Landscape of monoallelic DNA accessibility in mouse embryonic stem cells and neural progenitor cells

Structural organization of the inactive X chromosome in the mouse

(2016) Luca Giorgetti et al.   NATURE

Analysis of allelic expression patterns in clonal somatic cells by single-cell RNA–seq

(2016) Björn Reinius et al.   NATURE GENETICS

Random monoallelic expression of genes on autosomes: Parallels with X-chromosome inactivation

(2016) Anne-Valerie Gendrel et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Epigenomic Co-localization and Co-evolution Reveal a Key Role for 5hmC as a Communication Hub in the Chromatin Network of ESCs

(2016) David Juan et al.   Cell Reports

ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases

(2014) Li Shen et al.   BMC GENOMICS

Random Monoallelic Gene Expression Increases upon Embryonic Stem Cell Differentiation

(2014) Mélanie A. Eckersley-Maslin et al.   DEVELOPMENTAL CELL

Developmental Dynamics and Disease Potential of Random Monoallelic Gene Expression

(2014) Anne-Valerie Gendrel et al.   DEVELOPMENTAL CELL

Genome accessibility is widely preserved and locally modulated during mitosis

(2014) Chris C.-S. Hsiung et al.   GENOME RESEARCH

Random monoallelic expression: regulating gene expression one allele at a time

(2014) Mélanie A. Eckersley-Maslin et al.   TRENDS IN GENETICS

Heterochromatin-Mediated Gene Silencing Facilitates the Diversification of Olfactory Neurons

(2014) David B. Lyons et al.   Cell Reports

A double take on bivalent promoters

(2013) P. Voigt et al.   GENES & DEVELOPMENT

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

Random or Stochastic Monoallelic Expressed Genes Are Enriched for Neurodevelopmental Disorder Candidate Genes

(2013) Aaron R. Jeffries et al.   PLoS One

Organization of the Mitotic Chromosome

(2013) N. Naumova et al.   SCIENCE

Tissue-Specific Mitotic Bookmarking by Hematopoietic Transcription Factor GATA1

(2012) Stephan Kadauke et al.   CELL

Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs

(2012) Emily Brookes et al.   Cell Stem Cell

Clonal allelic predetermination of immunoglobulin-κ rearrangement

(2012) Marganit Farago et al.   NATURE

ChromHMM: automating chromatin-state discovery and characterization

(2012) Jason Ernst et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Mechanisms and consequences of widespread random monoallelic expression

(2012) Andrew Chess   NATURE REVIEWS GENETICS

Random and Non-Random Monoallelic Expression

(2012) Andrew Chess   NEUROPSYCHOPHARMACOLOGY

CTCF/cohesin-mediated DNA looping is required for protocadherin   promoter choice

(2012) Y. Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Stochastic Choice of Allelic Expression in Human Neural Stem Cells

(2012) Aaron R. Jeffries et al.   STEM CELLS

Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data

(2011) Valentina Boeva et al.   BIOINFORMATICS

An Epigenetic Signature for Monoallelic Olfactory Receptor Expression

(2011) Angeliki Magklara et al.   CELL

The effects of culture on genomic imprinting profiles in human embryonic and fetal mesenchymal stem cells

(2011) Jennifer M. Frost et al.   Epigenetics

Mouse genomic variation and its effect on phenotypes and gene regulation

(2011) Thomas M. Keane et al.   NATURE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Synaptic activity-responsive element in the Arc/Arg3.1 promoter essential for synapse-to-nucleus signaling in activated neurons

(2008) T. Kawashima et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY