HPV VIS Detail Information

> This page shows VIS [5002674] detail information, including site information (chromosome, GRCh38 location, disease, sample, etc) and literature information.

Site Information

DVID	5002674
VISID	TVIS20003990
Chromosome	chr7
GRCh38 Location	96645625
Disease	Head and neck squamous cell carcinoma
Sample	Tumor
Virus Reference Genome	Not given
Target Gene	SEM1

Literature Information

PubMed PMID	28928286
Published year	2018
Journal	Molecular cancer research : MCR
Title	HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers.
Author	Koneva LA,Zhang Y,Virani S,Hall PB,McHugh JB,Chepeha DB,Wolf GT,Carey TE,Rozek LS,Sartor MA
Evidence	Integration of the HPV genome into the host genome is a common event during carcinogenesis that has clinically relevant effects if the viral early genes are transcribed. Understanding the impact of HPV integration on clinical outcomes of head and neck squamous cell carcinoma (HNSCC) is critical for implementing deescalated treatment approaches for HPV(+) HNSCC patients. RNA sequencing (RNA-seq) data from HNSCC tumors (n = 84) were used to identify and characterize expressed integration events, which were overrepresented near known head and neck, lung, and urogenital cancer genes. Five genes were recurrent, including CD274 (PD-L1) A significant number of genes detected to have integration events were found to interact with Tp63, ETS, and/or FOX1A. Patients with no detected integration had better survival than integration-positive and HPV(-) patients. Furthermore, integration-negative tumors were characterized by strongly heightened signatures for immune cells, including CD4(+), CD3(+), regulatory, CD8(+) T cells, NK cells, and B cells, compared with integration-positive tumors. Finally, genes with elevated expression in integration-negative specimens were strongly enriched with immune-related gene ontology terms, while upregulated genes in integration-positive tumors were enriched for keratinization, RNA metabolism, and translation.Implications: These findings demonstrate the clinical relevancy of expressed HPV integration, which is characterized by a change in immune response and/or aberrant expression of the integration-harboring cancer-related genes, and suggest strong natural selection for tumor cells with expressed integration events in key carcinogenic genes.