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Nesterets, Yakov
- PublicationImage Quality in Attenuation-Based and Phase-Contrast-Based X-ray ImagingThis chapter provides an overviews the statistical decision theory and the associated objective image quality assessment. It focuses on the behavior of the noise propagation in computed tomography (CT) imaging systems, with and without in-line phase-contrast. The chapter analyzes the effect on noise of a widely used phase retrieval approach, based on the Transport of Intensity equation (TIE). It presents an approach, based on the noise power spectrum formalism, for quantifying noise in phase retrieved X-ray radiographs, as well as in phase-contrast computed tomography. Using this approach, in-line phase-contrast imaging in combination with a popular TIE-Hom phase retrieval algorithm has been analyzed and compared with conventional imaging in terms of the noise in the reconstructed projections and CT images. A gain factor has been introduced in order to evaluate the improvement of image quality, in terms of the variance of noise, due to phase retrieval.
- PublicationStability and locality of amplitude and phase contrast tomographics(International Society for Optical Engineering (SPIE), 2006)
; ;Myers, Glenn R; ;Paganin, David M; Wilkins, StephenWe perform a theoretical analysis of the mathematical stability and locality of several modes of amplitude and phase contrast computed tomography (CT) suitable for reconstruction of the 3D distribution of complex refractive index in samples displaying weak absorption contrast. We present a general formalism for CT reconstruction in linear shift-invariant optical systems. Examples of such systems include propagation-based and analyser-based CT. We obtain general formulae for CT reconstruction from analyser-based projection data. We also propose a new tomographic algorithm for the reconstruction of the 3D distribution of complex refractive index in a sample from a single propagation-based projection image per view angle, where the images display both absorption and phase contrast. The method assumes that the real and imaginary parts of the refractive index are proportional to each other. Using singular-value decompositions of the relevant operators we show that, in contrast to conventional amplitude-contrast CT, phase-contrast (diffraction) tomography is mathematically well-posed. The presented results are pertinent to biomedical imaging and non-destructive testing of samples exhibiting weak absorption contrast. - PublicationClinical application of low-dose phase contrast breast CT: methods for the optimization of the reconstruction workflow(Optical Society of America, 2015)
;Pacile, S ;Brun, F ;Accardo, A ;Tromba, G; ;Dullin, C; ;Dreossi, D ;Mohammadi, S ;Tonutti, M ;Stacul, F ;Lockie, DZanconati, FResults are presented of a feasibility study of three-dimensional X-ray tomographic mammography utilising in-line phase contrast. Experiments were performed at SYRMEP beamline of Elettra synchrotron. A specially designed plastic phantom and a mastectomy sample containing a malignant lesion were used to study the reconstructed image quality as a function of different image processing operations. Detailed evaluation and optimization of image reconstruction workflows have been carried out using combinations of several advanced computed tomography algorithms with different pre-processing and post-processing steps. Special attention was paid to the effect of phase retrieval on the diagnostic value of the reconstructed images. A number of objective image quality indices have been applied for quantitative evaluation of the results, and these were compared with subjective assessments of the same images by three experienced radiologists and one pathologist. The outcomes of this study provide practical guidelines for the optimization of image processing workflows in synchrotron-based phase-contrast mammo-tomography. - PublicationHigh-Resolution X-Ray Phase-Contrast 3-D Imaging of Breast Tissue Specimens as a Possible Adjunct to Histopathology(Institute of Electrical and Electronics Engineers (IEEE), 2018-12)
;Baran, Patrycja ;Mayo, Sheridan ;McCormack, Mikkaela ;Pacile, Serena ;Tromba, Giuliana ;Dullin, Christian ;Zanconati, Fabrizio ;Arfelli, Fulvia ;Dreossi, Diego ;Fox, Jane ;Prodanovic, Zdenka ;Cholewa, Marian ;Quiney, Harry ;Dimmock, Matthew; ;Thompson, Darren ;Brennan, PatrickHistopathological analysis is the current gold standard in breast cancer diagnosis and management, however, as imaging technology improves, the amount of potential diagnostic information that may be demonstrable radiologically should also increase. We aimed to evaluate the potential clinical usefulness of 3-D phase-contrast micro-computed tomography (micro-CT) imaging at high spatial resolutions as an adjunct to conventional histological microscopy. Ten breast tissue specimens, 2 mm in diameter, were scanned at the SYRMEP beamline of the Elettra Synchrotron using the propagation-based phase-contrast micro-tomography method. We obtained 1.2 μm pixel size images, which were analyzed and compared with corresponding histological sections examined under light microscopy. To evaluate the effect of spatial resolution on breast cancer diagnosis, scans with four different pixel sizes were also performed. Our comparative analysis revealed that high-resolution images can enable, at a near-histological level, detailed architectural assessment of tissue that may permit increased breast cancer diagnostic sensitivity and specificity when compared with current imaging practices. The potential clinical applications of this method are also discussed. - PublicationThree-dimensional contrast-transfer-function approach in phase-contrast tomography(Optica Publishing Group, 2023)
;Thompson, Darren A; ; A new method is developed for 3D reconstruction of multimaterial objects using propagation-based x-ray phase-contrast tomography (PB-CT) with phase retrieval via contrast-transfer-function (CTF) formalism. The approach differs from conventional PB-CT algorithms, which apply phase retrieval to individual 2D projections. Instead, this method involves performing phase retrieval to the CT-reconstructed volume in 3D. The CTF formalism is further extended to the cases of partially coherent illumination and strongly absorbing samples. Simulated results demonstrate that the proposed post-reconstruction CTF method provides fast and stable phase retrieval, producing results equivalent to conventional pre-reconstruction 2D CTF phase retrieval. Moreover, it is shown that application can be highly localized to isolated objects of interest, without a significant loss of quality, thus leading to increased computational efficiency. Combined with the extended validity of the CTF to greater propagation distances, this method provides additional advantages over approaches based on the transport-of-intensity equation.
- PublicationOn noise-resolution uncertainty in quantum field theory(Nature Publishing Group, 2017)
; ;Kozlov, Alexander; ;Paganin, David MQuiney, Harry MAn uncertainty inequality is presented that establishes a lower limit for the product of the variance of the time-averaged intensity of a mode of a quantized electromagnetic field and the degree of its spatial localization. The lower limit is determined by the vacuum fluctuations within the volume corresponding to the width of the mode. This result also leads to a generalized form of the Heisenberg uncertainty principle for boson fields in which the lower limit for the product of uncertainties in the spatial and momentum localization of a mode is equal to the product of Planck's constant and a dimensionless functional which reflects the joint signal-to-noise ratio of the position and momentum of vacuum fluctuations in the region of the phase space occupied by the mode. Experimental X-ray synchrotron measurements provide an initial verification of the proposed theory in the case of Poisson statistics. - PublicationDuality between noise and spatial resolution in linear systems(Optical Society of America, 2014)
; ; ;de Hoog, Frank; ;Mayo, Sheridan C ;Mohammadi, SaraTromba, GiulianaIt is shown that in a broad class of linear systems, including general linear shift-invariant systems, the spatial resolution and the noise satisfy a duality relationship, resembling the uncertainty principle in quantum mechanics. The product of the spatial resolution and the standard deviation of output noise in such systems represents a type of phase-space volume that is invariant with respect to linear scaling of the point-spread function, and it cannot be made smaller than a certain positive absolute lower limit. A corresponding intrinsic 'quality' characteristic is introduced and then evaluated for the cases of some popular imaging systems, including computed tomography, generic image convolution and phasecontrast imaging. It is shown that in the latter case the spatial resolution and the noise can sometimes be decoupled, potentially leading to a substantial increase in the imaging quality. - PublicationImaging Breast Microcalcifications Using Dark-Field Signal in Propagation-Based Phase-Contrast Tomography(Institute of Electrical and Electronics Engineers IEEE, 2022)
;Aminzadeh, A ;Arhatari, B D ;Maksimenko, A ;Hall, C J ;Hausermann, D ;Peele, A G ;Fox, J ;Kumar, B ;Prodanovic, Z ;Dimmock, M ;Lockie, D; ; ;Thompson, D ;Mayo, S C ;Paganin, D M ;Taba, S T ;Lewis, S ;Brennan, P C ;Quiney, H MBreast microcalcifications are an important primary radiological indicator of breast cancer. However, microcalcification classification and diagnosis may be still challenging for radiologists due to limitations of the standard 2D mammography technique, including spatial and contrast resolution. In this study, we propose an approach to improve the detection of microcalcifications in propagation-based phase-contrast X-ray computed tomography of breast tissues. Five fresh mastectomies containing microcalcifications were scanned at different X-ray energies and radiation doses using synchrotron radiation. Both bright-field (i.e. conventional phase-retrieved images) and dark-field images were extracted from the same data sets using different image processing methods. A quantitative analysis was performed in terms of visibility and contrast-to-noise ratio of microcalcifications. The results show that while the signal-to-noise and the contrast-to-noise ratios are lower, the visibility of the microcalcifications is more than two times higher in the dark-field images compared to the bright-field images. Dark-field images have also provided more accurate information about the size and shape of the microcalcifications.
- PublicationQuantitative diffraction-enhanced x-ray imaging of weak objects(Institute of Physics Publishing Ltd, 2004)
; ; ;Paganin, David; Wilkins, S WTheoretical aspects of quantitative diffraction-enhanced imaging of weak objects are considered using the Fourier optics approach. The amplitude and phase transfer functions are introduced by analogy with the well-known case of in-line (holographic) imaging. The inverse problem of the reconstruction of the phase and amplitude of the incident wave from recorded images is solved in the case of non-absorbing objects and objects consisting of a single material and in the general case of objects with uncorrelated refraction and absorption characteristics. A comparison is given between the solutions to the inverse problem obtained using the new formalism and the geometric-optics approximation. - PublicationOn the "unreasonable" effectiveness of transport of intensity imaging and optical deconvolution(Optical Society of America, 2017)
; ; ;Kozlov, Alexander ;Paganin, David MQuiney, Harry MThe effectiveness of reconstructive imaging using the homogeneous transport of intensity equation may be regarded as "unreasonable," because it has been shown to significantly increase signal-to-noise ratio while preserving spatial resolution, compared to equivalent conventional absorption-based imaging techniques at the same photon fluence. We reconcile this surprising behavior by analyzing the propagation of noise in typical in-line holography experiments. This analysis indicates that novel imaging techniques may be designed that produce high signal-to-noise images at low radiation doses without sacrificing spatial resolution.