Limited-angle Optical Diffraction Tomography Research Articles

Reconstruction enhancement via projection screening in holographic tomography

This paper presents an algorithm for automatic detection of erroneous amplitude and phase components of a sample’s optical field, acquired by a holographic tomograph with a limited angle of projection. By applying image processing methods and statistical analysis to find and remove unfit projections, the quality of tomographic reconstruction of a 3D refractive index distribution of an object is greatly improved. The proposed methods can find their application in preprocessing of data in holographic tomography. Full Text: PDF ReferencesA. Kuś, W. Krauze, P. L. Makowski, and M. Kujawińska, "Holographic tomography: hardware and software solutions for 3D quantitative biomedical imaging (Invited paper)", ETRI Journal, 41, 1 (2019). CrossRef V. Balasubramani et al., "Phase unwrapping in ICF target interferometric measurement via deep learning", Appl. Opt., 60, 10 (2021). CrossRef Y. Park, C. Depeursinge, and G. Popescu, "Quantitative phase imaging in biomedicine", Nature Photonics, 12, 10 (2018). CrossRef W. Krauze, P. Makowski, M. Kujawińska, and A. Kuś, "Generalized total variation iterative constraint strategy in limited angle optical diffraction tomography", Opt. Express, 24, 5 (2016). CrossRef D. Ryu et al., "A non-calorimetric approach for investigating the moisture-induced ageing of a pyrotechnic delay material using spectroscopies", Sci Rep, 9, 1 (2019). CrossRef B. S. Lipkin, Picture Processing and Psychopictorics. (Saint Louis, Elsevier Science 2014). DirectLink A. M. Taddese, N. Verrier, M. Debailleul, J.-B. Courbot, and O. Haeberlé, "Optimizing sample illumination scanning in transmission tomographic diffractive microscopy", Appl. Opt., 60, 6 (2021). CrossRef

Optical diffraction tomography with finite object support for the minimization of missing cone artifacts.

Limited-angle optical diffraction tomography suffers from strong artifacts in tomographic reconstructions. Numerous algorithms, mainly based on regularization methods, have been developed recently to overcome this limitation. However, the quality of results still needs further improvement. Here I present a simple yet extremely effective method of increasing the reconstruction quality in limited angle optical diffraction tomography that can be combined with known tomographic algorithms. In the method a finite object support is generated from the object data and utilized in the reconstruction procedure as an additional strong regularizer. Practical aspects of this method are given together with examples of application.

Projection extrapolation routine for tight-frame limited-angle optical diffraction tomography.

We propose a data-replenishment-type expansion of the modified Gerchberg-Papoulis (GP) algorithm for limited-angle optical diffraction tomography (LAODT), which prevents artifact buildup in the GP reconstructions of confined bulk objects tightly fitting the active field of view (FoV) of the LAODT microscope. Objects crossing the FoV borders are not considered. The method relies on a Fourier-based forward projector complementary to the GP solver with no additional constraints. Fourier space regridding errors are minimized by means of one-dimensional oversampling in the axial direction, which is demonstrated to be more efficient than standard projection padding. Verification of both synthetic and experimental sinograms confirms the ability of the procedure to deduce missing projection parts necessary for the correct reconstruction.

Illumination-related errors in limited-angle optical diffraction tomography.

In the paper, the design and tolerances of optical systems and scanning components used in limited-angle optical diffraction tomography are analyzed in order to improve the performance of the measurement systems and to encourage the application of tomography as a standard method for quantitative analysis of 3D refractive index distribution in biological microstructures. The first part of the presented analysis consists of component selection for the scanning device and optical system in the illumination part of the setup and the influence of the illumination wavefront on reconstruction quality. In the second part, the sensitivity of the tomographic reconstruction quality to three representative measurement-related errors based on synthetic data is demonstrated. Finally, a configuration of the system, selected to minimize reconstruction errors, is proposed and alignment tolerances simulated using the Monte Carlo method are provided.

Reconstruction method for extended depth-of-field optical diffraction tomography.

In the paper we present a novel method of extended depth-of-field limited-angle optical diffraction tomography, in which the change of a focal plane position is performed with a liquid focus-tunable lens. One sinogram is acquired for each state of a focus-tunable lens. After acquisition process is complete, all sinograms are independently reconstructed and stitched to form the final tomographic reconstruction. The presented solution effectively extends the applicability of the Rytov approximation to relatively thick samples and provides uniform resolution of 3D tomographic reconstructions. The method is also combined with Generalized Total Variation Iterative Constraint algorithm, which minimizes distortion of the results due to the limited angular range of acquired projections. The combined solution is dedicated to investigation of transparent and semi-transparent biological micro-structures, like cells and tissue slices.

Generalized total variation iterative constraint strategy in limited angle optical diffraction tomography.

Due to incompleteness of input data inherent to Limited Angle Tomography (LAT), specific additional constraints are usually employed to suppress image artifacts. In this work we demonstrate a new two-stage regularization strategy, named Generalized Total Variation Iterative Constraint (GTVIC), dedicated to semi-piecewise-constant objects. It has been successfully applied as a supplementary module for two different reconstruction algorithms: an X-ray type solver and a diffraction-wise solver. Numerical tests performed on a detailed phantom of a biological cell under conical illumination pattern show significant reduction of axial blurring in the reconstructed refractive index distribution after GTVIC is added. Analogous results were obtained with experimental data.

Three-dimensional quantitative phase imaging via tomographic deconvolution phase microscopy.

The field of three-dimensional quantitative phase imaging (3D QPI) is expanding rapidly with applications in biological, medical, and industrial research, development, diagnostics, and metrology. Much of this research has centered on developing optical diffraction tomography (ODT) for biomedical applications. In addition to technical difficulties associated with coherent noise, ODT is not congruous with optical microscopy utilizing partially coherent light, which is used in most biomedical laboratories. Thus, ODT solutions have, for the most part, been limited to customized optomechanical systems which would be relatively expensive to implement on a wide scale. In the present work, a new phase reconstruction method, called tomographic deconvolution phase microscopy (TDPM), is described which makes use of commercial microscopy hardware in realizing 3D QPI. TDPM is analogous to methods used in deconvolution microscopy which improve spatial resolution and 3D-localization accuracy of fluorescence micrographs by combining multiple through-focal scans which are deconvolved by the system point spread function. TDPM is based on the 3D weak object transfer function theory which is shown here to be capable of imaging "nonweak" phase objects with large phase excursions. TDPM requires no phase unwrapping and recovers the entire object spectrum via object rotation, mitigating the need to fill in the "missing cone" of spatial frequencies algorithmically as in limited-angle ODT. In the present work, TDPM is demonstrated using optical fibers, including single-mode, polarization-maintaining, and photonic-crystal fibers as well as an azimuthally varying CO2-laser-induced long-period fiber grating period as test phase objects.