ArticleBiophysical journal2016
Single-Molecule Analysis beyond Dwell Times: Demonstration and Assessment in and out of Equilibrium.
Article in Biophysical journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 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
39 citing papers in PubMed.
- Denoise Stepwise Signals by Diffusion Model-Based Approach.Small methods · 2026Article
- Objective clustering protocol for single-molecule data: A lifetime vs. intensity study.Biophysical reports · 2026Article
- Foundation model for efficient biological discovery in single-molecule time traces.Nature methods · 2025Article
- Supervised multi-frame dual-channel denoising enables long-term single-molecule FRET under extremely low photon budget.Nature communications · 2025Article
- Increasing the accuracy of single-molecule data analysis using tMAVEN.Biophysical journal · 2024Article
- Deep-LASI, single-molecule data analysis software.Biophysical journal · 2024Article
- Carbon-nanotube field-effect transistors for resolving single-molecule aptamer-ligand binding kinetics.Nature nanotechnology · 2024Article
- Increasing the accuracy of single-molecule data analysis using tMAVEN.bioRxiv : the preprint server for biology · 2024Article
- Cochaperones convey the energy of ATP hydrolysis for directional action of Hsp90.Nature communications · 2024Article
- The Onset of Molecule-Spanning Dynamics in Heat Shock Protein Hsp90.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Deep-LASI: deep-learning assisted, single-molecule imaging analysis of multi-color DNA origami structures.Nature communications · 2023Article
- Aha1 regulates Hsp90's conformation and function in a stoichiometry-dependent way.Biophysical journal · 2023Article
- A blind benchmark of analysis tools to infer kinetic rate constants from single-molecule FRET trajectories.Nature communications · 2022Article
- Heterogeneous migration routes of DNA triplet repeat slip-outs.Biophysical reports · 2022Article
- Theory and Analysis of Single-Molecule FRET Experiments.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Can DyeCycling break the photobleaching limit in single-molecule FRET?Nano research · 2022Article
- Joint Detection of Change Points in Multichannel Single-Molecule Measurements.The journal of physical chemistry. B · 2021Article
- FIB-milled plasmonic nanoapertures allow for long trapping times of individual proteins.iScience · 2021Article
- Nanopore electro-osmotic trap for the label-free study of single proteins and their conformations.Nature nanotechnology · 2021Article
- The NEOtrap - en route with a new single-molecule technique.iScience · 2021Review
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
Abstract
We present a simple and robust technique for extracting kinetic rate models and thermodynamic quantities from single-molecule time traces. Single-molecule analysis of complex kinetic sequences (SMACKS) is a maximum-likelihood approach that resolves all statistically relevant rates and also their uncertainties. This is achieved by optimizing one global kinetic model based on the complete data set while allowing for experimental variations between individual trajectories. In contrast to dwell-time analysis, which is the current standard method, SMACKS includes every experimental data point, not only dwell times. As a result, it works as well for long trajectories as for an equivalent set of short ones. In addition, the previous systematic overestimation of fast over slow rates is solved. We demonstrate the power of SMACKS on the kinetics of the multidomain protein Hsp90 measured by single-molecule Förster resonance energy transfer. Experiments in and out of equilibrium are analyzed and compared to simulations, shedding new light on the role of Hsp90's ATPase function. SMACKS resolves accurate rate models even if states cause indistinguishable signals. Thereby, it pushes the boundaries of single-molecule kinetics beyond those of current methods.
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.