Rational genomic optimization of DNA detection for human papillomavirus type 16 in head and neck squamous cell carcinoma.
Head Neck
; 42(4): 688-697, 2020 04.
Article
en En
| MEDLINE
| ID: mdl-31850594
ABSTRACT
BACKGROUND:
We aimed to use genomic data for optimizing polymerase chain reaction (PCR) primer/probe sets for detection of human papillomavirus (HPV)-16 in body fluids of patients with HPV-related head and neck squamous cell carcinoma (HPV-HNSCC).METHODS:
We used genomic HPV-HNSCC sequencing data from a single institutional and a TCGA cohort. Optimized primer/probe sets were designed and tested for analytical performance in CaSki HPV-16 genome and confirmed in salivary rinse samples from patients with HPV-HNSCC.RESULTS:
The highest read density was observed between E5 and L2 regions. The E1 region contained a region that was universally present. Among candidate PCR primer/probe sets created, six reliably detected 30 HPV-16 copy number. In a CLIA certified laboratory setting, the combination of two novel primer/probe with E7 sets improved performance in salivary rinse samples with a sensitivity of 96% and specificity of 100%.CONCLUSIONS:
PCR-based detection of HPV-16 DNA in HPV-HNSCC can be improved using rational genomic design.Palabras clave
Texto completo:
1
Bases de datos:
MEDLINE
Asunto principal:
Infecciones por Papillomavirus
/
Neoplasias de Cabeza y Cuello
Tipo de estudio:
Diagnostic_studies
Límite:
Humans
Idioma:
En
Revista:
Head Neck
Asunto de la revista:
NEOPLASIAS
Año:
2020
Tipo del documento:
Article