Soft Null Hypotheses: A Case Study of Image Enhancement Detection in Brain Lesions

This work is motivated by a study of a population of multiple sclerosis (MS) patients using dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) to identify active brain lesions. At each visit, a contrast agent is administered intravenously to a subject and a series of images is acquired to reveal the location and activity of MS lesions within the brain. Our goal is to identify and quantify lesion enhancement location at the subject level and lesion enhancement patterns at the population level. With this example, we aim to address the difficult problem of transforming a qualitative scientific null hypothesis, such as "this voxel does not enhance", to a well-defined and numerically testable null hypothesis based on existing data. We call the procedure "soft null hypothesis" testing as opposed to the standard "hard null hypothesis" testing. This problem is fundamentally different from: 1) testing when a quantitative null hypothesis is given; 2) clustering using a mixture distribution; or 3) identifying a reasonable threshold with a parametric null assumption. We analyze a total of 20 subjects scanned at 63 visits (~30Gb), the largest population of such clinical brain images

Image mining: issues, frameworks and techniques

[Abstract]: Advances in image acquisition and storage technology have led to tremendous growth in significantly large and detailed image databases. These images, if analyzed, can reveal useful information to the human users. Image mining deals with the extraction of implicit knowledge, image data relationship, or other patterns not explicitly stored in the images. Image mining is more than just an extension of data mining to image domain. It is an interdisciplinary endeavor that draws upon expertise in computer vision, image processing, image retrieval, data mining, machine learning, database, and artificial intelligence. Despite the development of many applications and algorithms in the individual research fields cited above, research in image mining is still in its infancy. In this paper, we will examine the research issues in image mining, current developments in image mining, particularly, image mining frameworks, state-of-the-art techniques and systems. We will also identify some future research directions for image mining at the end of this paper

Introduction to fMRI: experimental design and data analysis

This provides an introduction to functional MRI, experimental design and data analysis procedures using statistical parametric mapping approach

OLEMAR: An Online Environment for Mining Association Rules in Multidimensional Data

Data warehouses and OLAP (online analytical processing) provide tools to explore and navigate through data cubes in order to extract interesting information under different perspectives and levels of granularity. Nevertheless, OLAP techniques do not allow the identification of relationships, groupings, or exceptions that could hold in a data cube. To that end, we propose to enrich OLAP techniques with data mining facilities to benefit from the capabilities they offer. In this chapter, we propose an online environment for mining association rules in data cubes. Our environment called OLEMAR (online environment for mining association rules), is designed to extract associations from multidimensional data. It allows the extraction of inter-dimensional association rules from data cubes according to a sum-based aggregate measure, a more general indicator than aggregate values provided by the traditional COUNT measure. In our approach, OLAP users are able to drive a mining process guided by a meta-rule, which meets their analysis objectives. In addition, the environment is based on a formalization, which exploits aggregate measures to revisit the definition of the support and the confidence of discovered rules. This formalization also helps evaluate the interestingness of association rules according to two additional quality measures: lift and loevinger. Furthermore, in order to focus on the discovered associations and validate them, we provide a visual representation based on the graphic semiology principles. Such a representation consists in a graphic encoding of frequent patterns and association rules in the same multidimensional space as the one associated with the mined data cube. We have developed our approach as a component in a general online analysis platform called Miningcubes according to an Apriori-like algorithm, which helps extract inter-dimensional association rules directly from materialized multidimensional structures of data. In order to illustrate the effectiveness and the efficiency of our proposal, we analyze a real-life case study about breast cancer data and conduct performance experimentation of the mining process

On the Stability of Region Count in the Parameter Space of Image Analysis Methods

In this dissertation a novel bottom-up computer vision approach is proposed. This approach is based upon quantifying the stability of the number of regions or count in a multi-dimensional parameter scale-space. The stability analysis comes from the properties of flat areas in the region count space generated through bottom-up algorithms of thresholding and region growing, hysteresis thresholding, variance-based region growing. The parameters used can be threshold, region growth, intensity statistics and other low-level parameters. The advantages and disadvantages of top-down, bottom-up and hybrid computational models are discussed. The approaches of scale-space, perceptual organization and clustering methods in computer vision are also analyzed, and the difference between our approach and these approaches is clarified. An overview of our stable count idea and implementation of three algorithms derived from this idea are presented. The algorithms are applied to real-world images as well as simulated signals. We have developed three experiments based upon our framework of stable region count. The experiments are using flower detector, peak detector and retinal image lesion detector respectively to process images and signals. The results from these experiments all suggest that our computer vision framework can solve different image and signal problems and provide satisfactory solutions. In the end future research directions and improvements are proposed

Structure analysis and lesion detection from retinal fundus images

This thesis was submitted for the degree of Doctor of Philosophy and awarded by Brunel University.Ocular pathology is one of the main health problems worldwide. The number of people with retinopathy symptoms has increased considerably in recent years. Early adequate treatment has demonstrated to be effective to avoid the loss of the vision. The analysis of fundus images is a non intrusive option for periodical retinal screening. Different models designed for the analysis of retinal images are based on supervised methods, which require of hand labelled images and processing time as part of the training stage. On the other hand most of the methods have been designed under the basis of specific characteristics of the retinal images (e.g. field of view, resolution). This compromises its performance to a reduce group of retinal image with similar features. For these reasons an unsupervised model for the analysis of retinal image is required, a model that can work without human supervision or interaction. And that is able to perform on retinal images with different characteristics. In this research, we have worked on the development of this type of model. The system locates the eye structures (e.g. optic disc and blood vessels) as first step. Later, these structures are masked out from the retinal image in order to create a clear field to perform the lesion detection. We have selected the Graph Cut technique as a base to design the retinal structures segmentation methods. This selection allows incorporating prior knowledge to constraint the searching for the optimal segmentation. Different link weight assignments were formulated in order to attend the specific needs of the retinal structures (e.g. shape). This research project has put to work together the fields of image processing and ophthalmology to create a novel system that contribute significantly to the state of the art in medical image analysis. This new knowledge provides a new alternative to address the analysis of medical images and opens a new panorama for researchers exploring this research area.Mexican National Council of Science and Technolog