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    PH D Thesis Subject - 240215 - 224617

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    charbel marun
    This document describes a PhD proposal focused on developing new approaches to quantitative phase imaging (QPI) to restore selectivity to tomographic images. The proposal involves using polarization, multispectral/hyperspectral, and dynamic information in tomographic diffractive microscopy (TDM) to distinguish different structures that may have similar refractive indices. Preliminary studies have shown TDM can access quantitative polarization information, offering structural selectivity. The proposed work involves experimental work to acquire additional data types, and improving reconstruction algorithms using this new data.

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    PH D Thesis Subject - 240215 - 224617

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    charbel marun
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    This document describes a PhD proposal focused on developing new approaches to quantitative phase imaging (QPI) to restore selectivity to tomographic images. The proposal involves using polarization, multispectral/hyperspectral, and dynamic information in tomographic diffractive microscopy (TDM) to distinguish different structures that may have similar refractive indices. Preliminary studies have shown TDM can access quantitative polarization information, offering structural selectivity. The proposed work involves experimental work to acquire additional data types, and improving reconstruction algorithms using this new data.

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    Ph D Thesis Subject_240215_224617

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    This document describes a PhD proposal focused on developing new approaches to quantitative phase imaging (QPI) to restore selectivity to tomographic images. The proposal involves using polarization, multispectral/hyperspectral, and dynamic information in tomographic diffractive microscopy (TDM) to distinguish different structures that may have similar refractive indices. Preliminary studies have shown TDM can access quantitative polarization information, offering structural selectivity. The proposed work involves experimental work to acquire additional data types, and improving reconstruction algorithms using this new data.

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    3 views1 page

    PH D Thesis Subject - 240215 - 224617

    Uploaded by

    charbel marun
    This document describes a PhD proposal focused on developing new approaches to quantitative phase imaging (QPI) to restore selectivity to tomographic images. The proposal involves using polarization, multispectral/hyperspectral, and dynamic information in tomographic diffractive microscopy (TDM) to distinguish different structures that may have similar refractive indices. Preliminary studies have shown TDM can access quantitative polarization information, offering structural selectivity. The proposed work involves experimental work to acquire additional data types, and improving reconstruction algorithms using this new data.

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    of 1

    FUNCTIONNAL AND MULTIMODAL

    QUANTITATIVE PHASE IMAGING


    PHD ADVISORS : NICOLAS VERRIER - OLIVIER HAEBERLÉ
    IRIMAS - IMTIS, 61, RUE ALBERT CAMUS, 68 093 MULHOUSE
    PHONE : +33 3 89 33 76 66 E -MAIL : NICOLAS . VERRIER @ UHA . FR OLIVIER . HAEBERLE @ UHA . FR

    Quantitative phase imaging (QPI) methods are increasingly used in biomedical imaging,
    especially in optical microscopy. Unlike most commonly used methods, which rely on the
    fluorescence of contrast agents incorporated into the sample preparation, QPI extracts phase
    and amplitude information directly from the optical field transmitted or reflected by the object,
    rendering the sample labeling step optional.
    Within the IMTIS (Multimodal Imaging, Information and Signal Processing) team at IRIMAS
    (Institut de Recherche en Informatique, Mathématiques, Automatique et Signal), we have
    been developing, for about 15 years now, a generalization of QPI called Tomographic
    Diffractive Microscopy (TDM) [1-4]. By varying the object's illumination conditions, it is
    possible to obtain a 3D reconstruction of its complex refractive index (in absorption and
    refraction), with improved resolution compared to conventionnal QPI approaches [1,5,6].
    These methods offer an interesting alternative to flurorescence microscopy, but suffer from a
    lack of chemical selectivity in the reconstructed information. Indeed, very different structures
    may have a similar refractive index. The aim of this PhD proposal is to develop new
    approaches, in order to restore selectivity to tomographic images.
    Preliminary studies, illustrated in Figure 1, have shown that it is indeed possible to access
    quantitative polarization information in TDM, offering a structural selectivity to tomographic
    content, by distinguishing birefringent and non-
    birefringent elements within the same specimen
    [7,8]. Another possible approach is based on
    multispectral or hyperspectral imaging (spectro-
    imaging). In particular, it has already been
    proven taht the variation of absorption with
    wavelength enables chemical species to be
    distinguished at the micrometric scale. [9].
    Finally, a dynamic selectivity is also possible:
    temporal heterodyning of the detected signal can
    be used to isolate moving structures within a
    sample by measuring the Doppler effect they
    induce onto the scatterd light [10].
    The proposed work is therefore twofold: an Fig. 1 polarization-resolved TDM [1]
    experimental aspect, to complete the
    instrumental configurations needed to acquire the necessary data [5,6], and a numerical
    aspect, to improve tomographic image reconstruction algorithms using this new data [11].
    New reconstruction/display modalities are also possible [12].
    The successful candidate will have a sound knowledge of imaging and signal processing,
    and be proficient in an object-oriented programming language (C++, Python, Matlab, etc.). A
    taste for experimental work will also be highly appreciated. You will be part of a dynamic
    team with recognized scientific expertise, and benefit from its already available equipment
    and operating resources (to attend conferences, pay publication fees, etc.).

    1. V. Georges, et al., Opt. Lett. 34, p. 79 (2009) 7. A. M. Taddese et al., Opt. Express 31, 9034 (2023)
    2. B. Simon, et al., J. Biophoton. 3, p. 462 (2010) 8. N. Verrier et al., J. Microscop. 289, 128 (2023)
    3. H. Liu, et al., Appl. Opt. 53, p. 748 (2014) 9. Y. Sung, Phys. Rev. Appl., 10, 054041 (2018)
    4. B. Simon, et al., Optica 4, p. 460 (2017) 10. N. Verrier, et al., Opt. Express 22, 9368 (2014)
    5. E. Wolf, Opt. Comm. 1, 153 (1969) 11. F. Yang, et al., Opt. Express 28, 3905 (2020)
    6. V. Lauer, J. of Microscopy 205, 165 (2002) 12. R. Abbessi, et al., J. Microsc. 288, 193 (2022)

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