Plasmodium spp. parasites that cause malaria disease remain a significant global-health
burden. With the spread of parasites resistant to artemisinin combination therapies in …

Abstract The development of High-Throughput Sequencing (HTS) technologies is having a
major impact on the genomic analysis of viral populations. Current HTS platforms can …

Monitoring the spread of SARS-CoV-2 and reconstructing transmission chains has become
a major public health focus for many governments around the world. The modest mutation …

The large amount and diversity of viral genomic datasets generated by next-generation
sequencing technologies poses a set of challenges for computational data analysis …

Background Human immunodeficiency virus type 1 (HIV-1) genetic diversity increases over
the course of infection and can be used to infer the time since infection and, consequently …

Because HIV is a fast-evolving virus, HIV genomic sequences of several individuals can be
used to investigate whether they belong to a transmission network. Since the infamous …

Most HIV-1 infected individuals do not know their infection dates. Precise infection timing is
crucial information for studies that document transmission networks or drug levels at …

Background: Migrant populations are overrepresented among persons diagnosed with HIV
in the European Union and the European Economic Area. Understanding the timing of HIV …

Variants of severe acute respiratory syndrome coronavirus 2 frequently arise within infected
individuals. Here, we explored the level and pattern of intra-host viral diversity in association …

Clinical trials for HIV prevention can require knowledge of infection times to subsequently
determine protective drug levels. Yet, infection timing is difficult when study visits are sparse …