Table 1. Summary of confirmed rearrangements in NCI-H2171 and NCI-H1770.
| NCI-H2171 | NCI-H1770 | |
|---|---|---|
| Somatic rearrangements | 81 | 22 |
| Intrachromosomal | 59 | 22 |
| Deletions | 2 | 0 |
| Tandem duplications | 9 | 2 |
| Inversions | 2 | 1 |
| Inverted duplication | 2a | 0 |
| Within an amplicon | 44 | 19 |
| Interchromosomal | 22 | 0 |
| Between amplicons | 15 | 0 |
| Amplicon to nonamplified region | 7 | 0 |
| Outside amplicons | 0 | 0 |
| Germline rearrangements | 244 | 62 |
| Intrachromosomal | 243 | 62 |
| Deletions | 233 | 58b |
| AluY elements | 136 | 20 |
| Other Alu elements | 8 | 1 |
| LINE elements | 29 | 9 |
| Other repeats | 8 | 3 |
| Not repeat mediated | 52 | 25 |
| Tandem duplications | 1 | 4 |
| Inversions | 9 | 2 |
| Interchromosomal | 1 | 0 |
a
The two breakpoints identified represent both ends of the same inverted duplication (see Supplementary Table 2).
b
Not all apparent deletions <1kb were screened in NCI-H1770 because of the high frequency of germline AluY deletions in NCI-H2171.