ArticleThe journal of physical chemistry. B2006
Fluorescence correlation spectroscopy simulations of photophysical phenomena and molecular interactions: a molecular dynamics/monte carlo approach.
Article in The journal of physical chemistry. B, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 50 citations in OpenAlex.
- Cationic Polyelectrolyte Adsorption onto Anionic Nanoparticles Analyzed with Frequency-Domain Scanning Fluorescence Correlation Spectroscopy.Small methods · 2025Article
- Disentangling Timescales of Molecular Kinetics with spFRET using ALEX-FCS.Journal of fluorescence · 2025Article
- Enhancing fluorescence correlation spectroscopy with machine learning to infer anomalous molecular motion.Biophysical journal · 2025Article
- Simulation Studies of Dynamical Heterogeneity in a Dense Two-Dimensional Dimer-Solvent System with Obstacles.Entropy (Basel, Switzerland) · 2024Article
- Quantitative characterization of membrane-protein reversible association using FCS.Biophysical journal · 2023Article
- Coevolution and smFRET Enhances Conformation Sampling and FRET Experimental Design in Tandem PDZ1-2 Proteins.The journal of physical chemistry. B · 2023Article
- Nanowaveguide-illuminated fluorescence correlation spectroscopy for single molecule studies.AIP advances · 2021Article
- Understanding biochemical processes in the presence of sub-diffusive behavior of biomolecules in solution and living cells.Biophysical reviews · 2019Review
- Quantitative imaging of mammalian transcriptional dynamics: from single cells to whole embryos.BMC biology · 2016Review
- Perspective: On the importance of hydrodynamic interactions in the subcellular dynamics of macromolecules.The Journal of chemical physics · 2016Article
- In vivo fluorescence correlation spectroscopy analyses of FMBP-1, a silkworm transcription factor.FEBS open bio · 2016Article
- Exploring the dynamics of cell processes through simulations of fluorescence microscopy experiments.Biophysical journal · 2015Article
- Macromolecular interactions of the bacterial division FtsZ protein: from quantitative biochemistry and crowding to reconstructing minimal divisomes in the test tube.Biophysical reviews · 2013Review
- Filtered FCS: species auto- and cross-correlation functions highlight binding and dynamics in biomolecules.Chemphyschem : a European journal of chemical physics and physical chemistry · 2012Article
- Circumvention of fluorophore photobleaching in fluorescence fluctuation experiments: a beam scanning approach.Chemphyschem : a European journal of chemical physics and physical chemistry · 2007Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Fluorescence correlation spectroscopy (FCS) is being applied increasingly to study diffusion and interactions of fluorescently labeled macromolecules in complex biological systems. Fluctuations in detected fluorescence, deltaF(t), are expressed as time-correlation functions, G(tau), and photon-count histograms, P(k;DeltaT). Here, we developed a generalized simulation approach to compute G(tau) and P(k;DeltaT) for complex systems with arbitrary geometry, photophysics, diffusion, and macromolecular interactions. G(tau) and P(k;DeltaT) were computed from deltaF(t) generated by a Brownian dynamics simulation of single-molecule trajectories followed by a Monte Carlo simulation of fluorophore excitation and detection statistics. Simulations were validated by comparing analytical and simulated G(tau) and P(k;DeltaT) for diffusion of noninteracting fluorophores in a three-dimensional Gaussian excitation and detection volume. Inclusion of photobleaching and triplet-state relaxation produced significant changes in G(tau) and P(k;DeltaT). Simulations of macromolecular interactions and complex diffusion were done, including transient fluorophore binding to an immobile matrix, cross-correlation analysis of interacting fluorophores, and anomalous sub- and superdiffusion. The computational method developed here is generally applicable for simulating FCS measurements on systems complicated by fluorophore interactions or molecular crowding, and experimental protocols for which G(tau) and P(k;DeltaT) cannot be computed analytically.
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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.