Table 1.
Gains and losses of DNA methylation at imprinted loci in HCC
| Tumor | Adjacent | ||||||
|---|---|---|---|---|---|---|---|
| Loss | Gain | Loss + gain | Loss | Gain | Loss + gain | ||
| DIRAS3(3) | 1p31 | + | |||||
| DIRAS3(2) | 1p31 | ++ | ++ | • | ++ | ++ | • |
| ZBDF2 | 2q33 | ++ | + | ||||
| NAP1L5 | 4q22 | ++ | ++ | • | ++ | ++ | • |
| ZAC | 6q24 | (+) | (+) | ||||
| SLC22A3 | 6q26 | + | + | • | |||
| GRB10 | 7p12 | ||||||
| PEG10 | 7q21 | ||||||
| MEST | 7q32 | ||||||
| H19DMR | 11p15.5 | ++ | + | • | |||
| IFG2(0) | 11p15.5 | ++ | |||||
| IGF2(2) | 11p15.5 | ++ | |||||
| KCNQ1DN | 11p15 | ++ | |||||
| KvDMR | 11p15 | (+) | (+) | ||||
| RB1 | 13q14 | ++ | ++ | • | |||
| DLK1p | 14p32 | ||||||
| IGDMR(1) | 14q32 | ++ | |||||
| IGDMR(2) | 14q32 | + | |||||
| MEG3DMR(1) | 14q32 | ++ | + | • | |||
| MEG3DMR(2) | 14q32 | ++ | + | • | |||
| MEG3DMR(3) | 14q32 | ++ | + | • | |||
| MKRN3 | 15q11 | ++ | |||||
| MAGEL2 | 15q11 | ++ | + | ||||
| NDN | 15q11 | (+) | |||||
| SNRPN | 15q11 | ++ | + | • | |||
| GABRB3 | 15q11 | ++ | + | ||||
| NLRP2 | 19q13 | ++ | (+) | (•) | |||
| PEG3 | 19q13 | + | |||||
| USP29 | 19q13 | + + | |||||
| ZIM3 | 19q13 | + + | |||||
| NNAT | 20q11 | ||||||
| L3MBTL | 20q13 | (+) | |||||
| GNAS-XL | 20q13 | ++ | ++ | • | |||
| NESP | 20q13 | ++ | ++ | • | |||
| Sum | 23 (+3) | 14 (+2) | 11 | 4 (+2) | 2 | 2 | |
The DNA methylation levels for all loci presented in Fig. 1 are classified after visual inspection of the data. The loci are arranged according to their chromosomal localisation
(+) slight alterations, + alterations, ++ strong alterations,• gain + loss at the same locus