Loss and Recovery of Genetic Diversity in Adapting Populations of HIV

HIV Populations Are Large and Accumulate High Genetic Diversity in a Nonlinear Fashion

(2013) F. Maldarelli et al.   JOURNAL OF VIROLOGY

The role of mutational robustness in RNA virus evolution

(2013) Adam S. Lauring et al.   NATURE REVIEWS MICROBIOLOGY

Deleterious Alleles in the Human Genome Are on Average Younger Than Neutral Alleles of the Same Frequency

(2013) Adam Kiezun et al.   PLoS Genetics

Dynamic Mutation-Selection Balance as an Evolutionary Attractor

(2012) S. Goyal et al.   GENETICS

Genetic Diversity and the Structure of Genealogies in Rapidly Adapting Populations

(2012) M. M. Desai et al.   GENETICS

Ultrasensitive Allele-Specific PCR Reveals Rare Preexisting Drug-Resistant Variants and a Large Replicating Virus Population in Macaques Infected with a Simian Immunodeficiency Virus Containing Human Immunodeficiency Virus Reverse Transcriptase

(2012) V. F. Boltz et al.   JOURNAL OF VIROLOGY

Distribution of fixed beneficial mutations and the rate of adaptation in asexual populations

(2012) B. H. Good et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Standing Genetic Variation and the Evolution of Drug Resistance in HIV

(2012) Pleuni Simone Pennings   PLoS Computational Biology

Limits to the Rate of Adaptive Substitution in Sexual Populations

(2012) Daniel B. Weissman et al.   PLoS Genetics

The Structure of Genealogies in the Presence of Purifying Selection: A Fitness-Class Coalescent

(2011) Aleksandra M. Walczak et al.   GENETICS

Emergent Neutrality in Adaptive Asexual Evolution

(2011) Stephan Schiffels et al.   GENETICS

A Simple Method for Finding Explicit Analytic Transition Densities of Diffusion Processes with General Diploid Selection

(2011) Y. S. Song et al.   GENETICS

Genetic Draft and Quasi-Neutrality in Large Facultatively Sexual Populations

(2011) R. A. Neher et al.   GENETICS

Cryptic genetic variation promotes rapid evolutionary adaptation in an RNA enzyme

(2011) Eric J. Hayden et al.   NATURE

Mutation of HIV-1 Genomes in a Clinical Population Treated with the Mutagenic Nucleoside KP1461

(2011) James I. Mullins et al.   PLoS One

Estimate of effective recombination rate and average selection coefficient for HIV in chronic infection

(2011) R. Batorsky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nature, Position, and Frequency of Mutations Made in a Single Cycle of HIV-1 Replication

(2010) M. E. Abram et al.   JOURNAL OF VIROLOGY

Interplay between RNA Structure and Protein Evolution in HIV-1

(2010) R. Sanjuan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Multi-site adaptation in the presence of infrequent recombination

(2010) Igor M. Rouzine et al.   THEORETICAL POPULATION BIOLOGY

Recombination Rate and Selection Strength in HIV Intra-patient Evolution

(2010) Richard A. Neher et al.   PLoS Computational Biology

Evidence that Adaptation in Drosophila Is Not Limited by Mutation at Single Sites

(2010) Talia Karasov et al.   PLoS Genetics

Rate of Adaptation in Large Sexual Populations

(2009) R. A. Neher et al.   GENETICS

Proportionally more deleterious genetic variation in European than in African populations

(2008) Kirk E. Lohmueller et al.   NATURE

The traveling-wave approach to asexual evolution: Muller's ratchet and speed of adaptation

(2007) Igor M. Rouzine et al.   THEORETICAL POPULATION BIOLOGY