Mapping 250K/500K SNP assay

56 GeneChip ® Mapping 500K Assay Manual
2. If the Digestion Stage plate was frozen, allow to thaw in a cooling
chamber on ice.
Leave the T4 DNA Ligase 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 Lig
• A 2.0 mL Eppendorf tube labeled Lig MM
• Solution basin
3. Prepare the Digestion Stage plate 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.
4. To prepare the reagents:
A. Vortex at high speed 3 times, 1 sec each time (except for the
enzyme).
B. Pulse spin for 3 sec.
C. Place in the cooling chamber.
T4 DNA Ligase Buffer (10X) contains ATP and should be thawed on
ice. Vortex the buffer as long as necessary before use to ensure
precipitate is re-suspended and that the buffer is clear. Avoid
multiple freeze-thaw cycles per vendor instructions.