Cortical spatio-temporal dimensionality reduction for visual grouping

The visual systems of many mammals, including humans, is able to integrate the geometric information of visual stimuli and to perform cognitive tasks already at the first stages of the cortical processing. This is thought to be the result of a combination of mechanisms, which include feature extraction at single cell level and geometric processing by means of cells connectivity. We present a geometric model of such connectivities in the space of detected features associated to spatio-temporal visual stimuli, and show how they can be used to obtain low-level object segmentation. The main idea is that of defining a spectral clustering procedure with anisotropic affinities over datasets consisting of embeddings of the visual stimuli into higher dimensional spaces. Neural plausibility of the proposed arguments will be discussed

Texture Analysis Platform for Imaging Biomarker Research

abstract: The rate of progress in improving survival of patients with solid tumors is slow due to late stage diagnosis and poor tumor characterization processes that fail to effectively reflect the nature of tumor before treatment or the subsequent change in its dynamics because of treatment. Further advancement of targeted therapies relies on advancements in biomarker research. In the context of solid tumors, bio-specimen samples such as biopsies serve as the main source of biomarkers used in the treatment and monitoring of cancer, even though biopsy samples are susceptible to sampling error and more importantly, are local and offer a narrow temporal scope. Because of its established role in cancer care and its non-invasive nature imaging offers the potential to complement the findings of cancer biology. Over the past decade, a compelling body of literature has emerged suggesting a more pivotal role for imaging in the diagnosis, prognosis, and monitoring of diseases. These advances have facilitated the rise of an emerging practice known as Radiomics: the extraction and analysis of large numbers of quantitative features from medical images to improve disease characterization and prediction of outcome. It has been suggested that radiomics can contribute to biomarker discovery by detecting imaging traits that are complementary or interchangeable with other markers. This thesis seeks further advancement of imaging biomarker discovery. This research unfolds over two aims: I) developing a comprehensive methodological pipeline for converting diagnostic imaging data into mineable sources of information, and II) investigating the utility of imaging data in clinical diagnostic applications. Four validation studies were conducted using the radiomics pipeline developed in aim I. These studies had the following goals: (1 distinguishing between benign and malignant head and neck lesions (2) differentiating benign and malignant breast cancers, (3) predicting the status of Human Papillomavirus in head and neck cancers, and (4) predicting neuropsychological performances as they relate to Alzheimer’s disease progression. The long-term objective of this thesis is to improve patient outcome and survival by facilitating incorporation of routine care imaging data into decision making processes.Dissertation/ThesisDoctoral Dissertation Biomedical Informatics 201

Enhancing Mesh Deformation Realism: Dynamic Mesostructure Detailing and Procedural Microstructure Synthesis

Propomos uma solução para gerar dados de mapas de relevo dinâmicos para simular deformações em superfícies macias, com foco na pele humana. A solução incorpora a simulação de rugas ao nível mesoestrutural e utiliza texturas procedurais para adicionar detalhes de microestrutura estáticos. Oferece flexibilidade além da pele humana, permitindo a geração de padrões que imitam deformações em outros materiais macios, como couro, durante a animação. As soluções existentes para simular rugas e pistas de deformação frequentemente dependem de hardware especializado, que é dispendioso e de difícil acesso. Além disso, depender exclusivamente de dados capturados limita a direção artística e dificulta a adaptação a mudanças. Em contraste, a solução proposta permite a síntese dinâmica de texturas que se adaptam às deformações subjacentes da malha de forma fisicamente plausível. Vários métodos foram explorados para sintetizar rugas diretamente na geometria, mas sofrem de limitações como auto-interseções e maiores requisitos de armazenamento. A intervenção manual de artistas na criação de mapas de rugas e mapas de tensão permite controle, mas pode ser limitada em deformações complexas ou onde maior realismo seja necessário. O nosso trabalho destaca o potencial dos métodos procedimentais para aprimorar a geração de padrões de deformação dinâmica, incluindo rugas, com maior controle criativo e sem depender de dados capturados. A incorporação de padrões procedimentais estáticos melhora o realismo, e a abordagem pode ser estendida além da pele para outros materiais macios.We propose a solution for generating dynamic heightmap data to simulate deformations for soft surfaces, with a focus on human skin. The solution incorporates mesostructure-level wrinkles and utilizes procedural textures to add static microstructure details. It offers flexibility beyond human skin, enabling the generation of patterns mimicking deformations in other soft materials, such as leater, during animation. Existing solutions for simulating wrinkles and deformation cues often rely on specialized hardware, which is costly and not easily accessible. Moreover, relying solely on captured data limits artistic direction and hinders adaptability to changes. In contrast, our proposed solution provides dynamic texture synthesis that adapts to underlying mesh deformations. Various methods have been explored to synthesize wrinkles directly to the geometry, but they suffer from limitations such as self-intersections and increased storage requirements. Manual intervention by artists using wrinkle maps and tension maps provides control but may be limited to the physics-based simulations. Our research presents the potential of procedural methods to enhance the generation of dynamic deformation patterns, including wrinkles, with greater creative control and without reliance on captured data. Incorporating static procedural patterns improves realism, and the approach can be extended to other soft-materials beyond skin

Colour, texture, and motion in level set based segmentation and tracking

This paper introduces an approach for the extraction and combination of different cues in a level set based image segmentation framework. Apart from the image grey value or colour, we suggest to add its spatial and temporal variations, which may provide important further characteristics. It often turns out that the combination of colour, texture, and motion permits to distinguish object regions that cannot be separated by one cue alone. We propose a two-step approach. In the first stage, the input features are extracted and enhanced by applying coupled nonlinear diffusion. This ensures coherence between the channels and deals with outliers. We use a nonlinear diffusion technique, closely related to total variation flow, but being strictly edge enhancing. The resulting features are then employed for a vector-valued front propagation based on level sets and statistical region models that approximate the distributions of each feature. The application of this approach to two-phase segmentation is followed by an extension to the tracking of multiple objects in image sequences

A Self-Organizing Neural System for Learning to Recognize Textured Scenes

A self-organizing ARTEX model is developed to categorize and classify textured image regions. ARTEX specializes the FACADE model of how the visual cortex sees, and the ART model of how temporal and prefrontal cortices interact with the hippocampal system to learn visual recognition categories and their names. FACADE processing generates a vector of boundary and surface properties, notably texture and brightness properties, by utilizing multi-scale filtering, competition, and diffusive filling-in. Its context-sensitive local measures of textured scenes can be used to recognize scenic properties that gradually change across space, as well a.s abrupt texture boundaries. ART incrementally learns recognition categories that classify FACADE output vectors, class names of these categories, and their probabilities. Top-down expectations within ART encode learned prototypes that pay attention to expected visual features. When novel visual information creates a poor match with the best existing category prototype, a memory search selects a new category with which classify the novel data. ARTEX is compared with psychophysical data, and is benchmarked on classification of natural textures and synthetic aperture radar images. It outperforms state-of-the-art systems that use rule-based, backpropagation, and K-nearest neighbor classifiers.Defense Advanced Research Projects Agency; Office of Naval Research (N00014-95-1-0409, N00014-95-1-0657

Variational methods for texture segmentation

In the last decades, image production has grown significantly. From digital photographs to the medical scans, including satellite images and video films, more and more data need to be processed. Consequently the number of applications based on digital images has increased, either for medicine, research for country planning or for entertainment business such as animation or video games. All these areas, although very different one to another, need the same image processing techniques. Among all these techniques, segmentation is probably one of the most studied because of its important role. Segmentation is the process of extracting meaningful objects from an image. This task, although easily achieved by the human visual system, is actually complex and still a true challenge for the image processing community despite several decades of research. The thesis work presented in this manuscript proposes solutions to the image segmentation problem in a well established mathematical framework, i.e. variational models. The image is defined in a continuous space and the segmentation problem is expressed through a functional or energy optimization. Depending on the object to be segmented, this energy definition can be difficult; in particular for objects with ambiguous borders or objects with textures. For the latter, the difficulty lies already in the definition of the term texture. The human eye can easily recognize a texture, but it is quite difficult to find words to define it, even more in mathematical terms. There is a deliberate vagueness in the definition of texture which explains the difficulty to conceptualize a model able to describe it. Often these textures can neither be described by homogeneous regions nor by sharp contours. This is why we are first interested in the extraction of texture features, that is to say, finding one representation that can discriminate a textured region from another. The first contribution of this thesis is the construction of a texture descriptor from the representation of the image similar to a surface in a volume. This descriptor belongs to the framework of non-supervised segmentation, since it will not require any user interaction. The second contribution is a solution for the segmentation problem based on active contour models and information theory tools. Third contribution is a semi-supervised segmentation model, i.e. where constraints provided by the user will be integrated in the segmentation framework. This processus is actually derived from the graph of image patches. This graph gives the connectivity measure between the different points of the image. The segmentation will be expressed by a graph partition and a variational model. This manuscript proposes to tackle the segmentation problem for textured images