Genomic imprinting, disrupted placental expression, and speciation

Genome-wide patterns of regulatory divergence revealed by introgression lines

(2016) Rafael F. Guerrero et al.   EVOLUTION

Gene regulation and speciation in house mice

(2016) Katya L. Mack et al.   GENOME RESEARCH

The power and promise of RNA-seq in ecology and evolution

(2016) Erica V. Todd et al.   MOLECULAR ECOLOGY

Genetic loci with parent-of-origin effects cause hybrid seed lethality in crosses between Mimulus species

(2016) Austin G. Garner et al.   NEW PHYTOLOGIST

Analyses of allele-specific gene expression in highly divergent mouse crosses identifies pervasive allelic imbalance

(2015) James J Crowley et al.   NATURE GENETICS

Genetic conflict reflected in tissue-specific maps of genomic imprinting in human and mouse

(2015) Tomas Babak et al.   NATURE GENETICS

Characterization of global loss of imprinting in fetal overgrowth syndrome induced by assisted reproduction

(2015) Zhiyuan Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Absence of Maternal Methylation in Biparental Hydatidiform Moles from Women with NLRP7 Maternal-Effect Mutations Reveals Widespread Placenta-Specific Imprinting

(2015) Marta Sanchez-Delgado et al.   PLoS Genetics

Imprinting disorders: a group of congenital disorders with overlapping patterns of molecular changes affecting imprinted loci

(2015) Thomas Eggermann et al.   Clinical Epigenetics

Paternally expressed imprinted genes establish postzygotic hybridization barriers in Arabidopsis thaliana

(2015) Philip Wolff et al.   eLife

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Maternal bias and escape from X chromosome imprinting in the midgestation mouse placenta

(2014) Elizabeth H. Finn et al.   DEVELOPMENTAL BIOLOGY

Parent-of-origin growth effects and the evolution of hybrid inviability in dwarf hamsters

(2014) Thomas D. Brekke et al.   EVOLUTION

Imprinted gene expression in hybrids: perturbed mechanisms and evolutionary implications

(2014) J B Wolf et al.   HEREDITY

Non-conflict theories for the evolution of genomic imprinting

(2014) H G Spencer et al.   HEREDITY

Using next-generation RNA sequencing to identify imprinted genes

(2014) X Wang et al.   HEREDITY

Hybrid Dysfunction and Physiological Compensation in Gene Expression

(2014) Felipe S. Barreto et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic Networks of Hybrid Sterility

(2014) Leslie M. Turner et al.   PLoS Genetics

Genomic Imprinting: Insights From Plants

(2013) Mary Gehring   Annual Review of Genetics

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Different flavors of X-chromosome inactivation in mammals

(2013) Cathérine Dupont et al.   CURRENT OPINION IN CELL BIOLOGY

Evolution of a Genetic Incompatibility in the Genus Xiphophorus

(2013) S. V. Scarpino et al.   MOLECULAR BIOLOGY AND EVOLUTION

Paternally expressed genes predominate in the placenta

(2013) X. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A simple strand-specific RNA-Seq library preparation protocol combining the Illumina TruSeq RNA and the dUTP methods

(2012) Marc Sultan et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Conflictual speciation: species formation via genomic conflict

(2012) Bernard Crespi et al.   TRENDS IN ECOLOGY & EVOLUTION

Critical Evaluation of Imprinted Gene Expression by RNA–Seq: A New Perspective

(2012) Brian DeVeale et al.   PLoS Genetics

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Retroelement Demethylation Associated with Abnormal Placentation in Mus musculus × Mus caroli Hybrids1

(2011) Judith D. Brown et al.   BIOLOGY OF REPRODUCTION

A Survey for Novel Imprinted Genes in the Mouse Placenta by mRNA-seq

(2011) Xu Wang et al.   GENETICS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Interspecific Y chromosome introgressions disrupt testis-specific gene expression and male reproductive phenotypes in Drosophila

(2011) T. B. Sackton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

What do we need to know about speciation?

(2011)   TRENDS IN ECOLOGY & EVOLUTION

Aberrant Growth and Pattern Formation in Peromyscus Hybrid Placental Development1

(2010) Amanda R. Duselis et al.   BIOLOGY OF REPRODUCTION

Statistical Design and Analysis of RNA Sequencing Data

(2010) P. L. Auer et al.   GENETICS

Global survey of escape from X inactivation by RNA-sequencing in mouse

(2010) F. Yang et al.   GENOME RESEARCH

Widespread Over-Expression of the X Chromosome in Sterile F1 Hybrid Mice

(2010) Jeffrey M. Good et al.   PLoS Genetics

Parental Genome Dosage Imbalance Deregulates Imprinting in Arabidopsis

(2010) Pauline E. Jullien et al.   PLoS Genetics

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Beckwith–Wiedemann syndrome

(2009) Rosanna Weksberg et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Genomic imprinting mechanisms in mammals

(2008) Folami Y. Ideraabdullah et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

Patterns of Hybrid Loss of Imprinting Reveal Tissue- and Cluster-Specific Regulation

(2008) Christopher D. Wiley et al.   PLoS One