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In a number of tomographic applications, data cannot be fully acquired, resulting in severely underdetermined image reconstruction. Conventional methods in such cases lead to reconstructions with significant artifacts. To overcome these artifacts, regularization methods are applied that incorporate additional information. An important example is TV reconstruction, which is known to be efficient in compensating for missing data and reducing reconstruction artifacts. On the other hand, tomographic data are also contaminated by noise, which poses an additional challenge. The use of a single regularizer must therefore account for both the missing data and the noise. A particular regularizer may not be ideal for both tasks. For example, the TV regularizer is a poor choice for noise reduction over multiple scales, in which case ℓ1 curvelet regularization methods are well suited. To address this issue, in this paper, we present a novel variational regularization framework that combines the advantages of different regularizers. The basic idea of our framework is to perform reconstruction in two stages. The first stage is mainly aimed at accurate reconstruction in the presence of noise, and the second stage is aimed at artifact reduction. Both reconstruction stages are connected by a data proximity condition. The proposed method is implemented and tested for limited-view CT using a combined curvelet–TV approach. We define and implement a curvelet transform adapted to the limited-view problem and illustrate the advantages of our approach in numerical experiments.

Image reconstruction in multispectral computed tomography (MSCT) requires solving a challenging nonlinear inverse problem, commonly tackled via iterative optimization algorithms. Existing methods necessitate computing the derivative of the forward map and potentially its regularized inverse. In this work, we present a simple yet highly effective algorithm for MSCT image reconstruction, utilizing iterative update mechanisms that leverage the full forward model in the forward step and a derivative-free adjoint problem. Our approach demonstrates both fast convergence and superior performance compared to existing algorithms, making it an interesting candidate for future work. We also discuss further generalizations of our method and its combination with additional regularization and other data discrepancy terms.

In this paper, we consider the problem of feature reconstruction from incomplete X-ray CT data. Such incomplete data problems occur when the number of measured X-rays is restricted either due to limit radiation exposure or due to practical constraints, making the detection of certain rays challenging. Since image reconstruction from incomplete data is a severely ill-posed (unstable) problem, the reconstructed images may suffer from characteristic artefacts or missing features, thus significantly complicating subsequent image processing tasks (e.g., edge detection or segmentation). In this paper, we introduce a framework for the robust reconstruction of convolutional image features directly from CT data without the need of computing a reconstructed image first. Within our framework, we use non-linear variational regularization methods that can be adapted to a variety of feature reconstruction tasks and to several limited data situations. The proposed variational regularization method minimizes an energy functional being the sum of a feature dependent data-fitting term and an additional penalty accounting for specific properties of the features. In our numerical experiments, we consider instances of edge reconstructions from angular under-sampled data and show that our approach is able to reliably reconstruct feature maps in this case.

Summary: Cardiolipin (CL) is a phospholipid specific for mitochondrial membranes and crucial for many core tasks of this organelle. Its acyl chain configurations are tissue specific, functionally important, and generated via post-biosynthetic remodeling. However, this process lacks the necessary specificity to explain CL diversity, which is especially evident for highly specific CL compositions in mammalian tissues. To investigate the so far elusive regulatory origin of CL homeostasis in mice, we combine lipidomics, integrative transcriptomics, and data-driven machine learning. We demonstrate that not transcriptional regulation, but cellular phospholipid compositions are closely linked to the tissue specificity of CL patterns allowing artificial neural networks to precisely predict cross-tissue CL compositions in a consistent mechanistic specificity rationale. This is especially relevant for the interpretation of disease-related perturbations of CL homeostasis, by allowing differentiation between specific aberrations in CL metabolism and changes caused by global alterations in cellular (phospho-)lipid metabolism. : The lipid architecture of biomembranes is crucial for their cellular functions. The regulatory origins of the strong tissue specificity of cardiolipins, a vital mitochondrial phospholipid class, were so far largely unresolved. Oemer et al. find that a single mechanism explains cardiolipin diversity across tissues on basis of the phospholipid environment. Keywords: cardiolipin, phospholipids, structural diversity, mouse tissue-specificity, membrane lipids, mitochondria, LC-MS/MS, lipidomics, machine learning, artificial neural network

Deep learning based reconstruction methods deliver outstanding results for solving inverse problems and are therefore becoming increasingly important. A recently invented class of learning-based reconstruction methods is the so-called NETT (for Network Tikhonov Regularization), which contains a trained neural network as regularizer in generalized Tikhonov regularization. The existing analysis of NETT considers fixed operators and fixed regularizers and analyzes the convergence as the noise level in the data approaches zero. In this paper, we extend the frameworks and analysis considerably to reflect various practical aspects and take into account discretization of the data space, the solution space, the forward operator and the neural network defining the regularizer. We show the asymptotic convergence of the discretized NETT approach for decreasing noise levels and discretization errors. Additionally, we derive convergence rates and present numerical results for a limited data problem in photoacoustic tomography.

To accelerate photoacoustic data acquisition, in [R. Nuster, G. Zangerl, M. Haltmeier, G. Paltauf (2010). Full field detection in photoacoustic tomography. Optics express, 18(6), 6288–6299] a novel measurement and reconstruction approach has been proposed, where the measured data consist of projections of the full 3D acoustic pressure distribution at a certain time instant T. Existing reconstruction algorithms for this kind of setup assume a constant speed of sound. This assumption is not always met in practice and thus can lead to erroneous reconstructions. In this paper, we present a two-step reconstruction method for full field detection photoacoustic tomography that takes variable speed of sound into account. In the first step, by applying the inverse Radon transform, the pressure distribution at the measurement time is reconstructed point-wise from the projection data. In the second step, a final time wave inversion problem is solved where the initial pressure distribution is recovered from the known pressure distribution at time T. We derive an iterative solution approach for the final time wave inversion problem and compute the required adjoint operator. Moreover, as the main result of this paper, we derive its uniqueness and stability. Our numerical results demonstrate that the proposed reconstruction scheme is fast and stable, and that ignoring sound speed variations significantly degrades the reconstruction.

The development of accurate and efficient image reconstruction algorithms is a central aspect of quantitative photoacoustic tomography (QPAT). In this paper, we address this issues for multi-source QPAT using the radiative transfer equation (RTE) as accurate model for light transport. The tissue parameters are jointly reconstructed from the acoustical data measured for each of the applied sources. We develop stochastic proximal gradient methods for multi-source QPAT, which are more efficient than standard proximal gradient methods in which a single iterative update has complexity proportional to the number applies sources. Additionally, we introduce a completely new formulation of QPAT as multilinear (MULL) inverse problem which avoids explicitly solving the RTE. The MULL formulation of QPAT is again addressed with stochastic proximal gradient methods. Numerical results for both approaches are presented. Besides the introduction of stochastic proximal gradient algorithms to QPAT, we consider the new MULL formulation of QPAT as main contribution of this paper.