Genome-wide approaches to studying chromatin modifications (Q37077306)

18 August 2017

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title

Genome-wide approaches to studying chromatin modifications (English)

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18 August 2017

2

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18 August 2017

Dustin E Schones

1

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18 August 2017

publication date

1 March 2008

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18 August 2017

published in

Nature Reviews Genetics

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18 August 2017

volume

9

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18 August 2017

issue

3

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18 August 2017

page(s)

179-191

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Defining the CREB regulon: a genome-wide analysis of transcription factor regulatory regions.

18 August 2017

cites work

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Epigenetics: a landscape takes shape

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On the use of the word 'epigenetic'.

31 March 2020

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Perceptions of epigenetics

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The mammalian epigenome

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Mapping Polycomb-repressed domains in the bithorax complex using in vivo formaldehyde cross-linked chromatin

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Cohesins bind to preferential sites along yeast chromosome III, with differential regulation along arms versus the centric region

31 March 2020

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Genome-wide location and function of DNA binding proteins

31 March 2020

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Methylation of histone H3 Lys 4 in coding regions of active genes

31 March 2020

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Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases

31 March 2020

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Genomewide histone acetylation microarrays

31 March 2020

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Global nucleosome occupancy in yeast

31 March 2020

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Evidence for nucleosome depletion at active regulatory regions genome-wide

31 March 2020

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High-throughput mapping of the chromatin structure of human promoters.

31 March 2020

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High-resolution genome-wide mapping of histone modifications

31 March 2020

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A global map of p53 transcription-factor binding sites in the human genome

31 March 2020

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High-resolution profiling of histone methylations in the human genome

31 March 2020

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Genome-wide mapping of in vivo protein-DNA interactions

31 March 2020

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Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

31 March 2020

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Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

31 March 2020

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Phenotypic plasticity and the epigenetics of human disease

31 March 2020

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Cancer epigenomics: DNA methylomes and histone-modification maps

31 March 2020

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DNA methylation patterns and epigenetic memory

31 March 2020

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CpG islands in vertebrate genomes

31 March 2020

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Comprehensive analysis of CpG islands in human chromosomes 21 and 22

31 March 2020

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DNA methylation and chromatin modification.

31 March 2020

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Large-scale human promoter mapping using CpG islands.

31 March 2020

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The protein CTCF is required for the enhancer blocking activity of vertebrate insulators

31 March 2020

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CTCF mediates methylation-sensitive enhancer-blocking activity at the H19/Igf2 locus

31 March 2020

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Effects of DNA methylation on DNA-binding proteins and gene expression.

31 March 2020

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DNA methylation in health and disease

31 March 2020

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DNA hypermethylation in tumorigenesis: epigenetics joins genetics

31 March 2020

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Cancer epigenetics comes of age

31 March 2020

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Genome-wide analysis of DNA methylation patterns

31 March 2020

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Use of restriction enzymes to study eukaryotic DNA methylation

31 March 2020

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The methylated component of the Neurospora crassa genome

31 March 2020

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Comparative isoschizomer profiling of cytosine methylation: the HELP assay

31 March 2020

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Role of transposable elements in heterochromatin and epigenetic control

31 March 2020

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A microarray-based method for detecting methylated loci

31 March 2020

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Large-scale structure of genomic methylation patterns

31 March 2020

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A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands

31 March 2020

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Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands

31 March 2020

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MethyLight: a high-throughput assay to measure DNA methylation

31 March 2020

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Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis

31 March 2020

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Tumour class prediction and discovery by microarray-based DNA methylation analysis

31 March 2020

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Methylation-specific oligonucleotide microarray: a new potential for high-throughput methylation analysis

31 March 2020

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De novo quantitative bisulfite sequencing using the pyrosequencing technology.

31 March 2020

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Applications of DNA tiling arrays for whole-genome analysis

31 March 2020

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High-throughput DNA methylation profiling using universal bead arrays

31 March 2020

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DNA methylation profiling of the human major histocompatibility complex: a pilot study for the human epigenome project

31 March 2020

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DNA methylation profiling of human chromosomes 6, 20 and 22

31 March 2020

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Evidence for an instructive mechanism of de novo methylation in cancer cells.

31 March 2020

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Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells

31 March 2020

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Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis

31 March 2020

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Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription.

31 March 2020

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Genome-wide profiling of DNA methylation reveals a class of normally methylated CpG island promoters

31 March 2020

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Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome

31 March 2020

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Computational prediction of methylation status in human genomic sequences

31 March 2020

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Predicting methylation status of CpG islands in the human brain

31 March 2020

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CpG island methylation in human lymphocytes is highly correlated with DNA sequence, repeats, and predicted DNA structure

31 March 2020

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CpG island mapping by epigenome prediction

31 March 2020

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Chromatin condensation: does histone H1 dephosphorylation play a role?

31 March 2020

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The language of covalent histone modifications

31 March 2020

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Signaling network model of chromatin

31 March 2020

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Chromatin modifications and their function

31 March 2020

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The role of chromatin during transcription

31 March 2020

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The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote

31 March 2020

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Single-nucleosome mapping of histone modifications in S. cerevisiae

31 March 2020

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Genome-wide map of nucleosome acetylation and methylation in yeast

31 March 2020

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Genomic maps and comparative analysis of histone modifications in human and mouse

31 March 2020

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A bivalent chromatin structure marks key developmental genes in embryonic stem cells

31 March 2020

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The landscape of histone modifications across 1% of the human genome in five human cell lines

31 March 2020

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Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome

31 March 2020

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A high-resolution map of active promoters in the human genome

31 March 2020

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The genomic landscape of histone modifications in human T cells

31 March 2020

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Active chromatin domains are defined by acetylation islands revealed by genome-wide mapping

31 March 2020

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A chromatin landmark and transcription initiation at most promoters in human cells

31 March 2020

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Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity

31 March 2020

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The profile of repeat-associated histone lysine methylation states in the mouse epigenome

31 March 2020

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Polycomb complexes repress developmental regulators in murine embryonic stem cells

31 March 2020

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Control of developmental regulators by Polycomb in human embryonic stem cells

31 March 2020

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Suz12 binds to silenced regions of the genome in a cell-type-specific manner

31 March 2020

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Ring1-mediated ubiquitination of H2A restrains poised RNA polymerase II at bivalent genes in mouse ES cells

31 March 2020

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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

31 March 2020

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Genome-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns

31 March 2020

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Conserved Histone Variant H2A.Z Protects Euchromatin from the Ectopic Spread of Silent Heterochromatin

31 March 2020

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Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin

31 March 2020

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Genome-wide dynamics of Htz1, a histone H2A variant that poises repressed/basal promoters for activation through histone loss

31 March 2020

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Variant histone H2A.Z is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning

31 March 2020

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Preferential occupancy of histone variant H2AZ at inactive promoters influences local histone modifications and chromatin remodeling

31 March 2020

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Reuniting the contrasting functions of H2A.Z.

31 March 2020

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Histone replacement marks the boundaries of cis-regulatory domains

31 March 2020

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Genome-scale profiling of histone H3.3 replacement patterns.

31 March 2020

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Crystal structure of a nucleosome core particle containing the variant histone H2A.Z

31 March 2020

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Nucleosome stability mediated by histone variants H3.3 and H2A.Z.

31 March 2020

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GAL4/GAL80-dependent nucleosome disruption/deposition on the upstream regions of the yeast GAL1-10 and GAL80 genes.

31 March 2020

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Genome-scale identification of nucleosome positions in S. cerevisiae

31 March 2020

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A high-resolution atlas of nucleosome occupancy in yeast

31 March 2020

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Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin

31 March 2020

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Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome.

31 March 2020

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ChIP-Seq data reveal nucleosome architecture of human promoters.

31 March 2020

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Sequence periodicities in chicken nucleosome core DNA.

31 March 2020

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A genomic code for nucleosome positioning

31 March 2020

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Nucleosome positions predicted through comparative genomics

31 March 2020

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Nucleosome positioning signals in genomic DNA

31 March 2020

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Chromatin architecture of the human genome: gene-rich domains are enriched in open chromatin fibers

31 March 2020

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Identifying gene regulatory elements by genome-wide recovery of DNase hypersensitive sites

31 March 2020

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Global survey of chromatin accessibility using DNA microarrays.

31 March 2020

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DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays

31 March 2020

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Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS)

31 March 2020

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Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome

31 March 2020

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Genomewide demarcation of RNA polymerase II transcription units revealed by physical fractionation of chromatin

31 March 2020

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Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters

31 March 2020

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FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin

31 March 2020

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TileMap: create chromosomal map of tiling array hybridizations

31 March 2020

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Model-based analysis of tiling-arrays for ChIP-chip.

31 March 2020

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START: an automated tool for serial analysis of chromatin occupancy data

31 March 2020

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The human genome browser at UCSC

31 March 2020

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Genome-wide in situ exon capture for selective resequencing

31 March 2020

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Long-range intrachromosomal interactions in the T helper type 2 cytokine locus

31 March 2020

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Interchromosomal associations between alternatively expressed loci

31 March 2020

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Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions

31 March 2020

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Capturing chromosome conformation

31 March 2020

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Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions.

31 March 2020

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Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C).

31 March 2020

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Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements

31 March 2020

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Establishment and maintenance of a heterochromatin domain

31 March 2020

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Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi

31 March 2020

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Transcription and RNA interference in the formation of heterochromatin.

31 March 2020

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Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome

31 March 2020

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Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs

31 March 2020

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Genome-wide analysis of protein-DNA interactions

31 March 2020

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Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase

31 March 2020

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The HP1 protein family: getting a grip on chromatin

31 March 2020

1 reference

A histone H3 methyltransferase controls DNA methylation in Neurospora crassa

31 March 2020

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The Polycomb group protein EZH2 directly controls DNA methylation

31 March 2020

1 reference

Epigenetic characterization of the early embryo with a chromatin immunoprecipitation protocol applicable to small cell populations

31 March 2020

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Q2ChIP, a quick and quantitative chromatin immunoprecipitation assay, unravels epigenetic dynamics of developmentally regulated genes in human carcinoma cells

31 March 2020

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Chromatin disruption and modification

31 March 2020

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Use of restriction enzymes to study eukaryotic DNA methylation: I. The methylation pattern in ribosomal DNA from Xenopus laevis

31 March 2020

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Identifiers

DOI

10.1038/NRG2270

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18 August 2017

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