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Protocol | Open Access

Deep learning-enabled fast DNA-PAINT imaging in cells

Min Zhu1,Luhao Zhang1,2,Luhong Jin1Yunyue Chen1Haixu Yang1Baohua Ji3Yingke Xu1,2,4( )
Department of Biomedical Engineering, Key Laboratory of Biomedical Engineering of Ministry of Education, State Key Laboratory of Extreme Photonics and Instrumentation, Zhejiang Provincial Key Laboratory of Cardio-Cerebral Vascular Detection Technology and Medicinal Effectiveness Appraisal, Zhejiang Provincial Key Laboratory of Traditional Chinese Medicine for Clinical Evaluation and Translational Research, Zhejiang University, Hangzhou 310027, China
Binjiang Institute of Zhejiang University, Hangzhou 310053, China
Department of Engineering Mechanics, Biomechanics and Biomaterials Laboratory, Zhejiang University, Hangzhou 310027, China
Department of Endocrinology, Children’s Hospital of Zhejiang University School of Medicine, National Clinical Research Center for Children’s Health, Hangzhou 310051, China

Min Zhu and Luhao Zhang contributed equally to this work.

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Graphical Abstract

Abstract

DNA-based point accumulation in nanoscale topography (DNA-PAINT) is a well-established technique for single-molecule localization microscopy (SMLM), enabling resolution of up to a few nanometers. Traditionally, DNA-PAINT involves the utilization of tens of thousands of single-molecule fluorescent images to generate a single super-resolution image. This process can be time-consuming, which makes it unfeasible for many researchers. Here, we propose a simplified DNA-PAINT labeling method and a deep learning-enabled fast DNA-PAINT imaging strategy for subcellular structures, such as microtubules. By employing our method, super-resolution reconstruction can be achieved with only one-tenth of the raw data previously needed, along with the option of acquiring the widefield image. As a result, DNA-PAINT imaging is significantly accelerated, making it more accessible to a wider range of biological researchers.

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Biophysics Reports
Pages 177-187
Cite this article:
Zhu M, Zhang L, Jin L, et al. Deep learning-enabled fast DNA-PAINT imaging in cells. Biophysics Reports, 2023, 9(4): 177-187. https://doi.org/10.52601/bpr.2023.230014

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Received: 13 September 2023
Accepted: 07 October 2023
Published: 31 August 2023
© The Author(s) 2023

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