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Fast DNA-PAINT imaging using a deep neural network

Author

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  • Kaarjel K. Narayanasamy

    (Heidelberg University
    Goethe University Frankfurt)

  • Johanna V. Rahm

    (Goethe University Frankfurt)

  • Siddharth Tourani

    (Heidelberg University)

  • Mike Heilemann

    (Heidelberg University
    Goethe University Frankfurt)

Abstract

DNA points accumulation for imaging in nanoscale topography (DNA-PAINT) is a super-resolution technique with relatively easy-to-implement multi-target imaging. However, image acquisition is slow as sufficient statistical data has to be generated from spatio-temporally isolated single emitters. Here, we train the neural network (NN) DeepSTORM to predict fluorophore positions from high emitter density DNA-PAINT data. This achieves image acquisition in one minute. We demonstrate multi-colour super-resolution imaging of structure-conserved semi-thin neuronal tissue and imaging of large samples. This improvement can be integrated into any single-molecule imaging modality to enable fast single-molecule super-resolution microscopy.

Suggested Citation

  • Kaarjel K. Narayanasamy & Johanna V. Rahm & Siddharth Tourani & Mike Heilemann, 2022. "Fast DNA-PAINT imaging using a deep neural network," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-32626-0
    DOI: 10.1038/s41467-022-32626-0
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    1. Lucas von Chamier & Romain F. Laine & Johanna Jukkala & Christoph Spahn & Daniel Krentzel & Elias Nehme & Martina Lerche & Sara Hernández-Pérez & Pieta K. Mattila & Eleni Karinou & Séamus Holden & Ahm, 2021. "Democratising deep learning for microscopy with ZeroCostDL4Mic," Nature Communications, Nature, vol. 12(1), pages 1-18, December.
    2. Fehmi Civitci & Julia Shangguan & Ting Zheng & Kai Tao & Matthew Rames & John Kenison & Ying Zhang & Lei Wu & Carey Phelps & Sadik Esener & Xiaolin Nan, 2020. "Fast and multiplexed superresolution imaging with DNA-PAINT-ERS," Nature Communications, Nature, vol. 11(1), pages 1-8, December.
    3. Fehmi Civitci & Julia Shangguan & Ting Zheng & Kai Tao & Matthew Rames & John Kenison & Ying Zhang & Lei Wu & Carey Phelps & Sadik Esener & Xiaolin Nan, 2020. "Author Correction: Fast and multiplexed superresolution imaging with DNA-PAINT-ERS," Nature Communications, Nature, vol. 11(1), pages 1-1, December.
    4. Richard J. Marsh & Ishan Costello & Mark-Alexander Gorey & Donghan Ma & Fang Huang & Mathias Gautel & Maddy Parsons & Susan Cox, 2021. "Sub-diffraction error mapping for localisation microscopy images," Nature Communications, Nature, vol. 12(1), pages 1-13, December.
    5. Maja Klevanski & Frank Herrmannsdoerfer & Steffen Sass & Varun Venkataramani & Mike Heilemann & Thomas Kuner, 2020. "Automated highly multiplexed super-resolution imaging of protein nano-architecture in cells and tissues," Nature Communications, Nature, vol. 11(1), pages 1-11, December.
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