Estimating the Rate of Intersubtype Recombination in Early HIV-1 Group M Strains

Origins of HIV and the AIDS Pandemic

(2013) P. M. Sharp et al.   Cold Spring Harbor Perspectives in Medicine

Molecular dating of human-to-bovid host jumps by Staphylococcus aureus reveals an association with the spread of domestication

(2012) L. A. Weinert et al.   Biology Letters

Estimating reassortment rates in co-circulating Eurasian swine influenza viruses

(2012) S. J. Lycett et al.   JOURNAL OF GENERAL VIROLOGY

Enrichment of intersubtype HIV-1 recombinants in a dual infection system using HIV-1 strain-specific siRNAs

(2011) Yong Gao et al.   Retrovirology

Endemic Dengue Associated with the Co-Circulation of Multiple Viral Lineages and Localized Density-Dependent Transmission

(2011) Jayna Raghwani et al.   PLoS Pathogens

Datamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology

(2010) W. Delport et al.   BIOINFORMATICS

Patterns of Human Immunodeficiency Virus Type 1 Recombination Ex Vivo Provide Evidence for Coadaptation of Distant Sites, Resulting in Purifying Selection for Intersubtype Recombinants during Replication

(2010) A. Galli et al.   JOURNAL OF VIROLOGY

GiRaF: robust, computational identification of influenza reassortments via graph mining

(2010) Niranjan Nagarajan et al.   NUCLEIC ACIDS RESEARCH

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Evolutionary history and dynamics of dog rabies virus in western and central Africa

(2009) C. Talbi et al.   JOURNAL OF GENERAL VIROLOGY

The Remarkable Frequency of Human Immunodeficiency Virus Type 1 Genetic Recombination

(2009) A. Onafuwa-Nuga et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Learning to Count: Robust Estimates for Labeled Distances between Molecular Sequences

(2009) J. D. O'Brien et al.   MOLECULAR BIOLOGY AND EVOLUTION

A new human immunodeficiency virus derived from gorillas

(2009) Jean-Christophe Plantier et al.   NATURE MEDICINE

Unifying Vertical and Nonvertical Evolution: A Stochastic ARG-based Framework

(2009) Erik W. Bloomquist et al.   SYSTEMATIC BIOLOGY

Bayesian Phylogeography Finds Its Roots

(2009) Philippe Lemey et al.   PLoS Computational Biology

Molecular Mechanisms of Recombination Restriction in the Envelope Gene of the Human Immunodeficiency Virus

(2009) Etienne Simon-Loriere et al.   PLoS Pathogens

Direct evidence of extensive diversity of HIV-1 in Kinshasa by 1960

(2008) Michael Worobey et al.   NATURE

Fast, accurate and simulation-free stochastic mapping

(2008) V. N Minin et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Identifying the Important HIV-1 Recombination Breakpoints

(2008) John Archer et al.   PLoS Computational Biology

Episodic Sexual Transmission of HIV Revealed by Molecular Phylodynamics

(2008) Fraser Lewis et al.   PLOS MEDICINE