Epigenome sequencing comes of age in development, differentiation and disease mechanism research (Q37961860)

26 August 2017

Epigenome sequencing comes of age in development, differentiation and disease mechanism research (English)

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26 August 2017

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26 August 2017

Qian Zhao

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1 April 2011

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207-220

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The epigenetics of adult (somatic) stem cells

26 August 2017

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The epigenomics of cancer

21 January 2018

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Cancer epigenomics: DNA methylomes and histone-modification maps

21 January 2018

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Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming

21 January 2018

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Reprogramming of somatic cell identity

21 January 2018

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Epigenetics: a landscape takes shape

21 January 2018

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21 January 2018

The mammalian epigenome

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Perceptions of epigenetics

21 January 2018

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High-resolution profiling of histone methylations in the human genome

21 January 2018

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Combinatorial patterns of histone acetylations and methylations in the human genome

21 January 2018

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How chromatin-binding modules interpret histone modifications: lessons from professional pocket pickers

21 January 2018

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Methyl-CpG-binding proteins. Targeting specific gene repression.

21 January 2018

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Gene regulation in the third dimension

21 January 2018

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The transcriptional interactome: gene expression in 3D.

21 January 2018

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Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation

21 January 2018

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Dynamic regulation of nucleosome positioning in the human genome

21 January 2018

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A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome

21 January 2018

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Genome-scale identification of nucleosome positions in S. cerevisiae

21 January 2018

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

21 January 2018

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A high-resolution atlas of nucleosome occupancy in yeast

21 January 2018

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Chromatin-associated periodicity in genetic variation downstream of transcriptional start sites.

21 January 2018

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The DNA-encoded nucleosome organization of a eukaryotic genome

21 January 2018

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A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning

21 January 2018

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

21 January 2018

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

21 January 2018

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

21 January 2018

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Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays

21 January 2018

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

21 January 2018

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

21 January 2018

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Single-nucleosome mapping of histone modifications in S. cerevisiae

21 January 2018

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Genome-wide map of nucleosome acetylation and methylation in yeast

21 January 2018

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

21 January 2018

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

21 January 2018

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High-resolution genome-wide mapping of histone modifications

21 January 2018

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Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

21 January 2018

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Inferring causal relationships among different histone modifications and gene expression

21 January 2018

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Histone modification levels are predictive for gene expression

21 January 2018

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The NIH Roadmap Epigenomics Mapping Consortium

21 January 2018

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Nucleosome dynamics define transcriptional enhancers

21 January 2018

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Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation

21 January 2018

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

21 January 2018

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Nucleosome organization in the Drosophila genome.

21 January 2018

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Identifying positioned nucleosomes with epigenetic marks in human from ChIP-Seq

21 January 2018

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ChIP-Seq data reveal nucleosome architecture of human promoters.

21 January 2018

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Principles and challenges of genomewide DNA methylation analysis

21 January 2018

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Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver

21 January 2018

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Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

21 January 2018

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An improved method for genome wide DNA methylation profiling correlated to transcription and genomic instability in two breast cancer cell lines

21 January 2018

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Methyl-DNA immunoprecipitation (MeDIP): hunting down the DNA methylome.

21 January 2018

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Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation

21 January 2018

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A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis

21 January 2018

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Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage

21 January 2018

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Genome-wide conserved consensus transcription factor binding motifs are hyper-methylated

21 January 2018

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Genome-wide analysis of aberrant methylation in human breast cancer cells using methyl-DNA immunoprecipitation combined with high-throughput sequencing

21 January 2018

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Orphan CpG islands identify numerous conserved promoters in the mammalian genome

21 January 2018

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Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

21 January 2018

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Highly integrated single-base resolution maps of the epigenome in Arabidopsis

21 January 2018

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Human DNA methylomes at base resolution show widespread epigenomic differences

21 January 2018

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Single base-resolution methylome of the silkworm reveals a sparse epigenomic map.

21 January 2018

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Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency.

21 January 2018

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

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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Continuous base identification for single-molecule nanopore DNA sequencing

21 January 2018

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Protocol matters: which methylome are you actually studying?

21 January 2018

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Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications.

21 January 2018

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Quantitative comparison of genome-wide DNA methylation mapping technologies.

21 January 2018

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MBD-isolated Genome Sequencing provides a high-throughput and comprehensive survey of DNA methylation in the human genome

21 January 2018

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Whole-genome DNA methylation profiling using MethylCap-seq.

21 January 2018

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Conserved role of intragenic DNA methylation in regulating alternative promoters

21 January 2018

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Genome-wide DNA methylation profiling using Infinium® assay

21 January 2018

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Comprehensive mapping of long-range interactions reveals folding principles of the human genome

21 January 2018

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An oestrogen-receptor-α-bound human chromatin interactome

21 January 2018

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Capturing chromosome conformation

21 January 2018

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Mapping of long-range associations throughout the fission yeast genome reveals global genome organization linked to transcriptional regulation

21 January 2018

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A three-dimensional model of the yeast genome

21 January 2018

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BRAT: bisulfite-treated reads analysis tool

21 January 2018

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BSMAP: whole genome bisulfite sequence MAPping program

21 January 2018

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BS Seeker: precise mapping for bisulfite sequencing

21 January 2018

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A clustering approach for identification of enriched domains from histone modification ChIP-Seq data

21 January 2018

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An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data

21 January 2018

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ChromaSig: a probabilistic approach to finding common chromatin signatures in the human genome

21 January 2018

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Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution

21 January 2018

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

21 January 2018

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Fast and accurate short read alignment with Burrows-Wheeler transform

21 January 2018

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Fast and accurate long-read alignment with Burrows-Wheeler transform

21 January 2018

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Mapping short DNA sequencing reads and calling variants using mapping quality scores

21 January 2018

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SOAP2: an improved ultrafast tool for short read alignment

21 January 2018

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Computation for ChIP-seq and RNA-seq studies

21 January 2018

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An integrated software system for analyzing ChIP-chip and ChIP-seq data

21 January 2018

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Genome-wide mapping of in vivo protein-DNA interactions

21 January 2018

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Extracting transcription factor targets from ChIP-Seq data

21 January 2018

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Model-based analysis of ChIP-Seq (MACS)

21 January 2018

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PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls

21 January 2018

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Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

21 January 2018

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Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data

21 January 2018

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Design and analysis of ChIP-seq experiments for DNA-binding proteins

21 January 2018

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Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks

21 January 2018

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FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology

21 January 2018

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F-Seq: a feature density estimator for high-throughput sequence tags

21 January 2018

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Evaluation of algorithm performance in ChIP-seq peak detection

21 January 2018

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21 January 2018

Identifiers

DOI

10.2217/EPI.10.78

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26 August 2017

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PubMed ID

22122282