(Q35129020)

6 August 2017

title

A computational study of nucleosomal DNA flexibility (English)

1 reference

6 August 2017

main subject

computational biology

1 reference

Jory Z Ruscio

1

1 reference

6 August 2017

Alexey Onufriev

series ordinal

2

1 reference

6 August 2017

language of work or name

English

0 references

publication date

4 August 2006

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6 August 2017

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6 August 2017

volume

91

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6 August 2017

issue

11

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6 August 2017

page(s)

4121-4132

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Generalized theory of semiflexible polymers

6 August 2017

cites work

1 reference

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28 July 2018

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Electrostatic mechanism of nucleosomal array folding revealed by computer simulation

28 July 2018

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DNA twisting flexibility and the formation of sharply looped protein-DNA complexes

28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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The structure of DNA in the nucleosome core

28 July 2018

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Statistical mechanics of sequence-dependent circular DNA and its application for DNA cyclization

28 July 2018

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Spontaneous access of proteins to buried nucleosomal DNA target sites occurs via a mechanism that is distinct from nucleosome translocation

28 July 2018

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All-Atom Structure Prediction and Folding Simulations of a Stable Protein

28 July 2018

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Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 a resolution

28 July 2018

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Molecular dynamics simulation of nucleic acids: successes, limitations, and promise

28 July 2018

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28 July 2018

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Review: chromatin structural features and targets that regulate transcription

28 July 2018

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Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome

28 July 2018

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Alteration of nucleosome structure as a mechanism of transcriptional regulation

28 July 2018

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Two distinct modes of protein-induced bending in DNA.

28 July 2018

1 reference

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DNA flexibility studied by covalent closure of short fragments into circles

28 July 2018

1 reference

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The definition of generalized helicoidal parameters and of axis curvature for irregular nucleic acids

28 July 2018

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Evidence for kinks in DNA folding in the nucleosome.

28 July 2018

1 reference

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The structure of DNA in a nucleosome

28 July 2018

1 reference

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DNA bending, flexibility, and helical repeat by cyclization kinetics.

28 July 2018

1 reference

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Cyclization of short DNA fragments and bending fluctuations of the double helix

28 July 2018

1 reference

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Spontaneous sharp bending of double-stranded DNA.

27 September 2018

1 reference

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Histone-DNA binding free energy cannot be measured in dilution-driven dissociation experiments

27 September 2018

1 reference

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Comparison of protein solution structures refined by molecular dynamics simulation in vacuum, with a generalized Born model, and with explicit water

27 September 2018

1 reference

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Modeling salt-mediated electrostatics of macromolecules: the discrete surface charge optimization algorithm and its application to the nucleosome

27 September 2018

1 reference

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Human immunodeficiency virus integrase directs integration to sites of severe DNA distortion within the nucleosome core

27 September 2018

1 reference

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Interplay between chromatin structure and transcription.

27 September 2018

1 reference

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Structural details, pathways, and energetics of unfolding apomyoglobin

27 September 2018

1 reference

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The histone core exerts a dominant constraint on the structure of DNA in a nucleosome

27 September 2018

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12 December 2020

Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation

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12 December 2020

Molecular dynamics simulations of a nucleosome and free DNA

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12 December 2020

DNA distortion as a factor in nucleosome positioning

1 reference

12 December 2020

Theory and applications of the generalized Born solvation model in macromolecular simulations

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12 December 2020

Contribution of the intrinsic curvature to measured DNA persistence length

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12 December 2020

Blocking transcription through a nucleosome with synthetic DNA ligands

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12 December 2020

Localized single-stranded bubble mechanism for cyclization of short double helix DNA

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12 December 2020

10.1529/BIOPHYSJ.106.082099

Identifiers

DOI

1 reference

6 August 2017

1 reference

6 August 2017

1 reference