ArticleBiophysical journal2009
Force-driven separation of short double-stranded DNA.
Article in Biophysical journal, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
12 citing papers in PubMed.
- Weak tension accelerates hybridization and dehybridization of short oligonucleotides.Nucleic acids research · 2023Article
- Increasing valence pushes DNA nanostar networks to the isostatic point.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Magnetic Nanotweezers for Interrogating Biological Processes in Space and Time.Accounts of chemical research · 2018Review
- Single-cell mechanogenetics using monovalent magnetoplasmonic nanoparticles.Nature protocols · 2017Article
- Elasticity of the transition state for oligonucleotide hybridization.Nucleic acids research · 2017Article
- Article
- DNA under Force: Mechanics, Electrostatics, and Hydration.Nanomaterials (Basel, Switzerland) · 2015Review
- Improving single molecule force spectroscopy through automated real-time data collection and quantification of experimental conditions.Ultramicroscopy · 2014Article
- Cytosine methylation alters DNA mechanical properties.Nucleic acids research · 2011Article
- Biophysical characterization of DNA binding from single molecule force measurements.Physics of life reviews · 2010Review
- Electrically induced bonding of DNA to gold.Nature chemistry · 2010Article
- A three-state model with loop entropy for the overstretching transition of DNA.Biophysical journal · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Short double-stranded DNA is used in a variety of nanotechnological applications, and for many of them, it is important to know for which forces and which force loading rates the DNA duplex remains stable. In this work, we develop a theoretical model that describes the force-dependent dissociation rate for DNA duplexes tens of basepairs long under tension along their axes ("shear geometry"). Explicitly, we set up a three-state equilibrium model and apply the canonical transition state theory to calculate the kinetic rates for strand unpairing and the rupture-force distribution as a function of the separation velocity of the end-to-end distance. Theory is in excellent agreement with actual single-molecule force spectroscopy results and even allows for the prediction of the rupture-force distribution for a given DNA duplex sequence and separation velocity. We further show that for describing double-stranded DNA separation kinetics, our model is a significant refinement of the conventionally used Bell-Evans model.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.