KDM2 proteins constrain transcription from CpG island gene promoters independently of their histone demethylase activity

Synergy between Variant PRC1 Complexes Defines Polycomb-Mediated Gene Repression

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

Recruitment of lysine demethylase 2A to DNA double strand breaks and its interaction with 53BP1 ensures genome stability

(2018) Murilo T.D. Bueno et al.   Oncotarget

Polycomb repressive complex 1 shapes the nucleosome landscape but not accessibility at target genes

(2018) Hamish W. King et al.   GENOME RESEARCH

The pioneer factor OCT4 requires the chromatin remodeller BRG1 to support gene regulatory element function in mouse embryonic stem cells

(2017) Hamish W King et al.   eLife

Demethylation of SFRP2 by histone demethylase KDM2A regulated osteo-/dentinogenic differentiation of stem cells of the apical papilla

(2016) Guoxia Yu et al.   CELL PROLIFERATION

Continual removal of H3K9 promoter methylation by Jmjd2 demethylases is vital for ESC self‐renewal and early development

(2016) Marianne Terndrup Pedersen et al.   EMBO JOURNAL

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

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

KDM2B/FBXL10 targets c-Fos for ubiquitylation and degradation in response to mitogenic stimulation

(2016) X-R Han et al.   ONCOGENE

RYBP stimulates PRC1 to shape chromatin-based communication between Polycomb repressive complexes

(2016) Nathan R Rose et al.   eLife

NSD3-Short Is an Adaptor Protein that Couples BRD4 to the CHD8 Chromatin Remodeler

(2015) Chen Shen et al.   MOLECULAR CELL

High-Resolution Chromatin Dynamics during a Yeast Stress Response

(2015) Assaf Weiner et al.   MOLECULAR CELL

Function and information content of DNA methylation

(2015) Dirk Schübeler   NATURE

FBXL10 protects Polycomb-bound genes from hypermethylation

(2015) Mathieu Boulard et al.   NATURE GENETICS

Variant PRC1 Complex-Dependent H2A Ubiquitylation Drives PRC2 Recruitment and Polycomb Domain Formation

(2014) Neil P. Blackledge et al.   CELL

A molecular threading mechanism underlies Jumonji lysine demethylase KDM2A regulation of methylated H3K36

(2014) Zhongjun Cheng et al.   GENES & DEVELOPMENT

Quantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization

(2014) N. Bonhoure et al.   GENOME RESEARCH

The Demethylase JMJD2C Localizes to H3K4me3-Positive Transcription Start Sites and Is Dispensable for Embryonic Development

(2014) M. T. Pedersen et al.   MOLECULAR AND CELLULAR BIOLOGY

Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome

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

ZF-CxxC domain-containing proteins, CpG islands and the chromatin connection

(2013) Hannah K. Long et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Parallel SCF Adaptor Capture Proteomics Reveals a Role for SCFFBXL17 in NRF2 Activation via BACH1 Repressor Turnover

(2013) Meng-Kwang Marcus Tan et al.   MOLECULAR CELL

Fbxl10/Kdm2b Recruits Polycomb Repressive Complex 1 to CpG Islands and Regulates H2A Ubiquitylation

(2013) Xudong Wu et al.   MOLECULAR CELL

Kdm2b maintains murine embryonic stem cell status by recruiting PRC1 complex to CpG islands of developmental genes

(2013) Jin He et al.   NATURE CELL BIOLOGY

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

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Histone methyltransferase SETD2 coordinates FACT recruitment with nucleosome dynamics during transcription

(2013) Sílvia Carvalho et al.   NUCLEIC ACIDS RESEARCH

Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates

(2013) Hannah K Long et al.   eLife

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs

(2012) Emily Brookes et al.   Cell Stem Cell

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Transcription factors: from enhancer binding to developmental control

(2012) François Spitz et al.   NATURE REVIEWS GENETICS

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

Demethylation of Epiregulin Gene by Histone Demethylase FBXL11 and BCL6 Corepressor Inhibits Osteo/dentinogenic Differentiation

(2012) Juan Du et al.   STEM CELLS

KDM2B links the Polycomb Repressive Complex 1 (PRC1) to recognition of CpG islands

(2012) Anca M Farcas et al.   eLife

Combinatorial Patterning of Chromatin Regulators Uncovered by Genome-wide Location Analysis in Human Cells

(2011) Oren Ram et al.   CELL

KDM5B regulates embryonic stem cell self-renewal and represses cryptic intragenic transcription

(2011) Liangqi Xie et al.   EMBO JOURNAL

CpG island chromatin

(2011) Neil P. Blackledge et al.   Epigenetics

CpG islands and the regulation of transcription

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

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

The Brd4 Extraterminal Domain Confers Transcription Activation Independent of pTEFb by Recruiting Multiple Proteins, Including NSD3

(2011) S. Rahman et al.   MOLECULAR AND CELLULAR BIOLOGY

NSD2 Links Dimethylation of Histone H3 at Lysine 36 to Oncogenic Programming

(2011) Alex J. Kuo et al.   MOLECULAR CELL

VCre/VloxP and SCre/SloxP: new site-specific recombination systems for genome engineering

(2011) Emiko Suzuki et al.   NUCLEIC ACIDS RESEARCH

JmjC enzyme KDM2A is a regulator of rRNA transcription in response to starvation

(2010) Yuji Tanaka et al.   EMBO JOURNAL

CpG Islands Recruit a Histone H3 Lysine 36 Demethylase

(2010) Neil P. Blackledge et al.   MOLECULAR CELL

CpG islands influence chromatin structure via the CpG-binding protein Cfp1

(2010) John P. Thomson et al.   NATURE

Role for the nuclear receptor-binding SET domain protein 1 (NSD1) methyltransferase in coordinating lysine 36 methylation at histone 3 with RNA polymerase II function

(2010) A. K. Lucio-Eterovic et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

CpG islands - ‘A rough guide’

(2009) Robert S. Illingworth et al.   FEBS LETTERS

Histone H3 Lysine 36 Dimethylation (H3K36me2) Is Sufficient to Recruit the Rpd3s Histone Deacetylase Complex and to Repress Spurious Transcription

(2009) Bing Li et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Ndy1/KDM2B immortalizes mouse embryonic fibroblasts by repressing theInk4a/Arflocus

(2009) Alexandros Tzatsos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-Resolution Mapping and Characterization of Open Chromatin across the Genome

(2008) Alan P. Boyle et al.   CELL

A chromatin-wide transition to H4K20 monomethylation impairs genome integrity and programmed DNA rearrangements in the mouse

(2008) G. Schotta et al.   GENES & DEVELOPMENT

dKDM2 couples histone H2A ubiquitylation to histone H3 demethylation during Polycomb group silencing

(2008) A. Lagarou et al.   GENES & DEVELOPMENT

The H3K36 demethylase Jhdm1b/Kdm2b regulates cell proliferation and senescence through p15Ink4b

(2008) Jin He et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY