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Title: Computational multifocal microscopy

Abstract

Despite recent advances, high performance single-shot 3D microscopy remains an elusive task. By introducing designed diffractive optical elements (DOEs), one is capable of converting a microscope into a 3D "kaleidoscope", in which case the snapshot image consists of an array of tiles and each tile focuses on different depths. However, the acquired multifocal microscopic (MFM) image suffers from multiple sources of degradation, which prevents MFM from further applications. We propose a unifying computational framework which simplifies the imaging system and achieves 3D reconstruction via computation. Our optical configuration omits chromatic correction grating and redesigns the multifocal grating to enlarge the tracking area. Our proposed setup features only one single grating in addition to a regular microscope.The aberration correction, along with Poisson and background denoising, are incorporated in our deconvolution-based fully-automated algorithm, which requires no empirical parameter-tuning. In experiments, we achieve the spatial resolutions of 0:35um (lateral) and 0:5um (axial), which are comparable to the resolution that can be achieved with confocal deconvolution microscopy. We demonstrate a 3D video of moving bacteria recorded at 25 frames per second using our proposed computational multifocal microscopy technique.

Authors:
 [1]; ORCiD logo [1];  [2];  [3];  [1];  [1]; ORCiD logo [3];  [2];  [2];  [3]; ORCiD logo [2];  [1];  [1]
  1. Northwestern Univ., Evanston, IL (United States)
  2. Argonne National Lab. (ANL), Lemont, IL (United States)
  3. Univ. of Chicago, IL (United States)
Publication Date:
Research Org.:
Argonne National Lab. (ANL), Argonne, IL (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23); National Science Foundation (NSF)
OSTI Identifier:
1483720
Alternate Identifier(s):
OSTI ID: 1493888
Grant/Contract Number:  
AC02-06CH11357
Resource Type:
Published Article
Journal Name:
Biomedical Optics Express
Additional Journal Information:
Journal Volume: 9; Journal Issue: 12; Journal ID: ISSN 2156-7085
Publisher:
Optical Society of America
Country of Publication:
United States
Language:
English
Subject:
36 MATERIALS SCIENCE; 97 MATHEMATICS AND COMPUTING

Citation Formats

He, Kuan, Wang, Zihao, Huang, Xiang, Wang, Xiaolei, Yoo, Seunghwan, Ruiz, Pablo, Gdor, Itay, Selewa, Alan, Ferrier, Nicola J., Scherer, Norbert, Hereld, Mark, Katsaggelos, Aggelos K., and Cossairt, Oliver. Computational multifocal microscopy. United States: N. p., 2018. Web. doi:10.1364/BOE.9.006477.
He, Kuan, Wang, Zihao, Huang, Xiang, Wang, Xiaolei, Yoo, Seunghwan, Ruiz, Pablo, Gdor, Itay, Selewa, Alan, Ferrier, Nicola J., Scherer, Norbert, Hereld, Mark, Katsaggelos, Aggelos K., & Cossairt, Oliver. Computational multifocal microscopy. United States. doi:10.1364/BOE.9.006477.
He, Kuan, Wang, Zihao, Huang, Xiang, Wang, Xiaolei, Yoo, Seunghwan, Ruiz, Pablo, Gdor, Itay, Selewa, Alan, Ferrier, Nicola J., Scherer, Norbert, Hereld, Mark, Katsaggelos, Aggelos K., and Cossairt, Oliver. Wed . "Computational multifocal microscopy". United States. doi:10.1364/BOE.9.006477.
@article{osti_1483720,
title = {Computational multifocal microscopy},
author = {He, Kuan and Wang, Zihao and Huang, Xiang and Wang, Xiaolei and Yoo, Seunghwan and Ruiz, Pablo and Gdor, Itay and Selewa, Alan and Ferrier, Nicola J. and Scherer, Norbert and Hereld, Mark and Katsaggelos, Aggelos K. and Cossairt, Oliver},
abstractNote = {Despite recent advances, high performance single-shot 3D microscopy remains an elusive task. By introducing designed diffractive optical elements (DOEs), one is capable of converting a microscope into a 3D "kaleidoscope", in which case the snapshot image consists of an array of tiles and each tile focuses on different depths. However, the acquired multifocal microscopic (MFM) image suffers from multiple sources of degradation, which prevents MFM from further applications. We propose a unifying computational framework which simplifies the imaging system and achieves 3D reconstruction via computation. Our optical configuration omits chromatic correction grating and redesigns the multifocal grating to enlarge the tracking area. Our proposed setup features only one single grating in addition to a regular microscope.The aberration correction, along with Poisson and background denoising, are incorporated in our deconvolution-based fully-automated algorithm, which requires no empirical parameter-tuning. In experiments, we achieve the spatial resolutions of 0:35um (lateral) and 0:5um (axial), which are comparable to the resolution that can be achieved with confocal deconvolution microscopy. We demonstrate a 3D video of moving bacteria recorded at 25 frames per second using our proposed computational multifocal microscopy technique.},
doi = {10.1364/BOE.9.006477},
journal = {Biomedical Optics Express},
number = 12,
volume = 9,
place = {United States},
year = {2018},
month = {11}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: 10.1364/BOE.9.006477

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