The chromatin remodeller ATRX facilitates diverse nuclear processes, in a stochastic manner, in both heterochromatin and euchromatin

A cis-acting structural variation at the ZNF558 locus controls a gene regulatory network in human brain development

(2021) Pia A. Johansson et al.   Cell Stem Cell

Single-cell chromatin state analysis with Signac

(2021) Tim Stuart et al.   NATURE METHODS

G-quadruplex DNA drives genomic instability and represents a targetable molecular abnormality in ATRX-deficient malignant glioma

(2019) Yuxiang Wang et al.   Nature Communications

cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data

(2019) Carmen Bravo González-Blas et al.   NATURE METHODS

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Replication Stress Shapes a Protective Chromatin Environment across Fragile Genomic Regions

(2018) Jeongkyu Kim et al.   MOLECULAR CELL

Atrx inactivation drives disease-defining phenotypes in glioma cells of origin through global epigenomic remodeling

(2018) Carla Danussi et al.   Nature Communications

Identification of epigenetic signature associated with alpha thalassemia/mental retardation X-linked syndrome

(2017) Laila C. Schenkel et al.   Epigenetics & Chromatin

Accurate Promoter and Enhancer Identification in 127 ENCODE and Roadmap Epigenomics Cell Types and Tissues by GenoSTAN

(2017) Benedikt Zacher et al.   PLoS One

ATRX binds to atypical chromatin domains at the 3′ exons of zinc finger genes to preserve H3K9me3 enrichment

(2016) David Valle-García et al.   Epigenetics

Enhancer regions show high histone H3.3 turnover that changes during differentiation

(2016) Aimee M Deaton et al.   eLife

Atrx promotes heterochromatin formation at retrotransposons

(2015) D. Sadic et al.   EMBO REPORTS

Multiplexed analysis of chromosome conformation at vastly improved sensitivity

(2015) James O J Davies et al.   NATURE METHODS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

Suppression of the alternative lengthening of telomere pathway by the chromatin remodelling factor ATRX

(2015) David Clynes et al.   Nature Communications

ATRX Plays a Key Role in Maintaining Silencing at Interstitial Heterochromatic Loci and Imprinted Genes

(2015) Hsiao P.J. Voon et al.   Cell Reports

Analysis of neonatal brain lacking ATRX or MeCP2 reveals changes in nucleosome density, CTCF binding and chromatin looping

(2014) Kristin D. Kernohan et al.   NUCLEIC ACIDS RESEARCH

deepTools: a flexible platform for exploring deep-sequencing data

(2014) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

ATRX Dysfunction Induces Replication Defects in Primary Mouse Cells

(2014) David Clynes et al.   PLoS One

Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome

(2014) David A. Orlando et al.   Cell Reports

MIG: Multi-Image Genome viewer

(2013) S. J. McGowan et al.   BIOINFORMATICS

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

The chromatin remodeller ATRX: a repeat offender in human disease

(2013) David Clynes et al.   TRENDS IN BIOCHEMICAL SCIENCES

ATRX-mediated chromatin association of histone variant macroH2A1 regulates  -globin expression

(2012) K. Ratnakumar et al.   GENES & DEVELOPMENT

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Nucleosome-depleted chromatin gaps recruit assembly factors for the H3.3 histone variant

(2012) J. I. Schneiderman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CpG island chromatin

(2011) Neil P. Blackledge et al.   Epigenetics

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

ATRX ADD domain links an atypical histone methylation recognition mechanism to human mental-retardation syndrome

(2011) Shigeki Iwase et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Combinatorial readout of histone H3 modifications specifies localization of ATRX to heterochromatin

(2011) Sebastian Eustermann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Altered Telomeres in Tumors with ATRX and DAXX Mutations

(2011) C. M. Heaphy et al.   SCIENCE

Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions

(2010) Aaron D. Goldberg et al.   CELL

ATR-X Syndrome Protein Targets Tandem Repeats and Influences Allele-Specific Expression in a Size-Dependent Manner

(2010) Martin J. Law et al.   CELL

ATRX interacts with H3.3 in maintaining telomere structural integrity in pluripotent embryonic stem cells

(2010) L. H. Wong et al.   GENOME RESEARCH

Epigenetic Instability due to Defective Replication of Structured DNA

(2010) Peter Sarkies et al.   MOLECULAR CELL

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Independent filtering increases detection power for high-throughput experiments

(2010) R. Bourgon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Estimating enrichment of repetitive elements from high-throughput sequence data

(2010) Daniel S Day et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The histone variant macroH2A is an epigenetic regulator of key developmental genes

(2009) Marcus Buschbeck et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Remodeling of chromatin structure within the promoter is important for bmp-2-induced fgfr3 expression

(2009) F. Sun et al.   NUCLEIC ACIDS RESEARCH

Loss of ATRX leads to chromosome cohesion and congression defects

(2008) Kieran Ritchie et al.   JOURNAL OF CELL BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY