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Quantitatively mapping local quality of super-resolution microscopy by rolling Fourier ring correlation

View ORCID ProfileWeisong Zhao, Xiaoshuai Huang, Jianyu Yang, Guohua Qiu, Liying Qu, Yue Zhao, Shiqun Zhao, Ziying Luo, Xinwei Wang, Yaming Jiu, Heng Mao, Xumin Ding, Jiubin Tan, Ying Hu, Leiting Pan, Liangyi Chen, Haoyu Li
doi: https://doi.org/10.1101/2022.12.01.518675
Weisong Zhao
1Innovation Photonics and Imaging Center, School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin 150080, China
8Key Laboratory of Ultra-Precision Intelligent Instrumentation of Ministry of Industry and Information Technology, Harbin Institute of Technology, Harbin 150080, China
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  • ORCID record for Weisong Zhao
  • For correspondence: lihaoyu@hit.edu.cn lychen@pku.edu.cn plt@nankai.edu.cn weisongzhao@hit.edu.cn
Xiaoshuai Huang
2Biomedical Engineering Department, Peking University, Beijing 100191, China
10International Cancer Institute, Peking University, Beijing 100191, China
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Jianyu Yang
3The Key Laboratory of Weak-Light Nonlinear Photonics of Education Ministry, School of Physics and TEDA Institute of Applied Physics, Frontiers Science Center for Cell Responses, Nankai University, Tianjin 300071, China
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Guohua Qiu
4State Key Laboratory of Membrane Biology, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, National Biomedical Imaging Center, Center for Life Sciences, School of Future Technology, Peking University, Beijing 100871, China
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Liying Qu
1Innovation Photonics and Imaging Center, School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin 150080, China
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Yue Zhao
5Department of Control Science and Engineering, Harbin Institute of Technology, Harbin 150001, China
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Shiqun Zhao
4State Key Laboratory of Membrane Biology, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, National Biomedical Imaging Center, Center for Life Sciences, School of Future Technology, Peking University, Beijing 100871, China
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Ziying Luo
4State Key Laboratory of Membrane Biology, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, National Biomedical Imaging Center, Center for Life Sciences, School of Future Technology, Peking University, Beijing 100871, China
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Xinwei Wang
1Innovation Photonics and Imaging Center, School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin 150080, China
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Yaming Jiu
6Unit of Cell Biology and Imaging Study of Pathogen Host Interaction, The Center for Microbes, Development and Health, Key Laboratory of Molecular Virology and Immunology, Institut Pasteur of Shanghai, Chinese Academy of Sciences, Shanghai 200031, China
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Heng Mao
7School of Mathematical Sciences, Peking University, Beijing 100871, China
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Xumin Ding
1Innovation Photonics and Imaging Center, School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin 150080, China
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Jiubin Tan
8Key Laboratory of Ultra-Precision Intelligent Instrumentation of Ministry of Industry and Information Technology, Harbin Institute of Technology, Harbin 150080, China
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Ying Hu
9School of Life Science and Technology, Harbin Institute of Technology, Harbin 150001, China
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Leiting Pan
3The Key Laboratory of Weak-Light Nonlinear Photonics of Education Ministry, School of Physics and TEDA Institute of Applied Physics, Frontiers Science Center for Cell Responses, Nankai University, Tianjin 300071, China
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  • For correspondence: lihaoyu@hit.edu.cn lychen@pku.edu.cn plt@nankai.edu.cn weisongzhao@hit.edu.cn
Liangyi Chen
4State Key Laboratory of Membrane Biology, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, National Biomedical Imaging Center, Center for Life Sciences, School of Future Technology, Peking University, Beijing 100871, China
11Beijing Academy of Artificial Intelligence, Beijing 100871, China
12PKU-IDG/McGovern Institute for Brain Research, Beijing 100871, China
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  • For correspondence: lihaoyu@hit.edu.cn lychen@pku.edu.cn plt@nankai.edu.cn weisongzhao@hit.edu.cn
Haoyu Li
1Innovation Photonics and Imaging Center, School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin 150080, China
8Key Laboratory of Ultra-Precision Intelligent Instrumentation of Ministry of Industry and Information Technology, Harbin Institute of Technology, Harbin 150080, China
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  • For correspondence: lihaoyu@hit.edu.cn lychen@pku.edu.cn plt@nankai.edu.cn weisongzhao@hit.edu.cn
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ABSTRACT

In fluorescence microscopy, computational algorithms have been developed to suppress noise, enhance contrast, and even enable super-resolution (SR). However, the local quality of the images may vary on multiple scales, and these differences can lead to misconceptions, which is especially intractable in emerging deep-learning ones. Current mapping methods fail to finely estimate the local quality, challenging to associate the SR scale content. Here, we develop a rolling Fourier ring correlation (rFRC) framework to evaluate the reconstruction uncertainties down to SR scale. To visually pinpoint regions with low reliability, a filtered rFRC is combined with a modified resolution scaled error map (RSM), offering a comprehensive and concise map for further examination. We demonstrate their performances on various SR imaging modalities, and the resulting quantitative maps enable better SR images integrated from different reconstructions. Beyond that, we provide a strategy for learning-based restorations, allowing a direct detection of both data and model uncertainties, and expect the representative cases can inspire further advances in this rapidly developing field.

Competing Interest Statement

L. C., H. L., and W. Z. have a pending patent application on the presented framework.

Footnotes

  • https://github.com/WeisongZhao/PANELM

  • https://github.com/WeisongZhao/PANELpy

  • https://github.com/WeisongZhao/PANELJ

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted December 02, 2022.
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Quantitatively mapping local quality of super-resolution microscopy by rolling Fourier ring correlation
Weisong Zhao, Xiaoshuai Huang, Jianyu Yang, Guohua Qiu, Liying Qu, Yue Zhao, Shiqun Zhao, Ziying Luo, Xinwei Wang, Yaming Jiu, Heng Mao, Xumin Ding, Jiubin Tan, Ying Hu, Leiting Pan, Liangyi Chen, Haoyu Li
bioRxiv 2022.12.01.518675; doi: https://doi.org/10.1101/2022.12.01.518675
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Quantitatively mapping local quality of super-resolution microscopy by rolling Fourier ring correlation
Weisong Zhao, Xiaoshuai Huang, Jianyu Yang, Guohua Qiu, Liying Qu, Yue Zhao, Shiqun Zhao, Ziying Luo, Xinwei Wang, Yaming Jiu, Heng Mao, Xumin Ding, Jiubin Tan, Ying Hu, Leiting Pan, Liangyi Chen, Haoyu Li
bioRxiv 2022.12.01.518675; doi: https://doi.org/10.1101/2022.12.01.518675

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