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Introduction Oral human papillomavirus (HPV) attributable oropharyngeal cancers are on the rise in many countries. Oral HPV infections among healthy individuals are commonly detected using oral gargle samples. However, the optimal method for HPV genotyping oral gargle specimens in research studies has not been previously evaluated. Materials and methods Oral gargle samples from 1455 HPV Infection in Men (HIM) study participants were HPV genotyped using two different methods Linear Array and the SPF10 PCR-DEIA-LiPA25. The sensitivity of