Addressing data management and analysis challenges in viral genomics: The Swiss HIV cohort study viral next generation sequencing database.

ABSTRACT: Numerous HIV related outcomes can be determined on the viral genome, for example, resistance associated mutations, population transmission dynamics, viral heritability traits, or time since infection. Viral sequences of people with HIV (PWH) are therefore essential for therapeutic and research purposes. While in the first three decades of the HIV pandemic viral genomes were mainly sequenced using Sanger sequencing, the last decade has seen a shift towards next-generation sequencing (NGS) as the preferred method. NGS can achieve near full length genome sequence coverage and simultaneously, it accurately encapsulates the within-host diversity by characterizing HIV subpopulations. NGS opens new avenues for HIV research, but it also presents challenges concerning data management and analysis.

SUBMITTER: Zeeb M 

PROVIDER: S-EPMC12011223 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature