Coronaviruses (CoVs) constitute a large and diverse subfamily of positive-sense single-
stranded RNA viruses. They are found in many mammals and birds and have great …

RNA viruses deserve their reputation as Nature's swiftest evolvers. Their high rates of
mutation and replication (Holland et al., 1982) allow them to move through sequence space …

The development of an effective human immunodeficiency virus type 1 (HIV-1) vaccine is
likely to depend on knowledge of circulating variants of genes other than the commonly …

This book is intended to provide fundamental statistical concepts and tools relevant to the
analysis of genetic data arising from population-based association studies. Elementary …

Macrophages have long been considered to contribute to HIV infection of the CNS; however,
a recent study has contradicted this early work and suggests that myeloid cells are not an in …

Recombination Detection Program (RDP) is a program that applies a pairwise scanning
approach to the detection of recombination amongst a group of aligned DNA sequences …

Recombination is a key evolutionary process that shapes the architecture of genomes and
the genetic structure of populations. Although many statistical methods are available for the …

Motivation: To devise a method that, unlike available methods, directly measures variations
in phylogenetic signals in gene sequences that result from recombination, tests the …

Metagenomic next-generation sequencing (mNGS), the shotgun sequencing of RNA and
DNA from clinical samples, has proved useful for broad-spectrum pathogen detection and …

HIV-1 sequences were analyzed to estimate the timing of the ancestral sequence of the
main group of HIV-1, the strains responsible for the AIDS pandemic. Using parallel …