Phase retrieval methods applied to coherent imaging

Latychevskaia, Tatiana

doi:10.1016/bs.aiep.2021.04.001

Cited by 3 publications

(4 citation statements)

References 151 publications

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“…Despite this initial success, LEEH imaging was still limited to few specific biological objects and molecular structures that could be stretched over empty holes [ 25 , 26 , 28 , 54–56 , 79 ]. Additionally, the use of free-standing fibres induces biprism distortions that, in LEEH, negatively impact the reconstruction process and the resolution of the reconstructed image [ 26 , 80–82 ].…”

Section: Leehmentioning

confidence: 99%

Electrospray ion beam deposition plus low-energy electron holography as a tool for imaging individual biomolecules

Ochner

Rauschenbach

Malavolti

2023

Essays in Biochemistry

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Inline low-energy electron holography (LEEH) in conjunction with sample preparation by electrospray ion beam deposition (ES-IBD) has recently emerged as a promising method for the sub-nanometre-scale single-molecule imaging of biomolecules. The single-molecule nature of the LEEH measurement allows for the mapping of the molecules’ conformational space and thus for the imaging of structurally variable biomolecules, thereby providing valuable complementary information to well-established biomolecular structure determination methods. Here, after briefly tracing the development of inline LEEH in bioimaging, we present the state-of-the-art of native ES-IBD + LEEH as a method of single-protein imaging, discuss its applications, specifically regarding the imaging of structurally flexible protein systems and the amplitude and phase information encoded in a low-energy electron hologram, and provide an outlook regarding the considerable possibilities for the future advancement of the approach.

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Section: Leehmentioning

confidence: 99%

Electrospray ion beam deposition plus low-energy electron holography as a tool for imaging individual biomolecules

Ochner

Rauschenbach

Malavolti

2023

Essays in Biochemistry

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“…This allows for the detection of the waveguide illumination tails, which results in an extended hologram, and the detection of coherent diffracted photons beyond the cone beam illumination, which will be referred to as the "CDI signal" (based on Coherent Diffractive Imaging) in the following. The simultaneous detection of the holographic and the CDI signal increases the numerical aperture (NA) of the setup and improves therefore its resolution [Lat21].…”

Section: Motivationmentioning

confidence: 99%

Multi-scale 3D virtual histology via phase-contrast X-ray tomography with synchrotron radiation

Frohn

2023

Göttingen Series in X-Ray Physics

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The aim of 3D virtual histology is to overcome these limitations. 3D sample volumes can be acquired by different imaging techniques e.g. by computed tomography (CT). One advantage of this approach is that no mechanical slicing is required, hence avoiding the invasive destruction of the sample. In addition, the reconstructed 3D volume can be virtually sliced in arbitrary directions. The application of computed tomography to the sample sizes used in histology therefore results in 3D virtual his-far-field regime. Due to the high resolution of sub-50 nm in ptychography [Hol+19] and CDI [Brä+19], the resulting small field of views are unsuitable for 3D virtual histology.The achievable resolution of a few micrometer and the corresponding field of view of a few millimeter in GBI, SBI and PBI are more suitable for 3D virtual histology.The application to 3D virtual histology has been demonstrated in [Kim+20] for GBI, in [Zdo+20] for SBI and in [Fro+20a; Eck+20] for PBI. Of these three approaches PBI provides the highest spatial resolution [Zdo+20] and is therefore the subject of this work. The phase information is encoded in the measured intensity pattern, which is the square of the absolute value of the wavefield I = |ψ| 2 , obtained by constructive and destructive interference of the scattered wavefield and the primary wavefield. The recovery of the introduced phase shifts is an ill-posed inverse problem, which requires elaborate reconstruction schemes. Examples for such phase retrieval algorithms are: the popular Paganin single step approach based on the transportof-intensity equation (TIE) [Pag+02] for the edge-enhancement regime, the single step approach based on Contrast-Transfer-Function (CTF) for the holographic regime [Clo+99; Loh+20a] or iterative reconstruction schemes such as the Gerchberg-Saxton (GS), the Error-reduction (ER), the Hybrid-Input-Output (HIO) algorithm [Fie82], the relaxed averaged alternating reflections (RAAR) algorithm [Luk04] or a Tikhonov regularization-based approach [Huh+22]. The formation of an interference pattern by free space propagation is only possible with partially coherent X-rays. The partial spatial coherence of microfocus X-ray source is sufficient to enter the edge-enhancement regime (single fringe at the edges) in laboratories [Wil+96; TOH07; Bar+13]. Additional temporal coherence is required to obtain phase-contrast in the holographic regime (multiple interfering fringes) [Clo+99]. Such spatial and temporal coherence conditions are provided by synchrotron radiation. 3D virtual histology via X-ray phase-contrast is an established technique in the synchrotron community and realised at several beamlines e.g. ID19 (ESRF) [Wei+10; Cho+22b], TOMCAT (SLS) [Sta+10; Bor+21], ANATOMIX (SOLEIL) [Wei+17;Rod+21] and BM05 (ESRF) [Wal+21]. Although each setup differs in X-ray energy, monochromaticity (bending magnet/wiggler/undulator), covered object size or supported propagation distance, a rough differentiation between microtomography and nanotomography is reasonable. Microtomographic se...

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“…To obtain holograms with high quality, we employ a special off-axis holography technique, i.e., Fourier transform holography (FTH) [38][39][40]. A sketch of the setup for the FTH-based scattering imaging model is shown in figure 2.…”

Section: Scattering Imaging Model Based On Off-axis Digital Holographymentioning

confidence: 99%

“…where (u, v) are the coordinates in the diffuser plane; and FT{•} denotes the Fourier transform operation. The object can be reconstructed from its FTH hologram by simply calculating the Fourier transform of the hologram [40]. According to the Wiener-Khinchin theorem, the Fourier transform of the power spectrum of a function is equivalent to its autocorrelation:…”

Section: Scattering Imaging Model Based On Off-axis Digital Holographymentioning

confidence: 99%

Scattering imaging as a noise removal in digital holography by using deep learning

Liao

Feng

et al. 2022

New J. Phys.

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Imaging through scattering media is one of the main challenges in optics while the deep learning (DL) technique is well known as one of the promising ways to handle it. However, most of the existing DL approaches for imaging through scattering media adopt the end-to-end strategy, which significantly limits its generalization capability for various or dynamic scattering media. In this work, we propose an alternative DL-based method to achieve the goal of imaging through different scattering media under the framework of off-axis digital holography. As a result, the severe ill-posed inverse problem in scattering imaging is simplified as a relatively easy de-noising issue for a deteriorated hologram. Experimental results of the proposed method show good generalization for not only different scattering media and but also different types of objects.

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Phase retrieval methods applied to coherent imaging

Cited by 3 publications

References 151 publications

Electrospray ion beam deposition plus low-energy electron holography as a tool for imaging individual biomolecules

Electrospray ion beam deposition plus low-energy electron holography as a tool for imaging individual biomolecules

Multi-scale 3D virtual histology via phase-contrast X-ray tomography with synchrotron radiation

Scattering imaging as a noise removal in digital holography by using deep learning

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