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Statistical inversion for medical x-ray tomography with view radiographs: II. Application to dental radiology. (2003)

by V Kolehmainen
Venue:Phys. Med. Biol.
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Bayesian inversion method for 3-d dental x-ray imaging

by Ville Kolehmainen, Antti Vanne, Samuli Siltanen, Jari P Kaipio, Matti Lassas, Martti Kalke - Elektrotechnik & Informationstechnik
"... Abstract Diagnostic and operational tasks in dentistry re-quire three-dimensional (3D) information about tissue. A novel type of low dose dental 3D X-ray imaging is considered. Given projection images taken from a few sparsely distributed direc-tions using the dentist’s regular X-ray equipment, the ..."
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Abstract Diagnostic and operational tasks in dentistry re-quire three-dimensional (3D) information about tissue. A novel type of low dose dental 3D X-ray imaging is considered. Given projection images taken from a few sparsely distributed direc-tions using the dentist’s regular X-ray equipment, the 3D X-ray attenuation function is reconstructed. This is an ill-posed inverse problem, and Bayesian inversion is a well suited framework for reconstruction from such incomplete data. The reconstruction problem is formulated in a well-posed probabilistic form in which a priori information is used to compensate for the incomplete data. A parallelized Bayesian method (implemented for a Beowulf cluster computer) for 3D reconstruction in dental radiology is presented (the method was originally presented in (Kolehmainen et al., 2006)). The prior model for dental structures consist of a weighted `1 and total variation (TV)-prior together with the positivity prior. The inverse problem is stated as nding the maximum a posterior (MAP) estimate. The method is tested with in vivo patient data and shown to outperform the reference method (tomosynthesis).
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...esian methods give improved reconstruction quality over traditional methods, see e.g. (Sauer et al., 1994; Hanson and Wecksung, 1983; Bouman and Sauer, 1993; Frese et al., 2002; Yu and Fessler, 2002; =-=Siltanen et al., 2003-=-; Kolehmainen et al., 2003). A major practical difculty in applying Bayesian methods to 3D x-ray imaging is the heavy computational requirements. This is why previous studies on the topic have mostly...

Wavelet-based reconstruction for limited-angle X-ray tomography

by Maaria Rantala, Simopekka Vänskä, Martti Kalke, Matti Lassas, Jan Moberg, Samuli Siltanen
"... Abstract — The aim of X-ray tomography is to reconstruct an unknown physical body from a collection of projection images. When the projection images are only available from a limited angle of view, the reconstruction problem is a severely ill-posed inverse problem. Statistical inversion allows stabl ..."
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Abstract — The aim of X-ray tomography is to reconstruct an unknown physical body from a collection of projection images. When the projection images are only available from a limited angle of view, the reconstruction problem is a severely ill-posed inverse problem. Statistical inversion allows stable solution of the limited-angle tomography problem by complementing the measurement data by a priori information. In this work, the unknown attenuation distribution inside the body is represented as a wavelet expansion, and a Besov space prior distribution together with positivity constraint is used. The wavelet expansion is thresholded before reconstruction to reduce the dimension of the computational problem. Feasibility of the method is demonstrated by numerical examples using in vitro data from mammography and dental radiology. I.
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...y the dilation equations, these integrals can be implemented by a discrete filtering procedure, see [34]. III. THE MEASUREMENT MODEL Here, we describe the pencil beam model for X-ray attenuation (see =-=[7]-=- for more details). Let the object be a compactly supported density f = f(x). Suppose that an X-ray source is placed on one side of the object and the radiation is detected on the other side at a dete...

SPARSE REPRESENTATIONS FOR LIMITED DATA TOMOGRAPHY

by Hstau Y. Liao, Guillermo Sapiro, Hstau Y. Liao , 2007
"... In limited data tomography, with applications such as electron microscopy and medical imaging, the scanning views are within an angular range that is often both limited and sparsely sampled. In these situations, standard algorithms produce reconstructions with notorious artifacts. We show in this pa ..."
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In limited data tomography, with applications such as electron microscopy and medical imaging, the scanning views are within an angular range that is often both limited and sparsely sampled. In these situations, standard algorithms produce reconstructions with notorious artifacts. We show in this paper that a sparsity image representation principle, based on learning dictionaries for sparse representations of image patches, leads to significantly improved reconstructions of the unknown density from its limited angle projections. The presentation of the underlying framework is complemented with illustrative results on artificial and real data.
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...back-projection (FBP) methods, produces reconstructions with notorious artifacts, see Figure 1. In dealing with the ubiquitous limited angle tomography, several approaches have been tested (e.g., see =-=[1, 2, 3, 4, 5]-=- for more recent ones). In terms of artifacts, methods that apply regularization in the image (density) domain show higher degrees of success. Nevertheless, they normally assume piecewise smoothness o...

Limited data X-ray tomography using nonlinear evolution equations

by Ville Kolehmainen, Matti Lassas, Samuli Siltanen - SIAM J. Sci. Comput
"... Abstract. A novel approach to the X-ray tomography problem with sparse projection data is proposed. Non-negativity of the X-ray attenuation coefficient is enforced by modelling it as max{Φ(x), 0} where Φ is a smooth function. The function Φ is computed as the equilibrium so-lution of a nonlinear evo ..."
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Abstract. A novel approach to the X-ray tomography problem with sparse projection data is proposed. Non-negativity of the X-ray attenuation coefficient is enforced by modelling it as max{Φ(x), 0} where Φ is a smooth function. The function Φ is computed as the equilibrium so-lution of a nonlinear evolution equation analogous to the equations used in level set methods. The reconstruction algorithm is applied to (a) simulated full and limited angle projection data of the Shepp-Logan phantom with sparse angular sampling and (b) measured limited angle projection data of in vitro dental specimens. The results are significantly better than those given by traditional backprojection-based approaches, and similar in quality (but faster to compute) compared to Alge-braic Reconstruction Technique (ART). Key words. Limited angle tomography, X-ray tomography, level set, nonlinear evolution equa-
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...h as FBP, are not well suited for sparse projection data [31, 24]. More promising approaches include algebraic reconstruction (variants of ART) [1, 8, 29], tomosynthesis [11], total variation methods =-=[19, 28, 10, 9]-=-, Bayesian inversion [17, 34, 37, 19, 32], variational methods [20] and deformable models [16, 5, 13, 47, 23]. We introduce a novel variant of the level set method, where the X-ray attenuation coeffic...

2010. A new framework for sparse regularization in limited angle x-ray tomography

by Jürgen Frikel - Biomedical Imaging: From Nano to Macro, 2010 IEEE International Symposium on
"... Abstract We propose a new framework for limited angle tomographic reconstruction. Our approach is based on the observation that for a given acquisition geometry only a few (visible) structures of the object can be reconstructed reliably using a limited angle data set. By formulating this problem in ..."
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Abstract We propose a new framework for limited angle tomographic reconstruction. Our approach is based on the observation that for a given acquisition geometry only a few (visible) structures of the object can be reconstructed reliably using a limited angle data set. By formulating this problem in the curvelet domain, we can characterize those curvelet coefficients which correspond to visible structures in the image domain. The integration of this information into the formulation of the reconstruction problem leads to a considerable dimensionality reduction and yields a speedup of the corresponding reconstruction algorithms.
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... the Tikhonov functional Tα(f) = ‖Rf − y‖22 + α ‖f‖ 2 2 . (2) The first term in (2) is the data fidelity term, which controls the reconstruction error. The second term is the so-called penalty or prior term, which controls the smoothness of the solution. The disadvantage of Tikhonov regularization is that it tends to oversmooth the solution in some situations. This is not wanted in many medical imaging applications. For this reason, other penalties have been proposed in the literature. Prominent examples are the total variation prior (TV) and the Besov norm prior which both enforce smoothness [5, 10]. Recently, the regularization with sparsity constraints has become popular [3]. Here, one seeks for a solution f∗ which is ‘sparse’ in a given dictionary Ψ = {ψ1, . . . , ψN}, i.e., a solution f∗ = ∑ k xkψk =: Ψx for which only a small fraction of the coefficients x1, . . . , xN is non-zero. It is well-known that `1-norm prefers sparse solutions [3, 1]. Therefore, in sparse regularization one is interested in minimization of the `1-penalized Tikhonov functional Tα(x) = ‖Kx− y‖22 + α ‖x‖1 , (3) where K = RΨ ∈ RM×N . From the theory of compressed sensing it is known that the integration of spar...

Statistical X-ray tomography using empirical Besov priors

by Simopekka Vänskä, Matti Lassas, Samuli Siltanen, Rolf Nevanlinna Insitute - ADAPTIVE REGULARIZATION FOR TOMOGRAPHY 21
"... Wavelet-based Besov space prior models for X-ray tomography are studied using the empirical Bayes approach. The hyperparameters for the prior models are estimated from statistical properties of the wavelet coefficients of measured X-ray projection images (which are related to the smoothness of the a ..."
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Wavelet-based Besov space prior models for X-ray tomography are studied using the empirical Bayes approach. The hyperparameters for the prior models are estimated from statistical properties of the wavelet coefficients of measured X-ray projection images (which are related to the smoothness of the attenuation coefficient). Various statistical models for the wavelet coefficients are studied. Experiments using measured in vitro data suggest that the hyperparameters can be estimated with a simple method, leading to automated choice of prior parameters and improved tomographic reconstruction.

Fast Markov chain Monte Carlo sampling for sparse Bayesian inference in high-dimensional inverse problems using L1-type priors

by Felix Lucka
"... Abstract. Sparsity has become a key concept for solving of high-dimensional inverse problems using variational regularization techniques. Recently, using similar sparsity-constraints in the Bayesian framework for inverse problems by encoding them in the prior distribution has attracted attention. Im ..."
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Abstract. Sparsity has become a key concept for solving of high-dimensional inverse problems using variational regularization techniques. Recently, using similar sparsity-constraints in the Bayesian framework for inverse problems by encoding them in the prior distribution has attracted attention. Important questions about the relation between regularization theory and Bayesian inference still need to be addressed when using sparsity promoting inversion. A practical obstacle for these examinations is the lack of fast posterior sampling algorithms for sparse, high-dimensional Bayesian inversion: Accessing the full range of Bayesian inference methods requires being able to draw samples from the posterior probability distribution in a fast and efficient way. This is usually done using Markov chain Monte Carlo (MCMC) sampling algorithms. In this article, we develop and examine a new implementation of a single component Gibbs MCMC sampler for sparse priors relying on L1-norms. We demonstrate that the efficiency of our Gibbs sampler increases when the level of sparsity or the dimension of the unknowns is increased. This property is contrary to the properties of the most commonly applied Metropolis-Hastings (MH) sampling schemes: We demonstrate that the efficiency of MH schemes for L1-type priors dramatically decreases when the level of sparsity or the dimension of the unknowns is increased. Practically, Bayesian inversion for L1-type priors using MH samplers is not feasible at all. As this is commonly believed to be an intrinsic feature of MCMC sampling, the performance of our Gibbs sampler also challenges common beliefs about the applicability of sample based Bayesian inference. AMS classification scheme numbers: 65J22,62F15,65C05,65C60
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...plications like, e.g., limited angle CT, exploring the full range of Bayesian inversion by also incorporating sample based analysis was, up to now, rather regarded as a theoretical option, see, e.g., =-=[49, 34]-=-. In addition, theoretical questions concerning sparse Bayesian inversion, like, e.g., the ones addressed in [36, 35] can be also be addressed numerically (cf. Section 3.1.4). Acknowledgments We would...

A parametric level-set approach to simultaneous object identification and background reconstruction for dual-energy computed tomography

by Oguz Semerci, Eric L. Miller, Senior Member - Image Processing, IEEE Transactions on , 2012
"... Dual energy computerized tomography has gained great interest because of its ability to characterize the chemical composition of a material rather than simply providing relative attenuation images as in conventional tomography. The purpose of this paper is to introduce a novel polychromatic dual ene ..."
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Dual energy computerized tomography has gained great interest because of its ability to characterize the chemical composition of a material rather than simply providing relative attenuation images as in conventional tomography. The purpose of this paper is to introduce a novel polychromatic dual energy processing algorithm with an emphasis on detection and characterization of piecewise constant objects embedded in an unknown, cluttered background. Physical properties of the objects, specifically the Compton scattering and photoelectric absorption coefficients, are assumed to be known with some level of uncertainty. Our approach is based on a level-set representation of the characteristic function of the object and encompasses a number of regularization techniques for addressing both the prior information we have concerning the physical properties of the object as well as fundamental, physics-based limitations associated with our ability to jointly recover the Compton scattering and photoelectric absorption properties of the scene. In the absence of an object with appropriate physical properties, our approach returns a null characteristic function and thus can be viewed as simultaneously solving the detection and characterization problems. Unlike the vast majority of methods which define the level set function non-parametrically, i.e., as a dense set of pixel values), we define our level set parametrically via radial basis functions (RBF’s) and employ a Gauss-Newton type algorithm for cost minimization. Numerical results show that the algorithm successfully detects objects of interest, finds their shape and location, and gives a adequate reconstruction of the background. Index Terms Computed tomography, dual-energy, polychromatic spectrum, parametric level set, inverse problems, iterative reconstruction I.
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...more reliable and highly weighted. From a different point of view, if the photon count is large as will be the case here, the Poisson distribution can be approximated by a Gaussian distribution [50], =-=[56]-=-. Furthermore, energy integrating detectors used in commercial CT scanners cause the statistics to deviate from Poisson distribution [57] and their noise characteristics are well approximated by a Gau...

Artefacts in CBCT: a review

by R Schulze , U Heil , D Grob , D D Bruellmann , E Dranischnikow , U Schwanecke , E Schoemer - Dentomaxillofacial Radiology , 2011
"... ..."
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GPU-BASED VOLUME RECONSTRUCTION FROM VERY FEW ARBITRARILY ALIGNED X-RAY IMAGES∗

by Daniel Gross, Ulrich Heil, Ralf Schulze, Elmar Schoemer, Ulrich Schwanecke
"... Abstract. This paper presents a three-dimensional GPU-accelerated algebraic reconstruction method in a few-projection cone-beam setting with arbitrary acquisition geometry. To achieve artifact-reduced reconstructions in the challenging case of unconstrained geometry and extremely limited input data, ..."
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Abstract. This paper presents a three-dimensional GPU-accelerated algebraic reconstruction method in a few-projection cone-beam setting with arbitrary acquisition geometry. To achieve artifact-reduced reconstructions in the challenging case of unconstrained geometry and extremely limited input data, we use linear methods and an artifact-avoiding projection algorithm to provide high reconstruction quality. We apply the conjugate gradient method in the linear case of Tikhonov regularization and the two-point-step-size gradient method in the nonlinear case of total variation regularization to solve the system of equations. By taking advantage of modern graphics hardware we achieve acceleration of up to two orders of magnitude over classical CPU implementations.
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...rmation is desired, although only a severely limited amount of data can be collected. In intraoral imaging or mammograms, for instance, measurements can be obtained only in a very small angular field =-=[26, 24, 10, 11, 18, 27, 30]-=-. Industrial applications such as systems for material examination or luggage inspection usually are made up of an assembly containing only a few projection units in a restricted projection geometry [...

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