Table 3.
HPV16 variant analysis in oral rinse specimens from patients with HPV16-negative and -positive tumors and for corresponding HPV16-positive tumor samples
| Subject | Sample type | Day collected* | HPV16 Variant | Reference HPV16 E6 Sequence position, nt† | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 72 | 131 | 178 | 256 | 307 | 315 | 350 | 478 | 506 | ||||
| HPV16-positive tumors | G | A | T | C | G | C | T | C | C | |||
| 35 | Tumor | -- | E-350T | |||||||||
| Oral rinse | 0 | E-350T | ||||||||||
| 38 | Tumor | -- | Asian | G | ||||||||
| Oral rinse | 0 | Asian | G | |||||||||
| Oral rinse | 812 | E-350G | G | |||||||||
| 41 | Tumor | -- | E-350T | del | ||||||||
| Oral rinse | 674 | E-350T | del | |||||||||
| 48 | Tumor | -- | E-350T | |||||||||
| Oral rinse | 0 | E-350T | ||||||||||
| 50 | Tumor | -- | E-350G | G | ||||||||
| Oral rinse | 480 | E-350G | G | |||||||||
| 70 | Tumor | -- | E-G256T | T | G | |||||||
| Oral rinse | -41 | E-G256T | T | G | ||||||||
| 80 | Tumor | -- | E-350T | |||||||||
| Oral rinse | 144 | E-350T | ||||||||||
| 81 | Tumor | -- | E-T131G | G | ||||||||
| Oral rinse | -6 | E-350G | G | |||||||||
| 85 | Tumor | -- | E-T315G | G | ||||||||
| Oral rinse | 0 | E-T315G | G | |||||||||
| 102 | Tumor | -- | E-G506G | G | G | |||||||
| Oral rinse | 0 | E-G506G | G | G | ||||||||
| 123 | Tumor | -- | E-T131G | G | ||||||||
| Oral rinse | -6 | E-T131G | G | |||||||||
| Oral rinse | 234 | E-350G | G | |||||||||
| 124 | Tumor | -- | E-350T | |||||||||
| Oral rinse | -6 | E-350T | ||||||||||
| 127 | Tumor | -- | E-T307A | A | ||||||||
| Oral rinse | -7 | E-T307A | A | |||||||||
| 132 | Tumor | -- | E-T131G | G | ||||||||
| Oral rinse | -24 | E-T131G | G | |||||||||
| HPV16-negative tumors | ||||||||||||
| 30 | Oral rinse | 640 | E-350T | |||||||||
| 52 | Oral rinse | 0 | E-350T | |||||||||
| 96 | Oral rinse | 0 | E-T478A | A | ||||||||
*
Relative to date of start of therapy, equal to day 0.
†
Nucleotide found at specified position in the HPV16 European reference sequence (GenBank, NC 001526). HPV16 E6 coding region is nucleotides (nt) 83–559.