ArticleBiophysical journal2009
Mitigating unwanted photophysical processes for improved single-molecule fluorescence imaging.
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 115 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
115 citing papers in PubMed, 214 citations in OpenAlex.
- Photophysics of Organic Fluorophore Photobluing and Its Applications in Fluorescence and Super-Resolution Microscopy.Accounts of chemical research · 2026Article
- Hidden Markov model analysis of fluorescence blinking in fluorescently labeled DNA.Scientific reports · 2026Article
- A mechanism of synergistic Mediator recruitment in RNA polymerase II transcription activation revealed by single-molecule fluorescence.Molecular cell · 2025Article
- Photostability of organic fluorophore influenced by adjacent amino acid residues.Communications chemistry · 2025Article
- Thioether editing generally increases the photostability of rhodamine dyes on self-labeling tags.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Single-molecule analysis of transcription activation: dynamics of SAGA coactivator recruitment.Nature structural & molecular biology · 2025Article
- Minimally Invasive DNA-Mediated Photostabilization for Extended Single-Molecule and Super-resolution Imaging.bioRxiv : the preprint server for biology · 2025Article
- Supervised multi-frame dual-channel denoising enables long-term single-molecule FRET under extremely low photon budget.Nature communications · 2025Article
- Single-molecule orientation-localization microscopy: Applications and approaches.Quarterly reviews of biophysics · 2024Review
- Conformational dynamics of SARS-CoV-2 Omicron spike trimers during fusion activation at single molecule resolution.Structure (London, England : 1993) · 2024Article
- SARS-CoV-2 spike fusion peptidemBio · 2024Article
- Recovering true FRET efficiencies from smFRET investigations requires triplet state mitigation.Nature methods · 2024Article
- Orange/far-red hybrid voltage indicators with reduced phototoxicity enable reliable long-term imaging in neurons and cardiomyocytes.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Photochemical Mechanisms of Fluorophores Employed in Single-Molecule Localization Microscopy.Angewandte Chemie (International ed. in English) · 2023Review
- Leveraging Baird aromaticity for advancement of bioimaging applications.Journal of physical organic chemistry · 2023Article
- Cholesterol inhibits human voltage-gated proton channel hHv1.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Single-molecule counting applied to the study of GPCR oligomerization.Biophysical journal · 2022Review
- Single-molecule analysis of actin filament debranching by cofilin and GMF.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- The Unexpected Selectivity Switching from Mitochondria to Lysosome in a D-π-A Cyanine Dye.Biosensors · 2022Article
- Principles and pitfalls of high-throughput analysis of microRNA-binding thermodynamics and kinetics by RNA Bind-n-Seq.Cell reports methods · 2022Article
55 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Organic fluorophores common to fluorescence-based investigations suffer from unwanted photophysical properties, including blinking and photobleaching, which limit their overall experimental performance. Methods to control such processes are particularly important for single-molecule fluorescence and fluorescence resonance energy transfer imaging where uninterrupted, stable fluorescence is paramount. Fluorescence and FRET-based assays have been carried out on dye-labeled DNA and RNA-based systems to quantify the effect of including small-molecule solution additives on the fluorescence and FRET behaviors of both cyanine and Alexa fluorophores. A detailed dwell time analysis of the fluorescence and FRET trajectories of more than 200,000 individual molecules showed that two compounds identified previously as triplet state quenchers, cyclooctatetraene, and Trolox, as well as 4-nitrobenzyl alcohol, act to favorably attenuate blinking, photobleaching, and influence the rate of photoresurrection in a concentration-dependent and context-dependent manner. In both biochemical systems examined, a unique cocktail of compounds was shown to be optimal for imaging performance. By simultaneously providing the most rapid and direct access to multiple photophysical kinetic parameters, smFRET imaging provides a powerful avenue for future investigations aimed at discovering new compounds, and effective combinations thereof. These efforts may ultimately facilitate tuning organic dye molecule performance according to each specific experimental demand.
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.