Advances in the profiling of DNA modifications: cytosine methylation and beyond (Q38243577)

31 August 2017

title

Advances in the profiling of DNA modifications: cytosine methylation and beyond (English)

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31 August 2017

author name string

Nongluk Plongthongkum

series ordinal

1

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31 August 2017

Dinh H Diep

series ordinal

2

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31 August 2017

Kun Zhang

series ordinal

3

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31 August 2017

language of work or name

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27 August 2014

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31 August 2017

published in

Nature Reviews Genetics

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31 August 2017

volume

15

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31 August 2017

issue

10

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31 August 2017

page(s)

647-661

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In vivo control of CpG and non-CpG DNA methylation by DNA methyltransferases

31 August 2017

cites work

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Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues

21 January 2018

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Human DNA methylomes at base resolution show widespread epigenomic differences

21 January 2018

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Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells

21 January 2018

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Global epigenomic reconfiguration during mammalian brain development

21 January 2018

1 reference

Genomic distribution and inter-sample variation of non-CpG methylation across human cell types

21 January 2018

1 reference

Large conserved domains of low DNA methylation maintained by Dnmt3a

21 January 2018

1 reference

Epigenomic analysis of multilineage differentiation of human embryonic stem cells

21 January 2018

1 reference

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

21 January 2018

1 reference

Functions of DNA methylation: islands, start sites, gene bodies and beyond

21 January 2018

1 reference

DNA methylation: roles in mammalian development

21 January 2018

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DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape

21 January 2018

1 reference

Tet-assisted bisulfite sequencing of 5-hydroxymethylcytosine.

21 January 2018

1 reference

Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells

21 January 2018

1 reference

Genome-wide analysis reveals TET- and TDG-dependent 5-methylcytosine oxidation dynamics.

21 January 2018

1 reference

5-hmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging

21 January 2018

1 reference

A screen for hydroxymethylcytosine and formylcytosine binding proteins suggests functions in transcription and chromatin regulation

21 January 2018

1 reference

Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives

21 January 2018

1 reference

Principles and challenges of genomewide DNA methylation analysis

21 January 2018

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5-Hydroxymethylcytosine: generation, fate, and genomic distribution

21 January 2018

1 reference

Mapping recently identified nucleotide variants in the genome and transcriptome

21 January 2018

1 reference

Analysing and interpreting DNA methylation data

21 January 2018

1 reference

DNA methylome analysis using short bisulfite sequencing data

21 January 2018

1 reference

Bisulfite genomic sequencing: systematic investigation of critical experimental parameters

21 January 2018

1 reference

Precision and performance characteristics of bisulfite conversion and real-time PCR (MethyLight) for quantitative DNA methylation analysis

21 January 2018

1 reference

Tissue type is a major modifier of the 5-hydroxymethylcytosine content of human genes

21 January 2018

1 reference

Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling

21 January 2018

1 reference

Double restriction-enzyme digestion improves the coverage and accuracy of genome-wide CpG methylation profiling by reduced representation bisulfite sequencing.

21 January 2018

1 reference

Laser capture microdissection-reduced representation bisulfite sequencing (LCM-RRBS) maps changes in DNA methylation associated with gonadectomy-induced adrenocortical neoplasia in the mouse.

21 January 2018

1 reference

Single-cell methylome landscapes of mouse embryonic stem cells and early embryos analyzed using reduced representation bisulfite sequencing

21 January 2018

1 reference

Identification of a specific reprogramming-associated epigenetic signature in human induced pluripotent stem cells

21 January 2018

1 reference

Conserved role of intragenic DNA methylation in regulating alternative promoters

21 January 2018

1 reference

Methylome analysis using MeDIP-seq with low DNA concentrations

21 January 2018

1 reference

A comparison of the whole genome approach of MeDIP-seq to the targeted approach of the Infinium HumanMethylation450 BeadChip(®) for methylome profiling

21 January 2018

1 reference

MBD-seq as a cost-effective approach for methylome-wide association studies: demonstration in 1500 case--control samples

21 January 2018

1 reference

High resolution detection and analysis of CpG dinucleotides methylation using MBD-Seq technology

21 January 2018

1 reference

Whole-genome DNA methylation profiling using MethylCap-seq.

21 January 2018

1 reference

AutoMeDIP-seq: a high-throughput, whole genome, DNA methylation assay

21 January 2018

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Quantitative comparison of genome-wide DNA methylation mapping technologies.

21 January 2018

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5-Hydroxymethylcytosine: a new kid on the epigenetic block?

21 January 2018

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Application of microdroplet PCR for large-scale targeted bisulfite sequencing.

21 January 2018

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High-throughput method for analyzing methylation of CpGs in targeted genomic regions

21 January 2018

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Bisulfite Patch PCR enables multiplexed sequencing of promoter methylation across cancer samples.

21 January 2018

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Library-free methylation sequencing with bisulfite padlock probes

21 January 2018

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Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming

21 January 2018

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Targeted bisulfite sequencing by solution hybrid selection and massively parallel sequencing

21 January 2018

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High resolution profiling of human exon methylation by liquid hybridization capture-based bisulfite sequencing

21 January 2018

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In-solution hybrid capture of bisulfite-converted DNA for targeted bisulfite sequencing of 174 ADME genes

21 January 2018

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Tet1 controls meiosis by regulating meiotic gene expression

21 January 2018

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High-resolution DNA methylome analysis of primordial germ cells identifies gender-specific reprogramming in mice

21 January 2018

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Mouse oocyte methylomes at base resolution reveal genome-wide accumulation of non-CpG methylation and role of DNA methyltransferases.

21 January 2018

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Ultra-low-input, tagmentation-based whole-genome bisulfite sequencing

21 January 2018

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Tagmentation-based whole-genome bisulfite sequencing

21 January 2018

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Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging.

21 January 2018

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A high-throughput DNA methylation analysis of a single cell

21 January 2018

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Single-cell DNA-methylation analysis reveals epigenetic chimerism in preimplantation embryos

21 January 2018

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Limiting dilution bisulfite (pyro)sequencing reveals parent-specific methylation patterns in single early mouse embryos and bovine oocytes

21 January 2018

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The DNA methylation landscape of human early embryos

21 January 2018

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Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity

21 January 2018

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Comprehensive high-throughput arrays for relative methylation (CHARM).

21 January 2018

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High density DNA methylation array with single CpG site resolution

21 January 2018

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MeDIP coupled with a promoter tiling array as a platform to investigate global DNA methylation patterns in AML cells.

21 January 2018

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Comprehensive DNA methylation profiling of human repetitive DNA elements using an MeDIP-on-RepArray assay.

21 January 2018

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

21 January 2018

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A novel methyl-binding domain protein enrichment method for identifying genome-wide tissue-specific DNA methylation from nanogram DNA samples.

21 January 2018

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Genome-wide DNA methylation analysis of formalin-fixed paraffin embedded colorectal cancer tissue

21 January 2018

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

21 January 2018

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Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA

21 January 2018

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Combined chromatin immunoprecipitation and bisulfite methylation sequencing analysis

21 January 2018

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Single molecule epigenetic analysis in a nanofluidic channel.

21 January 2018

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Real-time analysis and selection of methylated DNA by fluorescence-activated single molecule sorting in a nanofluidic channel

21 January 2018

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Single-molecule analysis of combinatorial epigenomic states in normal and tumor cells

21 January 2018

1 reference

OCT4 establishes and maintains nucleosome-depleted regions that provide additional layers of epigenetic regulation of its target genes

21 January 2018

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Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules

21 January 2018

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Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine

21 January 2018

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Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation

21 January 2018

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TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity

21 January 2018

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5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells

21 January 2018

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Comparative analysis of affinity-based 5-hydroxymethylation enrichment techniques

21 January 2018

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Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation development.

21 January 2018

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Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification

21 January 2018

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Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX.

21 January 2018

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The behaviour of 5-hydroxymethylcytosine in bisulfite sequencing

21 January 2018

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Sensitive enzymatic quantification of 5-hydroxymethylcytosine in genomic DNA

21 January 2018

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Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine

21 January 2018

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Copper-free click chemistry for dynamic in vivo imaging

21 January 2018

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The GLIB technique for genome-wide mapping of 5-hydroxymethylcytosine

21 January 2018

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Pull-down of 5-hydroxymethylcytosine DNA using JBP1-coated magnetic beads.

21 January 2018

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Optical detection of epigenetic marks: sensitive quantification and direct imaging of individual hydroxymethylcytosine bases.

21 January 2018

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Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming

21 January 2018

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Selective chemical labelling of 5-formylcytosine in DNA by fluorescent dyes

21 January 2018

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Tissue-specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genomes

21 January 2018

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High-resolution enzymatic mapping of genomic 5-hydroxymethylcytosine in mouse embryonic stem cells

21 January 2018

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Single-tube linear DNA amplification (LinDA) for robust ChIP-seq.

21 January 2018

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Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution

21 January 2018

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Oxidative bisulfite sequencing of 5-methylcytosine and 5-hydroxymethylcytosine

21 January 2018

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Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.

21 January 2018

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Chemical modification-assisted bisulfite sequencing (CAB-Seq) for 5-carboxylcytosine detection in DNA.

21 January 2018

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Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution

21 January 2018

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Real-time DNA sequencing from single polymerase molecules

21 January 2018

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Direct detection of DNA methylation during single-molecule, real-time sequencing

21 January 2018

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Enhanced 5-methylcytosine detection in single-molecule, real-time sequencing via Tet1 oxidation

21 January 2018

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Sensitive and specific single-molecule sequencing of 5-hydroxymethylcytosine.

21 January 2018

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The potential and challenges of nanopore sequencing

21 January 2018

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Measurements of DNA immobilized in the alpha-hemolysin nanopore

21 January 2018

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Single-nucleotide discrimination in immobilized DNA oligonucleotides with a biological nanopore

21 January 2018

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Single-molecule DNA detection with an engineered MspA protein nanopore

21 January 2018

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Nucleotide discrimination with DNA immobilized in the MspA nanopore

21 January 2018

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Discrimination of methylcytosine from hydroxymethylcytosine in DNA molecules

21 January 2018

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Detection and mapping of 5-methylcytosine and 5-hydroxymethylcytosine with nanopore MspA.

21 January 2018

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Characterizing and measuring bias in sequence data

21 January 2018

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DNA Methylation Analysis of Germ Cells by Using Bisulfite-Based Sequencing Methods

21 January 2018

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

21 January 2018

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Restriction landmark genome scanning

31 March 2020

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31 March 2020

Identifiers

DOI

10.1038/NRG3772

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Dimensions Publication ID

31 August 2017

1037423025

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