ASU Electronic Theses and Dissertations
This collection includes most of the ASU Theses and Dissertations from 2011 to present. ASU Theses and Dissertations are available in downloadable PDF format; however, a small percentage of items are under embargo. Information about the dissertations/theses includes degree information, committee members, an abstract, supporting data or media.
In addition to the electronic theses found in the ASU Digital Repository, ASU Theses and Dissertations can be found in the ASU Library Catalog.
Dissertations and Theses granted by Arizona State University are archived and made available through a joint effort of the ASU Graduate College and the ASU Libraries. For more information or questions about this collection contact or visit the Digital Repository ETD Library Guide or contact the ASU Graduate College at gradformat@asu.edu.
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- All Subjects: deep learning
Description
The healthcare system in this country is currently unacceptable. New technologies may contribute to reducing cost and improving outcomes. Early diagnosis and treatment represents the least risky option for addressing this issue. Such a technology needs to be inexpensive, highly sensitive, highly specific, and amenable to adoption in a clinic. This thesis explores an immunodiagnostic technology based on highly scalable, non-natural sequence peptide microarrays designed to profile the humoral immune response and address the healthcare problem. The primary aim of this thesis is to explore the ability of these arrays to map continuous (linear) epitopes. I discovered that using a technique termed subsequence analysis where epitopes could be decisively mapped to an eliciting protein with high success rate. This led to the discovery of novel linear epitopes from Plasmodium falciparum (Malaria) and Treponema palladium (Syphilis), as well as validation of previously discovered epitopes in Dengue and monoclonal antibodies. Next, I developed and tested a classification scheme based on Support Vector Machines for development of a Dengue Fever diagnostic, achieving higher sensitivity and specificity than current FDA approved techniques. The software underlying this method is available for download under the BSD license. Following this, I developed a kinetic model for immunosignatures and tested it against existing data driven by previously unexplained phenomena. This model provides a framework and informs ways to optimize the platform for maximum stability and efficiency. I also explored the role of sequence composition in explaining an immunosignature binding profile, determining a strong role for charged residues that seems to have some predictive ability for disease. Finally, I developed a database, software and indexing strategy based on Apache Lucene for searching motif patterns (regular expressions) in large biological databases. These projects as a whole have advanced knowledge of how to approach high throughput immunodiagnostics and provide an example of how technology can be fused with biology in order to affect scientific and health outcomes.
ContributorsRicher, Joshua Amos (Author) / Johnston, Stephen A. (Thesis advisor) / Woodbury, Neal (Committee member) / Stafford, Phillip (Committee member) / Papandreou-Suppappola, Antonia (Committee member) / Arizona State University (Publisher)
Created2014
Description
Deep learning architectures have been widely explored in computer vision and have
depicted commendable performance in a variety of applications. A fundamental challenge
in training deep networks is the requirement of large amounts of labeled training
data. While gathering large quantities of unlabeled data is cheap and easy, annotating
the data is an expensive process in terms of time, labor and human expertise.
Thus, developing algorithms that minimize the human effort in training deep models
is of immense practical importance. Active learning algorithms automatically identify
salient and exemplar samples from large amounts of unlabeled data and can augment
maximal information to supervised learning models, thereby reducing the human annotation
effort in training machine learning models. The goal of this dissertation is to
fuse ideas from deep learning and active learning and design novel deep active learning
algorithms. The proposed learning methodologies explore diverse label spaces to
solve different computer vision applications. Three major contributions have emerged
from this work; (i) a deep active framework for multi-class image classication, (ii)
a deep active model with and without label correlation for multi-label image classi-
cation and (iii) a deep active paradigm for regression. Extensive empirical studies
on a variety of multi-class, multi-label and regression vision datasets corroborate the
potential of the proposed methods for real-world applications. Additional contributions
include: (i) a multimodal emotion database consisting of recordings of facial
expressions, body gestures, vocal expressions and physiological signals of actors enacting
various emotions, (ii) four multimodal deep belief network models and (iii)
an in-depth analysis of the effect of transfer of multimodal emotion features between
source and target networks on classification accuracy and training time. These related
contributions help comprehend the challenges involved in training deep learning
models and motivate the main goal of this dissertation.
depicted commendable performance in a variety of applications. A fundamental challenge
in training deep networks is the requirement of large amounts of labeled training
data. While gathering large quantities of unlabeled data is cheap and easy, annotating
the data is an expensive process in terms of time, labor and human expertise.
Thus, developing algorithms that minimize the human effort in training deep models
is of immense practical importance. Active learning algorithms automatically identify
salient and exemplar samples from large amounts of unlabeled data and can augment
maximal information to supervised learning models, thereby reducing the human annotation
effort in training machine learning models. The goal of this dissertation is to
fuse ideas from deep learning and active learning and design novel deep active learning
algorithms. The proposed learning methodologies explore diverse label spaces to
solve different computer vision applications. Three major contributions have emerged
from this work; (i) a deep active framework for multi-class image classication, (ii)
a deep active model with and without label correlation for multi-label image classi-
cation and (iii) a deep active paradigm for regression. Extensive empirical studies
on a variety of multi-class, multi-label and regression vision datasets corroborate the
potential of the proposed methods for real-world applications. Additional contributions
include: (i) a multimodal emotion database consisting of recordings of facial
expressions, body gestures, vocal expressions and physiological signals of actors enacting
various emotions, (ii) four multimodal deep belief network models and (iii)
an in-depth analysis of the effect of transfer of multimodal emotion features between
source and target networks on classification accuracy and training time. These related
contributions help comprehend the challenges involved in training deep learning
models and motivate the main goal of this dissertation.
ContributorsRanganathan, Hiranmayi (Author) / Sethuraman, Panchanathan (Thesis advisor) / Papandreou-Suppappola, Antonia (Committee member) / Li, Baoxin (Committee member) / Chakraborty, Shayok (Committee member) / Arizona State University (Publisher)
Created2018
Description
In this thesis, the applications of deep learning in the analysis, detection and classification of medical imaging datasets were studied, with a focus on datasets having a limited sample size. A combined machine learning-deep learning model was designed to classify one small dataset, prostate cancer provided by Mayo Clinic, Arizona. Deep learning model was implemented to extract imaging features followed by machine learning classifier for prostate cancer diagnosis. The results were compared against models trained on texture-based features, namely gray level co-occurrence matrix (GLCM) and Gabor. Some of the challenges of performing diagnosis on medical imaging datasets with limited sample sizes, have been identified. Lastly, a set of future works have been proposed. Keywords: Deep learning, radiology, transfer learning, convolutional neural network.
ContributorsSarkar, Suryadipto (Author) / Wu, Teresa (Thesis advisor) / Papandreou-Suppappola, Antonia (Committee member) / Silva, Alvin (Committee member) / Arizona State University (Publisher)
Created2021