Table 2.
Primer and probe sequences used in qPCR and pre-amplification of enriched methylated DNA
| Gene | Primer | Sequence (5′–3′) |
|---|---|---|
| GSTP1 | Forward | TTCGCTGCGCACACTTC |
| Probe | CGGTCCTCTTCCTGCTGTCTGTTT | |
| Reverse | CTTTCCCTCTTTCCCAGGTC | |
| RASSF1 | Forward | CCTCCAGAAACACGGGTA |
| Probe | TTTGCGGTCGCCGTCGTTGT | |
| Reverse | CTTCCTTCCCTCCTTCGTC | |
| APC | Forward | TTATTACTCTCCCTCCCACCTC |
| Probe | TCTTGTGCTAATCCTTCTGCCCTGC | |
| Reverse | TGGCAGTTGACACGCATAG | |
| RARB | Forward | GAAGGAGAACTTGGGATCTT |
| Probe | TTTCCAGGCTTGCTCGGCCAATC | |
| Reverse | AGCCTGTAATTGATCCAAATGA | |
| LINE1 | Forward | CGCAGGCCAGTGTGTGT |
| Probe | CCGTGCGCAAGCCGA | |
| Reverse | TCCCAGGTGAGGCAATGC |
Sequences for forward and reverse primers and internal hydrolysis probe are indicated for each gene. These sequences were used in the design and ordering of custom TaqMan probes for qPCR and pre-amplification of methylated DNA enriched by MBD2-MBD