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Real-time 3D analysis during electron tomography using tomviz

Author

Listed:
  • Jonathan Schwartz

    (University of Michigan)

  • Chris Harris

    (Kitware Inc)

  • Jacob Pietryga

    (University of Michigan)

  • Huihuo Zheng

    (Argonne National Laboratory)

  • Prashant Kumar

    (University of Michigan)

  • Anastasiia Visheratina

    (University of Michigan)

  • Nicholas A. Kotov

    (University of Michigan)

  • Brianna Major

    (Kitware Inc)

  • Patrick Avery

    (Kitware Inc)

  • Peter Ercius

    (Lawrence Berkeley National Laboratory)

  • Utkarsh Ayachit

    (Kitware Inc)

  • Berk Geveci

    (Kitware Inc)

  • David A. Muller

    (Cornell University)

  • Alessandro Genova

    (Kitware Inc)

  • Yi Jiang

    (Argonne National Laboratory)

  • Marcus Hanwell

    (Kitware Inc
    Brookhaven National Laboratory)

  • Robert Hovden

    (University of Michigan
    University of Michigan)

Abstract

The demand for high-throughput electron tomography is rapidly increasing in biological and material sciences. However, this 3D imaging technique is computationally bottlenecked by alignment and reconstruction which runs from hours to days. We demonstrate real-time tomography with dynamic 3D tomographic visualization to enable rapid interpretation of specimen structure immediately as data is collected on an electron microscope. Using geometrically complex chiral nanoparticles, we show volumetric interpretation can begin in less than 10 minutes and a high-quality tomogram is available within 30 minutes. Real-time tomography is integrated into tomviz, an open-source and cross-platform 3D data analysis tool that contains intuitive graphical user interfaces (GUI), to enable any scientist to characterize biological and material structure in 3D.

Suggested Citation

  • Jonathan Schwartz & Chris Harris & Jacob Pietryga & Huihuo Zheng & Prashant Kumar & Anastasiia Visheratina & Nicholas A. Kotov & Brianna Major & Patrick Avery & Peter Ercius & Utkarsh Ayachit & Berk G, 2022. "Real-time 3D analysis during electron tomography using tomviz," Nature Communications, Nature, vol. 13(1), pages 1-7, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-32046-0
    DOI: 10.1038/s41467-022-32046-0
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    References listed on IDEAS

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    1. Yao Yang & Jihan Zhou & Fan Zhu & Yakun Yuan & Dillan J. Chang & Dennis S. Kim & Minh Pham & Arjun Rana & Xuezeng Tian & Yonggang Yao & Stanley J. Osher & Andreas K. Schmid & Liangbing Hu & Peter Erci, 2021. "Determining the three-dimensional atomic structure of an amorphous solid," Nature, Nature, vol. 592(7852), pages 60-64, April.
    2. Yongsoo Yang & Chien-Chun Chen & M. C. Scott & Colin Ophus & Rui Xu & Alan Pryor & Li Wu & Fan Sun & Wolfgang Theis & Jihan Zhou & Markus Eisenbach & Paul R. C. Kent & Renat F. Sabirianov & Hao Zeng &, 2017. "Deciphering chemical order/disorder and material properties at the single-atom level," Nature, Nature, vol. 542(7639), pages 75-79, February.
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    Cited by:

    1. Jonathan Schwartz & Zichao Wendy Di & Yi Jiang & Jason Manassa & Jacob Pietryga & Yiwen Qian & Min Gee Cho & Jonathan L. Rowell & Huihuo Zheng & Richard D. Robinson & Junsi Gu & Alexey Kirilin & Steve, 2024. "Imaging 3D chemistry at 1 nm resolution with fused multi-modal electron tomography," Nature Communications, Nature, vol. 15(1), pages 1-10, December.

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