Table 1. Copy number analysis.
| Class | Tumor no. | FA | Chr 1 | Chr 3 | Chr 6p | Chr 8q | Chr 16q | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| GNAQ/11 | dPCR | SNP | dPCR | SNP | dPCR | SNP | dPCR | SNP | dPCR | SNP | ||
| I | 06-046* | 35.0** | 1.7 | 2.0 | 2.0 | 1.9 | 2.7 | 2.6 | 2.7 | 2.7 | 1.4 | 1.3 |
| I | 01-074 | 48.9 | 1.2 | 1.4 | 2.2 | 1.9 | 2.9 | 2.0 | 3.5 | 2.7 | 2.1 | 2.3 |
| I | 04-075 | 37.1 | 1.8 | 1.7 | 2.0 | 1.9 | 2.8 | 1.9 | 3.0 | 2.9 | 2.0 | 2.0 |
| I | 02-167 | 45.1 | 1.3 | 1.5 | 1.5 | 1.6 | 2.3 | 2.1 | 2.1 | 2.1 | 2.0 | 2.0 |
| I | 07-007 | 36.8 | 1.7 | 1.9 | 1.1 | 1.0 | 2.9 | 2.8 | 1.9 | 1.9 | 2.0 | 1.8 |
| I | 07-003 | 37.9 | 1.1 | 1.0 | 2.2 | 2.0 | 2.2 | 2.0 | 2.2 | 1.9 | 1.9 | 1.8 |
| I | 20-125 | 38.5 | 2.0 | 1.9 | 2.2 | 2.0 | 4.8 | 2.1 | 3.2 | 2.7 | 1.9 | 1.9 |
| I | 05-020 | 34.3 | 1.0 | 1.2 | 1.9 | 1.9 | 3.5 | 3.4 | 4.6 | 4.5 | 1.0 | 1.1 |
| I | 02-158 | 40.2 | 2.0 | 2.0 | 2.3 | 2.0 | 4.5 | 1.6 | 2.2 | 2.0 | 1.5 | 1.6 |
| I | 04-103 | 44.8 | 1.8 | 1.9 | 1.9 | 2.0 | 2.9 | 1.3 | 1.9 | 2.0 | 1.9 | 2.1 |
| I | 06-033 | 46.7 | 0.9 | 1.1 | 2.1 | 2.1 | 3.0 | 3.1 | 3.0 | 3.2 | 1.0 | 1.0 |
| I | 99-187 | 43.2 | 1.9 | 1.9 | 2.2 | 2.0 | 2.2 | 2.0 | 2.2 | 2.0 | 1.1 | 1.6 |
| I | 02-199 | 42.2 | 2.0 | 1.7 | 2.0 | 1.8 | 2.4 | 2.2 | 2.0 | 1.9 | 2.0 | 1.9 |
| I | 03-086 | 53.8 | 1.9 | 1.9 | 2.2 | 2.0 | 2.3 | 2.0 | 2.0 | 1.9 | 2.1 | 2.0 |
| I | 06-036 | 47.4 | 1.9 | 2.0 | 2.2 | 2.0 | 3.2 | 3.1 | 2.9 | 3.1 | 2.1 | 1.9 |
| I | 01-042 | 50.0** | 1.8 | 1.8 | 2.1 | 2.0 | 2.1 | 2.1 | 1.9 | 1.9 | 2.0 | 2.0 |
| I | 05-058 | 49 | 1.8 | 2.0 | 1.9 | 2.0 | 2.8 | 2.8 | 1.9 | 1.9 | 1.8 | 1.9 |
| I | 06-010 | 41.2 | 1.7 | 1.9 | 2.0 | 2.0 | 2.4 | 2.2 | 2.0 | 2.0 | 1.9 | 1.8 |
| I | 06-011 | 43 | 2.2 | 2.0 | 2.1 | 2.0 | 3.5 | 2.9 | 3.5 | 3.2 | 1.2 | 1.2 |
| I | 03-087* | 44.4 | 1.7 | 1.9 | 2.0 | 2.1 | 2.4 | 2.1 | 1.9 | 2.0 | 1.6 | 1.8 |
| I | 04-074 | 48.5 | 1.8 | 2.2 | 1.9 | 2.0 | 3.0 | 2.1 | 2.0 | 2.0 | 1.9 | 2.0 |
| I | 07-004 | 33.6 | 1.9 | 1.9 | 2.1 | 2.1 | 3.2 | 3.2 | 2.0 | 2.0 | 1.8 | 1.8 |
| I | 07-034 | 46.7 | 1.7 | 2.0 | 2.0 | 1.9 | 3.0 | 2.8 | 2.1 | 2.0 | 1.9 | 1.9 |
| I | 03-120 | 52 | 1.9 | 1.9 | 2.0 | 2.0 | 3.1 | 2.8 | 1.9 | 1.9 | 1.9 | 1.8 |
| I | 03-129 | 29.5 | 1.9 | 1.9 | 1.4 | 1.5 | 2.0 | 2.1 | 3.1 | 2.7 | 1.9 | 1.6 |
| IIa | 05-034 | 36.4 | 1.6 | 1.6 | 1.6 | 1.5 | 2.2 | 2.2 | 3.1 | 3.1 | 1.6 | 1.5 |
| IIa | 06-009 | 49 | 1.1 | 1.1 | 1.0 | 1.1 | 2.5 | 2.3 | 3.0 | 3.2 | 1.9 | 2.1 |
| IIa | 04-018 | 55.4 | 1.9 | 2.0 | 2.0 | 1.9 | 2.7 | 2.0 | 2.7 | 2.3 | 1.9 | 1.9 |
| IIa | 07-047 | 24.3 | 0.9 | 1.0 | 1.1 | 1.0 | 2.0 | 2.0 | 2.0 | 2.0 | 1.9 | 1.8 |
| IIa | 02-174 | 47.3 | 0.9 | 1.3 | 1.1 | 1.4 | 2.1 | 2.2 | 2.7 | 2.6 | 2.0 | 2.1 |
| IIa | 05-033 | 45.7 | 1.4 | 1.5 | 1.2 | 1.1 | 2.0 | 1.9 | 2.4 | 2.1 | 2.2 | 1.9 |
| IIa | 06-042 | 34 | 1.9 | 1.9 | 1.3 | 1.1 | 2.2 | 2.1 | 2.9 | 3.0 | 2.0 | 1.9 |
| IIa | 05-061 | 45.2 | 1.0 | 1.1 | 1.1 | 1.0 | 2.2 | 2.0 | 5.8 | 5.7 | 2.1 | 1.9 |
| IIa | 05-046 | 43.1 | 1.1 | 1.1 | 1.1 | 1.1 | 2.1 | 1.9 | 3.5 | 3.7 | 1.9 | 1.9 |
| IIa | 01-131 | 35.5 | 2.1 | 2.1 | 1.5 | 1.5 | 2.3 | 2.1 | 4.6 | 3.4 | 1.4 | 1.6 |
| IIa | 20-005 | 45.6 | 1.9 | 2.0 | 1.2 | 1.4 | 2.3 | 2.1 | 3.3 | 2.9 | 2.1 | 2.2 |
| IIa | 07-005 | 42.9 | 1.7 | 1.9 | 1.3 | 1.3 | 1.9 | 2.3 | 4.2 | 3.9 | 2.0 | 1.9 |
| IIa | 20-173 | 43.7 | 2.0 | 1.9 | 1.3 | 1.3 | 2.4 | 2.1 | 2.5 | 2.3 | 2.2 | 2.3 |
| IIa | 07-030 | 44.5 | 2.1 | 2.0 | 1.2 | 1.1 | 2.1 | 2.0 | 3.5 | 3.2 | 2.1 | 1.9 |
| IIb | 99-184 | 36.7 | 1.8 | 2.0 | 1.4 | 1.5 | 2.1 | 1.9 | 4.4 | 3.3 | 1.4 | 1.7 |
| IIb | 08-008 | 39.5** | 2.0 | 1.9 | 1.2 | 1.1 | 2.1 | 2.0 | 2.9 | 2.7 | 2.2 | 1.8 |
| IIb | 07-050 | 37.1 | 1.1 | 1.2 | 1.2 | 1.1 | 2.1 | 2.0 | 4.9 | 4.9 | 2.1 | 2.0 |
| IIb | 04-112 | 44.3 | 1.7 | 2.0 | 1.1 | 1.3 | 1.9 | 2.1 | 3.5 | 3.5 | 1.9 | 2.0 |
| IIb | 06-023 | 31.5 | 1.9 | 2.0 | 1.4 | 1.3 | 2.1 | 2.1 | 2.5 | 2.6 | 1.9 | 1.9 |
| IIb | 01-129 | 12.8 | 1.9 | 2.0 | 1.8 | 1.8 | 2.1 | 2.1 | 2.2 | 2.1 | 2.0 | 2.0 |
| IIb | 06-014 | 19.8 | 2.0 | 2.0 | 1.8 | 1.6 | 2.4 | 2.2 | 4.7 | 4.5 | 1.8 | 1.6 |
| IIb | 07-012 | 15.8 | 2.0 | 1.9 | 1.7 | 1.5 | 2.3 | 2.0 | 3.8 | 3.7 | 2.2 | 2.0 |
| IIb | 06-041 | 42 | 1.8 | 1.9 | 1.3 | 1.2 | 2.2 | 2.0 | 4.6 | 4.7 | 1.9 | 1.8 |
| IIb | 99-239 | 43.4 | 1.6 | 1.8 | 0.9 | 1.4 | 1.8 | 1.9 | 3.5 | 3.3 | 1.3 | 1.9 |
| IIb | 08-029 | 40.4 | 1.1 | 1.3 | 1.3 | 1.2 | 2.1 | 2.1 | 3.5 | 3.2 | 2.2 | 1.9 |
| IIb | 05-005 | 21.9 | 1.7 | 1.9 | 1.4 | 1.3 | 2.0 | 2.0 | 3.1 | 3.2 | 1.8 | 1.8 |
| IIb | 20-042 | 35.9 | 1.8 | 1.6 | 1.6 | 1.5 | 2.9 | 1.9 | 3.9 | 3.1 | 2.3 | 2.0 |
| IIb | 06-004 | 43.5 | 1.9 | 2.1 | 1.1 | 1.1 | 2.1 | 2.0 | 3.8 | 4.2 | 1.8 | 1.9 |
| IIb | 20-178 | 27.3 | 0.9 | 1.2 | 1.1 | 1.3 | 2.1 | 2.0 | 6.0 | 4.2 | 1.9 | 2.1 |
| IIb | 06-015 | 44 | 1.2 | 1.3 | 1.2 | 1.0 | 2.3 | 2.1 | 3.8 | 3.9 | 2.1 | 1.9 |
| IIb | 20-128 | 39.3 | 2.3 | 2.0 | 1.5 | 1.5 | 2.7 | 1.6 | 6.2 | 3.9 | 1.4 | 1.7 |
| IIb | 08-005 | 27.4 | 1.3 | 1.4 | 1.2 | 1.3 | 2.4 | 2.0 | 7.0 | 5.7 | 1.3 | 1.3 |
| IIb | 06-008 | 36.3 | 1.2 | 1.1 | 1.4 | 1.2 | 2.2 | 2.0 | 3.0 | 2.9 | 2.3 | 1.9 |
| IIb | 08-004 | 33.5** | 1.7 | 1.9 | 1.2 | 1.2 | 2.8 | 2.8 | 2.8 | 2.8 | 2.0 | 1.8 |
| IIb | 04-035 | 43 | 1.8 | 2.1 | 1.1 | 1.3 | 2.1 | 2.2 | 3.0 | 2.7 | 2.0 | 1.9 |
| IIb | 06-047 | 35.8 | 2.0 | 1.9 | 1.4 | 1.2 | 2.2 | 2.0 | 2.7 | 2.8 | 2.1 | 1.8 |
| IIb | 06-038 | 39.6 | 2.0 | 2.1 | 1.1 | 1.1 | 2.2 | 2.1 | 3.3 | 3.4 | 1.5 | 1.4 |
| IIb | 01-091 | 44 | 1.9 | 2.0 | 1.2 | 1.4 | 2.1 | 2.1 | 4.6 | 3.8 | 1.5 | 1.7 |
| IIb | 06-045 | 31.1 | 1.8 | 1.8 | 1.6 | 1.5 | 2.2 | 2.0 | 4.1 | 3.8 | 1.7 | 1.5 |
Copy number values of 64 UM measured with both SNP and dPCR analysis. Fractional abundance (FA) denotes the fraction of mutant alleles.
*
Chromosome 5 imbalance, TTC5 copy number used as reference.
**
FA values were calculated with copy number analysis.