Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes

THE EVOLUTIONARY DYNAMICS OF SEXUALLY ANTAGONISTIC MUTATIONS IN PSEUDOAUTOSOMAL REGIONS OF SEX CHROMOSOMES

(2014) Brian Charlesworth et al.   EVOLUTION

Signatures of Sex-Antagonistic Selection on Recombining Sex Chromosomes

(2014) Mark Kirkpatrick et al.   GENETICS

Old but Not (So) Degenerated—Slow Evolution of Largely Homomorphic Sex Chromosomes in Ratites

(2014) Homa Papoli Yazdi et al.   MOLECULAR BIOLOGY AND EVOLUTION

A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution

(2014) Takeshi Kawakami et al.   MOLECULAR ECOLOGY

Whole-genome sequence of a flatfish provides insights into ZW sex chromosome evolution and adaptation to a benthic lifestyle

(2014) Songlin Chen et al.   NATURE GENETICS

The Evolutionary Genomics of Birds

(2013) Hans Ellegren   Annual Review of Ecology Evolution and Systematics

Testing for the Footprint of Sexually Antagonistic Polymorphisms in the Pseudoautosomal Region of a Plant Sex Chromosome Pair

(2013) S. Qiu et al.   GENETICS

Improving the Accuracy and Efficiency of Identity-by-Descent Detection in Population Data

(2013) B. L. Browning et al.   GENETICS

Transcriptome Sequencing Reveals the Character of Incomplete Dosage Compensation across Multiple Tissues in Flycatchers

(2013) Severin Uebbing et al.   Genome Biology and Evolution

Genome-wide evidence for speciation with gene flow inHeliconiusbutterflies

(2013) Simon H. Martin et al.   GENOME RESEARCH

Twisted Signatures of GC-Biased Gene Conversion Embedded in an Evolutionary Stable Karyotype

(2013) Carina F. Mugal et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Shared Genome Is a Pervasive Constraint on the Evolution of Sex-Biased Gene Expression

(2013) R. M. Griffin et al.   MOLECULAR BIOLOGY AND EVOLUTION

Recombination in the threespine stickleback genome-patterns and consequences

(2013) Marius Roesti et al.   MOLECULAR ECOLOGY

Y-chromosome evolution: emerging insights into processes of Y-chromosome degeneration

(2013) Doris Bachtrog   NATURE REVIEWS GENETICS

Sex-biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution

(2013) B. Vicoso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative Sex Chromosome Genomics in Snakes: Differentiation, Evolutionary Strata, and Lack of Global Dosage Compensation

(2013) Beatriz Vicoso et al.   PLOS BIOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Trade-off Between Selection for Dosage Compensation and Masculinization on the Avian Z Chromosome

(2012) Alison E. Wright et al.   GENETICS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Recombination Drives Vertebrate Genome Contraction

(2012) Kiwoong Nam et al.   PLoS Genetics

Error-Prone ZW Pairing and No Evidence for Meiotic Sex Chromosome Inactivation in the Chicken Germ Line

(2012) Silvana Guioli et al.   PLoS Genetics

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Small but mighty: the evolutionary dynamics of W and Y sex chromosomes

(2011) Judith E. Mank   CHROMOSOME RESEARCH

THE POTENTIAL FOR SEXUALLY ANTAGONISTIC POLYMORPHISM IN DIFFERENT GENOME REGIONS

(2011) Crispin Y. Jordan et al.   EVOLUTION

Significant Selective Constraint at 4-Fold Degenerate Sites in the Avian Genome and Its Consequence for Detection of Positive Selection

(2011) Axel Künstner et al.   Genome Biology and Evolution

Dynamic Evolution of Base Composition: Causes and Consequences in Avian Phylogenomics

(2011) B. Nabholz et al.   MOLECULAR BIOLOGY AND EVOLUTION

Heteromorphic sex chromosomes: Navigating meiosis without a homologous partner

(2011) Paula M. Checchi et al.   MOLECULAR REPRODUCTION AND DEVELOPMENT

Sex-chromosome evolution: recent progress and the influence of male and female heterogamety

(2011) Hans Ellegren   NATURE REVIEWS GENETICS

The Pseudoautosomal Region and Sex Chromosome Aneuploidies in Domestic Species

(2011) T. Raudsepp et al.   Sexual Development

About PAR: The distinct evolutionary dynamics of the pseudoautosomal region

(2011) Sarah P. Otto et al.   TRENDS IN GENETICS

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Patterns of Neutral Genetic Variation on Recombining Sex Chromosomes

(2010) M. Kirkpatrick et al.   GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

The genome of a songbird

(2010) Wesley C. Warren et al.   NATURE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Female Meiotic Sex Chromosome Inactivation in Chicken

(2009) Sam Schoenmakers et al.   PLoS Genetics

The human pseudoautosomal regions: a review for genetic epidemiologists

(2008) Antonia Flaquer et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

The Temporal Dynamics of Processes Underlying Y Chromosome Degeneration

(2008) D. Bachtrog   GENETICS

The Chicken (Gallus gallus) Z Chromosome Contains at Least Three Nonlinear Evolutionary Strata

(2008) K. Nam et al.   GENETICS

The Impact of Recombination on Nucleotide Substitutions in the Human Genome

(2008) Laurent Duret et al.   PLoS Genetics