Automated detection of brain abnormalities in neonatal hypoxia ischemic injury from MR images.

We compared the efficacy of three automated brain injury detection methods, namely symmetry-integrated region growing (SIRG), hierarchical region splitting (HRS) and modified watershed segmentation (MWS) in human and animal magnetic resonance imaging (MRI) datasets for the detection of hypoxic ischemic injuries (HIIs). Diffusion weighted imaging (DWI, 1.5T) data from neonatal arterial ischemic stroke (AIS) patients, as well as T2-weighted imaging (T2WI, 11.7T, 4.7T) at seven different time-points (1, 4, 7, 10, 17, 24 and 31 days post HII) in rat-pup model of hypoxic ischemic injury were used to assess the temporal efficacy of our computational approaches. Sensitivity, specificity, and similarity were used as performance metrics based on manual ('gold standard') injury detection to quantify comparisons. When compared to the manual gold standard, automated injury location results from SIRG performed the best in 62% of the data, while 29% for HRS and 9% for MWS. Injury severity detection revealed that SIRG performed the best in 67% cases while 33% for HRS. Prior information is required by HRS and MWS, but not by SIRG. However, SIRG is sensitive to parameter-tuning, while HRS and MWS are not. Among these methods, SIRG performs the best in detecting lesion volumes; HRS is the most robust, while MWS lags behind in both respects

Automated Segmentation of Cerebral Aneurysm Using a Novel Statistical Multiresolution Approach

Cerebral Aneurysm (CA) is a vascular disease that threatens the lives of many adults. It a ects almost 1:5 - 5% of the general population. Sub- Arachnoid Hemorrhage (SAH), resulted by a ruptured CA, has high rates of morbidity and mortality. Therefore, radiologists aim to detect it and diagnose it at an early stage, by analyzing the medical images, to prevent or reduce its damages. The analysis process is traditionally done manually. However, with the emerging of the technology, Computer-Aided Diagnosis (CAD) algorithms are adopted in the clinics to overcome the traditional process disadvantages, as the dependency of the radiologist's experience, the inter and intra observation variability, the increase in the probability of error which increases consequently with the growing number of medical images to be analyzed, and the artifacts added by the medical images' acquisition methods (i.e., MRA, CTA, PET, RA, etc.) which impedes the radiologist' s work. Due to the aforementioned reasons, many research works propose di erent segmentation approaches to automate the analysis process of detecting a CA using complementary segmentation techniques; but due to the challenging task of developing a robust reproducible reliable algorithm to detect CA regardless of its shape, size, and location from a variety of the acquisition methods, a diversity of proposed and developed approaches exist which still su er from some limitations. This thesis aims to contribute in this research area by adopting two promising techniques based on the multiresolution and statistical approaches in the Two-Dimensional (2D) domain. The rst technique is the Contourlet Transform (CT), which empowers the segmentation by extracting features not apparent in the normal image scale. While the second technique is the Hidden Markov Random Field model with Expectation Maximization (HMRF-EM), which segments the image based on the relationship of the neighboring pixels in the contourlet domain. The developed algorithm reveals promising results on the four tested Three- Dimensional Rotational Angiography (3D RA) datasets, where an objective and a subjective evaluation are carried out. For the objective evaluation, six performance metrics are adopted which are: accuracy, Dice Similarity Index (DSI), False Positive Ratio (FPR), False Negative Ratio (FNR), speci city, and sensitivity. As for the subjective evaluation, one expert and four observers with some medical background are involved to assess the segmentation visually. Both evaluations compare the segmented volumes against the ground truth data

Noise-Enhanced and Human Visual System-Driven Image Processing: Algorithms and Performance Limits

This dissertation investigates the problem of image processing based on stochastic resonance (SR) noise and human visual system (HVS) properties, where several novel frameworks and algorithms for object detection in images, image enhancement and image segmentation as well as the method to estimate the performance limit of image segmentation algorithms are developed. Object detection in images is a fundamental problem whose goal is to make a decision if the object of interest is present or absent in a given image. We develop a framework and algorithm to enhance the detection performance of suboptimal detectors using SR noise, where we add a suitable dose of noise into the original image data and obtain the performance improvement. Micro-calcification detection is employed in this dissertation as an illustrative example. The comparative experiments with a large number of images verify the efficiency of the presented approach. Image enhancement plays an important role and is widely used in various vision tasks. We develop two image enhancement approaches. One is based on SR noise, HVS-driven image quality evaluation metrics and the constrained multi-objective optimization (MOO) technique, which aims at refining the existing suboptimal image enhancement methods. Another is based on the selective enhancement framework, under which we develop several image enhancement algorithms. The two approaches are applied to many low quality images, and they outperform many existing enhancement algorithms. Image segmentation is critical to image analysis. We present two segmentation algorithms driven by HVS properties, where we incorporate the human visual perception factors into the segmentation procedure and encode the prior expectation on the segmentation results into the objective functions through Markov random fields (MRF). Our experimental results show that the presented algorithms achieve higher segmentation accuracy than many representative segmentation and clustering algorithms available in the literature. Performance limit, or performance bound, is very useful to evaluate different image segmentation algorithms and to analyze the segmentability of the given image content. We formulate image segmentation as a parameter estimation problem and derive a lower bound on the segmentation error, i.e., the mean square error (MSE) of the pixel labels considered in our work, using a modified Cramér-Rao bound (CRB). The derivation is based on the biased estimator assumption, whose reasonability is verified in this dissertation. Experimental results demonstrate the validity of the derived bound

An Automatic Level Set Based Liver Segmentation from MRI Data Sets

A fast and accurate liver segmentation method is a challenging work in medical image analysis area. Liver segmentation is an important process for computer-assisted diagnosis, pre-evaluation of liver transplantation and therapy planning of liver tumors. There are several advantages of magnetic resonance imaging such as free form ionizing radiation and good contrast visualization of soft tissue. Also, innovations in recent technology and image acquisition techniques have made magnetic resonance imaging a major tool in modern medicine. However, the use of magnetic resonance images for liver segmentation has been slow when we compare applications with the central nervous systems and musculoskeletal. The reasons are irregular shape, size and position of the liver, contrast agent effects and similarities of the gray values of neighbor organs. Therefore, in this study, we present a fully automatic liver segmentation method by using an approximation of the level set based contour evolution from T2 weighted magnetic resonance data sets. The method avoids solving partial differential equations and applies only integer operations with a two-cycle segmentation algorithm. The efficiency of the proposed approach is achieved by applying the algorithm to all slices with a constant number of iteration and performing the contour evolution without any user defined initial contour. The obtained results are evaluated with four different similarity measures and they show that the automatic segmentation approach gives successful results

Multimodal image analysis of the human brain

Gedurende de laatste decennia heeft de snelle ontwikkeling van multi-modale en niet-invasieve hersenbeeldvorming technologieën een revolutie teweeg gebracht in de mogelijkheid om de structuur en functionaliteit van de hersens te bestuderen. Er is grote vooruitgang geboekt in het beoordelen van hersenschade door gebruik te maken van Magnetic Reconance Imaging (MRI), terwijl Elektroencefalografie (EEG) beschouwd wordt als de gouden standaard voor diagnose van neurologische afwijkingen. In deze thesis focussen we op de ontwikkeling van nieuwe technieken voor multi-modale beeldanalyse van het menselijke brein, waaronder MRI segmentatie en EEG bronlokalisatie. Hierdoor voegen we theorie en praktijk samen waarbij we focussen op twee medische applicaties: (1) automatische 3D MRI segmentatie van de volwassen hersens en (2) multi-modale EEG-MRI data analyse van de hersens van een pasgeborene met perinatale hersenschade. We besteden veel aandacht aan de verbetering en ontwikkeling van nieuwe methoden voor accurate en ruisrobuuste beeldsegmentatie, dewelke daarna succesvol gebruikt worden voor de segmentatie van hersens in MRI van zowel volwassen als pasgeborenen. Daarenboven ontwikkelden we een geïntegreerd multi-modaal methode voor de EEG bronlokalisatie in de hersenen van een pasgeborene. Deze lokalisatie wordt gebruikt voor de vergelijkende studie tussen een EEG aanval bij pasgeborenen en acute perinatale hersenletsels zichtbaar in MRI

Effective Brain Tumor Classification Using Deep Residual Network-Based Transfer Learning

Brain tumor classification is an essential task in medical image processing that provides assistance to doctors for accurate diagnoses and treatment plans. A Deep Residual Network based Transfer Learning to a fully convoluted Convolutional Neural Network (CNN) is proposed to perform brain tumor classification of Magnetic Resonance Images (MRI) from the BRATS 2020 dataset. The dataset consists of a variety of pre-operative MRI scans to segment integrally varied brain tumors in appearance, shape, and histology, namely gliomas. A Deep Residual Network (ResNet-50) to a fully convoluted CNN is proposed to perform tumor classification from MRI of the BRATS dataset. The 50-layered residual network deeply convolutes the multi-category of tumor images in classification tasks using convolution block and identity block. Limitations such as Limited accuracy and complexity of algorithms in CNN-based ME-Net, and classification issues in YOLOv2 inceptions are resolved by the proposed model in this work. The trained CNN learns boundary and region tasks and extracts successful contextual information from MRI scans with minimal computation cost. The tumor segmentation and classification are performed in one step using a U-Net architecture, which helps retain spatial features of the image. The multimodality fusion is implemented to perform classification and regression tasks by integrating dataset information. The dice scores of the proposed model for Enhanced Tumor (ET), Whole Tumor (WT), and Tumor Core (TC) are 0.88, 0.97, and 0.90 on the BRATS 2020 dataset, and also resulted in 99.94% accuracy, 98.92% sensitivity, 98.63% specificity, and 99.94% precision