DNA sequence and chromatin modifiers cooperate to confer epigenetic bistability at imprinting control regions

SALL4 controls cell fate in response to DNA base composition

(2021) Raphaël Pantier et al.   MOLECULAR CELL

METTL3 regulates heterochromatin in mouse embryonic stem cells

(2021) Wenqi Xu et al.   NATURE

Base-resolution models of transcription-factor binding reveal soft motif syntax

(2021) Žiga Avsec et al.   NATURE GENETICS

QSER1 protects DNA methylation valleys from de novo methylation

(2021) Gary Dixon et al.   SCIENCE

Features and mechanisms of canonical and noncanonical genomic imprinting

(2021) Courtney W. Hanna et al.   GENES & DEVELOPMENT

The DNMT1 inhibitor GSK-3484862 mediates global demethylation in murine embryonic stem cells

(2021) Nathalia Azevedo Portilho et al.   Epigenetics & Chromatin

Identifying regulators of parental imprinting by CRISPR/Cas9 screening in haploid human embryonic stem cells

(2021) Shiran Bar et al.   Nature Communications

DUX-miR-344-ZMYM2-Mediated Activation of MERVL LTRs Induces a Totipotent 2C-like State

(2020) Fan Yang et al.   Cell Stem Cell

ChromID identifies the protein interactome at chromatin marks

(2020) Rodrigo Villaseñor et al.   NATURE BIOTECHNOLOGY

Genome-Scale CRISPR Screening in Human Intestinal Organoids Identifies Drivers of TGF-β Resistance

(2020) Till Ringel et al.   Cell Stem Cell

Multilayered VBC score predicts sgRNAs that efficiently generate loss-of-function alleles

(2020) Georg Michlits et al.   NATURE METHODS

The Chromatin Regulator ZMYM2 Restricts Human Pluripotent Stem Cell Growth and Is Essential for Teratoma Formation

(2020) Elyad Lezmi et al.   Stem Cell Reports

Flanking sequence preference modulates de novo DNA methylation in the mouse genome

(2020) Izaskun Mallona et al.   NUCLEIC ACIDS RESEARCH

The fibronectin type-III (FNIII) domain of ATF7IP contributes to efficient transcriptional silencing mediated by the SETDB1 complex

(2020) Takeshi Tsusaka et al.   Epigenetics & Chromatin

Regulatory mechanisms governing chromatin organization and function

(2020) Rodrigo Villaseñor et al.   CURRENT OPINION IN CELL BIOLOGY

ZNF445 is a primary regulator of genomic imprinting

(2019) Nozomi Takahashi et al.   GENES & DEVELOPMENT

ZFP57 regulation of transposable elements and gene expression within and beyond imprinted domains

(2019) Hui Shi et al.   Epigenetics & Chromatin

ATF7IP regulates SETDB1 nuclear localization and increases its ubiquitination

(2019) Takeshi Tsusaka et al.   EMBO REPORTS

Synthetic DNA fragments bearing ICR cis elements become differentially methylated and recapitulate genomic imprinting in transgenic mice

(2018) Hitomi Matsuzaki et al.   Epigenetics & Chromatin

Efficient proximity labeling in living cells and organisms with TurboID

(2018) Tess C Branon et al.   NATURE BIOTECHNOLOGY

Tracing the transitions from pluripotency to germ cell fate with CRISPR screening

(2018) Jamie A. Hackett et al.   Nature Communications

Protein Expression Landscape of Mouse Embryos during Pre-implantation Development

(2017) Yawei Gao et al.   Cell Reports

Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9

(2016) John G Doench et al.   NATURE BIOTECHNOLOGY

The Perseus computational platform for comprehensive analysis of (prote)omics data

(2016) Stefka Tyanova et al.   NATURE METHODS

Maintenance of Epigenetic Information

(2016) Geneviève Almouzni et al.   Cold Spring Harbor Perspectives in Biology

Imprinted DNA methylation reconstituted at a non-imprinted locus

(2016) David H. Taylor et al.   Epigenetics & Chromatin

ATF7IP-Mediated Stabilization of the Histone Methyltransferase SETDB1 Is Essential for Heterochromatin Formation by the HUSH Complex

(2016) Richard T. Timms et al.   Cell Reports

An epigenetic switch ensures transposon repression upon dynamic loss of DNA methylation in embryonic stem cells

(2016) Marius Walter et al.   eLife

Tracing Dynamic Changes of DNA Methylation at Single-Cell Resolution

(2015) Yonatan Stelzer et al.   CELL

Systematic Identification of Factors for Provirus Silencing in Embryonic Stem Cells

(2015) Bin Xia Yang et al.   CELL

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

(2015) Simon J. Elsässer et al.   NATURE

Competition between DNA methylation and transcription factors determines binding of NRF1

(2015) Silvia Domcke et al.   NATURE

ZFP57 recognizes multiple and closely spaced sequence motif variants to maintain repressive epigenetic marks in mouse embryonic stem cells

(2015) Zahra Anvar et al.   NUCLEIC ACIDS RESEARCH

Single-Step Generation of Conditional Knockout Mouse Embryonic Stem Cells

(2015) Matyas Flemr et al.   Cell Reports

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

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

Allele-specific binding of ZFP57 in the epigenetic regulation of imprinted and non-imprinted monoallelic expression

(2015) Ruslan Strogantsev et al.   GENOME BIOLOGY

Short sequences can efficiently recruit histone H3 lysine 27 trimethylation in the absence of enhancer activity and DNA methylation

(2014) P. Jermann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synthetic CpG islands reveal DNA sequence determinants of chromatin structure

(2014) Elisabeth Wachter et al.   eLife

High-throughput engineering of a mammalian genome reveals building principles of methylation states at CG rich regions

(2014) Arnaud R Krebs et al.   eLife

FGF Signaling Inhibition in ESCs Drives Rapid Genome-wide Demethylation to the Epigenetic Ground State of Pluripotency

(2013) Gabriella Ficz et al.   Cell Stem Cell

Whole-Genome Bisulfite Sequencing of Two Distinct Interconvertible DNA Methylomes of Mouse Embryonic Stem Cells

(2013) Ehsan Habibi et al.   Cell Stem Cell

Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells

(2013) Kathryn Blaschke et al.   NATURE

Naive pluripotency is associated with global DNA hypomethylation

(2013) Harry G Leitch et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Transcriptional and Epigenomic Foundations of Ground State Pluripotency

(2012) Hendrik Marks et al.   CELL

An atomic model of Zfp57 recognition of CpG methylation within a specific DNA sequence

(2012) Y. Liu et al.   GENES & DEVELOPMENT

A Map of General and Specialized Chromatin Readers in Mouse Tissues Generated by Label-free Interaction Proteomics

(2012) H. Christian Eberl et al.   MOLECULAR CELL

Sequences Sufficient for Programming Imprinted Germline DNA Methylation Defined

(2012) Yoon Jung Park et al.   PLoS One

Trim28 Is Required for Epigenetic Stability During Mouse Oocyte to Embryo Transition

(2012) D. M. Messerschmidt et al.   SCIENCE

Airn Transcriptional Overlap, But Not Its lncRNA Products, Induces Imprinted Igf2r Silencing

(2012) P. A. Latos et al.   SCIENCE

Genomic Imprinting: A Mammalian Epigenetic Discovery Model

(2011) Denise P. Barlow   Annual Review of Genetics

An interspecies analysis reveals a key role for unmethylated CpG dinucleotides in vertebrate Polycomb complex recruitment

(2011) Magnus D Lynch et al.   EMBO JOURNAL

Chromatin Affinity Purification and Quantitative Mass Spectrometry Defining the Interactome of Histone Modification Patterns

(2011) Miroslav Nikolov et al.   MOLECULAR & CELLULAR PROTEOMICS

Chromosome-Wide Analysis of Parental Allele-Specific Chromatin and DNA Methylation

(2011) P. Singh et al.   MOLECULAR AND CELLULAR BIOLOGY

In Embryonic Stem Cells, ZFP57/KAP1 Recognize a Methylated Hexanucleotide to Affect Chromatin and DNA Methylation of Imprinting Control Regions

(2011) Simon Quenneville et al.   MOLECULAR CELL

DNA-binding factors shape the mouse methylome at distal regulatory regions

(2011) Michael B. Stadler et al.   NATURE

Identification of genetic elements that autonomously determine DNA methylation states

(2011) Florian Lienert et al.   NATURE GENETICS

Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET

(2010) Toshiyuki Matsui et al.   NATURE

A Maternal-Zygotic Effect Gene, Zfp57, Maintains Both Maternal and Paternal Imprints

(2008) Xiajun Li et al.   DEVELOPMENTAL CELL

Maternal and zygotic Dnmt1 are necessary and sufficient for the maintenance of DNA methylation imprints during preimplantation development

(2008) R. Hirasawa et al.   GENES & DEVELOPMENT

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY

QUMA: quantification tool for methylation analysis

(2008) Y. Kumaki et al.   NUCLEIC ACIDS RESEARCH

The Air Noncoding RNA Epigenetically Silences Transcription by Targeting G9a to Chromatin

(2008) T. Nagano et al.   SCIENCE