title: Comparison of Hybribio GenoArray and Roche human papillomavirus (HPV) linear array for HPV genotyping in anal swab samples.
abstract: Human papillomavirus (HPV) is causally associated with anal cancer, as HPV DNA is detected in up to 90% of anal intraepithelial neoplasias and anal cancers. With the gradual increase of anal cancer rates, there is a growing need to establish reliable and clinically relevant methods to detect anal cancer precursors. In resource-limited settings, HPV DNA detection is a potentially relevant tool for anal cancer screening. Here, we evaluated the performance of the Hybribio GenoArray (GA) for genotyping HPV in anal samples, against the reference standard Roche Linear Array (LA). Anal swab samples were obtained from sexually active men who have sex with men. Following DNA extraction, each sample was genotyped using GA and LA. The overall interassay agreement, type-specific, and single and multiple genotype agreements were evaluated by kappa statistics and McNemar's χ(2) tests. Using GA and LA, 68% and 76% of samples were HPV DNA positive, respectively. There was substantial interassay agreements for the detection of all HPV genotypes (κ = 0.70, 86% agreement). Although LA was able to detect more genotypes per sample, the interassay agreement was acceptable (κ = 0.53, 63% agreement). GA had poorer specific detection of HPV genotypes 35, 42, and 51 (κ < 0.60). In conclusion, GA and LA showed good interassay agreement for the detection of most HPV genotypes in anal samples. However, the detection of HPV DNA in up to 76% of anal samples warrants further evaluation of its clinical significance.
authors.affiliation: Centre of Excellence for Research in AIDS, Faculty of Medicine, University of Malaya, Kuala Lumpur, Malaysia hueychi@um.edu.my.
authors.forename: Huey Chi
authors.identifier: http://orcid.org/0000-0003-1341-4467
authors.initials: HC
authors.lastname: Low
authors.affiliation: Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, USA.
authors.forename: Michelle I
authors.initials: MI
authors.lastname: Silver
authors.affiliation: Department of Population Health and Disease Prevention, University of California Irvine, Irvine, California, USA.
authors.forename: Brandon J
authors.initials: BJ
authors.lastname: Brown
authors.affiliation: Centre of Excellence for Research in AIDS, Faculty of Medicine, University of Malaya, Kuala Lumpur, Malaysia.
authors.forename: Chan Yoon
authors.initials: CY
authors.lastname: Leng
authors.affiliation: Epidemiology, STD and HIV Unit, School of Public Health and Administration, Universidad Peruana Cayetano Heredia, Lima, Peru.
authors.forename: Magaly M
authors.initials: MM
authors.lastname: Blas
authors.affiliation: Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, USA Perdana University Graduate School of Medicine, Serdang, Selangor, Malaysia Department of Pathology, University of New Mexico Health Sciences Center, Albuquerque, New Mexico, USA.
authors.forename: Patti E
authors.initials: PE
authors.lastname: Gravitt
authors.affiliation: Centre of Excellence for Research in AIDS, Faculty of Medicine, University of Malaya, Kuala Lumpur, Malaysia Department of Obstetrics and Gynecology, University of Malaya, Kuala Lumpur, Malaysia.
authors.forename: Yin Ling
authors.initials: YL
authors.lastname: Woo
mesh_terms: D001003:Anal Canal / Q000821:virology*; D001005:Anus Neoplasms / Q000175:diagnosis* / Q000821:virology; D055088:Early Detection of Cancer / Q000379:methods*; D060005:Genotyping Techniques / Q000379:methods*; D018451:Homosexuality, Male; D006801:Humans; D008297:Male; D027383:Papillomaviridae / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*; D030361:Papillomavirus Infections / Q000150:complications / Q000821:virology*