Computerized Analysis of Magnetic Resonance Images to Study Cerebral Anatomy in Developing Neonates

The study of cerebral anatomy in developing neonates is of great importance for the understanding of brain development during the early period of life. This dissertation therefore focuses on three challenges in the modelling of cerebral anatomy in neonates during brain development. The methods that have been developed all use Magnetic Resonance Images (MRI) as source data. To facilitate study of vascular development in the neonatal period, a set of image analysis algorithms are developed to automatically extract and model cerebral vessel trees. The whole process consists of cerebral vessel tracking from automatically placed seed points, vessel tree generation, and vasculature registration and matching. These algorithms have been tested on clinical Time-of- Flight (TOF) MR angiographic datasets. To facilitate study of the neonatal cortex a complete cerebral cortex segmentation and reconstruction pipeline has been developed. Segmentation of the neonatal cortex is not effectively done by existing algorithms designed for the adult brain because the contrast between grey and white matter is reversed. This causes pixels containing tissue mixtures to be incorrectly labelled by conventional methods. The neonatal cortical segmentation method that has been developed is based on a novel expectation-maximization (EM) method with explicit correction for mislabelled partial volume voxels. Based on the resulting cortical segmentation, an implicit surface evolution technique is adopted for the reconstruction of the cortex in neonates. The performance of the method is investigated by performing a detailed landmark study. To facilitate study of cortical development, a cortical surface registration algorithm for aligning the cortical surface is developed. The method first inflates extracted cortical surfaces and then performs a non-rigid surface registration using free-form deformations (FFDs) to remove residual alignment. Validation experiments using data labelled by an expert observer demonstrate that the method can capture local changes and follow the growth of specific sulcus

Consistent ICP for the registration of sparse and inhomogeneous point clouds

In this paper, we derive a novel iterative closest point (ICP) technique that performs point cloud alignment in a robust and consistent way. Traditional ICP techniques minimize the point-to-point distances, which are successful when point clouds contain no noise or clutter and moreover are dense and more or less uniformly sampled. In the other case, it is better to employ point-to-plane or other metrics to locally approximate the surface of the objects. However, the point-to-plane metric does not yield a symmetric solution, i.e. the estimated transformation of point cloud p to point cloud q is not necessarily equal to the inverse transformation of point cloud q to point cloud p. In order to improve ICP, we will enforce such symmetry constraints as prior knowledge and make it also robust to noise and clutter. Experimental results show that our method is indeed much more consistent and accurate in presence of noise and clutter compared to existing ICP algorithms

Prior-based Coregistration and Cosegmentation

We propose a modular and scalable framework for dense coregistration and cosegmentation with two key characteristics: first, we substitute ground truth data with the semantic map output of a classifier; second, we combine this output with population deformable registration to improve both alignment and segmentation. Our approach deforms all volumes towards consensus, taking into account image similarities and label consistency. Our pipeline can incorporate any classifier and similarity metric. Results on two datasets, containing annotations of challenging brain structures, demonstrate the potential of our method.Comment: The first two authors contributed equall

Segmentation of the left ventricle of the heart in 3-D+t MRI data using an optimized nonrigid temporal model

Modern medical imaging modalities provide large amounts of information in both the spatial and temporal domains and the incorporation of this information in a coherent algorithmic framework is a significant challenge. In this paper, we present a novel and intuitive approach to combine 3-D spatial and temporal (3-D + time) magnetic resonance imaging (MRI) data in an integrated segmentation algorithm to extract the myocardium of the left ventricle. A novel level-set segmentation process is developed that simultaneously delineates and tracks the boundaries of the left ventricle muscle. By encoding prior knowledge about cardiac temporal evolution in a parametric framework, an expectation-maximization algorithm optimally tracks the myocardial deformation over the cardiac cycle. The expectation step deforms the level-set function while the maximization step updates the prior temporal model parameters to perform the segmentation in a nonrigid sense

An Adaptive Semi-Parametric and Context-Based Approach to Unsupervised Change Detection in Multitemporal Remote-Sensing Images

In this paper, a novel automatic approach to the unsupervised identification of changes in multitemporal remote-sensing images is proposed. This approach, unlike classical ones, is based on the formulation of the unsupervised change-detection problem in terms of the Bayesian decision theory. In this context, an adaptive semi-parametric technique for the unsupervised estimation of the statistical terms associated with the gray levels of changed and unchanged pixels in a difference image is presented. Such a technique exploits the effectivenesses of two theoretically well-founded estimation procedures: the reduced Parzen estimate (RPE) procedure and the expectation-maximization (EM) algorithm. Then, thanks to the resulting estimates and to a Markov Random Field (MRF) approach used to model the spatial-contextual information contained in the multitemporal images considered, a change detection map is generated. The adaptive semi-parametric nature of the proposed technique allows its application to different kinds of remote-sensing images. Experimental results, obtained on two sets of multitemporal remote-sensing images acquired by two different sensors, confirm the validity of the proposed approach

Review of the mathematical foundations of data fusion techniques in surface metrology

The recent proliferation of engineered surfaces, including freeform and structured surfaces, is challenging current metrology techniques. Measurement using multiple sensors has been proposed to achieve enhanced benefits, mainly in terms of spatial frequency bandwidth, which a single sensor cannot provide. When using data from different sensors, a process of data fusion is required and there is much active research in this area. In this paper, current data fusion methods and applications are reviewed, with a focus on the mathematical foundations of the subject. Common research questions in the fusion of surface metrology data are raised and potential fusion algorithms are discussed