(Q42235592)

19 October 2017

DNA hybridization kinetics: zippering, internal displacement and sequence dependence (English)

1 reference

19 October 2017

3

1 reference

19 October 2017

Thomas E Ouldridge

1

1 reference

19 October 2017

Petr Sulc

series ordinal

2

1 reference

19 October 2017

Jonathan P K Doye

series ordinal

4

1 reference

19 October 2017

Ard A Louis

series ordinal

5

1 reference

19 October 2017

8 August 2013

1 reference

19 October 2017

Nucleic Acids Research

1 reference

19 October 2017

41

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19 October 2017

19

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19 October 2017

8886-8895

1 reference

Creative Commons Attribution 3.0 Unported

19 October 2017

start time

4 October 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

A Coarse Grained Model for Atomic-Detailed DNA Simulations with Explicit Electrostatics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

The role of collective motion in examples of coarsening and self-assembly.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Moving beyond Watson-Crick models of coarse grained DNA dynamics.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Challenges and opportunities for structural DNA nanotechnology

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Sequence effects in the melting and renaturation of short DNA oligonucleotides: structure and mechanistic pathways

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Forward flux sampling for rare event simulations

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Scaling up digital circuit computation with DNA strand displacement cascades

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Uncovering pathways in DNA oligonucleotide hybridization via transition state analysis

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Multiscale modeling of emergent materials: biological and soft matter

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Influence of secondary structure on kinetics and reaction mechanism of DNA hybridization

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Secondary structure effects on DNA hybridization kinetics: a solution versus surface comparison

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

The thermodynamics of DNA structural motifs

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

RNA folding at elementary step resolution

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Model calculations on the kinetics of oligonucleotide double helix coil transitions. Evidence for a fast chain sliding reaction

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

A new principle of RNA folding based on pseudoknotting

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

The effect of topology on the structure and free energy landscape of DNA kissing complexes.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Implication of RNA structure on antisense oligonucleotide hybridization kinetics

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Slow closure of denaturation bubbles in DNA: twist matters

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Coarse-grained simulations of DNA overstretching.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Optimizing DNA nanotechnology through coarse-grained modeling: a two-footed DNA walker.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Exploring the mechanisms of DNA hybridization on a surface

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Sequence-dependent thermodynamics of a coarse-grained DNA model.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Lattice model of oligonucleotide hybridization in solution. I. Model and thermodynamics.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

DNA nanotweezers studied with a coarse-grained model of DNA.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Control of DNA strand displacement kinetics using toehold exchange.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Langevin thermostat for rigid body dynamics.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3799446

Thermodynamic Analysis of Interacting Nucleic Acid Strands

17 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKT687

A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKT687

Mean-field interactions between nucleic-acid-base dipoles can drive the formation of a double helix

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKT687

Co-operative non-enzymatic base recognition III. Kinetics of the helix—coil transition of the oligoribouridylic · oligoriboadenylic acid system and of oligoriboadenylic acid alone at acidic pH

21 January 2018

1 reference

12 December 2020

Relaxation kinetics of dimer formation by self complementary oligonucleotides

1 reference

12 December 2020

A systematically coarse-grained model for DNA and its predictions for persistence length, stacking, twist, and chirality

1 reference

12 December 2020

Sensitive fluorescence-based thermodynamic and kinetic measurements of DNA hybridization in solution

1 reference

12 December 2020

Model for assembly and gelation of four-armed DNA dendrimers

1 reference

12 December 2020

The self-assembly of DNA Holliday junctions studied with a minimal model

1 reference

12 December 2020

Thermodynamics of DNA hybridization on surfaces

1 reference

12 December 2020

DNA cruciform arms nucleate through a correlated but asynchronous cooperative mechanism

1 reference

12 December 2020

Elementary steps of base recognition and helix-coil transitions in nucleic acids

1 reference

12 December 2020

Sampling Rare Switching Events in Biochemical Networks

1 reference

12 December 2020

Reversible gels of patchy particles: Role of the valence

1 reference

12 December 2020

Structural, mechanical, and thermodynamic properties of a coarse-grained DNA model

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKT687

1 reference

19 October 2017

1 reference

1 reference

19 October 2017

PubMed publication ID

23935069

1 reference