Cross-species examination of X-chromosome inactivation highlights domains of escape from silencing

Initiation of X Chromosome Inactivation during Bovine Embryo Development

(2020) Bo Yu et al.   Cells

Expanded encyclopaedias of DNA elements in the human and mouse genomes

(2020) Jill E. Moore et al.   NATURE

Global DNA methylation of peripheral blood leukocytes from dogs bearing multicentric non-Hodgkin lymphomas and healthy dogs: A comparative study

(2019) Tatiane Moreno Ferrarias Epiphanio et al.   PLoS One

No imprinted XIST expression in pigs: biallelic XIST expression in early embryos and random X inactivation in placentas

(2019) Huiying Zou et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

(2019) Daehwan Kim et al.   NATURE BIOTECHNOLOGY

Development and application of an integrated allele-specific pipeline for methylomic and epigenomic analysis (MEA)

(2018) Julien Richard Albert et al.   BMC GENOMICS

Human cis-acting elements regulating escape from X-chromosome inactivation function in mouse

(2018) Samantha B Peeters et al.   HUMAN MOLECULAR GENETICS

Dosage compensation and DNA methylation landscape of the X chromosome in mouse liver

(2018) Christopher G. Duncan et al.   Scientific Reports

An integrative approach to assess X-chromosome inactivation using allele-specific expression with applications to epithelial ovarian cancer

(2017) Nicholas B. Larson et al.   GENETIC EPIDEMIOLOGY

A unified partial likelihood approach for X-chromosome association on time-to-event outcomes

(2017) Wei Xu et al.   GENETIC EPIDEMIOLOGY

Bovine mammary gland X chromosome inactivation

(2017) C. Couldrey et al.   JOURNAL OF DAIRY SCIENCE

Landscape of X chromosome inactivation across human tissues

(2017) Taru Tukiainen et al.   NATURE

The Encyclopedia of DNA elements (ENCODE): data portal update

(2017) Carrie A Davis et al.   NUCLEIC ACIDS RESEARCH

When the Lyon(ized chromosome) roars: ongoing expression from an inactive X chromosome

(2017) Laura Carrel et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Allele-specific non-CG DNA methylation marks domains of active chromatin in female mouse brain

(2017) Christopher L. Keown et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Early X chromosome inactivation during human preimplantation development revealed by single-cell RNA-sequencing

(2017) Joana C. Moreira de Mello et al.   Scientific Reports

Global assessment of imprinted gene expression in the bovine conceptus by next generation sequencing

(2016) Zhiyuan Chen et al.   Epigenetics

Structural organization of the inactive X chromosome in the mouse

(2016) Luca Giorgetti et al.   NATURE

Tumor-suppressor genes that escape from X-inactivation contribute to cancer sex bias

(2016) Andrew Dunford et al.   NATURE GENETICS

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

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Coding exon-structure aware realigner (CESAR) utilizes genome alignments for accurate comparative gene annotation

(2016) Virag Sharma et al.   NUCLEIC ACIDS RESEARCH

DanQ: a hybrid convolutional and recurrent deep neural network for quantifying the function of DNA sequences

(2016) Daniel Quang et al.   NUCLEIC ACIDS RESEARCH

X inactivation and reactivation in X-linked diseases

(2016) Marcella Vacca et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Escape Artists of the X Chromosome

(2016) Bradley P. Balaton et al.   TRENDS IN GENETICS

The International Human Epigenome Consortium Data Portal

(2016) David Bujold et al.   Cell Systems

YY1 binding association with sex-biased transcription revealed through X-linked transcript levels and allelic binding analyses

(2016) Chih-yu Chen et al.   Scientific Reports

Non-CG Methylation in the Human Genome

(2015) Yupeng He et al.   Annual Review of Genomics and Human Genetics

Human body epigenome maps reveal noncanonical DNA methylation variation

(2015) Matthew D. Schultz et al.   NATURE

Escape from X Inactivation Varies in Mouse Tissues

(2015) Joel B. Berletch et al.   PLoS Genetics

Derivation of consensus inactivation status for X-linked genes from genome-wide studies

(2015) Bradley P. Balaton et al.   Biology of Sex Differences

Individuality and Variation of Personal Regulomes in Primary Human T Cells

(2015) Kun Qu et al.   Cell Systems

Landscape of DNA methylation on the X chromosome reflects CpG density, functional chromatin state and X-chromosome inactivation

(2014) Allison M. Cotton et al.   HUMAN MOLECULAR GENETICS

Mammalian Y chromosomes retain widely expressed dosage-sensitive regulators

(2014) Daniel W. Bellott et al.   NATURE

Cellular Resolution Maps of X Chromosome Inactivation: Implications for Neural Development, Function, and Disease

(2014) Hao Wu et al.   NEURON

Spread of X-chromosome inactivation into autosomal sequences: role for DNA elements, chromatin features and chromosomal domains

(2013) Allison M. Cotton et al.   HUMAN MOLECULAR GENETICS

Cellular interference in craniofrontonasal syndrome: males mosaic for mutations in the X-linked EFNB1 gene are more severely affected than true hemizygotes

(2013) Stephen R.F. Twigg et al.   HUMAN MOLECULAR GENETICS

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

Global Epigenomic Reconfiguration During Mammalian Brain Development

(2013) R. Lister et al.   SCIENCE

Dynamics of DNA Methylation in Recent Human and Great Ape Evolution

(2013) Irene Hernando-Herraez et al.   PLoS Genetics

Analysis of expressed SNPs identifies variable extents of expression from the human inactive X chromosome

(2013) Allison M Cotton et al.   GENOME BIOLOGY

Site-Specific Silencing of Regulatory Elements as a Mechanism of X Inactivation

(2012) J. Mauro Calabrese et al.   CELL

Random X inactivation in the mule and horse placenta

(2012) X. Wang et al.   GENOME RESEARCH

Gene Survival and Death on the Human Y Chromosome

(2012) Melissa A. Wilson Sayres et al.   MOLECULAR BIOLOGY AND EVOLUTION

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

Eutherian mammals use diverse strategies to initiate X-chromosome inactivation during development

(2011) Ikuhiro Okamoto et al.   NATURE

Variability of Sequence Surrounding the Xist Gene in Rodents Suggests Taxon-Specific Regulation of X Chromosome Inactivation

(2011) Alexander I. Shevchenko et al.   PLoS One

Random X Inactivation and Extensive Mosaicism in Human Placenta Revealed by Analysis of Allele-Specific Gene Expression along the X Chromosome

(2010) Joana Carvalho Moreira de Mello et al.   PLoS One

Inactive X chromosome-specific histone H3 modifications and CpG hypomethylation flank a chromatin boundary between an X-inactivated and an escape gene

(2009) Yuji Goto et al.   NUCLEIC ACIDS RESEARCH