Genome-wide nucleosome specificity and directionality of chromatin remodelers. (Q42238376)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22726434%20AND%20SRC:MED&resulttype=core&format=json

5 February 2020

title

Genome-wide nucleosome specificity and directionality of chromatin remodelers (English)

1 reference

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5 February 2020

author

Vinesh Vinayachandran

1 reference

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5 February 2020

Kuangyu Yen

1 reference

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5 February 2020

Kiran Batta

1 reference

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5 February 2020

R Thomas Koerber

1 reference

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5 February 2020

B Franklin Pugh

1 reference

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5 February 2020

language of work or name

English

0 references

publication date

1 June 2012

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5 February 2020

1 reference

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5 February 2020

volume

149

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5 February 2020

issue

1 reference

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5 February 2020

page(s)

1461-1473

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22726434%20AND%20SRC:MED&resulttype=core&format=json

Genome-wide structure and organization of eukaryotic pre-initiation complexes

5 February 2020

cites work

1 reference

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Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution

26 October 2017

1 reference

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Genome-wide function of H2B ubiquitylation in promoter and genic regions

26 October 2017

1 reference

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Extranucleosomal DNA binding directs nucleosome sliding by Chd1

26 October 2017

1 reference

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A role for Snf2-related nucleosome-spacing enzymes in genome-wide nucleosome organization

26 October 2017

1 reference

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Substantial histone reduction modulates genomewide nucleosomal occupancy and global transcriptional output

26 October 2017

1 reference

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Diversity of operation in ATP-dependent chromatin remodelers

26 October 2017

1 reference

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A Packing Mechanism for Nucleosome Organization Reconstituted Across a Eukaryotic Genome

26 October 2017

1 reference

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Structure and mechanism of the chromatin remodelling factor ISW1a

26 October 2017

1 reference

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RSC remodeling of oligo-nucleosomes: an atomic force microscopy study.

26 October 2017

1 reference

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The INO80 ATP-dependent chromatin remodeling complex is a nucleosome spacing factor

26 October 2017

1 reference

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H2A.Z Maintenance during Mitosis Reveals Nucleosome Shifting on Mitotically Silenced Genes

26 October 2017

1 reference

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Regulation of replication termination by Reb1 protein-mediated action at a distance

26 October 2017

1 reference

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A proposal for kinetic proof reading by ISWI family chromatin remodeling motors

26 October 2017

1 reference

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The chromatin remodeller ACF acts as a dimeric motor to space nucleosomes

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A compiled and systematic reference map of nucleosome positions across the Saccharomyces cerevisiae genome

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

What controls nucleosome positions?

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Mechanisms that specify promoter nucleosome location and identity

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

The biology of chromatin remodeling complexes

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Nucleosome positioning and gene regulation: advances through genomics

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

GeneTrack--a genomic data processing and visualization framework.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Chromatin remodelling at promoters suppresses antisense transcription

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Domain architecture of the catalytic subunit in the ISW2-nucleosome complex

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

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

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Mechanisms of ATP dependent chromatin remodeling

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Dependency of ISW1a chromatin remodeling on extranucleosomal DNA.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Regulation of ISW2 by concerted action of histone H4 tail and extranucleosomal DNA.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A genomic code for nucleosome positioning

26 October 2017

1 reference

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Analysis of nucleosome repositioning by yeast ISWI and Chd1 chromatin remodeling complexes

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A high-resolution map of transcription in the yeast genome

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Chromatin remodeling by ISW2 and SWI/SNF requires DNA translocation inside the nucleosome

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A role for the CPF 3'-end processing machinery in RNAP II-dependent gene looping

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

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

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Single-nucleosome mapping of histone modifications in S. cerevisiae

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Functional role of extranucleosomal DNA and the entry site of the nucleosome in chromatin remodeling by ISW2.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Topography of the ISW2-nucleosome complex: insights into nucleosome spacing and chromatin remodeling

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

ISWI complexes in Saccharomyces cerevisiae

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

SWI/SNF unwraps, slides, and rewraps the nucleosome

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Evidence for DNA translocation by the ISWI chromatin-remodeling enzyme

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

A role for chromatin remodeling in transcriptional termination by RNA polymerase II.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Yeast Isw1p forms two separable complexes in vivo

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Function and selectivity of bromodomains in anchoring chromatin-modifying complexes to promoter nucleosomes.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Proteomics of the eukaryotic transcription machinery: identification of proteins associated with components of yeast TFIID by multidimensional mass spectrometry

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Genome-wide location and regulated recruitment of the RSC nucleosome-remodeling complex.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Bromodomain factor 1 corresponds to a missing piece of yeast TFIID.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Promoter targeting and chromatin remodeling by the SWI/SNF complex

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Nucleosome mobilization catalysed by the yeast SWI/SNF complex

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Cluster analysis and display of genome-wide expression patterns

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Statistical distributions of nucleosomes: nonrandom locations by a stochastic mechanism

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Statistical positioning of nucleosomes by specific protein-binding to an upstream activating sequence in yeast

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Stable and dynamic nucleosome states during a meiotic developmental process

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Widespread remodeling of mid-coding sequence nucleosomes by Isw1.

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Antagonistic forces that position nucleosomes in vivo.

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Gene loops juxtapose promoters and terminators in yeast

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Nucleosome disruption at the yeast PHO5 promoter upon PHO5 induction occurs in the absence of DNA replication

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Removal of promoter nucleosomes by disassembly rather than sliding in vivo

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Isw1 chromatin remodeling ATPase coordinates transcription elongation and termination by RNA polymerase II.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Reb1p-dependent DNA bending effects nucleosome positioning and constitutive transcription at the yeast profilin promoter.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

ISWI induces nucleosome sliding on nicked DNA.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Histone acetyltransferase complexes stabilize swi/snf binding to promoter nucleosomes.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Dynamics of Replication-Independent Histone Turnover in Budding Yeast

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397793

Nucleosome positions predicted through comparative genomics

1 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22726434

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/J.CELL.2012.04.036

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22726434%20AND%20SRC:MED&resulttype=core&format=json

5 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22726434%20AND%20SRC:MED&resulttype=core&format=json

5 February 2020

PubMed publication ID

22726434

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22726434%20AND%20SRC:MED&resulttype=core&format=json