Table 3.
Minimal regions of frequent UPD/UPPa
| Region | Size (bp) | Loss (%) | UPD/UPP (%) | LOH (%)b | Number of genesc | Genes of interestd |
|---|---|---|---|---|---|---|
| 1p35.1-p36.33 | 15209290 | 16.7–20 | 13.3 | 30–33.3 | 243 | ARID1A |
| 1q44 | 372585 | 3.3 | 13.3 | 16.7 | 9 | |
| 3p21.31-p26.3 | 46624171 | 3.3–6.7 | 13.3 | 16.7–20 | 314 | VHL; MLH1 |
| 3q25.1 | 442601 | 0 | 13.3 | 13.3 | 7 | |
| 5q14.1-q31.2 | 101633161 | 6.7–20 | 13.3–20 | 20–40 | 743 | APC |
| 8p12-p23.3 | 33954420 | 26.7–33.3 | 13.3–16.7 | 40–50 | 277 | DLC1 |
| 8p11.21-p11.23 | 2364608 | 10–16.7 | 13.3 | 23.3–30 | 36 | |
| 8p11.21-p11.21 | 9093559 | 0–3.3 | 13.3 | 13.3–16.7 | 41 | |
| 8q21.13 | 333470 | 0 | 13.3 | 13.3 | 1 | |
| 8q24.3 | 286530 | 0 | 13.3 | 13.3 | 1 | |
| 9q21.13-q34.3 | 64365620 | 10–13.3 | 13.3 | 23.3–26.7 | 599 | PTCH1; DAPK1 |
| 10q11.23-q26.3 | 83250609 | 3.3–10 | 13.3–16.7 | 16.7–26.7 | 624 | PTEN; TCF7L2; DMBT1; PLCE1 |
| 14q11.2-q24.2 | 52186574 | 10–16.7 | 13.3–20 | 30 | 425 | |
| 14q31.3-q32.33 | 21331905 | 16.7–20 | 13.3 | 30–33.3 | 286 | |
| 17p13.3-q25.3 | 80999143 | 6.7–26.7 | 13.3–23.3 | 20–46.7 | 1434 | TP53; NF1 |
| 18p11.32-q23 | 77842670 | 30–40 | 16.7–26.7 | 53.3–60 | 363 | SMAD4 |
| 19p13.2-p13.3 | 9862965 | 0 | 13.3 | 13.3 | 307 | |
| 19q13.32-q13.43 | 12657480 | 0–3.3 | 13.3 | 13.3 | 569 | PEG3 |
| 20p12.1 | 780860 | 10–23.3 | 13.3–20 | 23.3–43.3 | 1 | |
| 20p12.1 | 96087 | 10 | 13.3 | 23.3 | 1 | |
| 21p11.21-q22.3 | 37157795 | 0–10 | 16.7–23.3 | 20–30 | 307 | |
| 22q11.1-q13.33 | 34352671 | 10 | 20 | 30 | 558 | MYO18B |
aOnly regions showing UPDs/UPPs in more than 10% of the cases are listed.
bLOH represents frequencies of losses and UPDs/UPPs altogether.
cOnly RefSeq genes have been taken into account.
dGenes of recurrent somatic mutation (>8%) based on COSMIC database.