Matching Items (2)
Filtering by

Clear all filters

152001-Thumbnail Image.png
Description
Despite significant advances in digital pathology and automation sciences, current diagnostic practice for cancer detection primarily relies on a qualitative manual inspection of tissue architecture and cell and nuclear morphology in stained biopsies using low-magnification, two-dimensional (2D) brightfield microscopy. The efficacy of this process is limited by inter-operator variations in

Despite significant advances in digital pathology and automation sciences, current diagnostic practice for cancer detection primarily relies on a qualitative manual inspection of tissue architecture and cell and nuclear morphology in stained biopsies using low-magnification, two-dimensional (2D) brightfield microscopy. The efficacy of this process is limited by inter-operator variations in sample preparation and imaging, and by inter-observer variability in assessment. Over the past few decades, the predictive value quantitative morphology measurements derived from computerized analysis of micrographs has been compromised by the inability of 2D microscopy to capture information in the third dimension, and by the anisotropic spatial resolution inherent to conventional microscopy techniques that generate volumetric images by stacking 2D optical sections to approximate 3D. To gain insight into the analytical 3D nature of cells, this dissertation explores the application of a new technology for single-cell optical computed tomography (optical cell CT) that is a promising 3D tomographic imaging technique which uses visible light absorption to image stained cells individually with sub-micron, isotropic spatial resolution. This dissertation provides a scalable analytical framework to perform fully-automated 3D morphological analysis from transmission-mode optical cell CT images of hematoxylin-stained cells. The developed framework performs rapid and accurate quantification of 3D cell and nuclear morphology, facilitates assessment of morphological heterogeneity, and generates shape- and texture-based biosignatures predictive of the cell state. Custom 3D image segmentation methods were developed to precisely delineate volumes of interest (VOIs) from reconstructed cell images. Comparison with user-defined ground truth assessments yielded an average agreement (DICE coefficient) of 94% for the cell and its nucleus. Seventy nine biologically relevant morphological descriptors (features) were computed from the segmented VOIs, and statistical classification methods were implemented to determine the subset of features that best predicted cell health. The efficacy of our proposed framework was demonstrated on an in vitro model of multistep carcinogenesis in human Barrett's esophagus (BE) and classifier performance using our 3D morphometric analysis was compared against computerized analysis of 2D image slices that reflected conventional cytological observation. Our results enable sensitive and specific nuclear grade classification for early cancer diagnosis and underline the value of the approach as an objective adjunctive tool to better understand morphological changes associated with malignant transformation.
ContributorsNandakumar, Vivek (Author) / Meldrum, Deirdre R (Thesis advisor) / Nelson, Alan C. (Committee member) / Karam, Lina J (Committee member) / Ye, Jieping (Committee member) / Johnson, Roger H (Committee member) / Bussey, Kimberly J (Committee member) / Arizona State University (Publisher)
Created2013
157065-Thumbnail Image.png
Description
The detection and segmentation of objects appearing in a natural scene, often referred to as Object Detection, has gained a lot of interest in the computer vision field. Although most existing object detectors aim to detect all the objects in a given scene, it is important to evaluate whether these

The detection and segmentation of objects appearing in a natural scene, often referred to as Object Detection, has gained a lot of interest in the computer vision field. Although most existing object detectors aim to detect all the objects in a given scene, it is important to evaluate whether these methods are capable of detecting the salient objects in the scene when constraining the number of proposals that can be generated due to constraints on timing or computations during execution. Salient objects are objects that tend to be more fixated by human subjects. The detection of salient objects is important in applications such as image collection browsing, image display on small devices, and perceptual compression.

This thesis proposes a novel evaluation framework that analyses the performance of popular existing object proposal generators in detecting the most salient objects. This work also shows that, by incorporating saliency constraints, the number of generated object proposals and thus the computational cost can be decreased significantly for a target true positive detection rate (TPR).

As part of the proposed framework, salient ground-truth masks are generated from the given original ground-truth masks for a given dataset. Given an object detection dataset, this work constructs salient object location ground-truth data, referred to here as salient ground-truth data for short, that only denotes the locations of salient objects. This is obtained by first computing a saliency map for the input image and then using it to assign a saliency score to each object in the image. Objects whose saliency scores are sufficiently high are referred to as salient objects. The detection rates are analyzed for existing object proposal generators with respect to the original ground-truth masks and the generated salient ground-truth masks.

As part of this work, a salient object detection database with salient ground-truth masks was constructed from the PASCAL VOC 2007 dataset. Not only does this dataset aid in analyzing the performance of existing object detectors for salient object detection, but it also helps in the development of new object detection methods and evaluating their performance in terms of successful detection of salient objects.
ContributorsKotamraju, Sai Prajwal (Author) / Karam, Lina J (Thesis advisor) / Yu, Hongbin (Committee member) / Jayasuriya, Suren (Committee member) / Arizona State University (Publisher)
Created2019