@phdthesis{Kleineisel2024,
  author    = {Kleineisel, Jonas},
  title     = {Variational networks in magnetic resonance imaging - Application to spiral cardiac MRI and investigations on image quality},
  doi       = {10.25972/OPUS-34737},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-347370},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Acceleration is a central aim of clinical and technical research in magnetic resonance imaging (MRI) today, with the potential to increase robustness, accessibility and patient comfort, reduce cost, and enable entirely new kinds of examinations. A key component in this endeavor is image reconstruction, as most modern approaches build on advanced signal and image processing. Here, deep learning (DL)-based methods have recently shown considerable potential, with numerous publications demonstrating benefits for MRI reconstruction. However, these methods often come at the cost of an increased risk for subtle yet critical errors. Therefore, the aim of this thesis is to advance DL-based MRI reconstruction, while ensuring high quality and fidelity with measured data. A network architecture specifically suited for this purpose is the variational network (VN). To investigate the benefits these can bring to non-Cartesian cardiac imaging, the first part presents an application of VNs, which were specifically adapted to the reconstruction of accelerated spiral acquisitions. The proposed method is compared to a segmented exam, a U-Net and a compressed sensing (CS) model using qualitative and quantitative measures. While the U-Net performed poorly, the VN as well as the CS reconstruction showed good output quality. In functional cardiac imaging, the proposed real-time method with VN reconstruction substantially accelerates examinations over the gold-standard, from over 10 to just 1 minute. Clinical parameters agreed on average. Generally in MRI reconstruction, the assessment of image quality is complex, in particular for modern non-linear methods. Therefore, advanced techniques for precise evaluation of quality were subsequently demonstrated. With two distinct methods, resolution and amplification or suppression of noise are quantified locally in each pixel of a reconstruction. Using these, local maps of resolution and noise in parallel imaging (GRAPPA), CS, U-Net and VN reconstructions were determined for MR images of the brain. In the tested images, GRAPPA delivers uniform and ideal resolution, but amplifies noise noticeably. The other methods adapt their behavior to image structure, where different levels of local blurring were observed at edges compared to homogeneous areas, and noise was suppressed except at edges. Overall, VNs were found to combine a number of advantageous properties, including a good trade-off between resolution and noise, fast reconstruction times, and high overall image quality and fidelity of the produced output. Therefore, this network architecture seems highly promising for MRI reconstruction.},
  subject      = {Kernspintomografie},
  language  = {en}
}
@phdthesis{Hock2024,
  author    = {Hock, Michael},
  title     = {Methods for Homogenization of Spatio-Temporal B\(_0\) Magnetic Field Variations in Cardiac MRI at Ultra-High Field Strength},
  doi       = {10.25972/OPUS-34821},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-348213},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Cardiovascular disease is one of the leading causes of death worldwide and, so far, echocardiography, nuclear cardiology, and catheterization are the gold standard techniques used for its detection. Cardiac magnetic resonance (CMR) can replace the invasive imaging modalities and provide a "one-stop shop" characterization of the cardiovascular system by measuring myocardial tissue structure, function and perfusion of the heart, as well as anatomy of and flow in the coronary arteries. In contrast to standard clinical magnetic resonance imaging (MRI) scanners, which are often operated at a field strength of 1.5 or 3 Tesla (T), a higher resolution and subsequent cardiac parameter quantification could potentially be achieved at ultra-high field, i.e., 7 T and above. Unique insights into the pathophysiology of the heart are expected from ultra-high field MRI, which offers enhanced image quality in combination with novel contrast mechanisms, but suffers from spatio-temporal B0 magnetic field variations. Due to the resulting spatial misregistration and intra-voxel dephasing, these B0-field inhomogeneities generate a variety of undesired image artifacts, e.g., artificial image deformation. The resulting macroscopic field gradients lead to signal loss, because the effective transverse relaxation time T2* is shortened. This affects the accuracy of T2* measurements, which are essential for myocardial tissue characterization. When steady state free precession-based pulse sequences are employed for image acquisition, certain off-resonance frequencies cause signal voids. These banding artifacts complicate the proper marking of the myocardium and, subsequently, systematic errors in cardiac function measurements are inevitable. Clinical MR scanners are equipped with basic shim systems to correct for occurring B0-field inhomogeneities and resulting image artifacts, however, these are not sufficient for the advanced measurement techniques employed for ultra-high field MRI of the heart. Therefore, this work focused on the development of advanced B0 shimming strategies for CMR imaging applications to correct the spatio-temporal B0 field variations present in the human heart at 7 T. A novel cardiac phase-specific shimming (CPSS) technique was set up, which featured a triggered B0 map acquisition, anatomy-matched selection of the shim-region-of-interest (SROI), and calibration-based B0 field modeling. The influence of technical limitations on the overall spherical harmonics (SH) shim was analyzed. Moreover, benefits as well as pitfalls of dynamic shimming were debated in this study. An advanced B0 shimming strategy was set up and applied in vivo, which was the first implementation of a heart-specific shimming approach in human UHF MRI at the time. The spatial B0-field patterns which were measured in the heart throughout this study contained localized spots of strong inhomogeneities. They fluctuated over the cardiac cycle in both size and strength, and were ideally addressed using anatomy-matched SROIs. Creating a correcting magnetic field with one shim coil, however, generated eddy currents in the surrounding conducting structures and a resulting additional, unintended magnetic field. Taking these shim-to-shim interactions into account via calibration, it was demonstrated for the first time that the non-standard 3rd-order SH terms enhanced B0-field homogeneity in the human heart. However, they were attended by challenges for the shim system hardware employed in the presented work, which was indicated by the currents required to generate the optimal 3rd-order SH terms exceeding the dynamic range of the corresponding shim coils. To facilitate dynamic shimming updated over the cardiac cycle for cine imaging, the benefit of adjusting the oscillating CPSS currents was found to be vital. The first in vivo application of the novel advanced B0 shimming strategy mostly matched the simulations. The presented technical developments are a basic requirement to quantitative and functional CMR imaging of the human heart at 7 T. They pave the way for numerous clinical studies about cardiac diseases, and continuative research on dedicated cardiac B0 shimming, e.g., adapted passive shimming and multi-coil technologies.},
  subject      = {Kernspintomografie},
  language  = {en}
}
@phdthesis{Portmann2023,
  author    = {Portmann, Johannes},
  title     = {Accelerated inversion recovery MRI of the myocardium using spiral acquisition},
  doi       = {10.25972/OPUS-30282},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-302822},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2023},
  abstract  = {This work deals with the acceleration of cardiovascular MRI for the assessment of functional information in steady-state contrast and for viability assessment during the inversion recovery of the magnetization. Two approaches are introduced and discussed in detail. MOCO-MAP uses an exponential model to recover dynamic image data, IR-CRISPI, with its low-rank plus sparse reconstruction, is related to compressed sensing. MOCO-MAP is a successor to model-based acceleration of parametermapping (MAP) for the application in the myocardial region. To this end, it was augmented with a motion correction (MOCO) step to allow exponential fitting the signal of a still object in temporal direction. Iteratively, this introduction of prior physical knowledge together with the enforcement of consistency with the measured data can be used to reconstruct an image series from distinctly shorter sampling time than the standard exam (< 3 s opposed to about 10 s). Results show feasibility of the method as well as detectability of delayed enhancement in the myocardium, but also significant discrepancies when imaging cardiac function and artifacts caused already by minor inaccuracy of the motion correction. IR-CRISPI was developed from CRISPI, which is a real-time protocol specifically designed for functional evaluation of image data in steady-state contrast. With a reconstruction based on the separate calculation of low-rank and sparse part, it employs a softer constraint than the strict exponential model, which was possible due to sufficient temporal sampling density via spiral acquisition. The low-rank plus sparse reconstruction is fit for the use on dynamic and on inversion recovery data. Thus, motion correction is rendered unnecessary with it. IR-CRISPI was equipped with noise suppression via spatial wavelet filtering. A study comprising 10 patients with cardiac disease show medical applicability. A comparison with performed traditional reference exams offer insight into diagnostic benefits. Especially regarding patients with difficulty to hold their breath, the real-time manner of the IR-CRISPI acquisition provides a valuable alternative and an increase in robustness. In conclusion, especially with IR-CRISPI in free breathing, a major acceleration of the cardiovascular MR exam could be realized. In an acquisition of less than 100 s, it not only includes the information of two traditional protocols (cine and LGE), which take up more than 9.6 min, but also allows adjustment of TI in retrospect and yields lower artifact level with similar image quality.},
  subject      = {Kernspintomografie},
  language  = {en}
}
@phdthesis{Eirich2022,
  author    = {Eirich, Philipp},
  title     = {Accelerated non-Cartesian cardiovascular MR Imaging at 3T and 7T},
  doi       = {10.25972/OPUS-25397},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-253974},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2022},
  abstract  = {In this work, accelerated non-Cartesian Magnetic Resonance Imaging (MRI) methods were established and applied to cardiovascular imaging (CMR) at different magnetic field strengths (3T and 7T). To enable rapid data acquisition, highly efficient spiral k-space trajectories were created. In addition, hybrid sampling patterns such as the twisting radial lines (TWIRL) k-space trajectory were studied. Imperfections of the dynamic gradient system of a MR scanner result in k-space sampling errors. Ultimately, these errors can lead to image artifacts in non-Cartesian acquisitions. Among other reasons such as an increased reconstruction complexity, they cause the lack of spiral sequences in clinical routine compared to standard Cartesian imaging. Therefore, the Gradient System Transfer Functions (GSTFs) of both scanners were determined and used for k-space trajectory correction in post-correction as well as in terms of a pre-emphasis. The GSTF pre-emphasis was implemented as a fully automatic procedure, which enabled a precise correction of arbitrary gradient waveforms for double-oblique slice orientations. Consequently, artifacts due to trajectory errors could be mitigated, which resulted in high image quality in non-Cartesian MRI. Additionally, the GSTF correction was validated by measuring pre-emphasized spiral gradient outputs, which showed high agreement with the theoretical gradient waveforms. Furthermore, it could be demonstrated that the performance of the GSTF correction is superior to a simple delay compensation approach. The developed pulse sequences were applied to gated as well as real-time CMR. Special focus lied on the implementation of a spiral imaging protocol to resolve the beating heart of animals and humans in real time and free breathing. In order to achieve real-time CMR with high spatiotemporal resolution, k-space undersampling was performed. For this reason, efficient sampling strategies were developed with the aim to facilitate compressed sensing (CS) during image reconstruction. The applied CS approach successfully removed aliasing artifacts and yielded high-resolution cardiac image series. Image reconstruction was performed offline in all cases such that the images were not available immediately after acquisition at the scanner. Spiral real-time CMR could be performed in free breathing, which led to an acquisition time of less than 1 minute for a whole short-axis stack. At 3T, the results were compared to the gold standard of electrocardiogram-gated Cartesian CMR in breath hold, which revealed similar values for important cardiovascular functional and volumetric parameters. This paves the way to an application of the developed framework in clinical routine of CMR. In addition, the spiral real-time protocol was transferred to swallowing and speech imaging at 3T, and first images were presented. The results were of high quality and confirm the straightforward utilization of the spiral sequence in other fields of MRI. In general, the GSTF correction yielded high-quality images at both field strengths, 3T and 7T. Off-resonance related blurring was mitigated by applying non-Cartesian readout gradients of short duration. At 7T, however, B1-inhomogeneity led to image artifacts in some cases. All in all, this work demonstrated great advances in accelerating the MRI process by combining efficient, undersampled non-Cartesian k-space coverage with CS reconstruction. Trajectory correction using the GSTF can be implemented at any scanner model and enables non-Cartesian imaging with high image quality. Especially MRI of dynamic processes greatly benefits from the presented rapid imaging approaches.},
  subject      = {Kernspintomografie},
  language  = {en}
}
@phdthesis{TranGia2014,
  author    = {Tran-Gia, Johannes},
  title     = {Model-Based Reconstruction Methods for MR Relaxometry},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-109774},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2014},
  abstract  = {In this work, a model-based acceleration of parameter mapping (MAP) for the determination of the tissue parameter T1 using magnetic resonance imaging (MRI) is introduced. The iterative reconstruction uses prior knowledge about the relaxation behavior of the longitudinal magnetization after a suitable magnetization preparation to generate a series of fully sampled k-spaces from a strongly undersampled acquisition. A Fourier transform results in a spatially resolved time course of the longitudinal relaxation process, or equivalently, a spatially resolved map of the longitudinal relaxation time T1. In its fastest implementation, the MAP algorithm enables the reconstruction of a T1 map from a radial gradient echo dataset acquired within only a few seconds after magnetization preparation, while the acquisition time of conventional T1 mapping techniques typically lies in the range of a few minutes. After validation of the MAP algorithm for two different types of magnetization preparation (saturation recovery \& inversion recovery), the developed algorithm was applied in different areas of preclinical and clinical MRI and possible advantages and disadvantages were evaluated.},
  subject      = {Kernspintomographie},
  language  = {en}
}
@phdthesis{Dieler2011,
  author    = {Dieler, Alica Christina},
  title     = {Investigation of variables influencing cognitive inhibition: from the behavioral to the molecular level},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65955},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {The present work investigated the neural mechanisms underlying cognitive inhibition/thought suppression in Anderson's and Green's Think/No-Think paradigm (TNT), as well as different variables influencing these mechanisms at the cognitive, the neurophysiological, the electrophysiological and the molecular level. Neurophysiological data collected with fNIRS and fMRI have added up to the existing evidence of a fronto-hippocampal network interacting during the inhibition of unwanted thoughts. Some evidence has been presented suggesting that by means of external stimulation of the right dlPFC through iTBS thought suppression might be improved, providing further evidence for an implication of this region in the TNT. A combination of fNIRS with ERP has delivered evidence of a dissociation of early condition-independent attentional and later suppression-specific processes within the dlPFC, both contributing to suppression performance. Due to inconsistencies in the previous literature it was considered how stimulus valence would influence thought suppression by manipulating the emotional content of the to-be-suppressed stimuli. Findings of the current work regarding the ability to suppress negative word or picture stimuli have, however, been inconclusive as well. It has been hypothesized that performance in the TNT might depend on the combination of valence conditions included in the paradigm. Alternatively, it has been suggested that inconsistent findings regarding the suppression of negative stimuli or suppression at all might be due to certain personality traits and/or genetic variables, found in the present work to contribute to thought inhibition in the TNT. Rumination has been shown to be a valid predictor of thought suppression performance. Increased ruminative tendencies led to worse suppression performance which, in the present work, has been linked to less effective recruitment of the dlPFC and in turn less effective down-regulation of hippocampal activity during suppression trials. Trait anxiety has also been shown to interrupt thought suppression despite higher, however, inefficient recruitment of the dlPFC. Complementing the findings regarding ruminative tendencies and decreased thought inhibition a functional polymorphism in the KCNJ6 gene, encompassing a G-to-A transition, has been shown to disrupt thought suppression despite increased activation of the dlPFC. Through the investigation of thought suppression at different levels, the current work adds further evidence to the idea that the TNT reflects an executive control mechanism, which is sensitive to alterations in stimulus valence to some extent, neurophysiological functioning as indicated by its sensitivity to iTBS, functional modulations at the molecular level and personality traits, such as rumination and trait anxiety.},
  subject      = {Kognitiver Prozess},
  language  = {en}
}