Frequency matters: comparison of drug resistance mutation detection by Sanger and next-generation sequencing in HIV-1.
Suraj BalakrishnaTom LoosliMaryam ZaheriPaul FrischknechtMichael HuberKatharina KusejkoSabine YerlyKaroline LeuzingerMatthieu PerreauAlban RametteChris WymantChristophe FraserPaul KellamAstrid GallHans H HirschMarcel StoeckleAndri RauchMatthias CavassiniEnos BernasconiJulia NotterAlexandra CalmyHuldrych F GunthardKarin J MetznerRoger D KouyosPublished in: The Journal of antimicrobial chemotherapy (2023)
We found high concordance between SS and NGS but also a substantial number of low-abundance HIV-DRMs detected only by NGS at lower variant-calling thresholds. Our findings suggest that a substantial fraction of the low-abundance HIV-DRMs detected at thresholds <3% may represent sequencing errors and hence should not be overinterpreted in clinical practice.
Keyphrases
- antiretroviral therapy
- hiv positive
- hiv infected
- hiv testing
- human immunodeficiency virus
- hepatitis c virus
- hiv aids
- men who have sex with men
- clinical practice
- south africa
- antibiotic resistance genes
- copy number
- emergency department
- single cell
- dna methylation
- wastewater treatment
- adverse drug
- loop mediated isothermal amplification
- electronic health record
- drug induced
- anaerobic digestion