(Q34104251)

31 July 2017

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title

A structural perspective on the where, how, why, and what of nucleosome positioning (English)

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31 July 2017

Gaurav Arya

1

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31 July 2017

Arijit Maitra

series ordinal

2

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31 July 2017

Sergei A Grigoryev

series ordinal

3

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31 July 2017

publication date

1 June 2010

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Journal of Biomolecular Structure and Dynamics

31 July 2017

published in

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31 July 2017

volume

27

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31 July 2017

issue

6

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31 July 2017

page(s)

803-820

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Controlling the double helix

31 July 2017

cites work

1 reference

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21 January 2018

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Histone modifications at human enhancers reflect global cell-type-specific gene expression

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The logic of chromatin architecture and remodelling at promoters

21 January 2018

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Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains

21 January 2018

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Biased chromatin signatures around polyadenylation sites and exons

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21 January 2018

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Naturally occurring poly(dA-dT) sequences are upstream promoter elements for constitutive transcription in yeast

21 January 2018

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Nucleosome positioning and gene regulation: advances through genomics

21 January 2018

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CTCF: master weaver of the genome

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

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

21 January 2018

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Sequence structure of hidden 10.4-base repeat in the nucleosomes of C. elegans

21 January 2018

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Epigenetic nucleosomes: Alu sequences and CG as nucleosome positioning element

21 January 2018

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Nucleosome DNA sequence pattern revealed by multiple alignment of experimentally mapped sequences

21 January 2018

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Genomic sequence is highly predictive of local nucleosome depletion

21 January 2018

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Nucleosome positioning signals in genomic DNA

21 January 2018

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The DNA-encoded nucleosome organization of a eukaryotic genome

21 January 2018

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What positions nucleosomes?--A model

21 January 2018

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Distinctive sequence patterns in metazoan and yeast nucleosomes: implications for linker histone binding to AT-rich and methylated DNA.

21 January 2018

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

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Nucleosome mobility and the maintenance of nucleosome positioning

21 January 2018

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Interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome

21 January 2018

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Role of histone tails in chromatin folding revealed by a mesoscopic oligonucleosome model

21 January 2018

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Twist constraints on linker DNA in the 30-nm chromatin fiber: implications for nucleosome phasing

21 January 2018

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A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin

21 January 2018

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21 January 2018

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21 January 2018

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Cooperation between complexes that regulate chromatin structure and transcription

21 January 2018

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https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

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

21 January 2018

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Modulation of ISWI function by site-specific histone acetylation

21 January 2018

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Antagonistic forces that position nucleosomes in vivo.

21 January 2018

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Chromatin remodelers act globally, sequence positions nucleosomes locally

21 January 2018

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Acetylation of histone H3 at the nucleosome dyad alters DNA-histone binding.

21 January 2018

1 reference

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A tale of tails: how histone tails mediate chromatin compaction in different salt and linker histone environments

21 January 2018

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Structure of HP1 chromodomain bound to a lysine 9-methylated histone H3 tail

21 January 2018

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Structural determinants for generating centromeric chromatin

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Transcription. Gene expression--where to start?

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Stress-dependent dynamics of global chromatin remodeling in yeast: dual role for SWI/SNF in the heat shock stress response

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Molecular mechanisms of transcriptional regulation in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Precise nucleosome positioning and the TATA box dictate requirements for the histone H4 tail and the bromodomain factor Bdf1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Spontaneous access to DNA target sites in folded chromatin fibers

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Histone H2A.Z regulats transcription and is partially redundant with nucleosome remodeling complexes

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Bypassing the requirements for epigenetic modifications in gene transcription by increasing enhancer strength

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Large-scale chromatin structure of inducible genes: transcription on a condensed, linear template.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

The folding and unfolding of eukaryotic chromatin.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Hydrodynamic studies on defined heterochromatin fragments support a 30-nm fiber having six nucleosomes per turn

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Involvement of histone H1 in the organization of the nucleosome and of the salt-dependent superstructures of chromatin

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Chromatin higher-order structure studied by neutron scattering and scanning transmission electron microscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

A chromatin folding model that incorporates linker variability generates fibers resembling the native structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Three-dimensional structure of extended chromatin fibers as revealed by tapping-mode scanning force microscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Nucleosome arrays reveal the two-start organization of the chromatin fiber

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

X-ray structure of a tetranucleosome and its implications for the chromatin fibre

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Chromatin conformation in living cells: support for a zig-zag model of the 30 nm chromatin fiber

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Nucleosomes, linker DNA, and linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Computer simulation of the 30-nanometer chromatin fiber.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

The effect of internucleosomal interaction on folding of the chromatin fiber

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Flexible histone tails in a new mesoscopic oligonucleosome model

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

The three-dimensional architecture of chromatin in situ: electron tomography reveals fibers composed of a continuously variable zig-zag nucleosomal ribbon

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

30 nm chromatin fibre decompaction requires both H4-K16 acetylation and linker histone eviction

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Structure of chromatin and the linking number of DNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Chromatin fibers are left-handed double helices with diameter and mass per unit length that depend on linker length.

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Structure of the '30 nm' chromatin fibre: a key role for the linker histone

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Histone H4-K16 acetylation controls chromatin structure and protein interactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Single-molecule force spectroscopy reveals a highly compliant helical folding for the 30-nm chromatin fiber

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

A variable topology for the 30-nm chromatin fibre

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

An all-atom model of the chromatin fiber containing linker histones reveals a versatile structure tuned by the nucleosomal repeat length

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Nucleosome repeat length and linker histone stoichiometry determine chromatin fiber structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Higher-order structures of chromatin: the elusive 30 nm fiber

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Nucleosome geometry and internucleosomal interactions control the chromatin fiber conformation

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Specific distribution of the Saccharomyces cerevisiae linker histone homolog HHO1p in the chromatin

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Suppression of homologous recombination by the Saccharomyces cerevisiae linker histone

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Linker histone H1 is essential for Drosophila development, the establishment of pericentric heterochromatin, and a normal polytene chromosome structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Keeping fingers crossed: heterochromatin spreading through interdigitation of nucleosome arrays

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Dynamic binding of histone H1 to chromatin in living cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

ACF, an ISWI-containing and ATP-utilizing chromatin assembly and remodeling factor

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Acf1 confers unique activities to ACF/CHRAC and promotes the formation rather than disruption of chromatin in vivo

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Nucleosome disruption and enhancement of activator binding by a human SW1/SNF complex

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Informative priors based on transcription factor structural class improve de novo motif discovery

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

Chromatin organization marks exon-intron structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1080%2F07391102.2010.10508585

10.1080/07391102.2010.10508585

21 January 2018

Identifiers

DOI

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31 July 2017

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