Superresolution structured illumination microscopy reconstruction algorithms: a review

Xin Chen; Suyi Zhong; Yiwei Hou; Ruijie Cao; Wenyi Wang; Dong Li; Qionghai Dai; Donghyun Kim; Peng Xi

doi:10.1038/s41377-023-01204-4

Superresolution structured illumination microscopy reconstruction algorithms: a review

Light Sci Appl. 2023 Jul 12;12(1):172. doi: 10.1038/s41377-023-01204-4.

Authors

Xin Chen^{1

2}, Suyi Zhong^{1

2}, Yiwei Hou^{1

2}, Ruijie Cao^{1

2}, Wenyi Wang^{1

2}, Dong Li³, Qionghai Dai^{4

5

6

7}, Donghyun Kim⁸, Peng Xi^{9

10}

Affiliations

¹ Department of Biomedical Engineering, College of Future Technology, Peking University, Beijing, 100871, China.
² National Biomedical Imaging Center, Peking University, Beijing, 100871, China.
³ National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.
⁴ Department of Automation, Tsinghua University, Beijing, China.
⁵ Institute for Brain and Cognitive Sciences, Tsinghua University, Beijing, China.
⁶ Beijing Key Laboratory of Multidimension & Multiscale Computational Photography, Tsinghua University, Beijing, China.
⁷ Beijing Laboratory of Brain and Cognitive Intelligence, Beijing Municipal Education Commission, Beijing, China.
⁸ School of Electrical and Electronic Engineering, Yonsei University, 50 Yonsei-Ro, Seodaemun-Gu, Seoul, 03722, Korea.
⁹ Department of Biomedical Engineering, College of Future Technology, Peking University, Beijing, 100871, China. xipeng@pku.edu.cn.
¹⁰ National Biomedical Imaging Center, Peking University, Beijing, 100871, China. xipeng@pku.edu.cn.

Abstract

Structured illumination microscopy (SIM) has become the standard for next-generation wide-field microscopy, offering ultrahigh imaging speed, superresolution, a large field-of-view, and long-term imaging. Over the past decade, SIM hardware and software have flourished, leading to successful applications in various biological questions. However, unlocking the full potential of SIM system hardware requires the development of advanced reconstruction algorithms. Here, we introduce the basic theory of two SIM algorithms, namely, optical sectioning SIM (OS-SIM) and superresolution SIM (SR-SIM), and summarize their implementation modalities. We then provide a brief overview of existing OS-SIM processing algorithms and review the development of SR-SIM reconstruction algorithms, focusing primarily on 2D-SIM, 3D-SIM, and blind-SIM. To showcase the state-of-the-art development of SIM systems and assist users in selecting a commercial SIM system for a specific application, we compare the features of representative off-the-shelf SIM systems. Finally, we provide perspectives on the potential future developments of SIM.

Publication types

Review

Abstract

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