Convergent origination of aDrosophila-like dosage compensation mechanism in a reptile lineage

The life history of retrocopies illuminates the evolution of new mammalian genes

(2016) Francesco Nicola Carelli et al.   GENOME RESEARCH

Conservation of sex chromosomes in lacertid lizards

(2016) Michail Rovatsos et al.   MOLECULAR ECOLOGY

Histone H3 globular domain acetylation identifies a new class of enhancers

(2016) Madapura M Pradeepa et al.   NATURE GENETICS

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Evolutionary trajectories of snake genes and genomes revealed by comparative analyses of five-pacer viper

(2016) Wei Yin et al.   Nature Communications

Meiotic Silencing in Mammals

(2015) James M.A. Turner   Annual Review of Genetics

Reptilian Transcriptomes v2.0: An Extensive Resource for Sauropsida Genomics and Transcriptomics

(2015) Athanasia C. Tzika et al.   Genome Biology and Evolution

Increased Expression of X-Linked Genes in Mammals Is Associated with a Higher Stability of Transcripts and an Increased Ribosome Density

(2015) Marie-Line Faucillion et al.   Genome Biology and Evolution

Purifying Selection Maintains Dosage-Sensitive Genes during Degeneration of the Threespine Stickleback Y Chromosome

(2015) Michael A. White et al.   MOLECULAR BIOLOGY AND EVOLUTION

Restriction Site-Associated DNA Sequencing (RAD-seq) Reveals an Extraordinary Number of Transitions among Gecko Sex-Determining Systems

(2015) Tony Gamble et al.   MOLECULAR BIOLOGY AND EVOLUTION

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Ensembl 2016

(2015) Andrew Yates et al.   NUCLEIC ACIDS RESEARCH

Numerous Transitions of Sex Chromosomes in Diptera

(2015) Beatriz Vicoso et al.   PLOS BIOLOGY

Sex chromosome-to-autosome transposition events counter Y-chromosome gene loss in mammals

(2015) Jennifer F Hughes et al.   GENOME BIOLOGY

High-coverage sequencing and annotated assembly of the genome of the Australian dragon lizard Pogona vitticeps

(2015) Arthur Georges et al.   GigaScience

Cretaceous park of sex determination: sex chromosomes are conserved across iguanas

(2014) M. Rovatsos et al.   Biology Letters

CONSERVED SEX CHROMOSOMES ACROSS ADAPTIVELY RADIATEDANOLISLIZARDS

(2014) Michail Rovatsos et al.   EVOLUTION

Mammalian Y chromosomes retain widely expressed dosage-sensitive regulators

(2014) Daniel W. Bellott et al.   NATURE

Origins and functional evolution of Y chromosomes across mammals

(2014) Diego Cortez et al.   NATURE

The evolution of lncRNA repertoires and expression patterns in tetrapods

(2014) Anamaria Necsulea et al.   NATURE

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

Evolutionary dynamics of coding and non-coding transcriptomes

(2014) Anamaria Necsulea et al.   NATURE REVIEWS GENETICS

A Y-chromosome-encoded small RNA acts as a sex determinant in persimmons

(2014) T. Akagi et al.   SCIENCE

Complex evolutionary trajectories of sex chromosomes across bird taxa

(2014) Q. Zhou et al.   SCIENCE

Novel X-Linked Genes Revealed by Quantitative Polymerase Chain Reaction in the Green Anole, Anolis carolinensis

(2014) Michail Rovatsos et al.   G3-Genes Genomes Genetics

Sex Determination: Why So Many Ways of Doing It?

(2014) Doris Bachtrog et al.   PLOS BIOLOGY

Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes

(2013) Walter L Eckalbar et al.   BMC GENOMICS

ANOLISSEX CHROMOSOMES ARE DERIVED FROM A SINGLE ANCESTRAL PAIR

(2013) Tony Gamble et al.   EVOLUTION

H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction

(2013) G. C. A. Taylor et al.   GENOME RESEARCH

Efficient identification of Y chromosome sequences in the human andDrosophilagenomes

(2013) Antonio Bernardo Carvalho et al.   GENOME RESEARCH

The draft genomes of soft-shell turtle and green sea turtle yield insights into the development and evolution of the turtle-specific body plan

(2013) Zhuo Wang et al.   NATURE GENETICS

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

(2013) Doris Bachtrog   NATURE REVIEWS GENETICS

Sex chromosome dosage compensation: definitely not for everyone

(2013) Judith E. Mank   TRENDS IN GENETICS

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Are some chromosomes particularly good at sex? Insights from amniotes

(2012) Denis O’Meally et al.   CHROMOSOME RESEARCH

Rsx is a metatherian RNA with Xist-like properties in X-chromosome inactivation

(2012) Jennifer Grant et al.   NATURE

Differential analysis of gene regulation at transcript resolution with RNA-seq

(2012) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Dosage compensation in Drosophila melanogaster: epigenetic fine-tuning of chromosome-wide transcription

(2012) Thomas Conrad et al.   NATURE REVIEWS GENETICS

Summarizing and correcting the GC content bias in high-throughput sequencing

(2012) Yuval Benjamini et al.   NUCLEIC ACIDS RESEARCH

Expression reduction in mammalian X chromosome evolution refutes Ohno's hypothesis of dosage compensation

(2012) F. Lin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Mechanisms and Evolutionary Patterns of Mammalian and Avian Dosage Compensation

(2012) Philippe Julien et al.   PLOS BIOLOGY

Genome analyses substantiate male mutation bias in many species

(2011) Melissa A. Wilson Sayres et al.   BIOESSAYS

The genome of the green anole lizard and a comparative analysis with birds and mammals

(2011) Jessica Alföldi et al.   NATURE

The evolution of gene expression levels in mammalian organs

(2011) David Brawand et al.   NATURE

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Evidence for compensatory upregulation of expressed X-linked genes in mammals, Caenorhabditis elegans and Drosophila melanogaster

(2011) Xinxian Deng et al.   NATURE GENETICS

Reptilian-transcriptome v1.0, a glimpse in the brain transcriptome of five divergent Sauropsida lineages and the phylogenetic position of turtles

(2011) Athanasia C Tzika et al.   EvoDevo

Fast and SNP-tolerant detection of complex variants and splicing in short reads

(2010) T. D. Wu et al.   BIOINFORMATICS

MetaPIGA v2.0: maximum likelihood large phylogeny estimation using the metapopulation genetic algorithm and other stochastic heuristics

(2010) Raphaël Helaers et al.   BMC BIOINFORMATICS

Sry: the master switch in mammalian sex determination

(2010) K. Kashimada et al.   DEVELOPMENT

RNA sequencing shows no dosage compensation of the active X-chromosome

(2010) Yuanyan Xiong et al.   NATURE GENETICS

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

The ZW sex microchromosomes of an Australian dragon lizard share no homology with those of other reptiles or birds

(2009) Tariq Ezaz et al.   CHROMOSOME RESEARCH

Fe65 is required for Tip60-directed histone H4 acetylation at DNA strand breaks

(2009) M. Stante et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The molecular evolutionary tree of lizards, snakes, and amphisbaenians

(2008) Nicolas Vidal et al.   COMPTES RENDUS BIOLOGIES

Chromosomal Gene Movements Reflect the Recent Origin and Biology of Therian Sex Chromosomes

(2008) Lukasz Potrzebowski et al.   PLOS BIOLOGY

A developmental staging series for the lizard genusAnolis: A new system for the integration of evolution, development, and ecology

(2007) Thomas J. Sanger et al.   JOURNAL OF MORPHOLOGY