Skeletonization of Gray-Tone Images Based on Region Analysis

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Classification of Humans into Ayurvedic Prakruti Types using Computer Vision

Ayurveda, a 5000 years old Indian medical science, believes that the universe and hence humans are made up of five elements namely ether, fire, water, earth, and air. The three Doshas (Tridosha) Vata, Pitta, and Kapha originated from the combinations of these elements. Every person has a unique combination of Tridosha elements contributing to a person’s ‘Prakruti’. Prakruti governs the physiological and psychological tendencies in all living beings as well as the way they interact with the environment. This balance influences their physiological features like the texture and colour of skin, hair, eyes, length of fingers, the shape of the palm, body frame, strength of digestion and many more as well as the psychological features like their nature (introverted, extroverted, calm, excitable, intense, laidback), and their reaction to stress and diseases. All these features are coded in the constituents at the time of a person’s creation and do not change throughout their lifetime. Ayurvedic doctors analyze the Prakruti of a person either by assessing the physical features manually and/or by examining the nature of their heartbeat (pulse). Based on this analysis, they diagnose, prevent and cure the disease in patients by prescribing precision medicine. This project focuses on identifying Prakruti of a person by analysing his facial features like hair, eyes, nose, lips and skin colour using facial recognition techniques in computer vision. This is the first of its kind research in this problem area that attempts to bring image processing into the domain of Ayurveda

A framework for intracranial saccular aneurysm detection and quantification using morphological analysis of cerebral angiograms

Reliable early prediction of aneurysm rupture can greatly help neurosurgeons to treat aneurysms at the right time, thus saving lives as well as providing significant cost reduction. Most of the research efforts in this respect involve statistical analysis of collected data or simulation of hemodynamic factors to predict the risk of aneurysmal rupture. Whereas, morphological analysis of cerebral angiogram images for locating and estimating unruptured aneurysms is rarely considered. Since digital subtraction angiography (DSA) is regarded as a standard test by the American Stroke Association and American College of Radiology for identification of aneurysm, this paper aims to perform morphological analysis of DSA to accurately detect saccular aneurysms, precisely determine their sizes, and estimate the probability of their ruptures. The proposed diagnostic framework, intracranial saccular aneurysm detection and quantification, first extracts cerebrovascular structures by denoising angiogram images and delineates regions of interest (ROIs) by using watershed segmentation and distance transformation. Then, it identifies saccular aneurysms among segmented ROIs using multilayer perceptron neural network trained upon robust Haralick texture features, and finally quantifies aneurysm rupture by geometrical analysis of identified aneurysmic ROI. De-identified data set of 59 angiograms is used to evaluate the performance of algorithms for aneurysm detection and risk of rupture quantification. The proposed framework achieves high accuracy of 98% and 86% for aneurysm classification and quantification, respectively

Quantifying Morphology and Diffusion Properties of Mesoporous Carbon from High-Fidelity 3D Reconstructions

A reliable quantitative analysis in electron tomography, which depends on the segmentation of the three-dimensional reconstruction, is challenging because of constraints during tilt-series acquisition (missing wedge) and reconstruction artifacts introduced by reconstruction algorithms such as the Simultaneous Iterative Reconstruction Technique (SIRT) and Discrete Algebraic Reconstruction Technique (DART). We have carefully evaluated the fidelity of segmented reconstructions analyzing a disordered mesoporous carbon used as support in catalysis. Using experimental scanning transmission electron microscopy (STEM) tomography data as well as realistic phantoms, we have quantitatively analyzed the effect on the morphological description as well as on diffusion properties (based on a random-walk particle-tracking simulation) to understand the role of porosity in catalysis. The morphological description of the pore structure can be obtained reliably both using SIRT and DART reconstructions even in the presence of a limited missing wedge. However, the measured pore volume is sensitive to the threshold settings, which are difficult to define globally for SIRT reconstructions. This leads to noticeable variations of the diffusion coefficients in the case of SIRT reconstructions, whereas DART reconstructions resulted in more reliable data. In addition, the anisotropy of the determined diffusion properties was evaluated, which was significant in the presence of a limited missing wedge for SIRT and strongly reduced for DART

Document preprocessing and fuzzy unsupervised character classification

This dissertation presents document preprocessing and fuzzy unsupervised character classification for automatically reading daily-received office documents that have complex layout structures, such as multiple columns and mixed-mode contents of texts, graphics and half-tone pictures. First, the block segmentation algorithm is performed based on a simple two-step run-length smoothing to decompose a document into single-mode blocks. Next, the block classification is performed based on the clustering rules to classify each block into one of the types such as text, horizontal or vertical lines, graphics, and pictures. The mean white-to-black transition is shown as an invariance for textual blocks, and is useful for block discrimination. A fuzzy model for unsupervised character classification is designed to improve the robustness, correctness, and speed of the character recognition system. The classification procedures are divided into two stages. The first stage separates the characters into seven typographical categories based on word structures of a text line. The second stage uses pattern matching to classify the characters in each category into a set of fuzzy prototypes based on a nonlinear weighted similarity function. A fuzzy model of unsupervised character classification, which is more natural in the representation of prototypes for character matching, is defined and the weighted fuzzy similarity measure is explored. The characteristics of the fuzzy model are discussed and used in speeding up the classification process. After classification, the character recognition procedure is simply applied on the limited versions of the fuzzy prototypes. To avoid information loss and extra distortion, an topography-based approach is proposed to apply directly on the fuzzy prototypes to extract the skeletons. First, a convolution by a bell-shaped function is performed to obtain a smooth surface. Second, the ridge points are extracted by rule-based topographic analysis of the structure. Third, a membership function is assigned to ridge points with values indicating the degrees of membership with respect to the skeleton of an object. Finally, the significant ridge points are linked to form strokes of skeleton, and the clues of eigenvalue variation are used to deal with degradation and preserve connectivity. Experimental results show that our algorithm can reduce the deformation of junction points and correctly extract the whole skeleton although a character is broken into pieces. For some characters merged together, the breaking candidates can be easily located by searching for the saddle points. A pruning algorithm is then applied on each breaking position. At last, a multiple context confirmation can be applied to increase the reliability of breaking hypotheses

Artificial Light at Night Disrupts Pain Behavior and Cerebrovascular Structure in Mice

Artificial Light at Night Disrupts Pain Behavior and Cerebrovascular Structure in Mice Jacob R. Bumgarner Circadian rhythms are intrinsic biological processes that fluctuate in function with a period of approximately 24 hours. These rhythms are precisely synchronized to the 24- hour day of the Earth by external rhythmic signaling cues. Solar light-dark cycles are the most potent environmental signaling cue for terrestrial organisms to align internal rhythms with the external day. Proper alignment and synchrony of internal circadian rhythms with external environmental rhythms are essential for health and optimal biological function. The modern human environment on Earth is no longer conducive to properly aligned circadian rhythms. Following the industrial revolution, artificial lighting and an ever-growing 24-hour global economy have shifted humans away from natural environments suited for rhythmic behavior and physiology. Humans, and much of the natural environment, are routinely exposed to circadian rhythm disruptors. The most pervasive disruptor of circadian rhythms is artificial light at night (ALAN). A growing 80% of humans on Earth are exposed to ALAN beyond natural nighttime environmental lighting levels. ALAN exposure is associated with numerous negative consequences on behavior and physiology, including neuroinflammation, cardiovascular disease, and altered immune function. This dissertation examines two previously uninvestigated effects of ALAN exposure on physiology and behavior in mice. In Part 1, I investigated the effects of ALAN exposure on pain behavior in mice. I observed that ALAN exposure had detrimental effects on rodent pain behavior in contexts of both health and models of human disease. ALAN exposure heightened responsiveness to noxious cold stimuli and innocuous mechanical touch. Differences in these effects were noted based on sex and disease state. I conclude this section with a report on the mechanisms by which ALAN exposure altered pain behavior. In Part 2, I investigated the effects of ALAN exposure on cerebrovascular structure in mice. To conduct these investigations, I first developed VesselVio, an open-source application for the analysis and visualization of vasculature datasets. Using this application and additional analytical frameworks, I examined the effects of short-term ALAN exposure on hippocampal vasculature in mice. ALAN exposure reduced hippocampal vascular density in mice, with notable regional sex differences. I also observed that ALAN exposure altered hippocampal vascular network connectivity and structure, with persistent regional sex differences. The data in this dissertation contribute to the ever-growing field of circadian rhythm biology focused on studying circadian rhythm disruption. These data highlight the continuing need to mitigate the pervasiveness of ALAN in human and natural environments. Most importantly, the results presented in this dissertation emphasize the need to consider ALAN as a mitigating factor for the treatment of both cardiovascular disease and pain

Diffusion Tensor Imaging Detects Early Cerebral Cortex Abnormalities in Neuronal Architecture Induced by Bilateral Neonatal Enucleation: An Experimental Model in the Ferret

Diffusion tensor imaging (DTI) is a technique that non-invasively provides quantitative measures of water translational diffusion, including fractional anisotropy (FA), that are sensitive to the shape and orientation of cellular elements, such as axons, dendrites and cell somas. For several neurodevelopmental disorders, histopathological investigations have identified abnormalities in the architecture of pyramidal neurons at early stages of cerebral cortex development. To assess the potential capability of DTI to detect neuromorphological abnormalities within the developing cerebral cortex, we compare changes in cortical FA with changes in neuronal architecture and connectivity induced by bilateral enucleation at postnatal day 7 (BEP7) in ferrets. We show here that the visual callosal pattern in BEP7 ferrets is more irregular and occupies a significantly greater cortical area compared to controls at adulthood. To determine whether development of the cerebral cortex is altered in BEP7 ferrets in a manner detectable by DTI, cortical FA was compared in control and BEP7 animals on postnatal day 31. Visual cortex, but not rostrally adjacent non-visual cortex, exhibits higher FA than control animals, consistent with BEP7 animals possessing axonal and dendritic arbors of reduced complexity than age-matched controls. Subsequent to DTI, Golgi-staining and analysis methods were used to identify regions, restricted to visual areas, in which the orientation distribution of neuronal processes is significantly more concentrated than in control ferrets. Together, these findings suggest that DTI can be of utility for detecting abnormalities associated with neurodevelopmental disorders at early stages of cerebral cortical development, and that the neonatally enucleated ferret is a useful animal model system for systematically assessing the potential of this new diagnostic strategy

Cosmos for Cut Flower Production in Utah

Cosmos are one of the easiest and most productive cut flowers to grow. As a warm-season annual, blooms are prolific and continued, making cosmos a staple, cut-and-come-again flower. The plants tolerate low water conditions, poor soil, and low maintenance, and perform better in fields than high tunnels. Available in shades ranging from whites and blushes to cranberry and orange, cosmos provide popular colors and airy textures for floral design work, particularly in late summer weddings and events

Differential Joint-Specific Corticospinal Tract Projections within the Cervical Enlargement

The motor cortex represents muscle and joint control and projects to spinal cord interneurons and–in many primates, including humans–motoneurons, via the corticospinal tract (CST). To examine these spinal CST anatomical mechanisms, we determined if motor cortex sites controlling individual forelimb joints project differentially to distinct cervical spinal cord territories, defined regionally and by the locations of putative last-order interneurons that were transneuronally labeled by intramuscular injection of pseudorabies virus. Motor cortex joint-specific sites were identified using intracortical-microstimulation. CST segmental termination fields from joint-specific sites, determined using anterograde tracers, comprised a high density core of terminations that was consistent between animals and a surrounding lower density projection that was more variable. Core terminations from shoulder, elbow, and wrist control sites overlapped in the medial dorsal horn and intermediate zone at C5/C6 but were separated at C7/C8. Shoulder sites preferentially terminated dorsally, in the dorsal horn; wrist/digit sites, more ventrally in the intermediate zone; and elbow sites, medially in the dorsal horn and intermediate zone. Pseudorabies virus injected in shoulder, elbow, or wrist muscles labeled overlapping populations of predominantly muscle-specific putative premotor interneurons, at a survival time for disynaptic transfer from muscle. At C5/C6, CST core projections from all joint zones were located medial to regions of densely labeled last-order interneurons, irrespective of injected muscle. At C7/C8 wrist CST core projections overlapped the densest interneuron territory, which was located in the lateral intermediate zone. In contrast, elbow CST core projections were located medial to the densest interneuron territories, and shoulder CST core projections were located dorsally and only partially overlapped the densest interneuron territory. Our findings show a surprising fractionation of CST terminations in the caudal cervical enlargement that may be organized to engage different spinal premotor circuits for distal and proximal joint control

Vision Based Extraction of Nutrition Information from Skewed Nutrition Labels

An important component of a healthy diet is the comprehension and retention of nutritional information and understanding of how different food items and nutritional constituents affect our bodies. In the U.S. and many other countries, nutritional information is primarily conveyed to consumers through nutrition labels (NLs) which can be found in all packaged food products. However, sometimes it becomes really challenging to utilize all this information available in these NLs even for consumers who are health conscious as they might not be familiar with nutritional terms or find it difficult to integrate nutritional data collection into their daily activities due to lack of time, motivation, or training. So it is essential to automate this data collection and interpretation process by integrating Computer Vision based algorithms to extract nutritional information from NLs because it improves the user’s ability to engage in continuous nutritional data collection and analysis. To make nutritional data collection more manageable and enjoyable for the users, we present a Proactive NUTrition Management System (PNUTS). PNUTS seeks to shift current research and clinical practices in nutrition management toward persuasion, automated nutritional information processing, and context-sensitive nutrition decision support. PNUTS consists of two modules, firstly a barcode scanning module which runs on smart phones and is capable of vision-based localization of One Dimensional (1D) Universal Product Code (UPC) and International Article Number (EAN) barcodes with relaxed pitch, roll, and yaw camera alignment constraints. The algorithm localizes barcodes in images by computing Dominant Orientations of Gradients (DOGs) of image segments and grouping smaller segments with similar DOGs into larger connected components. Connected components that pass given morphological criteria are marked as potential barcodes. The algorithm is implemented in a distributed, cloud-based system. The system’s front end is a smartphone application that runs on Android smartphones with Android 4.2 or higher. The system’s back end is deployed on a five node Linux cluster where images are processed. The algorithm was evaluated on a corpus of 7,545 images extracted from 506 videos of bags, bottles, boxes, and cans in a supermarket. The DOG algorithm was coupled to our in-place scanner for 1D UPC and EAN barcodes. The scanner receives from the DOG algorithm the rectangular planar dimensions of a connected component and the component’s dominant gradient orientation angle referred to as the skew angle. The scanner draws several scan lines at that skew angle within the component to recognize the barcode in place without any rotations. The scanner coupled to the localizer was tested on the same corpus of 7,545 images. Laboratory experiments indicate that the system can localize and scan barcodes of any orientation in the yaw plane, of up to 73.28 degrees in the pitch plane, and of up to 55.5 degrees in the roll plane. The videos have been made public for all interested research communities to replicate our findings or to use them in their own research. The front end Android application is available for free download at Google Play under the title of NutriGlass. This module is also coupled to a comprehensive NL database from which nutritional information can be retrieved on demand. Currently our NL database consists of more than 230,000 products. The second module of PNUTS is an algorithm whose objective is to determine the text skew angle of an NL image without constraining the angle’s magnitude. The horizontal, vertical, and diagonal matrices of the (Two Dimensional) 2D Haar Wavelet Transform are used to identify 2D points with significant intensity changes. The set of points is bounded with a minimum area rectangle whose rotation angle is the text’s skew. The algorithm’s performance is compared with the performance of five text skew detection algorithms on 1001 U.S. nutrition label images and 2200 single- and multi-column document images in multiple languages. To ensure the reproducibility of the reported results, the source code of the algorithm and the image data have been made publicly available. If the skew angle is estimated correctly, optical character recognition (OCR) techniques can be used to extract nutrition information