Troika of single particle tracking programing: SNR enhancement, particle identification, and mapping

Shuang, Bo; Chen, Jixin; Kisley, Lydia; Landes, Christy F.

doi:10.1039/c3cp53968g

Cited by 50 publications

(87 citation statements)

References 83 publications

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“…33 Comparison of data from a single pore quantified the resolution enhancement of the SOFI analysis to be up to a factor of two as compared to the diffractionlimited image ( Figures S2 and S4). Similar improvements were found for simulated diffusion under flow and anomalous Lévy diffusion ( Figure S5).…”

Section: Demonstration Of Fcssofi By Simulationmentioning

confidence: 99%

Characterization of Porous Materials by Fluorescence Correlation Spectroscopy Super-resolution Optical Fluctuation Imaging

Kisley¹,

Brunetti

Tauzin³

et al. 2015

ACS Nano

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109

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Porous materials such as cellular cytosol, hydrogels, and block copolymers have nanoscale features that determine macroscale properties. Characterizing the structure of nanopores is difficult with current techniques due to imaging, sample preparation, and computational challenges. We produce a super-resolution optical image that simultaneously characterizes the nanometer dimensions of and diffusion dynamics within porous structures by correlating stochastic fluctuations from diffusing fluorescent probes in the pores of the sample, dubbed here as "fluorescence correlation spectroscopy super-resolution optical fluctuation imaging" or "fcsSOFI". Simulations demonstrate that structural features and diffusion properties can be accurately obtained at sub-diffraction-limited resolution. We apply our technique to image agarose hydrogels and aqueous lyotropic liquid crystal gels. The heterogeneous pore resolution is improved by up to a factor of 2, and diffusion coefficients are accurately obtained through our method compared to diffraction-limited fluorescence imaging and single-particle tracking. Moreover, fcsSOFI allows for rapid and high-throughput characterization of porous materials. fcsSOFI could be applied to soft porous environments such hydrogels, polymers, and membranes in addition to hard materials such as zeolites and mesoporous silica.

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Section: Demonstration Of Fcssofi By Simulationmentioning

confidence: 99%

Characterization of Porous Materials by Fluorescence Correlation Spectroscopy Super-resolution Optical Fluctuation Imaging

Kisley¹,

Brunetti

Tauzin³

et al. 2015

ACS Nano

Self Cite

109

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“…The images obtained incorporate fluorescent spots of diffraction-limited size that are produced by the individual molecules (Figure 4a,b). Once video images have been acquired, image analysis software is employed to locate the individual fluorescent spots in each frame (34). These spots are commonly approximated by Gaussian intensity profiles (Figure 4b), but their appearance also depends on the orientations of the molecules and the optical configuration employed (47,48).…”

Section: Wide-field Fluorescence Video Microscopymentioning

confidence: 99%

Single-Molecule Investigations of Morphology and Mass Transport Dynamics in Nanostructured Materials

Higgins

Park

Tran-Ba

et al. 2015

Annual Rev. Anal. Chem.

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Nanostructured materials such as mesoporous metal oxides and phase-separated block copolymers form the basis for new monolith, membrane, and thin film technologies having applications in energy storage, chemical catalysis, and separations. Mass transport plays an integral role in governing the application-specific performance characteristics of many such materials. The majority of methods employed in their characterization provide only ensemble data, often masking the nanoscale, molecular-level details of materials morphology and mass transport. Single-molecule fluorescence methods offer direct routes to probing these characteristics on a single-molecule/single-nanostructure basis. This article provides a review of single-molecule studies focused on measurements of anisotropic diffusion, adsorption, partitioning, and confinement in nanostructured materials. Experimental methods covered include confocal and wide-field fluorescence microscopy. The results obtained promise to deepen our understanding of mass transport mechanisms in nanostructures, thus aiding in the realization of advanced materials systems.

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“…FPD is particularly useful for the spatial mapping of diffusion behavior because such measurement require a high density of tracked molecules. At this density, single-molecule tracking, becomes difficult because collision of molecules, together with their constant activation, blinking and bleaching lead to incorrected linked trajectories (29), whereas FPD is unaffected because these effects only contribute to a flat baseline that can be easily handled.…”

Section: Frame-pair Correlation For the Mapping Of Molecule Diffusionmentioning

confidence: 99%

A correlation analysis framework for localization-based super-resolution microscopy

Schnitzbauer

Wang

Bakalar

et al. 2017

Preprint

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Super-resolution images reconstructed from single-molecule localizations can reveal cellular structures close to the macromolecular scale and are now being used routinely in many biomedical research applications. However, because of their coordinate-based representation, a widely applicable and unified analysis platform that can extract a quantitative description and biophysical parameters from these images is yet to be established. Here, we propose a conceptual framework for correlation analysis of coordinate-based super-resolution images using distance histograms.We demonstrate the application of this concept in multiple scenarios including image alignment, tracking of diffusing molecules, as well as for quantification of colocalization. Significance statementCorrelation analysis is one of the most widely used image processing method. In the quantitative analysis of localization-based super-resolution images, there still lacks a generalized coordinatebased correlation analysis framework to take fully advantage of the super-resolution information.We show a coordinate-based correlation analysis framework for localization-based superresolution microscopy. This framework is highly general and flexible in that it can be easily extended to model the effect of localization uncertainty, to the time domain and other distance definitions, enabling it to be adapted for a wide range of applications. Our work will greatly benefit the quantitative interpretation of super-resolution images and thus the biological application of super-resolution microscopy.

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Troika of single particle tracking programing: SNR enhancement, particle identification, and mapping

Cited by 50 publications

References 83 publications

Characterization of Porous Materials by Fluorescence Correlation Spectroscopy Super-resolution Optical Fluctuation Imaging

Characterization of Porous Materials by Fluorescence Correlation Spectroscopy Super-resolution Optical Fluctuation Imaging

Single-Molecule Investigations of Morphology and Mass Transport Dynamics in Nanostructured Materials

A correlation analysis framework for localization-based super-resolution microscopy

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