Human SMARCA5 is continuously required to maintain nucleosome spacing

Dynamics of CTCF- and cohesin-mediated chromatin looping revealed by live-cell imaging

(2022) Michele Gabriele et al.   SCIENCE

CTCF functions as an insulator for somatic genes and a chromatin remodeler for pluripotency genes during reprogramming

(2022) Yawei Song et al.   Cell Reports

Developmental and housekeeping transcriptional programs in Drosophila require distinct chromatin remodelers

(2022) Oliver Hendy et al.   MOLECULAR CELL

CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions

(2021) Anjali Kaushal et al.   Nature Communications

Distinct properties and functions of CTCF revealed by a rapidly inducible degron system

(2021) Jing Luan et al.   Cell Reports

The chromatin-remodeling enzyme Smarca5 regulates erythrocyte aggregation via Keap1-Nrf2 signaling

(2021) Yanyan Ding et al.   eLife

ATAC-Me Captures Prolonged DNA Methylation of Dynamic Chromatin Accessibility Loci during Cell Fate Transitions

(2020) Kelly R. Barnett et al.   MOLECULAR CELL

Beads on a string—nucleosome array arrangements and folding of the chromatin fiber

(2020) Sandro Baldi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains

(2020) Amanda Khoury et al.   Nature Communications

Loss of ISWI ATPase SMARCA5 (SNF2H) in Acute Myeloid Leukemia Cells Inhibits Proliferation and Chromatid Cohesion

(2020) Tomas Zikmund et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

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

(2020) Zengqi Wen et al.   NUCLEIC ACIDS RESEARCH

Smarca5 mediated epigenetic programming facilitates fetal HSPC development in vertebrates

(2020) Yanyan Ding et al.   BLOOD

Definition of a small core transcriptional circuit regulated by AML1-ETO

(2020) Kristy R. Stengel et al.   MOLECULAR CELL

The CDK7 inhibitor THZ1 alters RNA polymerase dynamics at the 5′ and 3′ ends of genes

(2019) Shilpa Sampathi et al.   NUCLEIC ACIDS RESEARCH

ISWI ATPase Smarca5 Regulates Differentiation of Thymocytes Undergoing β-Selection

(2019) Tomas Zikmund et al.   JOURNAL OF IMMUNOLOGY

Mammalian ISWI and SWI/SNF selectively mediate binding of distinct transcription factors

(2019) Darko Barisic et al.   NATURE

Next-generation characterization of the Cancer Cell Line Encyclopedia

(2019) Mahmoud Ghandi et al.   NATURE

Asymmetry between the two acidic patches dictates the direction of nucleosome sliding by the ISWI chromatin remodeler

(2019) Robert F Levendosky et al.   eLife

Direct observation of coordinated DNA movements on the nucleosome during chromatin remodelling

(2019) Anton Sabantsev et al.   Nature Communications

CTCF-dependent chromatin boundaries formed by asymmetric nucleosome arrays with decreased linker length

(2019) Christopher T Clarkson et al.   NUCLEIC ACIDS RESEARCH

A basic motif anchoring ISWI to nucleosome acidic patch regulates nucleosome spacing

(2019) Hai T. Dao et al.   Nature Chemical Biology

Targeted in situ genome-wide profiling with high efficiency for low cell numbers

(2018) Peter J Skene et al.   Nature Protocols

The nucleosomal acidic patch relieves auto-inhibition by the ISWI remodeler SNF2h

(2018) Nathan Gamarra et al.   eLife

Nascent RNA sequencing analysis provides insights into enhancer-mediated gene regulation

(2018) Jing Wang et al.   BMC GENOMICS

Transcription control by the ENL YEATS domain in acute leukaemia

(2017) Michael A. Erb et al.   NATURE

Computational correction of copy number effect improves specificity of CRISPR–Cas9 essentiality screens in cancer cells

(2017) Robin M Meyers et al.   NATURE GENETICS

The ISWI ATPase Smarca5 (Snf2h) Is Required for Proliferation and Differentiation of Hematopoietic Stem and Progenitor Cells

(2017) Juraj Kokavec et al.   STEM CELLS

Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq)

(2016) Dig Bijay Mahat et al.   Nature Protocols

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

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

High-Resolution Mapping of RNA Polymerases Identifies Mechanisms of Sensitivity and Resistance to BET Inhibitors in t(8;21) AML

(2016) Yue Zhao et al.   Cell Reports

The Chromatin Remodelling Enzymes SNF2H and SNF2L Position Nucleosomes adjacent to CTCF and Other Transcription Factors

(2016) Nicola Wiechens et al.   PLoS Genetics

A positioned +1 nucleosome enhances promoter-proximal pausing

(2015) Silvia Jimeno-González et al.   NUCLEIC ACIDS RESEARCH

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

ATM-dependent chromatin remodeler Rsf-1 facilitates DNA damage checkpoints and homologous recombination repair

(2014) Sunwoo Min et al.   CELL CYCLE

Ward’s Hierarchical Agglomerative Clustering Method: Which Algorithms Implement Ward’s Criterion?

(2014) Fionn Murtagh et al.   JOURNAL OF CLASSIFICATION

Human ISWI complexes are targeted by SMARCA5 ATPase and SLIDE domains to help resolve lesion-stalled transcription

(2014) Özge Z. Aydin et al.   NUCLEIC ACIDS RESEARCH

Epigenetic Control of SPI1 Gene by CTCF and ISWI ATPase SMARCA5

(2014) Martina Dluhosova et al.   PLoS One

ISWI Remodelers Slide Nucleosomes with Coordinated Multi-Base-Pair Entry Steps and Single-Base-Pair Exit Steps

(2013) Sebastian Deindl et al.   CELL

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

Precise Maps of RNA Polymerase Reveal How Promoters Direct Initiation and Pausing

(2013) H. Kwak et al.   SCIENCE

Histone deacetylases 1 and 2 maintain S-phase chromatin and DNA replication fork progression

(2013) Srividya Bhaskara et al.   Epigenetics & Chromatin

Differential oestrogen receptor binding is associated with clinical outcome in breast cancer

(2012) Caryn S. Ross-Innes et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

Chromatin remodelling in mammalian cells by ISWI-type complexes - where, when and why?

(2011) Fabian Erdel et al.   FEBS Journal

Determinants of nucleosome organization in primary human cells

(2011) Anton Valouev et al.   NATURE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The NoRC complex mediates the heterochromatin formation and stability of silent rRNA genes and centromeric repeats

(2010) Claudio Guetg et al.   EMBO JOURNAL

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

Genomic instability — an evolving hallmark of cancer

(2010) Simona Negrini et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Chromatin Remodeling by Imitation Switch (ISWI) Class ATP-dependent Remodelers Is Stimulated by Histone Variant H2A.Z

(2009) Joseph A. Goldman et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Diverse Regulation of SNF2h Chromatin Remodeling by Noncatalytic Subunits

(2008) Xi He et al.   BIOCHEMISTRY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY