Table 2 CNA region summaries of FFPE/EV samples for each patient, with overlapped CNA regions (in both number of regions and number of basepairs), with correlation value (r) and p values.
Study ID | Tumor | CNA regions (number of region/basepair) | Overlapped CNA region (number of region/basepair) | Correlation value (r =) | Regions with significant deletion/duplication | ||
|---|---|---|---|---|---|---|---|
FFPE | EV | FFPE | EV | ||||
B005 | mBOT SCC HPV + | 50 2.6 × 109 | 16 6.2 × 108 | 7 6 × 108 | − 0.49 (p = 0.31) | Deletion: 3p and 8p Duplication: 3q, 5p and 8q, 20p, 20q | Deletion: 15p Duplication: 7q, 14q and 15q |
B010 | mBOT SCC HPV + | 17 1.1 × 109 | 11 4.2 × 108 | 2 1.6 × 108 | 0.98 (p = 0.41) | Deletion: 1q Duplication: 8q, 11q, 20q | Deletion: 1q, 4p, 6q Duplication: 1q, 8q, 14q, 17q |
B014 | mBOT SCC HPV − | 27 2.5 × 109 | 7 2.9 × 108 | 0 2.2 × 108 | − 0.08 (p = 0.48) | Deletion: 11q, 14q Duplication: 3q | Deletion: 15q Duplication: 5q14p |
C004 | mcSCC | 30 1.7 × 109 | 19 9.5 × 108 | 11 5.1 × 108 | 0.88 (p = 0.19) | Deletion: 8p Duplication: 7p, 8q, 20p | Deletion: 8p Duplication: 1p, 3p, 15q, 17q, 20q |
C008 | mcSCC | 28 1.6 × 109 | 31 1.5 × 109 | 21 1.4 × 109 | 0.42 (p = 0.86) | Deletion: 4q, 9p, 11q Duplication: 7p, 8q, 9q, 14q, 20p | Deletion: 2q, 4q, 6q, 8p, 11q Duplication: 5p, 14q, 15q |
