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  1. Article ; Online: Effect of water-soluble fullerenes on macrophage surface ultrastructure revealed by scanning ion conductance microscopy.

    Ruan, Hefei / Zhang, Xuejie / Yuan, Jinghe / Fang, Xiaohong

    RSC advances

    2022  Volume 12, Issue 34, Page(s) 22197–22201

    Abstract: ... ...

    Abstract C
    Language English
    Publishing date 2022-08-10
    Publishing country England
    Document type Journal Article
    ISSN 2046-2069
    ISSN (online) 2046-2069
    DOI 10.1039/d2ra02403a
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  2. Article: Effect of water-soluble fullerenes on macrophage surface ultrastructure revealed by scanning ion conductance microscopy

    Ruan, Hefei / Zhang, Xuejie / Yuan, Jinghe / Fang, Xiaohong

    RSC advances. 2022 Aug. 10, v. 12, no. 34

    2022  

    Abstract: C₆₀-fullerenes have unique potential in antiviral, drug delivery, photodynamic therapy and other biomedical applications. However, little is known about their effects on macrophage surface morphology and ultrastructure. Here by using contact-free ... ...

    Abstract C₆₀-fullerenes have unique potential in antiviral, drug delivery, photodynamic therapy and other biomedical applications. However, little is known about their effects on macrophage surface morphology and ultrastructure. Here by using contact-free scanning ion conductance microscopy (SICM), we investigated the effects of two water-soluble fullerenes on the surface ultrastructure and function of macrophages. The results showed that these fullerenes would be a promising phagocytosis inhibitor and SICM would be an excellent tool to study the morphological information of adhesive and fragile samples.
    Keywords drugs ; fullerene ; macrophages ; microscopy ; phagocytosis ; photochemotherapy ; ultrastructure ; water solubility
    Language English
    Dates of publication 2022-0810
    Size p. 22197-22201.
    Publishing place The Royal Society of Chemistry
    Document type Article
    ISSN 2046-2069
    DOI 10.1039/d2ra02403a
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  3. Article: Deep learning in single-molecule imaging and analysis: recent advances and prospects.

    Liu, Xiaolong / Jiang, Yifei / Cui, Yutong / Yuan, Jinghe / Fang, Xiaohong

    Chemical science

    2022  Volume 13, Issue 41, Page(s) 11964–11980

    Abstract: Single-molecule microscopy is advantageous in characterizing heterogeneous dynamics at the molecular level. However, there are several challenges that currently hinder the wide application of single molecule imaging in bio-chemical studies, including how ...

    Abstract Single-molecule microscopy is advantageous in characterizing heterogeneous dynamics at the molecular level. However, there are several challenges that currently hinder the wide application of single molecule imaging in bio-chemical studies, including how to perform single-molecule measurements efficiently with minimal run-to-run variations, how to analyze weak single-molecule signals efficiently and accurately without the influence of human bias, and how to extract complete information about dynamics of interest from single-molecule data. As a new class of computer algorithms that simulate the human brain to extract data features, deep learning networks excel in task parallelism and model generalization, and are well-suited for handling nonlinear functions and extracting weak features, which provide a promising approach for single-molecule experiment automation and data processing. In this perspective, we will highlight recent advances in the application of deep learning to single-molecule studies, discuss how deep learning has been used to address the challenges in the field as well as the pitfalls of existing applications, and outline the directions for future development.
    Language English
    Publishing date 2022-09-22
    Publishing country England
    Document type Journal Article ; Review
    ZDB-ID 2559110-1
    ISSN 2041-6539 ; 2041-6520
    ISSN (online) 2041-6539
    ISSN 2041-6520
    DOI 10.1039/d2sc02443h
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  4. Article ; Online: Highly Efficient Photochromic Tungsten Oxide@PNIPAM Composite Spheres with a Fast Response.

    Zhang, Qi / Wang, Ruxiu / Lu, Yamiao / Wu, Yayun / Yuan, Jinghe / Liu, Jiguang

    ACS applied materials & interfaces

    2021  Volume 13, Issue 3, Page(s) 4220–4229

    Abstract: Coloration efficiency and a fast response are important in developing materials for optical switching. A novel, highly efficient photochromic tungsten oxide@poly( ...

    Abstract Coloration efficiency and a fast response are important in developing materials for optical switching. A novel, highly efficient photochromic tungsten oxide@poly(
    Language English
    Publishing date 2021-01-12
    Publishing country United States
    Document type Journal Article
    ISSN 1944-8252
    ISSN (online) 1944-8252
    DOI 10.1021/acsami.0c20817
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Coaxial illumination module of the stimulated-emission-depletion nanoscope.

    Shi, Jintao / Yu, Jianqiang / Tian, Zhan / Kou, Xiaolong / Yang, Hongwei / Liu, Xiaolong / Yuan, Jinghe / Fang, Xiaohong

    Optics express

    2022  Volume 30, Issue 8, Page(s) 13481–13490

    Abstract: Stimulated-emission-depletion (STED) nanoscope achieves super-resolution imaging by using a donut-shaped depletion beam to darken the fluorophores around the excitation spot. As an important factor determining the resolution of imaging, the coaxiality ... ...

    Abstract Stimulated-emission-depletion (STED) nanoscope achieves super-resolution imaging by using a donut-shaped depletion beam to darken the fluorophores around the excitation spot. As an important factor determining the resolution of imaging, the coaxiality between the excitation and the depletion beam is required to be maintained at the nanoscale, which is often degraded by various interference such as ambient vibration and temperatures etc. Here, we propose a specially designed STED illumination module to guarantee the coaxiality between the two beams while modulating the phase of the depletion beam. This STED illumination module can realize phase modulation, polarization adjustment, pulse delay and two beams coaxial at the same time. With the experiments, the module can guarantee the two beams are stably coaxial for a long time. We imaged fluorescence particles with diameter 40 nm and got images of 40 nm full width at half maximum. Adjacent microfilaments at 80 nm being clearly distinguished with our STED nonoscope demonstrates that it could be well applied to biological samples.
    Language English
    Publishing date 2022-04-26
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1491859-6
    ISSN 1094-4087 ; 1094-4087
    ISSN (online) 1094-4087
    ISSN 1094-4087
    DOI 10.1364/OE.454350
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Surface-Engineered Gold Nanoclusters for Stimulated Emission Depletion and Correlated Light and Electron Microscopy Imaging.

    Yang, Hongwei / Wu, Yayun / Ruan, Hefei / Guo, Feng / Liang, Yuxin / Qin, Gege / Liu, Xiaolong / Zhang, Zhen / Yuan, Jinghe / Fang, Xiaohong

    Analytical chemistry

    2022  Volume 94, Issue 7, Page(s) 3056–3064

    Abstract: Stimulated emission depletion (STED) nanoscopy is an emerging super-resolution imaging platform for the study of the cellular structure. Developing suitable fluorescent probes of small size, good photostability, and easy functionalization is still in ... ...

    Abstract Stimulated emission depletion (STED) nanoscopy is an emerging super-resolution imaging platform for the study of the cellular structure. Developing suitable fluorescent probes of small size, good photostability, and easy functionalization is still in demand. Herein, we introduce a new type of surface-engineered gold nanoclusters (Au NCs) that are ultrasmall (1.7 nm) and ultrabright (QY = 60%) for STED bioimaging. A rigid shell formed by l-arginine (l-Arg) and 6-aza-2-thiothymine (ATT) on the Au NC surface enables not only its strong fluorescence in aqueous solution but also its easy chemical modification for specific biomolecule labeling. Au NCs show remarkable performance as STED nanoprobes, including high depletion efficiency, good photobleaching resistance, and low saturation intensity. Super-resolution imaging has been achieved with these Au NCs, and targeted nanoscopic imaging of cellular tubulin has been demonstrated. Moreover, the circular structure of lysosomes in live cells has been revealed. As a Au NC is also an ideal probe for electron microscopy, dual imaging of Aβ
    MeSH term(s) Fluorescent Dyes/chemistry ; Gold/chemistry ; Metal Nanoparticles/chemistry ; Microscopy, Electron ; Photobleaching
    Chemical Substances Fluorescent Dyes ; Gold (7440-57-5)
    Language English
    Publishing date 2022-02-10
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.1c03935
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  7. Article: Surface-Engineered Gold Nanoclusters for Stimulated Emission Depletion and Correlated Light and Electron Microscopy Imaging

    Yang, Hongwei / Wu, Yayun / Ruan, Hefei / Guo, Feng / Liang, Yuxin / Qin, Gege / Liu, Xiaolong / Zhang, Zhen / Yuan, Jinghe / Fang, Xiaohong

    Analytical chemistry. 2022 Feb. 10, v. 94, no. 7

    2022  

    Abstract: Stimulated emission depletion (STED) nanoscopy is an emerging super-resolution imaging platform for the study of the cellular structure. Developing suitable fluorescent probes of small size, good photostability, and easy functionalization is still in ... ...

    Abstract Stimulated emission depletion (STED) nanoscopy is an emerging super-resolution imaging platform for the study of the cellular structure. Developing suitable fluorescent probes of small size, good photostability, and easy functionalization is still in demand. Herein, we introduce a new type of surface-engineered gold nanoclusters (Au NCs) that are ultrasmall (1.7 nm) and ultrabright (QY = 60%) for STED bioimaging. A rigid shell formed by l-arginine (l-Arg) and 6-aza-2-thiothymine (ATT) on the Au NC surface enables not only its strong fluorescence in aqueous solution but also its easy chemical modification for specific biomolecule labeling. Au NCs show remarkable performance as STED nanoprobes, including high depletion efficiency, good photobleaching resistance, and low saturation intensity. Super-resolution imaging has been achieved with these Au NCs, and targeted nanoscopic imaging of cellular tubulin has been demonstrated. Moreover, the circular structure of lysosomes in live cells has been revealed. As a Au NC is also an ideal probe for electron microscopy, dual imaging of Aβ₄₂ aggregates with the single labeling probe of Au NCs has been realized in correlative light and electron microscopy (CLEM). This work reports, for the first time, the application of Au NCs as a novel probe in STED and CLEM imaging. With their excellent properties, Au NCs show promising potential for nanoscale bioimaging.
    Keywords analytical chemistry ; aqueous solutions ; arginine ; bioimaging ; electron microscopy ; fluorescence ; lysosomes ; nanogold ; photobleaching ; photostability ; tubulin
    Language English
    Dates of publication 2022-0210
    Size p. 3056-3064.
    Publishing place American Chemical Society
    Document type Article
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.1c03935
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  8. Article ; Online: Analyzing protein dynamics from fluorescence intensity traces using unsupervised deep learning network.

    Yuan, Jinghe / Zhao, Rong / Xu, Jiachao / Cheng, Ming / Qin, Zidi / Kou, Xiaolong / Fang, Xiaohong

    Communications biology

    2020  Volume 3, Issue 1, Page(s) 669

    Abstract: We propose an unsupervised deep learning network to analyze the dynamics of membrane proteins from the fluorescence intensity traces. This system was trained in an unsupervised manner with the raw experimental time traces and synthesized ones, so neither ...

    Abstract We propose an unsupervised deep learning network to analyze the dynamics of membrane proteins from the fluorescence intensity traces. This system was trained in an unsupervised manner with the raw experimental time traces and synthesized ones, so neither predefined state number nor pre-labelling were required. With the bidirectional Long Short-Term Memory (biLSTM) networks as the hidden layers, both the past and future context can be used fully to improve the prediction results and can even extract information from the noise distribution. The method was validated with the synthetic dataset and the experimental dataset of monomeric fluorophore Cy5, and then applied to extract the membrane protein interaction dynamics from experimental data successfully.
    MeSH term(s) Carbocyanines/analysis ; Carbocyanines/metabolism ; Deep Learning ; Diffusion ; Fluorescent Dyes/analysis ; Fluorescent Dyes/metabolism ; HeLa Cells ; Humans ; MCF-7 Cells ; Membrane Proteins/analysis ; Membrane Proteins/chemistry ; Membrane Proteins/metabolism ; Microscopy, Fluorescence ; Unsupervised Machine Learning
    Chemical Substances Carbocyanines ; Fluorescent Dyes ; Membrane Proteins ; cyanine dye 5
    Language English
    Publishing date 2020-11-12
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2399-3642
    ISSN (online) 2399-3642
    DOI 10.1038/s42003-020-01389-z
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Effects of pectin polydispersity on zein/pectin composite nanoparticles (ZAPs) as high internal-phase Pickering emulsion stabilizers

    Jiang, Yang / Zhang, Chen / Yuan, Jinghe / Wu, Yayun / Li, Feng / Li, Dapeng / Huang, Qingrong

    Carbohydrate polymers. 2019 Sept. 01, v. 219

    2019  

    Abstract: In the present study, the properties of two apple sourced-pectin (AP-1 and AP-2) were comparative studied, and their influence on the formation of high internal-phase Pickering emulsions (HIPPEs) was investigated. Results showed that AP-2 has lower ... ...

    Abstract In the present study, the properties of two apple sourced-pectin (AP-1 and AP-2) were comparative studied, and their influence on the formation of high internal-phase Pickering emulsions (HIPPEs) was investigated. Results showed that AP-2 has lower polydispersity index (PDI = 2.51) than AP-1. Zein/AP-2 complex nanoparticles (ZAPs-2) was able to stabilize 80% oil-phase to form HIPPEs, while ZAPs-1 failed to remain stable at same oil fraction. After correlating GPC (Gel Permeation Chromatography) results of pectins with their emulsion behavior, pectin PDI was found to play an important role in HIPPEs formation. Storage experiments and rheological properties analysis showed that HIPPEs exerted excellent stability and plasticity. Besides, super-resolution microscopy (including cryo-SEM and STED nanoscopy) depicted an intuitive interface structure of HIPPEs. These findings may contribute some basis to manipulating emulsion performance by adjusting pectin properties, as well as to further understanding the behavior of ZAPs at O/W interface.
    Keywords apples ; cryo-electron microscopy ; emulsions ; gel chromatography ; nanoparticles ; oils ; pectins ; plasticity ; scanning electron microscopy ; stabilizers ; zein
    Language English
    Dates of publication 2019-0901
    Size p. 77-86.
    Publishing place Elsevier Ltd
    Document type Article
    ZDB-ID 1501516-6
    ISSN 1879-1344 ; 0144-8617
    ISSN (online) 1879-1344
    ISSN 0144-8617
    DOI 10.1016/j.carbpol.2019.05.025
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  10. Article: Analysis of the Diffusivity Change from Single-Molecule Trajectories on Living Cells

    Zhao, Rong / Yuan, Jinghe / Li, Nan / Sun, Yahong / Xia, Tie / Fang, Xiaohong

    Analytical chemistry. 2019 Oct. 03, v. 91, no. 21

    2019  

    Abstract: With the wide application of live-cell single-molecule imaging and tracking of biomolecules at work, deriving diffusion state changes of individual molecules is of particular interest as these changes reflect molecular oligomerization or interaction with ...

    Abstract With the wide application of live-cell single-molecule imaging and tracking of biomolecules at work, deriving diffusion state changes of individual molecules is of particular interest as these changes reflect molecular oligomerization or interaction with other cellular components and thus correlate with functional changes. We have developed a Rayleigh mixture distribution-based hidden Markov model method to analyze time-lapse diffusivity change of single molecules, especially membrane proteins, with unknown dynamic states in living cells. With this method, the diffusion parameters, including diffusion state number, state transition probability, diffusion coefficient, and state mixture ratio, can be extracted from the single-molecule diffusion trajectories accurately via easy computation. The validity of our method has been demonstrated with not only experiments on synthetic trajectories but also single-molecule fluorescence imaging data of two typical membrane receptors. Our method offers a new analytical tool for the investigation of molecular interaction kinetics at the single-molecule level.
    Keywords Markov chain ; diffusivity ; fluorescence ; image analysis ; membrane proteins ; oligomerization ; receptors
    Language English
    Dates of publication 2019-1003
    Size p. 13390-13397.
    Publishing place American Chemical Society
    Document type Article
    ZDB-ID 1508-8
    ISSN 1520-6882 ; 0003-2700
    ISSN (online) 1520-6882
    ISSN 0003-2700
    DOI 10.1021/acs.analchem.9b01005
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