Mapping 250K/500K SNP assay

Negative Controls
chapter 4 | 96-Well Plate Protocol 49
A process negative control can be included at the beginning of the
assay to assess the presence of contamination. Refer to Chapter 2 and
Chapter 7 for more information.
PREPARE THE REAGENTS, EQUIPMENT AND CONSUMABLES
Thaw Reagents and Genomic DNA Plate
1. Allow the following reagents to thaw on ice:
• NE Buffer
• BSA
2. If the plate of genomic DNA from stage 1 was frozen, allow it to
thaw in a cooling chamber on ice.
Leave the NSP I or STY I enzyme at –20°C until ready to use.
Prepare Your Work Area
To prepare the work area:
1. Place a double cooling chamber and a cooler on ice (Figure 4.1 on
page 39).
2. Label the following tubes, then place in the cooling chamber:
• One strip of 12 tubes labeled Dig
• A 2.0 mL Eppendorf tube labeled Dig MM
3. Place the AccuGENE® water on ice.
4. Prepare the plate of genomic DNA from Stage 1 as follows:
A. Vortex the center of the plate at high speed for 3 sec.
B. Spin down the plate at 2000 rpm for 30 sec.
C. Place back in the cooling chamber on ice.
5. To prepare the reagents (except for the enzyme):
A. Vortex 3 times, 1 sec each time.