HIRA complex presets transcriptional potential through coordinating depositions of the histone variants H3.3 and H2A.Z on the poised genes in mESCs

Histone variant H2A.Z regulates nucleosome unwrapping and CTCF binding in mouse ES cells

(2020) Zengqi Wen et al.   NUCLEIC ACIDS RESEARCH

Analysis of Local Chromatin States Reveals Gene Transcription Potential during Mouse Neural Progenitor Cell Differentiation

(2020) Juan Yu et al.   Cell Reports

CUT&Tag for efficient epigenomic profiling of small samples and single cells

(2019) Hatice S. Kaya-Okur et al.   Nature Communications

CoBATCH for High-Throughput Single-Cell Epigenomic Profiling

(2019) Qianhao Wang et al.   MOLECULAR CELL

H2A.Z facilitates licensing and activation of early replication origins

(2019) Haizhen Long et al.   NATURE

Histone variants H3.3 and H2A.Z are incorporated into the β-globin locus during transcription activation via different mechanisms

(2018) Jin Kang et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The chromatin remodeling protein INO80 contributes to the removal of H2A.Z at the p53-binding site of the p21 gene in response to doxorubicin

(2018) Jian Ding et al.   FEBS Journal

Structure and regulation of the human INO80–nucleosome complex

(2018) Rafael Ayala et al.   NATURE

UBN1/2 of HIRA complex is responsible for recognition and deposition of H3.3 at cis-regulatory elements of genes in mouse ES cells

(2018) Chaoyang Xiong et al.   BMC BIOLOGY

Identification, Characterization, and Heritability of Murine Metastable Epialleles: Implications for Non-genetic Inheritance

(2018) Anastasiya Kazachenka et al.   CELL

NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells

(2018) Susan L. Kloet et al.   Nature Communications

A Molecular Prospective for HIRA Complex Assembly and H3.3-Specific Histone Chaperone Function

(2017) M. Daniel Ricketts et al.   JOURNAL OF MOLECULAR BIOLOGY

INO80 exchanges H2A.Z for H2A by translocating on DNA proximal to histone dimers

(2017) Sandipan Brahma et al.   Nature Communications

Epigenetics, cellular memory and gene regulation

(2016) Steven Henikoff et al.   CURRENT BIOLOGY

Structural basis of H2A.Z recognition by SRCAP chromatin-remodeling subunit YL1

(2016) Xiaoping Liang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Histone Variant H3.3: A versatile H3 variant in health and in disease

(2016) Chaoyang Xiong et al.   Science China-Life Sciences

Structural basis of H2A.Z recognition by SRCAP chromatin-remodeling subunit YL1

(2016) Xiaoping Liang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Human INO80/YY1 chromatin remodeling complex transcriptionally regulates the BRCA2- and CDKN1A-interacting protein (BCCIP) in cells

(2016) Jiaming Su et al.   Protein & Cell

An Alternative Approach to ChIP-Seq Normalization Enables Detection of Genome-Wide Changes in Histone H3 Lysine 27 Trimethylation upon EZH2 Inhibition

(2016) Brian Egan et al.   PLoS One

Histone H3.3 is required for endogenous retroviral element silencing in embryonic stem cells

(2015) Simon J. Elsässer et al.   NATURE

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Histone exchange, chromatin structure and the regulation of transcription

(2015) Swaminathan Venkatesh et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Negative Regulation of p21Waf1/Cip1 by Human INO80 Chromatin Remodeling Complex Is Implicated in Cell Cycle Phase G2/M Arrest and Abnormal Chromosome Stability

(2015) Lingling Cao et al.   PLoS One

Histone Variants and Epigenetics

(2015) Steven Henikoff et al.   Cold Spring Harbor Perspectives in Biology

Ubinuclein-1 confers histone H3.3-specific-binding by the HIRA histone chaperone complex

(2015) M Daniel Ricketts et al.   Nature Communications

Histone variants: dynamic punctuation in transcription

(2014) C. M. Weber et al.   GENES & DEVELOPMENT

Tn5 transposase and tagmentation procedures for massively scaled sequencing projects

(2014) Simone Picelli et al.   GENOME RESEARCH

deepTools: a flexible platform for exploring deep-sequencing data

(2014) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Cryo-EM Study of the Chromatin Fiber Reveals a Double Helix Twisted by Tetranucleosomal Units

(2014) F. Song et al.   SCIENCE

Histone variants at the transcription start-site

(2014) Tatiana A. Soboleva et al.   TRENDS IN GENETICS

Dynamics of histone variant H3.3 and its coregulation with H2A.Z at enhancers and promoters

(2014) Ping Chen et al.   Nucleus

H3.3 actively marks enhancers and primes gene transcription via opening higher-ordered chromatin

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

Histone Variants in Development and Diseases

(2013) Ping Chen et al.   Journal of Genetics and Genomics

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

Developmental roles of histone H3 variants and their chaperones

(2013) Dan Filipescu et al.   TRENDS IN GENETICS

Placing the HIRA Histone Chaperone Complex in the Chromatin Landscape

(2013) Nikolay A. Pchelintsev et al.   Cell Reports

Identification of an Ubinuclein 1 Region Required for Stability and Function of the Human HIRA/UBN1/CABIN1/ASF1a Histone H3.3 Chaperone Complex

(2012) Yong Tang et al.   BIOCHEMISTRY

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

H2A.Z Facilitates Access of Active and Repressive Complexes to Chromatin in Embryonic Stem Cell Self-Renewal and Differentiation

(2012) Gangqing Hu et al.   Cell Stem Cell

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Histone H2A.Z inheritance during the cell cycle and its impact on promoter organization and dynamics

(2012) Maxim Nekrasov et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Histone H2A variants in nucleosomes and chromatin: more or less stable?

(2012) C. Bonisch et al.   NUCLEIC ACIDS RESEARCH

Deposition of Histone Variant H2A.Z within Gene Bodies Regulates Responsive Genes

(2012) Devin Coleman-Derr et al.   PLoS Genetics

Global Regulation of H2A.Z Localization by the INO80 Chromatin-Remodeling Enzyme Is Essential for Genome Integrity

(2011) Manolis Papamichos-Chronakis et al.   CELL

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

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

(2010) Aaron D. Goldberg et al.   CELL

The death-associated protein DAXX is a novel histone chaperone involved in the replication-independent deposition of H3.3

(2010) P. Drane et al.   GENES & DEVELOPMENT

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

Histone variants — ancient wrap artists of the epigenome

(2010) Paul B. Talbert et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Daxx is an H3.3-specific histone chaperone and cooperates with ATRX in replication-independent chromatin assembly at telomeres

(2010) P. W. Lewis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HPC2 and ubinuclein define a novel family of histone chaperones conserved throughout eukaryotes

(2009) S. Balaji et al.   Molecular BioSystems

H3.3/H2A.Z double variant–containing nucleosomes mark 'nucleosome-free regions' of active promoters and other regulatory regions

(2009) Chunyuan Jin et al.   NATURE GENETICS

Labile H3.3+H2A.Z nucleosomes mark 'nucleosome-free regions'

(2009) Steven Henikoff   NATURE GENETICS

Chromatin remodelling beyond transcription: the INO80 and SWR1 complexes

(2009) Ashby J Morrison et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

H2AZ Is Enriched at Polycomb Complex Target Genes in ES Cells and Is Necessary for Lineage Commitment

(2008) Menno P. Creyghton et al.   CELL

Human UBN1 Is an Ortholog of Yeast Hpc2p and Has an Essential Role in the HIRA/ASF1a Chromatin-Remodeling Pathway in Senescent Cells

(2008) G. Banumathy et al.   MOLECULAR AND CELLULAR BIOLOGY

Epitope tagging of endogenous proteins for genome-wide ChIP-chip studies

(2008) Xiaodong Zhang et al.   NATURE METHODS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY