Phylogenetic patterns recover known HIV epidemiological relationships and reveal common transmission of multiple variants.

ABSTRACT: The growth of human immunodeficiency virus (HIV) sequence databases resulting from drug resistance testing has motivated efforts using phylogenetic methods to assess how HIV spreads^1-4. Such inference is potentially both powerful and useful for tracking the epidemiology of HIV and the allocation of resources to prevention campaigns. We recently used simulation and a small number of illustrative cases to show that certain phylogenetic patterns are associated with different types of epidemiological linkage⁵. Our original approach was later generalized for large next-generation sequencing datasets and implemented as a free computational pipeline⁶. Previous work has claimed that direction and directness of transmission could not be established from phylogeny be

SUBMITTER: Leitner T 

PROVIDER: S-EPMC6442454 | biostudies-literature | 2018 Sep

REPOSITORIES: biostudies-literature