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- Genre: Masters Thesis
- Creators: Li, Baoxin
- Member of: ASU Electronic Theses and Dissertations
Description
Background. Despite extensive research in the literature aimed at understanding the role of hypertension as a major risk factor for numerous leading causes of death in the United
States, rates of this disease continue to rise. Recent findings suggest that antiseptic mouthwash use may increase blood pressure through elimination of oral bacteria that facilitate the enterosalivary nitrate-nitrite-nitric oxide pathway.
Objective. The purpose of this randomized, controlled, crossover trial was to examine the effects of antiseptic mouthwash use and sodium intake on blood pressure and salivary nitrate levels in prehypertensive adults.
Methods. Healthy adults (n=10; 47.3±12.5) with mildly elevated blood pressure (average baseline blood pressure of 114.9/75.2 mmHg) were recruited and were randomly assigned to a control condition, antiseptic mouthwash use, or antiseptic mouthwash use + consumption of three pickles per day (~6000 mg/day of sodium) for a total of 7 days. Given the crossover design of this study, participants adhered to a 1-week washout period between each condition and all participants received all three treatments. Findings were considered significant at a p-value of <0.05 and a repeated measures ANOVA test was used to compare change data of each condition.
Results. Changes in systolic and diastolic blood pressure were not statistically significant (p=0.469 and p=0.859, respectively). Changes in salivary nitrite levels were not statistically significant (p=0.493). Although there appeared to be fluctuations in sodium intake between interventions, differences in sodium intake were not statistically significant when pickles were not accounted for (p=0.057).
Conclusion. Antiseptic mouthwash use did not appear to induce significant changes in systolic or diastolic blood pressure in this population.
States, rates of this disease continue to rise. Recent findings suggest that antiseptic mouthwash use may increase blood pressure through elimination of oral bacteria that facilitate the enterosalivary nitrate-nitrite-nitric oxide pathway.
Objective. The purpose of this randomized, controlled, crossover trial was to examine the effects of antiseptic mouthwash use and sodium intake on blood pressure and salivary nitrate levels in prehypertensive adults.
Methods. Healthy adults (n=10; 47.3±12.5) with mildly elevated blood pressure (average baseline blood pressure of 114.9/75.2 mmHg) were recruited and were randomly assigned to a control condition, antiseptic mouthwash use, or antiseptic mouthwash use + consumption of three pickles per day (~6000 mg/day of sodium) for a total of 7 days. Given the crossover design of this study, participants adhered to a 1-week washout period between each condition and all participants received all three treatments. Findings were considered significant at a p-value of <0.05 and a repeated measures ANOVA test was used to compare change data of each condition.
Results. Changes in systolic and diastolic blood pressure were not statistically significant (p=0.469 and p=0.859, respectively). Changes in salivary nitrite levels were not statistically significant (p=0.493). Although there appeared to be fluctuations in sodium intake between interventions, differences in sodium intake were not statistically significant when pickles were not accounted for (p=0.057).
Conclusion. Antiseptic mouthwash use did not appear to induce significant changes in systolic or diastolic blood pressure in this population.
ContributorsShaw, Karrol (Author) / Johnston, Carol (Thesis advisor) / Alexon, Christy (Committee member) / Sweazea, Karen (Committee member) / Arizona State University (Publisher)
Created2019
Description
Insufficient training data poses significant challenges to training a deep convolutional neural network (CNN) to solve a target task. One common solution to this problem is to use transfer learning with pre-trained networks to apply knowledge learned from one domain with sufficient data to a new domain with limited data and avoid training a deep network from scratch. However, for such methods to work in a transfer learning setting, learned features from the source domain need to be generalizable to the target domain, which is not guaranteed since the feature space and distributions of the source and target data may be different. This thesis aims to explore and understand the use of orthogonal convolutional neural networks to improve learning of diverse, generic features that are transferable to a novel task.
In this thesis, orthogonal regularization is used to pre-train deep CNNs to investigate if and how orthogonal convolution may improve feature extraction in transfer learning. Experiments using two limited medical image datasets in this thesis suggests that orthogonal regularization improves generality and reduces redundancy of learned features more effectively in certain deep networks for transfer learning. The results on feature selection and classification demonstrate the improvement in transferred features helps select more expressive features that improves generalization performance. To understand the effectiveness of orthogonal regularization on different architectures, this work studies the effects of residual learning on orthogonal convolution. Specifically, this work examines the presence of residual connections and its effects on feature similarities and show residual learning blocks help orthogonal convolution better preserve feature diversity across convolutional layers of a network and alleviate the increase in feature similarities caused by depth, demonstrating the importance of residual learning in making orthogonal convolution more effective.
ContributorsChan, Tsz (Author) / Li, Baoxin (Thesis advisor) / Liang, Jianming (Committee member) / Yang, Yezhou (Committee member) / Arizona State University (Publisher)
Created2023
Description
Increased LV wall thickness is frequently encountered in transthoracicechocardiography (TTE). While accurate and early diagnosis is clinically important,
given the differences in available therapeutic options and prognosis, an extensive workup
is often required for establishing the diagnosis. I propose the first echo-based, automated
deep learning model with a fusion architecture to facilitate the evaluation and diagnosis
of increased left ventricular (LV) wall thickness. Patients with an established diagnosis
for increased LV wall thickness (hypertrophic cardiomyopathy (HCM), cardiac
amyloidosis (CA), and hypertensive heart disease (HTN)/others) between 1/2015 to
11/2019 at Mayo Clinic Arizona were identified. The cohort was divided into
80%/10%/10% for training, validation, and testing sets, respectively. Six baseline TTE
views were used to optimize a pre-trained InceptionResnetV2 model, each model output
was used to train a meta-learner under a fusion architecture. Model performance was
assessed by multiclass area under the receiver operating characteristic curve (AUROC).
A total of 586 patients were used for the final analysis (194 HCM, 201 CA, and 191
HTN/others). The mean age was 55.0 years, and 57.8% were male. Among the individual
view-dependent models, the apical 4 chamber model had the best performance (AUROC:
HCM: 0.94, CA: 0.73, and HTN/other: 0.87). The final fusion model outperformed all the
view-dependent models (AUROC: CA: 0.90, HCM: 0.93, and HTN/other: 0.92). I
successfully established an automatic end-to-end deep learning model framework that
accurately differentiates the major etiologies of increased LV wall thickness, including
HCM and CA from the background of HTN/other diagnoses.
ContributorsLi, James Shuyue (Author) / Patel, Bhavik (Thesis advisor) / Li, Baoxin (Thesis advisor) / Banerjee, Imon (Committee member) / Arizona State University (Publisher)
Created2022
Description
Drosophila melanogaster, as an important model organism, is used to explore the mechanism which governs cell differentiation and embryonic development. Understanding the mechanism will help to reveal the effects of genes on other species or even human beings. Currently, digital camera techniques make high quality Drosophila gene expression imaging possible. On the other hand, due to the advances in biology, gene expression images which can reveal spatiotemporal patterns are generated in a high-throughput pace. Thus, an automated and efficient system that can analyze gene expression will become a necessary tool for investigating the gene functions, interactions and developmental processes. One investigation method is to compare the expression patterns of different developmental stages. Recently, however, the expression patterns are manually annotated with rough stage ranges. The work of annotation requires professional knowledge from experienced biologists. Hence, how to transfer the domain knowledge in biology into an automated system which can automatically annotate the patterns provides a challenging problem for computer scientists. In this thesis, the problem of stage annotation for Drosophila embryo is modeled in the machine learning framework. Three sparse learning algorithms and one ensemble algorithm are used to attack the problem. The sparse algorithms are Lasso, group Lasso and sparse group Lasso. The ensemble algorithm is based on a voting method. Besides that the proposed algorithms can annotate the patterns to stages instead of stage ranges with high accuracy; the decimal stage annotation algorithm presents a novel way to annotate the patterns to decimal stages. In addition, some analysis on the algorithm performance are made and corresponding explanations are given. Finally, with the proposed system, all the lateral view BDGP and FlyFish images are annotated and several interesting applications of decimal stage value are revealed.
ContributorsPan, Cheng (Author) / Ye, Jieping (Thesis advisor) / Li, Baoxin (Committee member) / Farin, Gerald (Committee member) / Arizona State University (Publisher)
Created2012
Description
Understanding the complexity of temporal and spatial characteristics of gene expression over brain development is one of the crucial research topics in neuroscience. An accurate description of the locations and expression status of relative genes requires extensive experiment resources. The Allen Developing Mouse Brain Atlas provides a large number of in situ hybridization (ISH) images of gene expression over seven different mouse brain developmental stages. Studying mouse brain models helps us understand the gene expressions in human brains. This atlas collects about thousands of genes and now they are manually annotated by biologists. Due to the high labor cost of manual annotation, investigating an efficient approach to perform automated gene expression annotation on mouse brain images becomes necessary. In this thesis, a novel efficient approach based on machine learning framework is proposed. Features are extracted from raw brain images, and both binary classification and multi-class classification models are built with some supervised learning methods. To generate features, one of the most adopted methods in current research effort is to apply the bag-of-words (BoW) algorithm. However, both the efficiency and the accuracy of BoW are not outstanding when dealing with large-scale data. Thus, an augmented sparse coding method, which is called Stochastic Coordinate Coding, is adopted to generate high-level features in this thesis. In addition, a new multi-label classification model is proposed in this thesis. Label hierarchy is built based on the given brain ontology structure. Experiments have been conducted on the atlas and the results show that this approach is efficient and classifies the images with a relatively higher accuracy.
ContributorsZhao, Xinlin (Author) / Ye, Jieping (Thesis advisor) / Wang, Yalin (Thesis advisor) / Li, Baoxin (Committee member) / Arizona State University (Publisher)
Created2016
Description
Machine learning (ML) and deep neural networks (DNNs) have achieved great success in a variety of application domains, however, despite significant effort to make these networks robust, they remain vulnerable to adversarial attacks in which input that is perceptually indistinguishable from natural data can be erroneously classified with high prediction confidence. Works on defending against adversarial examples can be broadly classified as correcting or detecting, which aim, respectively at negating the effects of the attack and correctly classifying the input, or detecting and rejecting the input as adversarial. In this work, a new approach for detecting adversarial examples is proposed. The approach takes advantage of the robustness of natural images to noise. As noise is added to a natural image, the prediction probability of its true class drops, but the drop is not sudden or precipitous. The same seems to not hold for adversarial examples. In other word, the stress response profile for natural images seems different from that of adversarial examples, which could be detected by their stress response profile. An evaluation of this approach for detecting adversarial examples is performed on the MNIST, CIFAR-10 and ImageNet datasets. Experimental data shows that this approach is effective at detecting some adversarial examples on small scaled simple content images and with little sacrifice on benign accuracy.
ContributorsSun, Lin (Author) / Bazzi, Rida (Thesis advisor) / Li, Baoxin (Committee member) / Tong, Hanghang (Committee member) / Arizona State University (Publisher)
Created2019
Description
Feature embeddings differ from raw features in the sense that the former obey certain properties like notion of similarity/dissimilarity in it's embedding space. word2vec is a preeminent example in this direction, where the similarity in the embedding space is measured in terms of the cosine similarity. Such language embedding models have seen numerous applications in both language and vision community as they capture the information in the modality (English language) efficiently. Inspired by these language models, this work focuses on learning embedding spaces for two visual computing tasks, 1. Image Hashing 2. Zero Shot Learning. The training set was used to learn embedding spaces over which similarity/dissimilarity is measured using several distance metrics like hamming / euclidean / cosine distances. While the above-mentioned language models learn generic word embeddings, in this work task specific embeddings were learnt which can be used for Image Retrieval and Classification separately.
Image Hashing is the task of mapping images to binary codes such that some notion of user-defined similarity is preserved. The first part of this work focuses on designing a new framework that uses the hash-tags associated with web images to learn the binary codes. Such codes can be used in several applications like Image Retrieval and Image Classification. Further, this framework requires no labelled data, leaving it very inexpensive. Results show that the proposed approach surpasses the state-of-art approaches by a significant margin.
Zero-shot classification is the task of classifying the test sample into a new class which was not seen during training. This is possible by establishing a relationship between the training and the testing classes using auxiliary information. In the second part of this thesis, a framework is designed that trains using the handcrafted attribute vectors and word vectors but doesn’t require the expensive attribute vectors during test time. More specifically, an intermediate space is learnt between the word vector space and the image feature space using the hand-crafted attribute vectors. Preliminary results on two zero-shot classification datasets show that this is a promising direction to explore.
Image Hashing is the task of mapping images to binary codes such that some notion of user-defined similarity is preserved. The first part of this work focuses on designing a new framework that uses the hash-tags associated with web images to learn the binary codes. Such codes can be used in several applications like Image Retrieval and Image Classification. Further, this framework requires no labelled data, leaving it very inexpensive. Results show that the proposed approach surpasses the state-of-art approaches by a significant margin.
Zero-shot classification is the task of classifying the test sample into a new class which was not seen during training. This is possible by establishing a relationship between the training and the testing classes using auxiliary information. In the second part of this thesis, a framework is designed that trains using the handcrafted attribute vectors and word vectors but doesn’t require the expensive attribute vectors during test time. More specifically, an intermediate space is learnt between the word vector space and the image feature space using the hand-crafted attribute vectors. Preliminary results on two zero-shot classification datasets show that this is a promising direction to explore.
ContributorsGattupalli, Jaya Vijetha (Author) / Li, Baoxin (Thesis advisor) / Yang, Yezhou (Committee member) / Venkateswara, Hemanth (Committee member) / Arizona State University (Publisher)
Created2019
Description
In recent years, Convolutional Neural Networks (CNNs) have been widely used in not only the computer vision community but also within the medical imaging community. Specifically, the use of pre-trained CNNs on large-scale datasets (e.g., ImageNet) via transfer learning for a variety of medical imaging applications, has become the de facto standard within both communities.
However, to fit the current paradigm, 3D imaging tasks have to be reformulated and solved in 2D, losing rich 3D contextual information. Moreover, pre-trained models on natural images never see any biomedical images and do not have knowledge about anatomical structures present in medical images. To overcome the above limitations, this thesis proposes an image out-painting self-supervised proxy task to develop pre-trained models directly from medical images without utilizing systematic annotations. The idea is to randomly mask an image and train the model to predict the missing region. It is demonstrated that by predicting missing anatomical structures when seeing only parts of the image, the model will learn generic representation yielding better performance on various medical imaging applications via transfer learning.
The extensive experiments demonstrate that the proposed proxy task outperforms training from scratch in six out of seven medical imaging applications covering 2D and 3D classification and segmentation. Moreover, image out-painting proxy task offers competitive performance to state-of-the-art models pre-trained on ImageNet and other self-supervised baselines such as in-painting. Owing to its outstanding performance, out-painting is utilized as one of the self-supervised proxy tasks to provide generic 3D pre-trained models for medical image analysis.
However, to fit the current paradigm, 3D imaging tasks have to be reformulated and solved in 2D, losing rich 3D contextual information. Moreover, pre-trained models on natural images never see any biomedical images and do not have knowledge about anatomical structures present in medical images. To overcome the above limitations, this thesis proposes an image out-painting self-supervised proxy task to develop pre-trained models directly from medical images without utilizing systematic annotations. The idea is to randomly mask an image and train the model to predict the missing region. It is demonstrated that by predicting missing anatomical structures when seeing only parts of the image, the model will learn generic representation yielding better performance on various medical imaging applications via transfer learning.
The extensive experiments demonstrate that the proposed proxy task outperforms training from scratch in six out of seven medical imaging applications covering 2D and 3D classification and segmentation. Moreover, image out-painting proxy task offers competitive performance to state-of-the-art models pre-trained on ImageNet and other self-supervised baselines such as in-painting. Owing to its outstanding performance, out-painting is utilized as one of the self-supervised proxy tasks to provide generic 3D pre-trained models for medical image analysis.
ContributorsSodha, Vatsal Arvindkumar (Author) / Liang, Jianming (Thesis advisor) / Devarakonda, Murthy (Committee member) / Li, Baoxin (Committee member) / Arizona State University (Publisher)
Created2020
Description
Convolutional Neural Network (CNN) has achieved state-of-the-art performance in numerous applications like computer vision, natural language processing, robotics etc. The advancement of High-Performance Computing systems equipped with dedicated hardware accelerators has also paved the way towards the success of compute intensive CNNs. Graphics Processing Units (GPUs), with massive processing capability, have been of general interest for the acceleration of CNNs. Recently, Field Programmable Gate Arrays (FPGAs) have been promising in CNN acceleration since they offer high performance while also being re-configurable to support the evolution of CNNs. This work focuses on a design methodology to accelerate CNNs on FPGA with low inference latency and high-throughput which are crucial for scenarios like self-driving cars, video surveillance etc. It also includes optimizations which reduce the resource utilization by a large margin with a small degradation in performance thus making the design suitable for low-end FPGA devices as well.
FPGA accelerators often suffer due to the limited main memory bandwidth. Also, highly parallel designs with large resource utilization often end up achieving low operating frequency due to poor routing. This work employs data fetch and buffer mechanisms, designed specifically for the memory access pattern of CNNs, that overlap computation with memory access. This work proposes a novel arrangement of the systolic processing element array to achieve high frequency and consume less resources than the existing works. Also, support has been extended to more complicated CNNs to do video processing. On Intel Arria 10 GX1150, the design operates at a frequency as high as 258MHz and performs single inference of VGG-16 and C3D in 23.5ms and 45.6ms respectively. For VGG-16 and C3D the design offers a throughput of 66.1 and 23.98 inferences/s respectively. This design can outperform other FPGA 2D CNN accelerators by up to 9.7 times and 3D CNN accelerators by up to 2.7 times.
FPGA accelerators often suffer due to the limited main memory bandwidth. Also, highly parallel designs with large resource utilization often end up achieving low operating frequency due to poor routing. This work employs data fetch and buffer mechanisms, designed specifically for the memory access pattern of CNNs, that overlap computation with memory access. This work proposes a novel arrangement of the systolic processing element array to achieve high frequency and consume less resources than the existing works. Also, support has been extended to more complicated CNNs to do video processing. On Intel Arria 10 GX1150, the design operates at a frequency as high as 258MHz and performs single inference of VGG-16 and C3D in 23.5ms and 45.6ms respectively. For VGG-16 and C3D the design offers a throughput of 66.1 and 23.98 inferences/s respectively. This design can outperform other FPGA 2D CNN accelerators by up to 9.7 times and 3D CNN accelerators by up to 2.7 times.
ContributorsRavi, Pravin Kumar (Author) / Zhao, Ming (Thesis advisor) / Li, Baoxin (Committee member) / Ren, Fengbo (Committee member) / Arizona State University (Publisher)
Created2020
Description
The development of the internet provided new means for people to communicate effectively and share their ideas. There has been a decline in the consumption of newspapers and traditional broadcasting media toward online social mediums in recent years. Social media has been introduced as a new way of increasing democratic discussions on political and social matters. Among social media, Twitter is widely used by politicians, government officials, communities, and parties to make announcements and reach their voice to their followers. This greatly increases the acceptance domain of the medium.
The usage of social media during social and political campaigns has been the subject of a lot of social science studies including the Occupy Wall Street movement, The Arab Spring, the United States (US) election, more recently The Brexit campaign. The wide
spread usage of social media in this space and the active participation of people in the discussions on social media made this communication channel a suitable place for spreading propaganda to alter public opinion.
An interesting feature of twitter is the feasibility of which bots can be programmed to operate on this platform. Social media bots are automated agents engineered to emulate the activity of a human being by tweeting some specific content, replying to users, magnifying certain topics by retweeting them. Network on these bots is called botnets and describing the collaboration of connected computers with programs that communicates across multiple devices to perform some task.
In this thesis, I will study how bots can influence the opinion, finding which parameters are playing a role in shrinking or coalescing the communities, and finally logically proving the effectiveness of each of the hypotheses.
The usage of social media during social and political campaigns has been the subject of a lot of social science studies including the Occupy Wall Street movement, The Arab Spring, the United States (US) election, more recently The Brexit campaign. The wide
spread usage of social media in this space and the active participation of people in the discussions on social media made this communication channel a suitable place for spreading propaganda to alter public opinion.
An interesting feature of twitter is the feasibility of which bots can be programmed to operate on this platform. Social media bots are automated agents engineered to emulate the activity of a human being by tweeting some specific content, replying to users, magnifying certain topics by retweeting them. Network on these bots is called botnets and describing the collaboration of connected computers with programs that communicates across multiple devices to perform some task.
In this thesis, I will study how bots can influence the opinion, finding which parameters are playing a role in shrinking or coalescing the communities, and finally logically proving the effectiveness of each of the hypotheses.
ContributorsAhmadi, Mohsen (Author) / Davulcu, Hasan (Thesis advisor) / Sen, Arunabha (Committee member) / Li, Baoxin (Committee member) / Arizona State University (Publisher)
Created2020