Evidence for Increased Levels of Positive and Negative Selection on the X Chromosome versus Autosomes in Humans

The human testis-specific proteome defined by transcriptomics and antibody-based profiling

(2014) D. Djureinovic et al.   MOLECULAR HUMAN REPRODUCTION

The genomic landscape of Neanderthal ancestry in present-day humans

(2014) Sriram Sankararaman et al.   NATURE

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

(2013) A. Kousathanas et al.   GENETICS

SLiM: Simulating Evolution with Selection and Linkage

(2013) Philipp W. Messer   GENETICS

Faster-X Adaptive Protein Evolution in House Mice

(2013) Athanasios Kousathanas et al.   GENETICS

Characterizing Bias in Population Genetic Inferences from Low-Coverage Sequencing Data

(2013) Eunjung Han et al.   MOLECULAR BIOLOGY AND EVOLUTION

Great ape genetic diversity and population history

(2013) Javier Prado-Martinez et al.   NATURE

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

Sex-Differential Selection and the Evolution of X Inactivation Strategies

(2013) Tim Connallon et al.   PLoS Genetics

Detection of Redundant Fusion Transcripts as Biomarkers or Disease-Specific Therapeutic Targets in Breast Cancer

(2012) Y. W. Asmann et al.   CANCER RESEARCH

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Adaptive Evolution and Effective Population Size in Wild House Mice

(2012) M. Phifer-Rixey et al.   MOLECULAR BIOLOGY AND EVOLUTION

Impact of Genetic Architecture on the Relative Rates of X versus Autosomal Adaptive Substitution

(2012) T. Connallon et al.   MOLECULAR BIOLOGY AND EVOLUTION

An integrated map of genetic variation from 1,092 human genomes

(2012)   NATURE

Rate of de novo mutations and the importance of father’s age to disease risk

(2012) Augustine Kong et al.   NATURE

SNP Calling, Genotype Calling, and Sample Allele Frequency Estimation from New-Generation Sequencing Data

(2012) Rasmus Nielsen et al.   PLoS One

Extensive X-linked adaptive evolution in central chimpanzees

(2012) C. Hvilsom et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Experimental mutation-accumulation on the X chromosome of Drosophila melanogaster reveals stronger selection on males than females

(2011) Martin A Mallet et al.   BMC EVOLUTIONARY BIOLOGY

Inference of Site Frequency Spectra From High-Throughput Sequence Data: Quantification of Selection on Nonsynonymous and Synonymous Sites in Humans

(2011) Peter D. Keightley et al.   GENETICS

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

(2011) Adrian Schneider et al.   GENETICS

Fitness Landscapes: An Alternative Theory for the Dominance of Mutation

(2011) Federico Manna et al.   GENETICS

Analyses of X-linked and autosomal genetic variation in population-scale whole genome sequencing

(2011) Srikanth Gottipati et al.   NATURE GENETICS

Variation in the mutation rate across mammalian genomes

(2011) Alan Hodgkinson et al.   NATURE REVIEWS GENETICS

Genotype and SNP calling from next-generation sequencing data

(2011) Rasmus Nielsen et al.   NATURE REVIEWS GENETICS

Demographic history and rare allele sharing among human populations

(2011) S. Gravel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sex-Averaged Recombination and Mutation Rates on the X Chromosome: A Comment on Labuda et al.

(2010) Kirk E. Lohmueller et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Inferences About the Distribution of Dominance Drawn From Yeast Gene Knockout Data

(2010) A. F. Agrawal et al.   GENETICS

The ratio of human X chromosome to autosome diversity is positively correlated with genetic distance from genes

(2010) Michael F Hammer et al.   NATURE GENETICS

Analysis of Genetic Inheritance in a Family Quartet by Whole-Genome Sequencing

(2010) J. C. Roach et al.   SCIENCE

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

(2009) Beatriz Vicoso et al.   EVOLUTION

EFFECTIVE POPULATION SIZE AND THE FASTER-X EFFECT: EMPIRICAL RESULTS AND THEIR INTERPRETATION

(2009) Judith E. Mank et al.   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

Autosomal Resequence Data Reveal Late Stone Age Signals of Population Expansion in Sub-Saharan African Foraging and Farming Populations

(2009) Murray P. Cox et al.   PLoS One

An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data

(2009) Daniel Ramsköld et al.   PLoS Computational Biology

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

A flexible forward simulator for populations subject to selection and demography

(2008) R. D. Hernandez   BIOINFORMATICS

The McDonald-Kreitman Test and Slightly Deleterious Mutations

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

Sex-Biased Evolutionary Forces Shape Genomic Patterns of Human Diversity

(2008) Michael F. Hammer et al.   PLoS Genetics

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

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