Development of HPV-16 detection system from Formalin-fixed cancer tissue and its application for oral squamous cell carcinoma

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Development of HPV-16 detection system from Formalin-fixed cancer tissue and its application for ora...

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As a leading lab of retrovirology research, our lab focuses on disease pathogenesis, molecular detection of various pathogenic retroviruses.
Human papilloma virus (HPV), integrated to human genome, is most frequently associated with head and neck cancers while Oral cancer accounts for approximately 50% of head and neck cancers, with over 90% of oral cancers being oral squamous cell carcinoma (OSCC).
Our lab already developed a reliable detection system for HPV-16, a high-risk types of HPV from Formalin-fixed cancer tissue and its application for oral squamous cell carcinoma. In this research, we considered the sequence variability of HPV and also cover the entire HPV-16 genome to achieve better sensitivity.

Multiplex PCR covering the whole HPV genome overcome false-negative results.
ddPCR techonology calculated the absolute copy number of HPV and categorize the cases into (1) “HPV-16-positive cancer in a narrow sense”- High HPV copy number and (2) “HPV-16-positive cancer in a broad sense”- Low HPV copy number
DNA-capture seq idetified the integration site of HPV-16 into the intronic region of the host gene TMEM94 on chr17, oriented in an opposite direction in one clinical case. This is the first evidence showing the integration of HPV- 16 in OSCC cells and providing its complete viral sequence.