High-resolution digital profiling of the epigenome (Q38258264)

1 September 2017

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title

High-resolution digital profiling of the epigenome (English)

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1 September 2017

Gabriel E Zentner

1

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author name string

Steven Henikoff

series ordinal

2

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1 September 2017

9 October 2014

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1 September 2017

Nature Reviews Genetics

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1 September 2017

15

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1 September 2017

12

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1 September 2017

814-827

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https://scigraph.springernature.com/pub.10.1038/nrg3798

1 September 2017

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Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast

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https://pubmed.ncbi.nlm.nih.gov/25297728

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ISWI and CHD chromatin remodelers bind promoters but act in gene bodies

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Mot1 redistributes TBP from TATA-containing to TATA-less promoters.

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High-resolution mapping defines the cooperative architecture of Polycomb response elements

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Dynamic regulation of transcriptional states by chromatin and transcription factors.

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The histone variant H3.3 marks active chromatin by replication-independent nucleosome assembly

21 January 2018

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

21 January 2018

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Histone replacement marks the boundaries of cis-regulatory domains

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Variant histone H3.3 marks promoters of transcriptionally active genes during mammalian cell division

21 January 2018

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H3.3/H2A.Z double variant-containing nucleosomes mark 'nucleosome-free regions' of active promoters and other regulatory regions

21 January 2018

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A native chromatin purification system for epigenomic profiling in Caenorhabditis elegans

21 January 2018

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Dynamics of Replication-Independent Histone Turnover in Budding Yeast

21 January 2018

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Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function

21 January 2018

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Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3.

21 January 2018

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H3.3-H4 tetramer splitting events feature cell-type specific enhancers

21 January 2018

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Genome-wide kinetics of nucleosome turnover determined by metabolic labeling of histones

21 January 2018

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Doxorubicin enhances nucleosome turnover around promoters

21 January 2018

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Nucleosome assembly depends on the torsion in the DNA molecule: a magnetic tweezers study

21 January 2018

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A method for genome-wide analysis of DNA helical tension by means of psoralen-DNA photobinding

21 January 2018

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Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures

21 January 2018

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Transcription-dependent dynamic supercoiling is a short-range genomic force

21 January 2018

1 reference

Transcription-generated torsional stress destabilizes nucleosomes.

21 January 2018

1 reference

Measuring chromatin interaction dynamics on the second time scale at single-copy genes

21 January 2018

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Mechanism of transcription through a nucleosome by RNA polymerase II

21 January 2018

1 reference

Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans

21 January 2018

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Biases in Illumina transcriptome sequencing caused by random hexamer priming

21 January 2018

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Properties of the reverse transcription reaction in mRNA quantification

21 January 2018

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Nascent transcript sequencing visualizes transcription at nucleotide resolution

21 January 2018

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Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters

21 January 2018

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Precise maps of RNA polymerase reveal how promoters direct initiation and pausing

21 January 2018

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Physical Isolation of Nascent RNA Chains Transcribed by RNA Polymerase II: Evidence for Cotranscriptional Splicing

21 January 2018

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Nucleosomes are context-specific, H2A.Z-modulated barriers to RNA polymerase

21 January 2018

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21 January 2018

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Laser capture microscopy

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A simple method for gene expression and chromatin profiling of individual cell types within a tissue

21 January 2018

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Cell-type-specific nuclei purification from whole animals for genome-wide expression and chromatin profiling.

21 January 2018

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Cell type-specific genomics of Drosophila neurons

21 January 2018

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CAST-ChIP maps cell-type-specific chromatin states in the Drosophila central nervous system.

21 January 2018

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Tackling the epigenome: challenges and opportunities for collaboration

21 January 2018

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21 January 2018

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The Sequence Read Archive: explosive growth of sequencing data.

21 January 2018

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Nuclear neighborhoods and gene expression

21 January 2018

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Dynamic changes in histone acetylation regulate origins of DNA replication

21 January 2018

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Live-cell imaging reveals replication of individual replicons in eukaryotic replication factories

21 January 2018

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Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

21 January 2018

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Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts

21 January 2018

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Locus-specific editing of histone modifications at endogenous enhancers

21 January 2018

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CRISPRs and epigenome editing.

21 January 2018

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An auxin-based degron system for the rapid depletion of proteins in nonplant cells.

21 January 2018

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The anchor-away technique: rapid, conditional establishment of yeast mutant phenotypes

21 January 2018

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ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

21 January 2018

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Practical guidelines for the comprehensive analysis of ChIP-seq data

21 January 2018

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Genomic analysis of protein-DNA interactions in bacteria: insights into transcription and chromosome organization

21 January 2018

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Transcription factor AP1 potentiates chromatin accessibility and glucocorticoid receptor binding

21 January 2018

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Animal transcription networks as highly connected, quantitative continua

21 January 2018

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DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila

21 January 2018

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Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins

21 January 2018

1 reference

Widespread misinterpretable ChIP-seq bias in yeast

21 January 2018

1 reference

Where does mediator bind in vivo?

21 January 2018

1 reference

Kin28 regulates the transient association of Mediator with core promoters

21 January 2018

1 reference

Detecting DNA-binding of proteins in vivo by UV-crosslinking and immunoprecipitation

21 January 2018

1 reference

Inherent signals in sequencing-based Chromatin-ImmunoPrecipitation control libraries

21 January 2018

1 reference

Impact of chromatin structures on DNA processing for genomic analyses

21 January 2018

1 reference

Subunit structure of chromatin

21 January 2018

1 reference

A map of nucleosome positions in yeast at base-pair resolution

21 January 2018

1 reference

Genomic transcriptional activity and the structure of chromatin

31 March 2020

1 reference

Continuous histone H2B and transcription-dependent histone H3 exchange in yeast cells outside of replication

31 March 2020

1 reference

Distinct promoter dynamics of the basal transcription factor TBP across the yeast genome

31 March 2020

1 reference

Nuclear "run-on" transcription assays

31 March 2020

1 reference

Cell separation: Terminology and practical considerations

31 March 2020

1 reference

Optical control of mammalian endogenous transcription and epigenetic states

31 March 2020

1 reference

Large-scale quality analysis of published ChIP-seq data

31 March 2020

1 reference

Mechanism of action of micrococcal nuclease on deoxyribonucleic acid

31 March 2020

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25297728

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NRG3798

1 reference

PubMed ID

25297728

Dimensions Publication ID

1 September 2017

1039003137

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Fatcat ID

release_xpa6f4ntmbcijagton4xurb4ku

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/xpa6f4ntmbcijagton4xurb4ku

mapped directly with Wikidata item

24 November 2022

based on heuristic

PubMed ID

25297728

1 reference

PubMed ID

25297728