Table 4. Regions of high level genome amplification detected in amplified or unamplified cancer cell line genomes.
| Cytobanda | Candidate geneb | Cell line | Quantitative numberc | Copy no. predictiond | |
|---|---|---|---|---|---|
| Unamplified | φ29MDA | ||||
| 11q13.3 | CCND1 | HCC1143 | 25.44 | 7 | 6 |
| 12q14.3 | DYRK2 | HCC1143 | 10.05 | 9 | 6 |
| 19q12 | CCNE1 | HCC1599 | 13.48 | 7 | 6 |
| 8q24.1 | MYC | HCC38 | 3.35 | 3 | 3 |
| 8q24.1 | MYC | HCC1937 | 3.69 | 3 | 4 |
| 8q24.1 | MYC | HCC1143 | 4.04 | 4 | 3 |
| 8q24.1 | MYC | HCC1599 | 4.69 | 4 | 4 |
| 8q24.1 | MYC | HCC2218 | 3.70 | 4 | 4 |
aCytoband is based on the hg15 golden path assembly (NCBI build 33) (http://genome.ucsc.edu/).
bThe gene is either within or very close to the predicted region.
cRepresents copy number estimated by quantitative real-time PCR.
dCopy numbers as predicted by hidden Markov modeling from SNP array intensity data analysis of unamplified and MDA DNA. Only cell line HCC1143 was denatured prior to amplification.