(Q60020790)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30523779%20AND%20SRC:MED&resulttype=core&format=json

12 April 2020

title

DNA sequence encodes the position of DNA supercoils (English)

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12 April 2020

6

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12 April 2020

Doseok Kim

1

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12 April 2020

Mahipal Ganji

2

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12 April 2020

author name string

Eugene Kim

3

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12 April 2020

Jaco van der Torre

4

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12 April 2020

Elio Abbondanzieri

5

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12 April 2020

language of work or name

English

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publication date

7 December 2018

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12 April 2020

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12 April 2020

volume

7

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The apical localization of transcribing RNA polymerases on supercoiled DNA prevents their rotation around the template

12 April 2020

cites work

1 reference

12 December 2020

Energetics of the strand separation transition in superhelical DNA

1 reference

12 December 2020

Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles

1 reference

12 December 2020

Rotational orientation of upstream curved DNA affects promoter function in Bacillus subtilis

1 reference

12 December 2020

Influence of the sequence-dependent flexure of DNA on transcription in E. coli

1 reference

12 December 2020

Supercoiling of the DNA template during transcription

1 reference

12 December 2020

Curved helix segments can uniquely orient the topology of supertwisted DNA.

1 reference

12 December 2020

Visualization of RNA polymerase II ternary transcription complexes formed in vitro on a Xenopus laevis vitellogenin gene

1 reference

12 December 2020

The twisted circular form of polyoma viral DNA

1 reference

12 December 2020

Chromosomes in living Escherichia coli cells are segregated into domains of supercoiling

1 reference

12 December 2020

Promoters responsive to DNA bending: a common theme in prokaryotic gene expression

1 reference

12 December 2020

DNA curvature influences the internal motions of supercoiled DNA.

1 reference

12 December 2020

Evidence of DNA bending in transcription complexes imaged by scanning force microscopy

1 reference

12 December 2020

Supercoiling-dependent flexibility of adenosine-tract-containing DNA detected by a topological method.

1 reference

12 December 2020

The nucleotide sequence of Saccharomyces cerevisiae chromosome V.

1 reference

12 December 2020

The nucleotide sequence of Saccharomyces cerevisiae chromosome IX.

1 reference

12 December 2020

The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.

1 reference

12 December 2020

The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications

1 reference

12 December 2020

The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI.

1 reference

12 December 2020

Superhelix organization by DNA curvature as measured through site-specific labeling

1 reference

12 December 2020

DNA sequence-dependent deformability deduced from protein-DNA crystal complexes

1 reference

12 December 2020

Curved DNA in promoter sequences

1 reference

12 December 2020

Structural basis for the transition from initiation to elongation transcription in T7 RNA polymerase

1 reference

12 December 2020

Structure of a T7 RNA polymerase elongation complex at 2.9 A resolution

1 reference

12 December 2020

DNA Basepair Step Deformability Inferred from Molecular Dynamics Simulations

1 reference

12 December 2020

Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli

1 reference

12 December 2020

Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes

1 reference

12 December 2020

Genome analysis of Escherichia coli promoter sequences evidences that DNA static curvature plays a more important role in gene transcription than has previously been anticipated

1 reference

12 December 2020

A common topology for bacterial and eukaryotic transcription initiation?

1 reference

12 December 2020

Nucleosome positioning and gene regulation: advances through genomics

1 reference

12 December 2020

DNA sequence-directed organization of chromatin: structure-based computational analysis of nucleosome-binding sequences

1 reference

12 December 2020

Using DNA mechanics to predict in vitro nucleosome positions and formation energies.

1 reference

12 December 2020

The DNA sequence-dependence of nucleosome positioning in vivo and in vitro

1 reference

12 December 2020

Single-molecule measurements of DNA topology and topoisomerases.

1 reference

12 December 2020

A decade of 3C technologies: insights into nuclear organization

1 reference

12 December 2020

Competition between curls and plectonemes near the buckling transition of stretched supercoiled DNA.

1 reference

12 December 2020

Dynamics of DNA Supercoils

1 reference

12 December 2020

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

1 reference

12 December 2020

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

1 reference

12 December 2020

Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

1 reference

12 December 2020

Transcription under torsion

1 reference

12 December 2020

High-resolution mapping of the spatial organization of a bacterial chromosome

1 reference

12 December 2020

Genome-wide mapping of transcriptional start sites defines an extensive leaderless transcriptome in Mycobacterium tuberculosis

1 reference

12 December 2020

Mechanism of transcriptional bursting in bacteria

1 reference

12 December 2020

Effects of supercoiling on enhancer-promoter contacts

1 reference

12 December 2020

DNA supercoiling: a regulatory signal for the λ repressor

1 reference

12 December 2020

Plectoneme tip bubbles: coupled denaturation and writhing in supercoiled DNA.

1 reference

12 December 2020

The global regulatory architecture of transcription during the Caulobacter cell cycle

1 reference

12 December 2020

Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation

1 reference

12 December 2020

Transcriptome analysis of thermophilic methylotrophic Bacillus methanolicus MGA3 using RNA-sequencing provides detailed insights into its previously uncharted transcriptional landscape

1 reference

12 December 2020

Structural and functional diversity of Topologically Associating Domains

1 reference

12 December 2020

Structural diversity of supercoiled DNA.

1 reference

12 December 2020

Counterintuitive DNA Sequence Dependence in Supercoiling-Induced DNA Melting

1 reference

12 December 2020

RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.

1 reference

12 December 2020

Structure and dynamics of DNA loops on nucleosomes studied with atomistic, microsecond-scale molecular dynamics.

1 reference

12 December 2020

Multiplexing Genetic and Nucleosome Positioning Codes: A Computational Approach

1 reference

12 December 2020

Intercalation-Based Single-Molecule Fluorescence Assay To Study DNA Supercoil Dynamics.

1 reference

12 December 2020

DNA binding proteins explore multiple local configurations during docking via rapid rebinding

1 reference

12 December 2020

The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms

1 reference

12 December 2020

Genomes of Multicellular Organisms Have Evolved to Attract Nucleosomes to Promoter Regions

1 reference

12 December 2020

Influence of DNA sequence on the structure of minicircles under torsional stress

1 reference

12 December 2020

Supercoiling DNA Locates Mismatches

1 reference

12 December 2020

Identifiers

DOI

10.7554/ELIFE.36557

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30523779%20AND%20SRC:MED&resulttype=core&format=json

12 April 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30523779%20AND%20SRC:MED&resulttype=core&format=json

12 April 2020

PubMed publication ID

30523779

1 reference