Nowadays, diagnosis and treatment of brain tumors is based on clinical symptoms, radiological appearance, and often histopathology. Magnetic resonance imaging (MRI) is a major noninvasive tool for the anatomical assessment of tumors in the brain. However, several diagnostic questions, such as the type and grade of the tumor, are difficult to address using MRI. The histopathology of a tissue specimen remains the gold standard, despite the associated risks of surgery to obtain a biopsy. In recent years, the use of magnetic resonance spectroscopy (MRS), which provides a metabolic profile, has gained a lot of interest for a more detailed and specific noninvasive evaluation of brain tumors. In particular, magnetic resonance spectroscopic imaging (MRSI) is attractive as this may also enable to visualize the heterogeneous spatial extent of tumors, both inside and outside the MRI detectable lesion. As manual, individual, viewing ...

Magnetic Resonance Spectroscopy (MRS) is a technique used in fundamental research and in clinical environments. During recent years, clinical application of MRS gained importance, especially as a non-invasive tool for diagnosis and therapy monitoring of brain and prostate tumours. The most important asset of MRS is its ability to determine the concentration of chemical substances non-invasively. To extract relevant signal parameters, MRS data have to be quantified. This usually doesn¢t prove to be straightforward since in vivo MRS signals are characterized by poor signal-to-noise ratios, overlapping peaks, acquisition related artefacts and the presence of disturbing components (e.g. residual water in proton spectra). The work presented in this thesis aims to improve the quantification in different applications of MRS in vivo. To obtain the signal parameters related to MRS data, different approaches were suggested in the past. Black-box methods, don¢t require ...

Assertive diagnosis of cancer, Alzheimer’s disease, epilepsy and other metabolic diseases is essential to provide patients with the adequate treatment. Recently, different invasive and non-invasive techniques have been developed for this purpose, nevertheless, due to their harmless properties the non-invasive techniques have gained more value. Magnetic Resonance is a well-known non-invasive technique that provides spectra (metabolite peaks) and images (anatomical structures) of the examined tissue. In Magnetic Resonance Spectroscopy (MRS), molecules containing certain excitable nuclei, such as 1H, provide the metabolite information. As a consequence, the peaks in the MR spectra correspond to observable metabolites which are the biomarkers of diseases. Finally, metabolite concentrations are computed and compared against normal values in order to establish the diagnosis. The method to obtain such amplitudes is also called quantification and its accuracy is essential for diagnosis assessment. Quantification of MRS signals is ...

Over the last decades, Magnetic Resonance Imaging (MRI) has taken a leading role in the study of human body and it is widely used in clinical diagnosis. In vivo and ex vivo Magnetic Resonance Spectroscopic (MRS) techniques can additionally provide valuable metabolic information as compared to MRI and are gaining more clinical interest. The analysis of MRS data is a complex procedure and requires several preprocessing steps aiming to improve the quality of the data and to extract the most relevant features before any classification algorithm can be successfully applied. In this thesis a new approach to quantify magnetic resonance spectroscopic imaging (MRSI) data and therefore to obtain improved metabolite estimates is proposed. Then an important part is focusing on improving the diagnosis of glial brain tumors which are characterized by an extensive heterogeneity since various intramural histopathological properties such ...

The medical diagnosis of brain tumours is one of the main applications of Magnetic Resonance. Magnetic Resonance consists of two main branches: Imaging and Spectroscopy. Magnetic Resonance Imaging is very well-known as the radiologic technique applied to produce high-quality images of tissues, such as the brain tissue, for diagnostic purposes. Magnetic Resonance Spectroscopy provides chemical information about all the molecules present in the brain, such as their concentrations. Both Imaging and Spectroscopy can be exploited for the grading and typing of brain tumours, also called the classification of brain tumours. As first topic, this thesis mainly studied the contribution of Spectroscopy for automated classification and the influence of several factors on the classification performance. It was found that a few preprocessing steps did not have a large impact on the classification results. This implies that several preprocessing steps can be ...

Magnetic Resonance Spectroscopy has been successfully used in brain tumor diagnosis and represents a complementary aid to the well-known technique, Magnetic Resonance Imaging, by providing metabolic information that is not available with the latter. Both Imaging and Spectroscopy can be used for the grading and typing of brain tumors. Classifying brain tumors from spectroscopic data is not trivial and requires several steps. The common main steps are preprocessing, feature extraction and, finally, classification of the data. The preprocessing step aims to clean up the data and to normalize them in order to facilitate the extraction of the relevant features. These features, once selected and extracted, are used in a classifier, whose output is a brain tumor class. The challenge is to improve brain tumor diagnosis based on spectroscopic data. In this thesis, we analyzed methods used in each of the ...

Nowadays, Nuclear Magnetic Resonance (NMR) is widely used in oncology as a non-invasive diagnostic tool in order to detect the presence of tumor regions in the human body. An application of NMR is Magnetic Resonance Imaging, which is applied in routine clinical practice to localize tumors and determine their size. Magnetic Resonance Imaging is able to provide an initial diagnosis, but its ability to delineate anatomical and pathological information is significantly improved by its combination with another NMR application, namely Magnetic Resonance Spectroscopy. The latter reveals information on the biochemical profile tissues, thereby allowing clinicians and radiologists to identify in a non{invasive way the different tissue types characterizing the sample under investigation, and to study the biochemical changes underlying a pathological situation. In particular, an NMR application exists which provides spatial as well as biochemical information. This application is called ...

Over the past years magnetic resonance spectroscopy (MRS) has been of significant importance both as a fundamental research technique in different fields, as well as a diagnostic tool in medical environments. With MRS, for example, spectroscopic information, such as the concentrations of chemical substances, can be determined non-invasively. To that end, the signals are first modeled by an appropriate model function and mathematical techniques are subsequently applied to determine the model parameters. In this thesis, signal processing algorithms are developed to quantify in-vivo and ex-vivo MRS signals. These are usually characterized by a poor signal-to-noise ratio, overlapping peaks, deviations from the model function and in some cases the presence of disturbing components (e.g. the residual water in proton spectra). The work presented in this thesis addresses a part of the total effort to provide accurate, efficient and automatic data analysis ...

In this thesis, the power of Machine Learning (ML) algorithms is combined with brain connectivity patterns, using Magnetic Resonance Imaging (MRI), for classification and prediction of Multiple Sclerosis (MS). White Matter (WM) as well as Grey Matter (GM) graphs are studied as connectome data types. The thesis addresses three main research objectives. The first objective aims to generate realistic brain connectomes data for improving the classification of MS clinical profiles in cases of data scarcity and class imbalance. To solve the problem of limited and imbalanced data, a Generative Adversarial Network (GAN) was developed for the generation of realistic and biologically meaningful connec- tomes. This network achieved a 10% better MS classification performance compared to classical approaches. As second research objective, we aim to improve classification of MS clinical profiles us- ing morphological features only extracted from GM brain tissue. ...

Due to a variety of potential barriers to sample acquisition, many of the datasets encountered in important classification applications, ranging from tumor identification to facial recognition, are characterized by small samples of high-dimensional data. In such situations, linear classifiers are popular as they have less risk of overfitting while being faster and more interpretable than non-linear classifiers. They are also easier to understand and implement for the inexperienced practitioner. In this dissertation, several gaps in the literature regarding the analysis and design of linear classifiers for high-dimensional data are addressed using tools from the field of asymptotic Random Matrix Theory (RMT) which facilitate the derivation of limits of relevant quantities or distributions, such as the probability of misclassification of a particular classifier or the asymptotic distribution of its discriminant, in the RMT regime where both the sample size and dimensionality ...

Diffusion magnetic resonance imaging (dMRI) is currently the method of choice for the in vivo and non-invasive quantification of water diffusion in biological tissue. Several diffusion models have been proposed to obtain quantitative diffusion parameters, which have shown to provide novel information on the structural and organizational features of biological tissue, the brain white matter in particular. The goal of this dissertation is to improve the accuracy of the diffusion parameter estimation, given the non-Gaussian nature of the diffusion-weighted MR data. In part I of this manuscript, the necessary basics of dMRI are provided. Next, Part II deals with diffusion parameter estimation and includes the main contributions of the research. Finally, Part III covers the construction of a population-based dMRI atlas of the rat brain.

This thesis deals with problems of Pattern Recognition in the framework of Machine Learning (ML) and, specifically, Statistical Learning Theory (SLT), using Support Vector Machines (SVMs). The focus of this work is on the geometric interpretation of SVMs, which is accomplished through the notion of Reduced Convex Hulls (RCHs), and its impact on the derivation of new, efficient algorithms for the solution of the general SVM optimization task. The contributions of this work is the extension of the mathematical framework of RCHs, the derivation of novel geometric algorithms for SVMs and, finally, the application of the SVM algorithms to the field of Medical Image Analysis and Diagnosis (Mammography). Geometric SVM Framework's extensions: The geometric interpretation of SVMs is based on the notion of Reduced Convex Hulls. Although the geometric approach to SVMs is very intuitive, its usefulness was restricted by ...

Magnetic Resonance Imaging (MRI) is an important diagnostic tool for imaging soft tissue without the use of ionizing radiation. Moreover, through advanced signal processing, MRI can provide more than just anatomical information, such as estimates of tissue-specific physical properties. Signal processing lies at the very core of the MRI process, which involves input design, information encoding, image reconstruction, and advanced filtering. Based on signal modeling and estimation, it is possible to further improve the images, reduce artifacts, mitigate noise, and obtain quantitative tissue information. In quantitative MRI, different physical quantities are estimated from a set of collected images. The optimization problems solved are typically nonlinear, and require intelligent and application-specific algorithms to avoid suboptimal local minima. This thesis presents several methods for efficiently solving different parameter estimation problems in MRI, such as multi-component T2 relaxometry, temporal phase correction of complex-valued ...

The interest for the intelligent vehicle field has been increased during the last years, must probably due to an important number of road accidents. Many accidents could be avoided if a device attached to the vehicle would assist the driver with some warnings when dangerous situations are about to appear. In recent years, leading car developers have recorded significant efforts and support research works regarding the intelligent vehicle field where they propose solutions for the existing problems, especially in the vision domain. Road detection and following, pedestrian or vehicle detection, recognition and tracking, night vision, among others are examples of applications which have been developed and improved recently. Still, a lot of challenges and unsolved problems remain in the intelligent vehicle domain. Our purpose in this thesis is to design an Obstacle Recognition system for improving the road security by ...

Multiple sclerosis is a progressive autoimmune disease that a˙ects young adults. Magnetic resonance (MR) imaging has become an integral part in monitoring multiple sclerosis disease. Conventional MR imaging sequences such as fluid attenuated inversion recovery imaging have high spatial resolution, and can visualise the presence of focal white matter brain lesions in multiple sclerosis disease. Manual delineation of these lesions on conventional MR images is time consuming and su˙ers from intra and inter-rater variability. Among the advanced MR imaging techniques, MR spectroscopic imaging can o˙er complementary information on lesion characterisation compared to conventional MR images. However, MR spectroscopic images have low spatial resolution. Therefore, the aim of this thesis is to automatically segment multiple sclerosis lesions on conventional MR images and use the information from high-resolution conventional MR images to enhance the resolution of MR spectroscopic images. Automatic single time ...