Clinical metagenomic next-generation sequencing (mNGS), the comprehensive analysis of
microbial and host genetic material (DNA and RNA) in samples from patients, is rapidly …

Recent advances in the field of infectious disease diagnostics have given rise to a number of
host-and pathogen-centered diagnostic approaches. Most diagnostic approaches in …

SARS-CoV-2 infection has been shown to trigger a wide spectrum of immune responses
and clinical manifestations in human hosts. Here, we sought to elucidate novel aspects of …

Background Early and accurate identification of individuals with viral infections is crucial for
clinical management and public health interventions. We aimed to assess the ability of …

Simple Summary In a broad sense, genomic signature refers to characteristics associated to
DNA sequences. Many studies analyze genotype–phenotype patterns in a group of genes …

Abstract The Human Viral Challenge (HVC) model has, for many decades, helped in the
understanding of respiratory viruses and their role in disease pathogenesis. In a controlled …

We characterise the evolutionary dynamics of influenza infection described by viral
sequence data collected from two challenge studies conducted in human hosts. Viral …

Host-based diagnostics are a rapidly evolving field that may serve as an alternative to
traditional pathogen-based diagnostics for infectious diseases. Understanding the exact …

Human challenge models, in which volunteers are experimentally infected with a pathogen
of interest, provide the opportunity to directly identify both natural and vaccine-induced …

Given an infected host, estimating the time that has elapsed since initial exposure to the
pathogen is an important problem in public health. In this paper we use longitudinal gene …