Table 1.
Assessment of Precision of LINE-1 Methylation Measurement (an example of macrodissected colon cancer Case No. 1)
| Different PCR-pryosequencing runs (on 7 different days) |
|||||||||
|---|---|---|---|---|---|---|---|---|---|
| P1 | P2 | P3 | P4 | P5 | P6 | P7 | Mean of LINE-1 methylation values | Run-to-run SD or SD(P) | |
| Different bisulfite-treated | |||||||||
| DNA specimens | |||||||||
| B1 | 72.9 | 72.8 | 74.2 | 72.3 | 75.4 | 71.6 | 75.7 | 73.6 | 1.6 |
| B2 | 73.0 | 73.3 | 77.2 | 72.4 | 77.7 | 71.6 | 76.5 | 74.5 | 2.5 |
| B3 | 72.7 | ||||||||
| B4 | 72.3 | ||||||||
| B5 | 73.0 | ||||||||
| B6 | 73.5 | ||||||||
| B7 | 72.4 | ||||||||
| Mean of LINE-1 methylation values | 72.8 | ||||||||
| Bisulfite-to-bisulfite SD or SD(B) | 0.4 | ||||||||
B1 though B7 represent each bisulfite-converted DNA specimen from the same case. P1 though P7 represent PCR-pyrosequencing assay results on seven different days on a given bisulfite-treated DNA specimen. We made similar tables for each of the other nine colon cancer macrodissected specimens, five LCM (laser capture microdissection) specimens, five normal colon specimens, and five blood DNA specimens.