A Population Genetics-Phylogenetics Approach to Inferring Natural Selection in Coding Sequences

Correlated Evolution of Nearby Residues in Drosophilid Proteins

(2011) Benjamin Callahan et al.   PLoS Genetics

Effective Population Size and the Efficacy of Selection on the X Chromosomes of Two Closely Related Drosophila Species

(2010) Peter Andolfatto et al.   Genome Biology and Evolution

A Population Genetic Hidden Markov Model for Detecting Genomic Regions Under Selection

(2010) A. D. Kern et al.   MOLECULAR BIOLOGY AND EVOLUTION

Synonymous but not the same: the causes and consequences of codon bias

(2010) Joshua B. Plotkin et al.   NATURE REVIEWS GENETICS

Estimating the Rate of Adaptive Molecular Evolution in the Presence of Slightly Deleterious Mutations and Population Size Change

(2009) A. Eyre-Walker et al.   MOLECULAR BIOLOGY AND EVOLUTION

Pervasive Natural Selection in the Drosophila Genome?

(2009) Guy Sella et al.   PLoS Genetics

A flexible forward simulator for populations subject to selection and demography

(2008) R. D. Hernandez   BIOINFORMATICS

“REVERSE ECOLOGY” AND THE POWER OF POPULATION GENOMICS

(2008) Yong Fuga Li et al.   EVOLUTION

The Polymorphism Frequency Spectrum of Finitely Many Sites Under Selection

(2008) M. M. Desai et al.   GENETICS

Effects of X-Linkage and Sex-Biased Gene Expression on the Rate of Adaptive Protein Evolution in Drosophila

(2008) J. F. Baines et al.   MOLECULAR BIOLOGY AND EVOLUTION

The McDonald-Kreitman Test and Slightly Deleterious Mutations

(2008) J. Charlesworth et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Catalog of Neutral and Deleterious Polymorphism in Yeast

(2008) Scott W. Doniger et al.   PLoS Genetics

Assessing the Evolutionary Impact of Amino Acid Mutations in the Human Genome

(2008) Adam R. Boyko et al.   PLoS Genetics

The Population Genetics of dN/dS

(2008) Sergey Kryazhimskiy et al.   PLoS Genetics