(Q34010428)

30 July 2017

title

Fitting experimental transcription data with a comprehensive template-dependent modular kinetic model (English)

1 reference

30 July 2017

Sandra J Greive

1

1 reference

30 July 2017

Brandon A Dyer

2

1 reference

30 July 2017

Steven E Weitzel

3

1 reference

30 July 2017

Jim P Goodarzi

4

1 reference

30 July 2017

Lisa J Main

5

1 reference

30 July 2017

Peter H von Hippel

6

1 reference

30 July 2017

language of work or name

English

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publication date

1 September 2011

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30 July 2017

number of pages

9

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inferred from page(s)

published in

Biophysical Journal

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30 July 2017

volume

101

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30 July 2017

issue

5

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30 July 2017

page(s)

1166-1174

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Development of a "modular" scheme to describe the kinetics of transcript elongation by RNA polymerase

30 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Cooperation between translating ribosomes and RNA polymerase in transcription elongation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

An allosteric mechanism of Rho-dependent transcription termination

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Macromolecular micromovements: how RNA polymerase translocates

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Nucleosomal fluctuations govern the transcription dynamics of RNA polymerase II.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Mechanism of sequence-specific pausing of bacterial RNA polymerase

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Applied force reveals mechanistic and energetic details of transcription termination

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Monitoring RNA transcription in real time by using surface plasmon resonance

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

RNA polymerase: the vehicle of transcription

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

The regulatory roles and mechanism of transcriptional pausing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Terminating the transcript: breaking up is hard to do.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Thermodynamic and kinetic modeling of transcriptional pausing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Direct observation of base-pair stepping by RNA polymerase

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Thinking quantitatively about transcriptional regulation.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

RNA hairpin-folding kinetics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Allosteric control of RNA polymerase by a site that contacts nascent RNA hairpins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Single-molecule study of transcriptional pausing and arrest by E. coli RNA polymerase

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Regulation of the elongation-termination decision at intrinsic terminators by antitermination protein N of phage lambda

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

A model for the mechanism of polymerase translocation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Transcription termination at intrinsic terminators: the role of the RNA hairpin

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Transcription by single molecules of RNA polymerase observed by light microscopy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Transcript elongation and termination are competitive kinetic processes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

RNA folding during transcription by Escherichia coli RNA polymerase analyzed by RNA self-cleavage

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Parameter estimation by least-squares methods

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

RNA polymerase active center: the molecular engine of transcription

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Stochastic kinetics description of a simple transcription model.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Analytical theory of the nonequilibrium spatial distribution of RNA polymerase translocations

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Ubiquitous transcriptional pausing is independent of RNA polymerase backtracking.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Shortening of RNA:DNA hybrid in the elongation complex of RNA polymerase is a prerequisite for transcription termination

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Active Escherichia coli transcription elongation complexes are functionally homogeneous.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Isolation and characterization of sigma(70)-retaining transcription elongation complexes from Escherichia coli

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Pausing by bacterial RNA polymerase is mediated by mechanistically distinct classes of signals

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Folding of a large ribozyme during transcription and the effect of the elongation factor NusA.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

RNA polymerase switches between inactivated and activated states By translocating back and forth along the DNA and the RNA.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Stability of Escherichia coli transcription complexes near an intrinsic terminator.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3164171

Mechanochemical kinetics of transcription elongation

29 October 2018

1 reference

12 December 2020

A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing

1 reference

12 December 2020

The 8-nucleotide-long RNA:DNA hybrid is a primary stability determinant of the RNA polymerase II elongation complex

1 reference

12 December 2020

Multiple RNA polymerase conformations and GreA: control of the fidelity of transcription

1 reference

12 December 2020

Sequence-dependent kinetic model for transcription elongation by RNA polymerase

1 reference

12 December 2020

10.1016/J.BPJ.2011.07.043

Identifiers

DOI

1 reference

30 July 2017

1 reference

30 July 2017

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