Bivalent promoter hypermethylation in cancer is linked to the H327me3/H3K4me3 ratio in embryonic stem cells

Coolpup.py: versatile pile-up analysis of Hi-C data

(2020) Ilya M Flyamer et al.   BIOINFORMATICS

Epigenomic reordering induced by Polycomb loss drives oncogenesis but leads to therapeutic vulnerabilities in malignant peripheral nerve sheath tumors

(2019) John B Wojcik et al.   CANCER RESEARCH

Synergy between Variant PRC1 Complexes Defines Polycomb-Mediated Gene Repression

(2019) Nadezda A. Fursova et al.   MOLECULAR CELL

A DNMT3A PWWP mutation leads to methylation of bivalent chromatin and growth retardation in mice

(2019) Gintarė Sendžikaitė et al.   Nature Communications

DNA Methylation Directs Polycomb-Dependent 3D Genome Re-organization in Naive Pluripotency

(2019) Katy McLaughlin et al.   Cell Reports

Promoter bivalency favors an open chromatin architecture in embryonic stem cells

(2018) Glòria Mas et al.   NATURE GENETICS

Gain-of-function DNMT3A mutations cause microcephalic dwarfism and hypermethylation of Polycomb-regulated regions

(2018) Patricia Heyn et al.   NATURE GENETICS

Targets and genomic constraints of ectopic Dnmt3b expression

(2018) Yingying Zhang et al.   eLife

Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer

(2017) Zachary D. Smith et al.   NATURE

Allelic reprogramming of 3D chromatin architecture during early mammalian development

(2017) Zhenhai Du et al.   NATURE

Mutation of a nucleosome compaction region disrupts Polycomb-mediated axial patterning

(2017) Mei Sheng Lau et al.   SCIENCE

Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression

(2017) Gozde Kar et al.   Nature Communications

Loss of Tet1-Associated 5-Hydroxymethylcytosine Is Concomitant with Aberrant Promoter Hypermethylation in Liver Cancer

(2016) J. P. Thomson et al.   CANCER RESEARCH

Global Landscape and Regulatory Principles of DNA Methylation Reprogramming for Germ Cell Specification by Mouse Pluripotent Stem Cells

(2016) Kenjiro Shirane et al.   DEVELOPMENTAL CELL

Distinct features of H3K4me3 and H3K27me3 chromatin domains in pre-implantation embryos

(2016) Xiaoyu Liu et al.   NATURE

Chromatin remodeling gene EZH2 involved in the genetic etiology of autism in Chinese Han population

(2016) Jun Li et al.   NEUROSCIENCE LETTERS

Lack of Transcription Triggers H3K27me3 Accumulation in the Gene Body

(2016) Masaki Hosogane et al.   Cell Reports

Reversible Regulation of Promoter and Enhancer Histone Landscape by DNA Methylation in Mouse Embryonic Stem Cells

(2016) Andrew D. King et al.   Cell Reports

Scl binds to primed enhancers in mesoderm to regulate hematopoietic and cardiac fate divergence

(2015) T. Org et al.   EMBO JOURNAL

Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs

(2015) Kyung-Min Noh et al.   MOLECULAR CELL

Competition between DNA methylation and transcription factors determines binding of NRF1

(2015) Silvia Domcke et al.   NATURE

FBXL10 protects Polycomb-bound genes from hypermethylation

(2015) Mathieu Boulard et al.   NATURE GENETICS

Dosage Compensation in Mammals

(2015) Neil Brockdorff et al.   Cold Spring Harbor Perspectives in Biology

CpG island erosion, polycomb occupancy and sequence motif enrichment at bivalent promoters in mammalian embryonic stem cells

(2015) Anna Mantsoki et al.   Scientific Reports

In vivo targeting of de novo DNA methylation by histone modifications in yeast and mouse

(2015) Marco Morselli et al.   eLife

Distinct roles of DNMT1-dependent and DNMT1-independent methylation patterns in the genome of mouse embryonic stem cells

(2015) Zhiguang Li et al.   GENOME BIOLOGY

Germline mutations in the oncogene EZH2 cause Weaver syndrome and increased human height

(2015) Katrina Tatton-Brown et al.   Oncotarget

Mll2 is required for H3K4 trimethylation on bivalent promoters in embryonic stem cells, whereas Mll1 is redundant

(2014) S. Denissov et al.   DEVELOPMENT

Embryonic stem cell identity grounded in the embryo

(2014) Berenika Plusa et al.   NATURE CELL BIOLOGY

Assessment of Treatment Response by Total Tumor Volume and Global Apparent Diffusion Coefficient Using Diffusion-Weighted MRI in Patients with Metastatic Bone Disease: A Feasibility Study

(2014) Matthew D. Blackledge et al.   PLoS One

An epigenomic roadmap to induced pluripotency reveals DNA methylation as a reprogramming modulator

(2014) Dong-Sung Lee et al.   Nature Communications

Targeting Polycomb to Pericentric Heterochromatin in Embryonic Stem Cells Reveals a Role for H2AK119u1 in PRC2 Recruitment

(2014) Sarah Cooper et al.   Cell Reports

Genomic insights into cancer-associated aberrant CpG island hypermethylation

(2013) D. Sproul et al.   Briefings in Functional Genomics

A double take on bivalent promoters

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

EZH2-mediated H3K27 trimethylation mediates neurodegeneration in ataxia-telangiectasia

(2013) Jiali Li et al.   NATURE NEUROSCIENCE

Coordinate Regulation of DNA Methylation and H3K27me3 in Mouse Embryonic Stem Cells

(2013) James A. Hagarman et al.   PLoS One

Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of Polycomb target genes

(2013) James P Reddington et al.   GENOME BIOLOGY

Lsh regulates LTR retrotransposon repression independently of Dnmt3b function

(2013) Donncha S Dunican et al.   GENOME BIOLOGY

Hotspot Mutations in H3F3A and IDH1 Define Distinct Epigenetic and Biological Subgroups of Glioblastoma

(2012) Dominik Sturm et al.   CANCER CELL

Asymmetrically Modified Nucleosomes

(2012) Philipp Voigt et al.   CELL

The Transcriptional and Epigenomic Foundations of Ground State Pluripotency

(2012) Hendrik Marks et al.   CELL

Nonoverlapping Functions of the Polycomb Group Cbx Family of Proteins in Embryonic Stem Cells

(2012) Lluis Morey et al.   Cell Stem Cell

Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk

(2012) Arie B. Brinkman et al.   GENOME RESEARCH

PCGF Homologs, CBX Proteins, and RYBP Define Functionally Distinct PRC1 Family Complexes

(2012) Zhonghua Gao et al.   MOLECULAR CELL

A unique regulatory phase of DNA methylation in the early mammalian embryo

(2012) Zachary D. Smith et al.   NATURE

RYBP and Cbx7 Define Specific Biological Functions of Polycomb Complexes in Mouse Embryonic Stem Cells

(2012) Lluis Morey et al.   Cell Reports

Tissue of origin determines cancer-associated CpG island promoter hypermethylation patterns

(2012) Duncan Sproul et al.   GENOME BIOLOGY

NuRD-mediated deacetylation of H3K27 facilitates recruitment of Polycomb Repressive Complex 2 to direct gene repression

(2011) Nicola Reynolds et al.   EMBO JOURNAL

CpG islands and the regulation of transcription

(2011) A. M. Deaton et al.   GENES & DEVELOPMENT

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Ring1B Compacts Chromatin Structure and Represses Gene Expression Independent of Histone Ubiquitination

(2010) Ragnhild Eskeland et al.   MOLECULAR CELL

Recruitment of Polycomb group complexes and their role in the dynamic regulation of cell fate choice

(2009) B. Schuettengruber et al.   DEVELOPMENT

Structural basis for recognition of H3K4 methylation status by the DNA methyltransferase 3A ATRX–DNMT3–DNMT3L domain

(2009) Junji Otani et al.   EMBO REPORTS

The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores

(2009) Rafael A Irizarry et al.   NATURE GENETICS

Identification of a region of the DNMT1 methyltransferase that regulates the maintenance of genomic imprints

(2009) E. Borowczyk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-scale DNA methylation maps of pluripotent and differentiated cells

(2008) Alexander Meissner et al.   NATURE

Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line

(2008) E. N. Gal-Yam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA