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      Phase imaging with computational specificity (PICS) for measuring dry mass changes in sub-cellular compartments

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          Abstract

          Due to its specificity, fluorescence microscopy has become a quintessential imaging tool in cell biology. However, photobleaching, phototoxicity, and related artifacts continue to limit fluorescence microscopy’s utility. Recently, it has been shown that artificial intelligence (AI) can transform one form of contrast into another. We present phase imaging with computational specificity (PICS), a combination of quantitative phase imaging and AI, which provides information about unlabeled live cells with high specificity. Our imaging system allows for automatic training, while inference is built into the acquisition software and runs in real-time. Applying the computed fluorescence maps back to the quantitative phase imaging (QPI) data, we measured the growth of both nuclei and cytoplasm independently, over many days, without loss of viability. Using a QPI method that suppresses multiple scattering, we measured the dry mass content of individual cell nuclei within spheroids. In its current implementation, PICS offers a versatile quantitative technique for continuous simultaneous monitoring of individual cellular components in biological applications where long-term label-free imaging is desirable.

          Abstract

          Quantitative phase imaging suffers from a lack of specificity in label-free imaging. Here, the authors introduce Phase Imaging with Computational Specificity (PICS), a method that combines phase imaging with machine learning techniques to provide specificity in unlabeled live cells with automatic training.

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          Most cited references53

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          Deep Residual Learning for Image Recognition

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            U-Net: Convolutional Networks for Biomedical Image Segmentation

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              A survey on deep learning in medical image analysis

              Deep learning algorithms, in particular convolutional networks, have rapidly become a methodology of choice for analyzing medical images. This paper reviews the major deep learning concepts pertinent to medical image analysis and summarizes over 300 contributions to the field, most of which appeared in the last year. We survey the use of deep learning for image classification, object detection, segmentation, registration, and other tasks. Concise overviews are provided of studies per application area: neuro, retinal, pulmonary, digital pathology, breast, cardiac, abdominal, musculoskeletal. We end with a summary of the current state-of-the-art, a critical discussion of open challenges and directions for future research.
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                Author and article information

                Contributors
                sobh@illinois.edu
                gpopescu@illinois.edu
                Journal
                Nat Commun
                Nat Commun
                Nature Communications
                Nature Publishing Group UK (London )
                2041-1723
                7 December 2020
                7 December 2020
                2020
                : 11
                : 6256
                Affiliations
                [1 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Beckman Institute, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                [2 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Department of Electrical and Computer Engineering, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                [3 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Neuroscience Program, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                [4 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Department of Bioengineering, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                [5 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Department of Mechanical Science and Engineering, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                [6 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Chemical and Biomolecular Engineering, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                [7 ]GRID grid.35403.31, ISNI 0000 0004 1936 9991, Carl Woese Institute for Genomic Biology, , University of Illinois at Urbana-Champaign, ; Urbana, IL USA
                Author information
                http://orcid.org/0000-0003-2124-7750
                http://orcid.org/0000-0002-6430-1473
                http://orcid.org/0000-0001-6952-3465
                http://orcid.org/0000-0002-8296-8095
                Article
                20062
                10.1038/s41467-020-20062-x
                7721808
                33288761
                c2124cbb-ceb9-4441-9897-5a14f1eab6db
                © The Author(s) 2020

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 17 March 2020
                : 28 October 2020
                Funding
                Funded by: FundRef https://doi.org/10.13039/100000001, National Science Foundation (NSF);
                Award ID: 0939511
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100000093, U.S. Department of Health & Human Services | NIH | Center for Information Technology (Center for Information Technology, National Institutes of Health);
                Award ID: R01 GM129709
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100000009, Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.);
                Award ID: R01 CA238191
                Award Recipient :
                Categories
                Article
                Custom metadata
                © The Author(s) 2020

                Uncategorized
                cell growth,interference microscopy
                Uncategorized
                cell growth, interference microscopy

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