(Q30352244)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

title

Statistical-mechanical theory of DNA looping (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

Donald M Crothers

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

Abbye E McEwen

1 reference

10 January 2020

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

Yongli Zhang

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

language of work or name

English

0 references

publication date

16 December 2005

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

number of pages

1 reference

inferred from page(s)

published in

Biophysical Journal

1 reference

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10 January 2020

volume

1 reference

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10 January 2020

issue

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

page(s)

1903-1912

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

Disruption of protein-mediated DNA looping by tension in the substrate DNA.

10 January 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Entropy loss in long-distance DNA looping

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Eukaryotic transcriptional regulatory complexes: cooperativity from near and afar

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Fluorescence resonance energy transfer over approximately 130 basepairs in hyperstable lac repressor-DNA loops

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

How to describe protein motion without amino acid sequence and atomic coordinates.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Making contacts on a nucleic acid polymer

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

HMG proteins and DNA flexibility in transcription activation

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

A structural view of cre-loxp site-specific recombination

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Regulation of the L-arabinose operon of Escherichia coli

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Structure of the tetrameric restriction endonuclease NgoMIV in complex with cleaved DNA

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

DNA constraints on transcription activation in vitro

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Specificity from the synapsis of DNA elements by the Sfi I endonuclease

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

A Brownian dynamics program for the simulation of linear and circular DNA and other wormlike chain polyelectrolytes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Transcriptional activation via DNA-looping: visualization of intermediates in the activation pathway of E. coli RNA polymerase x sigma 54 holoenzyme by scanning force microscopy.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Flexible DNA: genetically unstable CTG.CAG and CGG.CCG from human hereditary neuromuscular disease genes.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Action at a distance: DNA-looping and initiation of transcription

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Energetics of DNA twisting. I. Relation between twist and cyclization probability.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

DNA flexibility studied by covalent closure of short fragments into circles

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

An operator at -280 base pairs that is required for repression of araBAD operon promoter: addition of DNA helical turns between the operator and promoter cyclically hinders repression

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Ring closure probabilities for DNA fragments by Monte Carlo simulation.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Upstream operators enhance repression of the lac promoter

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

DNA-protein recognition: demonstration of three genetically separated operator elements that are required for repression of the Escherichia coli deoCABD promoters by the DeoR repressor.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

In vivo DNA loops in araCBAD: size limits and helical repeat

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

17 Detecting cooperative protein-DNA interactions and DNA loop formation by footprinting

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Statistical mechanics of supercoils and the torsional stiffness of the DNA double helix

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Modelling DNA loops using continuum and statistical mechanics.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Gal repressosome contains an antiparallel DNA loop

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Computation of writhe in modeling of supercoiled DNA.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

In vivo thermodynamic analysis of repression with and without looping in lac constructs. Estimates of free and local lac repressor concentrations and of physical properties of a region of supercoiled plasmid DNA in vivo.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Energetics of DNA twisting. II. Topoisomer analysis.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1386771

Designed hyperstable Lac repressor.DNA loop topologies suggest alternative loop geometries

26 November 2018

1 reference

12 December 2020

Alternative geometries of DNA looping: an analysis using the SfiI endonuclease

1 reference

12 December 2020

Torsional rigidity of DNA and length dependence of the free energy of DNA supercoiling

1 reference

12 December 2020

Analysis of the ring-closure probabilities of isotropic wormlike chains: application to duplex DNA

1 reference

12 December 2020

Measurement of lactose repressor-mediated loop formation and breakdown in single DNA molecules

1 reference

12 December 2020

Repression of lac promoter as a function of distance, phase and quality of an auxiliary lac operator

1 reference

12 December 2020

Statistics of loop formation along double helix DNAs

1 reference

12 December 2020

1 reference

12 December 2020

10.1529/BIOPHYSJ.105.070490

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json

10 January 2020

PubMed publication ID

16361335

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16361335%20AND%20SRC:MED&resulttype=core&format=json