Symmetry Identification Using Partial Surface Matching and Tilt Correction in 3D Brain Images

We propose a novel method to automatically compute the symmetry plane and correct the 3D orientation of patient brain images. Many images of the brain are clinically unreadable because of the misalignment of the patient's head in the scanner. We proposed an algorithm that represents the brain volume as a re-parameterized surface point cloud where each location has been parameterized by its elevation (latitude), azimuth (longitude) and radius. The removal of the interior contents of the brain makes this approach perform robustly in the presence of the brain pathologies, e.g. tumor, stroke and bleed. Thus, we decompose the symmetry plane computation problem into a surface matching routine. The search for the best matching surface is implemented in a multi-resolution paradigm so as to decrease computational time considerably. Spatial affine transform then is performed to rotate the 3D brain images and align them within the coordinate system of the scanner. The corrected brain volume is re-sliced such that each planar image represents the brain at the same axial level

Mid-sagittal plane and mid-sagittal surface optimization in brain MRI using a local symmetry measure

This paper describes methods for automatic localization of the mid-sagittal plane (MSP) and mid-sagittal sur-face (MSS). The data used is a subset of the Leukoaraiosis And DISability (LADIS) study consisting of three-dimensional magnetic resonance brain data from 62 elderly subjects (age 66 to 84 years). Traditionally, the mid-sagittal plane is localized by global measures. However, this approach fails when the partitioning plane between the brain hemispheres does not coincide with the symmetry plane of the head. We instead propose to use a sparse set of profiles in the plane normal direction and maximize the local symmetry around these using a general-purpose optimizer. The plane is parameterized by azimuth and elevation angles along with the distance to the origin in the normal direction. This approach leads to solutions confirmed as the optimal MSP in 98 percent of the subjects. Despite the name, the mid-sagittal plane is not always planar, but a curved surface resulting in poor partitioning of the brain hemispheres. To account for this, this paper also investigates an opti-mization strategy which fits a thin-plate spline surface to the brain data using a robust least median of squares estimator. Albeit computationally more expensive, mid-sagittal surface fitting demonstrated convincingly better partitioning of curved brains into cerebral hemispheres. 1

Enhanced Techniques for Asymmetry Quantification in Brain Imagery

We present an automated generic methodology for symmetry identification and asymmetry quantification, novel method of identifying and delineation of brain pathology by analyzing the opposing sides of the brain utilizing of inherent leftright symmetry in the brain. After symmetry axis has been detected, we apply non-parametric statistical tests operating on the pairs of samples to identify initial seeds points which is defined defined as the pixels where the most statistically significant difference appears. Local region growing is performed on the difference map, from where the seeds are aggregating until it captures all 8-way connected high signals from the difference map. We illustrate the capability of our method with examples ranging from tumors in patient MR data to animal stroke data. The validation results on Rat stroke data have shown that this approach has promise to achieve high precision and full automation in segmenting lesions in reflectional symmetrical objects

Data-driven corpus callosum parcellation method through diffusion tensor imaging

The corpus callosum (CC) is a set of neural fibers in the cerebral cortex, responsible for facilitating inter-hemispheric communication. The CC structural characteristics appear as an essential element for studying healthy subjects and patients diagnosed with neurodegenerative diseases. Due to its size, the CC is usually divided into smaller regions, also known as parcellation. Since there are no visible landmarks inside the structure indicating its division, CC parcellation is a challenging task and methods proposed in the literature are geometric or atlas-based. This paper proposed an automatic data-driven CC parcellation method, based on diffusion data extracted from diffusion tensor imaging that uses the Watershed transform. Experiments compared parcellation results of the proposed method with results of three other parcellation methods on a data set containing 150 images. Quantitative comparison using the Dice coefficient showed that the CC parcels given by the proposed method has a mean overlap higher than 0,9 for some parcels and lower than 0,6 for other parcels. Poor overlap results were confirmed by the statistically significant differences obtained for diffusion metrics values in each parcel, when using different parcellation methods. The proposed method was also validated by using the CC tractography and was the only study that proposed a non-geometric approach for the CC parcellation, based only on the diffusion data of each subject analyzed59Advanced signal processing methods in medical imaging2242122432COORDENAÇÃO DE APERFEIÇOAMENTO DE PESSOAL DE NÍVEL SUPERIOR - CAPESFUNDAÇÃO DE AMPARO À PESQUISA DO ESTADO DE SÃO PAULO - FAPESPnão tem2013/07559-

Segmentierung des Knochens aus T1- und PD-gewichteten Kernspinbildern vom Kopf

Für viele Anwendung, beispielsweise bei der Simulation biomechanischer Eigenschaften des Kopfes oder bei der Lokalisation von Hirnaktivität aus EEG/MEG-Daten, werden genaue, individuelle Modelle des Kopfes benötigt. Bislang erfolgt die Erstellung aus einem T1-gewichteten Kernspinbild. Auf diesen Bildern ist allerdings die innere Kante des Knochens nicht zu erkennen. Daher wird diese geschätzt. Das Ergebnis der genannten Anwendungen hängt aber wesentlich von der Gestalt des Knochens ab. Daher soll zukünftig ein weiteres, PD-gewichtetes Kernspinbild zur Unterstützung der Segmentierung hinzugezogen werden. In dieser Arbeit werden Algorithmen untersucht und daraus Verfahren entwickelt, um den Knochen unter Verwendung eines dual-echo-Datensatzes, bestehend aus einem T1- und einem PD-gewichteten Kernspinbild, zu segmentieren

An automated system for the classification and segmentation of brain tumours in MRI images based on the modified grey level co-occurrence matrix

The development of an automated system for the classification and segmentation of brain tumours in MRI scans remains challenging due to high variability and complexity of the brain tumours. Visual examination of MRI scans to diagnose brain tumours is the accepted standard. However due to the large number of MRI slices that are produced for each patient this is becoming a time consuming and slow process that is also prone to errors. This study explores an automated system for the classification and segmentation of brain tumours in MRI scans based on texture feature extraction. The research investigates an appropriate technique for feature extraction and development of a three-dimensional segmentation method. This was achieved by the investigation and integration of several image processing methods that are related to texture features and segmentation of MRI brain scans. First, the MRI brain scans were pre-processed by image enhancement, intensity normalization, background segmentation and correcting the mid-sagittal plane (MSP) of the brain for any possible skewness in the patient’s head. Second, the texture features were extracted using modified grey level co-occurrence matrix (MGLCM) from T2-weighted (T2-w) MRI slices and classified into normal and abnormal using multi-layer perceptron neural network (MLP). The texture feature extraction method starts from the standpoint that the human brain structure is approximately symmetric around the MSP of the brain. The extracted features measure the degree of symmetry between the left and right hemispheres of the brain, which are used to detect the abnormalities in the brain. This will enable clinicians to reject the MRI brain scans of the patients who have normal brain quickly and focusing on those who have pathological brain features. Finally, the bounding 3D-boxes based genetic algorithm (BBBGA) was used to identify the location of the brain tumour and segments it automatically by using three-dimensional active contour without edge (3DACWE) method. The research was validated using two datasets; a real dataset that was collected from the MRI Unit in Al-Kadhimiya Teaching Hospital in Iraq in 2014 and the standard benchmark multimodal brain tumour segmentation (BRATS 2013) dataset. The experimental results on both datasets proved that the efficacy of the proposed system in the successful classification and segmentation of the brain tumours in MRI scans. The achieved classification accuracies were 97.8% for the collected dataset and 98.6% for the standard dataset. While the segmentation’s Dice scores were 89% for the collected dataset and 89.3% for the standard dataset