The Relation between Recombination Rate and Patterns of Molecular Evolution and Variation in Drosophila melanogaster

Rates and Genomic Consequences of Spontaneous Mutational Events in Drosophila melanogaster

(2013) Daniel R. Schrider et al.   GENETICS

A Comparison of Models to Infer the Distribution of Fitness Effects of New Mutations

(2013) A. Kousathanas et al.   GENETICS

Genomic signatures of selection at linked sites: unifying the disparity among species

(2013) Asher D. Cutter et al.   NATURE REVIEWS GENETICS

Frequent adaptation and the McDonald-Kreitman test

(2013) P. W. Messer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The faster-X effect: integrating theory and data

(2013) Richard P. Meisel et al.   TRENDS IN GENETICS

Strong Purifying Selection at Synonymous Sites in D. melanogaster

(2013) David S. Lawrie et al.   PLoS Genetics

Contributions of Protein-Coding and Regulatory Change to Adaptive Molecular Evolution in Murid Rodents

(2013) Daniel L. Halligan et al.   PLoS Genetics

THE RELATION BETWEEN THE NEUTRALITY INDEX FOR MITOCHONDRIAL GENES AND THE DISTRIBUTION OF MUTATIONAL EFFECTS ON FITNESS

(2012) Andrea J. Betancourt et al.   EVOLUTION

The Role of Background Selection in Shaping Patterns of Molecular Evolution and Variation: Evidence from Variability on the Drosophila X Chromosome

(2012) B. Charlesworth   GENETICS

Genomic Variation in Natural Populations of Drosophila melanogaster

(2012) C. H. Langley et al.   GENETICS

Molecular Evolution in Nonrecombining Regions of the Drosophila melanogaster Genome

(2012) José L. Campos et al.   Genome Biology and Evolution

A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence

(2012) T. T. Hu et al.   GENOME RESEARCH

A coalescent model of background selection with recombination, demography and variation in selection coefficients

(2012) K Zeng   HEREDITY

Codon Usage Bias and Effective Population Sizes on the X Chromosome versus the Autosomes in Drosophila melanogaster

(2012) Jose L. Campos et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Drosophila melanogaster Genetic Reference Panel

(2012) Trudy F. C. Mackay et al.   NATURE

Genome-Wide Fine-Scale Recombination Rate Variation in Drosophila melanogaster

(2012) Andrew H. Chan et al.   PLoS Genetics

The Many Landscapes of Recombination in Drosophila melanogaster

(2012) Josep M. Comeron et al.   PLoS Genetics

Population Genomics of Inversion Polymorphisms in Drosophila melanogaster

(2012) Russell B. Corbett-Detig et al.   PLoS Genetics

Population Genomics of Sub-Saharan Drosophila melanogaster: African Diversity and Non-African Admixture

(2012) John E. Pool et al.   PLoS Genetics

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

A Method for Inferring the Rate of Occurrence and Fitness Effects of Advantageous Mutations

(2011) Adrian Schneider et al.   GENETICS

Quantifying the Variation in the Effective Population Size Within a Genome

(2011) Toni I. Gossmann et al.   GENETICS

How closely does genetic diversity in finite populations conform to predictions of neutral theory? Large deficits in regions of low recombination

(2011) R Frankham   HEREDITY

Natural Selection in Gene-Dense Regions Shapes the Genomic Pattern of Polymorphism in Wild and Domesticated Rice

(2011) J. M. Flowers et al.   MOLECULAR BIOLOGY AND EVOLUTION

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals

(2011) Robert Kofler et al.   PLoS One

Drosophila melanogaster recombination rate calculator

(2010) Anna-Sophie Fiston-Lavier et al.   GENE

Estimating the Parameters of Selection on Nonsynonymous Mutations in Drosophila pseudoobscura and D. miranda

(2010) P. R. Haddrill et al.   GENETICS

The Effects of Demography and Linkage on the Estimation of Selection and Mutation Parameters

(2010) K. Zeng et al.   GENETICS

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

A Simple Multiallele Model and Its Application to Identifying Preferred-Unpreferred Codons Using Polymorphism Data

(2010) K. Zeng   MOLECULAR BIOLOGY AND EVOLUTION

Genome Wide Analyses Reveal Little Evidence for Adaptive Evolution in Many Plant Species

(2010) T. I. Gossmann et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetic hitchhiking versus background selection: the controversy and its implications

(2010) W. Stephan   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

Reduced Effectiveness of Selection Caused by a Lack of Recombination

(2009) Andrea J. Betancourt et al.   CURRENT BIOLOGY

EFFECTIVE POPULATION SIZE AND THE FASTER-X EFFECT: AN EXTENDED MODEL

(2009) Beatriz Vicoso et al.   EVOLUTION

Gene Genealogies Strongly Distorted by Weakly Interfering Mutations in Constant Environments

(2009) J. Seger et al.   GENETICS

Measuring the degree of starshape in genealogies – summary statistics and demographic inference

(2009) KONRAD LOHSE et al.   Genetics Research

Recombination Yet Inefficient Selection along the Drosophila melanogaster Subgroup's Fourth Chromosome

(2009) J. Roman Arguello et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

Mistranslation-Induced Protein Misfolding as a Dominant Constraint on Coding-Sequence Evolution

(2008) D. Allan Drummond et al.   CELL

High DNA Sequence Diversity in Pericentromeric Genes of the Plant Arabidopsis lyrata

(2008) Akira Kawabe et al.   GENETICS

Molecular Population Genetics of Drosophila Subtelomeric DNA

(2008) Jennifer A. Anderson et al.   GENETICS

The Impact of Founder Events on Chromosomal Variability in Multiply Mating Species

(2008) J. E. Pool et al.   MOLECULAR BIOLOGY AND EVOLUTION

The McDonald-Kreitman Test and Slightly Deleterious Mutations

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

The effects of deleterious mutations on evolution in non-recombining genomes

(2008) Vera B. Kaiser et al.   TRENDS IN GENETICS

An Approximate Bayesian Estimator Suggests Strong, Recurrent Selective Sweeps in Drosophila

(2008) Jeffrey D. Jensen et al.   PLoS Genetics

Contrasting the Efficacy of Selection on the X and Autosomes in Drosophila

(2007) N. D. Singh et al.   MOLECULAR BIOLOGY AND EVOLUTION