Folding and unfolding single RNA molecules under tension (Q33791724)

29 July 2017

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title

Folding and unfolding single RNA molecules under tension (English)

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29 July 2017

3

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author name string

Michael T Woodside

series ordinal

1

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29 July 2017

Cuauhtémoc García-García

series ordinal

2

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29 July 2017

publication date

9 September 2008

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Current Opinion in Chemical Biology

29 July 2017

published in

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29 July 2017

volume

12

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29 July 2017

issue

6

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29 July 2017

page(s)

640-646

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RNA folding: conformational statistics, folding kinetics, and ion electrostatics.

29 July 2017

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1 reference

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4 July 2018

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Applied force reveals mechanistic and energetic details of transcription termination

4 July 2018

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Following translation by single ribosomes one codon at a time.

4 July 2018

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Direct observation of hierarchical folding in single riboswitch aptamers

4 July 2018

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Characterization of the mechanical unfolding of RNA pseudoknots

4 July 2018

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Measurement of the effect of monovalent cations on RNA hairpin stability

4 July 2018

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Single-molecule mechanical unfolding and folding of a pseudoknot in human telomerase RNA.

4 July 2018

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Fluorescence-force spectroscopy maps two-dimensional reaction landscape of the holliday junction

4 July 2018

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NS3 helicase actively separates RNA strands and senses sequence barriers ahead of the opening fork

4 July 2018

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Real-time control of the energy landscape by force directs the folding of RNA molecules

4 July 2018

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Correlation between mechanical strength of messenger RNA pseudoknots and ribosomal frameshifting

4 July 2018

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4 July 2018

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Force unfolding kinetics of RNA using optical tweezers. I. Effects of experimental variables on measured results

4 July 2018

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Force unfolding kinetics of RNA using optical tweezers. II. Modeling experiments.

4 July 2018

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DNA folding and melting observed in real time redefine the energy landscape

4 July 2018

1 reference

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Direct measurement of the full, sequence-dependent folding landscape of a nucleic acid

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Unusual mechanical stability of a minimal RNA kissing complex

4 July 2018

1 reference

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Mechanical unfolding of RNA: from hairpins to structures with internal multiloops

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Modelling RNA folding under mechanical tension

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Pulling on the nascent RNA during transcription does not alter kinetics of elongation or ubiquitous pausing

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Differential detection of dual traps improves the spatial resolution of optical tweezers

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Nanomechanical measurements of the sequence-dependent folding landscapes of single nucleic acid hairpins

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Forced-unfolding and force-quench refolding of RNA hairpins

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

RNA translocation and unwinding mechanism of HCV NS3 helicase and its coordination by ATP

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Direct observation of base-pair stepping by RNA polymerase

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Probing the mechanical folding kinetics of TAR RNA by hopping, force-jump, and force-ramp methods

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Verification of the Crooks fluctuation theorem and recovery of RNA folding free energies

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Free energy surfaces from single-molecule force spectroscopy

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Simultaneous, coincident optical trapping and single-molecule fluorescence

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Thermodynamic and kinetic aspects of RNA pulling experiments

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Mechanical unfolding of RNA hairpins

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Mechanical processes in biochemistry

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Bias and error in estimates of equilibrium free-energy differences from nonequilibrium measurements

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Electrostatic interactions in a peptide--RNA complex.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Single molecule analysis of RNA polymerase elongation reveals uniform kinetic behavior

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Force-induced denaturation of RNA

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Stretching a macromolecule in an atomic force microscope: statistical mechanical analysis

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Hierarchy and dynamics of RNA folding

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Dynamic strength of molecular adhesion bonds

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Pulling direction as a reaction coordinate for the mechanical unfolding of single molecules

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Probing the complete folding trajectory of a DNA hairpin using dual beam fluorescence fluctuation spectroscopy.

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Intrinsic rates and activation free energies from single-molecule pulling experiments.

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Passive all-optical force clamp for high-resolution laser trapping

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Force-extension behavior of folding polymers

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Probing complex RNA structures by mechanical force.

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Ubiquitous transcriptional pausing is independent of RNA polymerase backtracking.

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Equilibrium information from nonequilibrium measurements in an experimental test of Jarzynski's equality

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Entropy production fluctuation theorem and the nonequilibrium work relation for free energy differences

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Reversible unfolding of single RNA molecules by mechanical force

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Multiple Probes are Required to Explore and Control the Rugged Energy Landscape of RNA Hairpins

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2855187

Force-dependent fragility in RNA hairpins

30 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18786653

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Unfolding single RNA molecules by mechanical force: a stochastic kinetic method

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18786653

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Failure of the work-Hamiltonian connection for free-energy calculations

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18786653

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/J.CBPA.2008.08.011

1 reference

29 July 2017

1 reference

29 July 2017

1 reference