biostudies-literatureMainguene JAssociation pour la Recherche sur le CancerCancéropôle Ile de France3001-3016https://www.ebi.ac.uk/biostudies/studies/S-EPMC9394244biostudies-literatureUnknown16(16)A prevalence of around 26% of human papillomavirus (HPV) in head and neck squamous cell carcinoma (HNSCC) has been previously reported. HPV induced oncogenesis mainly involving E6 and E7 viral oncoproteins. In some cases, HPV viral DNA has been detected to integrate with the host genome and possibly contributes to carcinogenesis by affecting the gene expression. We retrospectively assessed HPV integration sites and signatures in 80 HPV positive patients with HNSCC, by using a double capture-HPV method followed by next-generation Sequencing. We detected HPV16 in 90% of the analyzed cohort and confirmed five previously described mechanistic signatures of HPV integration [episomal (EPI), integrated in a truncated form revealing two HPV-chromosomal junctions colinear (2J-COL) or nonlinear (2J-Molecular oncologyHuman papilloma virus integration sites and genomic signatures in head and neck squamous cell carcinoma.PMC9394244INCa‐DGOS‐4654Hamza ALarbi Cherif LCrozes CBorcoman EBieche IDelord JPLe Tourneau CDupain CSudaka ANicolas AMasliah-Planchon JJeannot EMainguene JModesto AKamal MIbadioune SLameiras SVacher SRouzier RServant NCourtois LSaada-Bouzid ELecerf CSaintigny PDubray-Vautrin AKlijanienko JCalugaru VDeloger MBaulande SCacheux WGirard EfalseHuman papilloma virus integration sites and genomic signatures in head and neck squamous cell carcinoma.A prevalence of around 26% of human papillomavirus (HPV) in head and neck squamous cell carcinoma (HNSCC) has been previously reported. HPV induced oncogenesis mainly involving E6 and E7 viral oncoproteins. In some cases, HPV viral DNA has been detected to integrate with the host genome and possibly contributes to carcinogenesis by affecting the gene expression. We retrospectively assessed HPV integration sites and signatures in 80 HPV positive patients with HNSCC, by using a double capture-HPV method followed by next-generation Sequencing. We detected HPV16 in 90% of the analyzed cohort and confirmed five previously described mechanistic signatures of HPV integration [episomal (EPI), integrated in a truncated form revealing two HPV-chromosomal junctions colinear (2J-COL) or nonlinear (2J-2022-01-01T00:00:00Z2022 Aug2026-06-01T02:21:19.255Z2025-04-04T14:21:18.088ZS-EPMC93942443539896410.1002/1878-0261.13219