or the Main Lab, Affymetrix
recommends aliquoting each of the reagents in the pre-PCR clean
room before starting the rest of the experiment.