The lack of an identifiable intermediate host species for the proximal animal ancestor of
SARS-CoV-2, and the large geographical distance between Wuhan and where the closest …

Seasonal coronaviruses (OC43, 229E, NL63, and HKU1) are endemic to the human
population, regularly infecting and reinfecting humans while typically causing asymptomatic …

Seasonal influenza virus A/H3N2 is a major cause of death globally. Vaccination remains
the most effective preventative. Rapid mutation of hemagglutinin allows viruses to escape …

The rapid, global dispersion of SARS-CoV-2 has led to the emergence of a diverse range of
variants. Here, we describe how the mutational landscape of SARS-CoV-2 has shaped HLA …

Human immunodeficiency virus 1 (HIV) proviruses archived in the persistent reservoir
currently pose the greatest obstacle to HIV cure due to their evasion of combined …

The transmission process of an infectious agent creates a connected chain of hosts linked
by transmission events, known as a transmission chain. Reconstructing transmission chains …

Infectious disease dynamics are driven by the complex interplay of epidemiological,
ecological, and evolutionary processes. Accurately modeling these interactions is crucial for …

Genomics is fundamentally changing epidemiological research. However, systematically
exploring hypotheses in pathogen evolution requires new modeling tools. Models …

T cell recognition of SARS-CoV-2 antigens after vaccination and/or natural infection has
played a central role in resolving SARS-CoV-2 infections and generating adaptive immune …

The increasingly widespread application of next-generation sequencing (NGS) in clinical
diagnostics and epidemiological research has generated a demand for robust, fast …