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Register a new userA data-Oriented based Self-Calibration And Robust chemical-shift encoding by using clusterization (OSCAR) - Theory, Optimization and Clinical Validation in Neuromuscular disorders
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Added by
Giulio Siracusano Dr.
Publication date
2017
fields
Physics
and research's language is
English
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Multi-echo Chemical Shift Encoded methods for Fat-Water quantification are growing in clinical use due to their ability to estimate and correct some confounding effects. State of the art CSE water-fat separation approaches rely on a multi-peak fat spectrum with peak frequencies and relative amplitudes kept constant over the entire MRI dataset. However, the latter approximation introduces a systematic error in fat percentage quantification in patients where the differences in lipid chemical composition are significant, such as for neuromuscular disorders, because of the spatial dependence of the peak amplitudes. The present work aims to overcome this limitation by taking advantage of an unsupervised clusterization-based approach offering a reliable criterion to carry out a data-driven segmentation of the input MRI dataset into multiple regions. The idea is to apply the clusterization for partitioning the multi-echo MRI dataset into a finite number of clusters whose internal voxels exhibit similar distance metrics. For each cluster, the estimation of the fat spectral properties are evaluated with a self-calibration technique and finally the fat-water percentages are computed via a non-linear fitting. The method is tested in ad-hoc and public datasets. The overall performance and results in terms of fitting accuracy, robustness and reproducibility are compared with other state-of-the-art CSE algorithms. This approach provides a more accurate and reproducible identification of chemical species, hence fat-water separation, when compared with other calibrated and non-calibrated approaches.
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Purpose: Investigation of the feasibility of the R2* mapping techniques by using latest theoretical models corrected for confounding factors and optimized for signal to noise ratio. Theory and Methods: The improvement of the performance of state of the art MRI relaxometry algorithms is challenging because of a non-negligible bias and still unresolved numerical instabilities. Here, R2* mapping reconstructions, including complex-fitting with multi-spectral fat-correction by using single-decay (1D) and double-decay (2D) formulation, are studied in order to identify optimal configuration parameters and minimize numerical artifacts. The effects of echo number, echo spacing, and fat/water relaxation model are evaluated through simulated and in-vivo data. We also explore the stability of such models by analyzing the impact of high percentage of fat infiltrations and local transverse relaxation differences among biological species. Results: The main limits of the MRI relaxometry are the presence of bias and the occurrence of artifacts which affect its accuracy. Chemical-shift complex reconstructions R2*-corrected with 1D formulation exhibit a large bias in presence of a significant difference in the relaxation rates of fat and water and with fat concentration larger than 30%. We find that for fat-dominated tissues or in patients affected by iron overload, MRI reconstructions accounting for multi-exponential relaxation time provide accurate R2* measurements and are less prone to numerical artifacts. Conclusions: Complex fitting 2D formulation outperforms the conventional 1D approximation in various diagnostic scenarios. Although it still lacks of numerical stability which requires model enhancement and support from spectroscopy, it offers promising perspectives for the development of relaxometry as a reliable tool to improve tissue characterization and monitoring of neuromuscular disorders.
Diffusion-weighted magnetic resonance imaging (dMRI) allows non-invasive investigation of whole-brain connectivity, which can potentially help to reveal the brains global network architecture and abnormalities involved in neurological and mental disorders. However, the reliability of connection inferences from dMRI-based fiber tracking is still debated, due to low sensitivity, dominance of false positives, and inaccurate and incomplete reconstruction of long-range connections. Furthermore, parameters of tracking algorithms are typically tuned in a heuristic way, which leaves room for manipulation of an intended result. Here we propose a data-driven framework to optimize and validate parameters of dMRI-based fiber-tracking algorithms using neural tracer data as a reference. Japans Brain/MINDS Project provides invaluable datasets containing both dMRI and neural tracer data from the same primates. We considered four criteria for goodness of fiber tracking: distance-weighted coverage, true/false positive ratio, projection coincidence, and commissural passage, applied using a multi-objective optimization algorithm. We implemented a variant of non-dominated sorting genetic algorithm II (NSGA-II) to optimize five major parameters of a global fiber-tracking algorithm over multiple brain samples in parallel. Using optimized parameters compared to the default parameters, dMRI-based fiber tracking performance was significantly improved, while minimizing false positives and impossible cross-hemisphere connections. Parameters optimized for 10 tracer injection sites showed good generalization capability for other brain samples. These results demonstrate the importance of data-driven adjustment of fiber-tracking algorithms and support the validity of dMRI-based tractography, if appropriate adjustments are employed.
Purpose: To develop an approach for improving the resolution and sensitivity of hyperpolarized 13C MRSI based on a priori anatomical information derived from featured, water-based 1H images. Methods: A reconstruction algorithm exploiting 1H MRI for the redefinition of the 13C MRSI anatomies was developed, based on a modification of the Spectroscopy with Linear Algebraic Modeling (SLAM) principle. To enhance 13C spatial resolution and reduce spillover effects without compromising SNR, this model was extended by endowing it with a search allowing smooth variations in the 13C MR intensity within the targeted regions of interest. Results: Experiments were performed in vitro on enzymatic solutions and in vivo on rodents, based on the administration of 13C-enriched hyperpolarized pyruvate and urea. The spectral images reconstructed for these substrates and from metabolic products based on predefined 1H anatomical compartments using the new algorithm, compared favorably with those arising from conventional Fourier-based analyses of the same data. The new approach also delivered reliable kinetic 13C results, for the kind of processes and timescales usually targeted by hyperpolarized MRSI. Conclusions: A simple yet flexible strategy is introduced to boost the sensitivity and resolution provided by hyperpolarized 13C MRSI, based on readily available 1H MR information.
Diffuse low grade gliomas are slowly growing tumors that always recur after treatment. In this paper, we revisit the modeling of the tumor radius evolution before and after the radiotherapy process and propose a novel model that is simple, yet biologically motivated, and that remedies some shortcomings of previously proposed ones. We confront it with clinical data consisting in time-series of tumor radius for 43 patient records, using a stochastic optimization technique and obtain very good fits in all the cases. Since our model describes the evolution of the tumor from the very first glioma cell, it gives access to the possible age of the tumor. Using the technique of profile-likelihood to extract all the information from the data, we build confidence intervals for the tumor birth age and confirm the fact that low-grade glioma seem to appear in the late teenage years. Moreover, an approximate analytical expression of the temporal evolution of the tumor radius allows us to explain the correlations observed in the data.
Segmentation of abdominal computed tomography(CT) provides spatial context, morphological properties, and a framework for tissue-specific radiomics to guide quantitative Radiological assessment. A 2015 MICCAI challenge spurred substantial innovation in multi-organ abdominal CT segmentation with both traditional and deep learning methods. Recent innovations in deep methods have driven performance toward levels for which clinical translation is appealing. However, continued cross-validation on open datasets presents the risk of indirect knowledge contamination and could result in circular reasoning. Moreover, real world segmentations can be challenging due to the wide variability of abdomen physiology within patients. Herein, we perform two data retrievals to capture clinically acquired deidentified abdominal CT cohorts with respect to a recently published variation on 3D U-Net (baseline algorithm). First, we retrieved 2004 deidentified studies on 476 patients with diagnosis codes involving spleen abnormalities (cohort A). Second, we retrieved 4313 deidentified studies on 1754 patients without diagnosis codes involving spleen abnormalities (cohort B). We perform prospective evaluation of the existing algorithm on both cohorts, yielding 13% and 8% failure rate, respectively. Then, we identified 51 subjects in cohort A with segmentation failures and manually corrected the liver and gallbladder labels. We re-trained the model adding the manual labels, resulting in performance improvement of 9% and 6% failure rate for the A and B cohorts, respectively. In summary, the performance of the baseline on the prospective cohorts was similar to that on previously published datasets. Moreover, adding data from the first cohort substantively improved performance when evaluated on the second withheld validation cohort.
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