Mapping 250K/500K SNP assay

REAGENTS REQUIRED
44 GeneChip ® Mapping 500K Assay Manual
The following reagents are required for this stage. Refer to
Appendix A, Reagents, Equipment, and Consumables Required for 96-Well
Plate Protocol for vendor and part number information.
Table 4.4
Reagents Required for Stage 1: Genomic DNA Plate Preparation
Quantity Item
As needed Reduced EDTA TE Buffer
(10 mM Tris HCL, 0.1 mM EDTA, pH 8.0)
PREPARING THE GENOMIC DNA PLATE
This protocol has been optimized using UV absorbance to determine
genomic DNA concentrations. Other quantitation methods such as
PicoGreen will give different readings. Therefore, you should correlate
readings from other methods to the equivalent UV absorbance
reading.
To prepare the genomic DNA plate:
1. Thoroughly mix the genomic DNA by vortexing at high speed for
3 sec.
2. Determine the concentration of each genomic DNA sample.
3. Based on OD measurements, dilute each sample to 50 ng/µL using
reduced EDTA TE buffer.
Apply the convention that 1 absorbance unit at 260 nm equals
50 µg/mL for double-stranded DNA. This convention assumes a
path length of 1 cm. Consult your spectrophotometer handbook
for more information. If using a quantitation method other than
UV absorbance, correlate the reading to the equivalent UV
absorbance reading.
4. Thoroughly mix the diluted DNA by vortexing at high speed for
3 sec.
An elevated EDTA level may interfere with subsequent reactions.