ArticleBiophysical journal2007
Analysis of kinetics in noisy systems: application to single molecule tethered particle motion.
Article in Biophysical journal, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
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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.
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Who cites it
8 citing papers in PubMed.
- High-Speed Optical Traps Address Dynamics of Processive and Non-Processive Molecular Motors.Methods in molecular biology (Clifton, N.J.) · 2022Article
- A Multiplexable Plasmonic Hairpin-DNA Sensor Based On Target-specific Tether Dynamics.ACS sensors · 2021Article
- Single-Bond Association Kinetics Determined by Tethered Particle Motion: Concept and Simulations.Biophysical journal · 2016Article
- Optical Methods to Study Protein-DNA Interactions in Vitro and in Living Cells at the Single-Molecule Level.International journal of molecular sciences · 2013Article
- Ultrafast force-clamp spectroscopy of single molecules reveals load dependence of myosin working stroke.Nature methods · 2012Article
- HU protein induces incoherent DNA persistence length.Biophysical journal · 2011Article
- Probing DNA topology using tethered particle motion.Methods in molecular biology (Clifton, N.J.) · 2011Article
- Single-molecule manipulation reveals supercoiling-dependent modulation of lac repressor-mediated DNA looping.Nucleic acids research · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In the tethered particle motion method the length of a DNA molecule is monitored by measuring the range of diffusion of a microsphere tethered to the surface of a microscope coverslip through the DNA molecule itself. Looping of DNA (induced by binding of a specific protein) can be detected with this method and the kinetics of the looping/unlooping processes can be measured at the single molecule level. The microsphere's position variance represents the experimental variable reporting on the polymer length. Therefore, data windowing is required to obtain position variance from raw position data. Due to the characteristic diffusion time of the microsphere, the low-pass filtering required to attain a good signal/noise ratio (S/N) in the discrimination of looped versus unlooped state impacts significantly the measurement's time resolution. Here we present a method for measuring lifetimes based on half-amplitude thresholding and then correcting the kinetic measurements, taking into account low S/N (leading to false events) and limited time resolution (leading to missed events). This method allows an accurate and unbiased estimation of the kinetic parameters under investigation, independently of the choice of the window used for variance calculation, with potential applications to other single molecule measurements with low S/N.
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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.