Table 4.
Copy number variations (CNV) across TCGA studies. Comparison of CNV frequencies across genetic loci in HNSCC, cervical and lung squamous cell carcinoma. Amplification of the 11q13 locus is significantly higher in HNSCC in comparison with cervical and lung SCCs (p < 0.001).
| HNSCC (n = 522) | Cervical (n = 295) | Lung (n = 501) | |
|---|---|---|---|
| 9p21 (CDKN2A, CDKN2B) | 27.7%–31.3% | 0.3% | 23.0%–27.6% |
| Deletion | Deletion | Deletion | |
| 11q13 (FGF3/4/19,CCND1) | 23.4%–24.2% | 2.9%–10.4% | 14.1%–14.3% |
| Amplification | Amplification | Amplification | |
| 3q28 (TP63, EIF4A2, FGF12) | 18.7%–21.5% | 19.2%–21.4% | 38.9%–41.9% |
| Amplification | Amplification | Amplification | |
| 3q26 (SOX2, PIK3CA) | 18.7%%–20.8% | 19.5%–21.1% | 43.5%–48.0% |
| Amplification | Amplification | Amplification | |
| 8q24 (MYC, PLEC, EPPK1) | 8.3%–12.3% | 2.6%–4.9% | 6.9%–10.5% |
| Amplification | Amplification | Amplification |