Data Science Commons^™

High Throughput Phenomics Pipeline For Pulse Crop Nutritional Breeding, Amod Udayanga Madurapperumage

All Dissertations

Dry pea (Pisum sativum L.), lentil (Lens culinaris Medik.), and chickpea (Cicer arietinum L.) are major pulse crops valued for their high nutritional composition and importance to global food systems. Pulses are rich in carbohydrates, protein, and essential minerals, making them ideal whole foods and critical contributors to food and nutrition security. Due to these advantages, pulse breeding programs are increasingly focusing on enhancing nutritional traits, such as protein quality, amino acid balance, and micronutrient density, through the process of biofortification. However, improvement of agronomic traits remains equally essential. Characteristics such as plant height, standability, stress tolerance, …

Reverse (Bio)Engineering: A Machine Learning Approach To Optimize Baseball Pitcher Health And Performance, Robert C. Moore

All Dissertations

Ball tracking systems are becoming ubiquitous in sport, creating an unprecedented opportunity for big data applications to optimize human health and performance. These applications are especially common in baseball, a sport known for analyzing ball flight data to quantify performance. Analysts routinely use ball flight data to identify the attributes of top performing pitchers, finding that the best pitchers throw with optimal combinations of release speed and spin to precise locations. However, for certain pitchers, the throwing motion required to produce optimal ball flight places exceedingly high biomechanical load on the elbow, and consequently injury rates continue to rise. This …

Unsupervised Deep Learning For Video Restoration, Mary Damilola Aiyetigbo

All Dissertations

In today's digital era, visual data is vital across several domains such as medical diagnostics, scientific imaging, surveillance, and entertainment. However, video data often suffers from degradations like noise, blur, compression artifacts, and low resolution, which degrade quality and downstream usability. Video restoration aims to recover clean, high-fidelity video from such corrupted inputs. Unlike static images, video restoration must maintain temporal consistency across frames, making it a significantly more complex problem. While supervised deep learning methods have achieved state-of-the-art results, they typically require large datasets of paired noisy-clean video datasets that are scarce or impractical to obtain in real-world settings …

Robustness Investigation, Detection, And Defense Of Deep Learning Models Against False Data Injection, Amirhossein Nazeri

All Dissertations

This dissertation addresses the critical challenge of adversarial robustness in deep learning systems, focusing on two fundamental domains: time-series prediction and object detection. As these AI systems become increasingly deployed in safety-critical applications from power grid management to autonomous vehicles their vulnerability to adversarial attacks poses significant risks to infrastructure and human safety.

The first contribution introduces a novel stealthy black-box False Data Injection (FDI) attack specifically designed for quasi-periodic time-series data. Unlike existing attacks that produce easily detectable anomalies, our method generates adversarial perturbations that preserve the underlying periodicity and statistical properties of the data, effectively bypassing traditional anomaly …

Experimental Design And Analysis For Decision Making: Methodology And Applications, Yezhuo Li

All Dissertations

This dissertation develops and applies advanced statistical and optimization frameworks to enhance decision-making under uncertainty, particularly in engineering and manufacturing contexts. First, we introduce an approach for the optimal design of controlled experiments that accounts for observational covariates, enabling more precise and personalized decisions. Second, we explore the application of constrained Bayesian optimization, using Gaussian process surrogate models, to optimize composite cure processes, significantly reducing computational effort while maintaining high predictive accuracy. Building on this foundation, we extend Bayesian optimization to bivariate Gaussian process models that capture correlations between objective and constraint functions, offering new insights into multidimensional decision landscapes. …

Application Of Artificial Neural Network Algorithms For Irrigation Scheduling, Lisa Umutoni

All Dissertations

Neural networks have been extensively used in predicting soil water tension for improved irrigation scheduling and management. However, their lack of interpretability constrains their efficacy in grasping the nuanced patterns prevalent in soil water tension time series data. The first goal of this research was to develop interpretable deep neural network models for soil water tension prediction across multiple soil depths (0.15m, 0.3m, 0.46m and 0.6m) and prediction horizons (1h, 6h, and 12h). The Neural Hierarchical Interpolation for Time Series (N-HiTS) and Neural Basis Expansion Analysis Time Series (N-BEATS) models were used in this research. Historical soil water tension data …

Achieving Professional, Effective Graphics Efficiently With Available Clemson Resources, Stacie P. Powell, Brad Landon Walters, Yaswanth Mulakala

Presentations

No abstract provided.

Application Of Regression Techniques On Designed Economic Data, Naomi O. Edegbe

All Theses

Evaluating stock market data and public companies' performance is an overwhelming task for day traders and brokers in the United States and internationally. As a financial metric of a company's overall valuation, earnings per share is a commonly researched measure of a company's profitability. We investigate relationships between earnings per share, multiple financial measures reported from company income statements, and classifiers such as market capitalization and sector. Multiple linear regression models are developed and assessed for this data. Results conclude that there is a significant difference between sectors and earnings per share recorded for a given company. Individual stock analysis …

Toward The Application Of Natural Language Processing In Electronic Health Record Analysis For Taxonomy Development, Latoya Mcdonald

All Dissertations

Electronic health records (EHRs) are pivotal resources for nurse practice because they increase the timeliness and reliability of patient information at the point of care and support access by multiple healthcare providers and the individual patients themselves. However, it is widely recognized that data extraction from EHRs is challenging due to the variability in the language used in clinical care notes and the lack of standardized terminology across healthcare systems. The broad objective of this dissertation is to develop taxonomy-based classification models for nursing care by applying feature engineering approaches to EHRs that include nursing care of ostomy patients following …

Basic Safety Message Generation Through A Video-Based Analytics For Potential Safety Application, Abyad Enan

All Theses

With the advancement of modern artificial intelligence techniques, computer vision can play a vital role in enhancing roadway safety by reducing the risk of imminent collisions. To do so, a vision-based safety application is required, where a roadside camera can monitor the roadway traffic and predict potential risks of crashes in real-time. If any risky situation or behavior is observed that may lead to a crash, then a safety application can send warnings to the vehicles at risk. For vision-based safety applications on a roadway section, it is important to accurately monitor each vehicle’s location, speed, acceleration, heading direction, etc. …

Computational Representation, Analysis And Verification Of Requirements In Engineering Design And Systems Engineering, Chandan Kumar Sahu

All Dissertations

Systems are developed to satisfy a set of requirements derived from stakeholders’ needs, defining the problem space for which the system is created as a feasible solution. The system design process begins with eliciting these requirements and concludes with validating whether the created system meets them. Requirements engineering (RE) encompasses elicitation, representation, analysis, documentation, verification, and validation. However, challenges in RE, such as imprecision in natural language (NL), proprietary restrictions, and a lack of standardized quality metrics, hinder the creation of well-formed and comprehensive requirements. These challenges complicate formalization and analysis of requirements.

This dissertation addresses these challenges by proposing …

Leveraging High-Frequency Water Quality Data And Machine Learning For Monitoring Harmful Algal Blooms, Ibrahim Busari

All Dissertations

Freshwater management is one of the most critical resources on the earth due to the plethora of water use and its limited availability. Increased algae proliferation is one of the significant problems of freshwater bodies that is triggered by nutrient enrichment and enabling conditions such as light and warm temperatures. This algal proliferation is toxic to the ecosystem through their biomass and potential toxin production that can cause hypoxic conditions and is often referred to as Harmful Algal Blooms (HABs). Current monitoring approaches include laboratory analysis of water samples to observe algal cells, monitoring of water quality parameters using water …

Exploring Healthcare Chatbot Information Presentation: Applying Hierarchical Bayesian Regression And Inductive Thematic Analysis In A Mixed Methods Study, Samuel Nelson Koscelny

All Theses

High blood pressure, also known as hypertension, significantly increases the risk of heart disease and stroke, which are leading causes of death in the United States. While contributing to over 691,000 deaths in 2021 alone in the United States (U.S.), it also imposes immense economic burden on the healthcare system, costing approximately $131 billion annually. One way to address this issue is for increased self-care behaviors and medication adherence, both of which require sufficient health literacy. Despite the importance of health literacy, 90% of U.S. adults struggle with health-related subjects. Overcoming the issues associated with health literacy requires addressing the …

Optimization Strategies To Enhance Performance In Matrix/Tensor Factorization And Multi-Source Data Integration, Mengyuan Zhang

All Dissertations

Optimization in the realm of machine learning constitutes a fundamental process aimed at refining the parameters of models to enhance their performance. It serves as the backbone of various machine learning techniques, encompassing diverse algorithms and methodologies tailored to address specific tasks and objectives.

In machine learning, datasets are commonly structured as matrices or tensors, making techniques like matrix factorization and tensor factorization indispensable for extracting meaningful representations from intricate data. Furthermore, datasets commonly comprise multiple sets of features, which has inspired our exploration of effective strategies for leveraging information from diverse sources during optimization. Additionally, the interconnected nature of …

Offensive Content Detection In Online Social Platforms, Ebuka Okpala

All Dissertations

Online social platforms enable users to connect with large, diverse audiences and the ability for a message or content to flow from one user to another user, user to followers, followers to user, and followers to followers. Of course, the advantages of this are apparent, and the dangers are also clearly obvious. The user-generated content could be abusive, offensive, or hateful to other users, possibly leading to adverse health effects or offline harm. As more of society's public discourse and interaction move online and these platforms grow and increase their reach, it is inherently important to protect the safety of …

Physics-Informed Machine Learning Methods For Inverse Design Of Multi-Phase Materials With Targeted Mechanical Properties, Yunpeng Wu

All Dissertations

Advances in machine learning algorithms and applications have significantly enhanced engineering inverse design capabilities. This work focuses on the machine learning-based inverse design of material microstructures with targeted linear and nonlinear mechanical properties. It involves developing and applying predictive and generative physics-informed neural networks for both 2D and 3D multiphase materials.

The first investigation aims to develop a machine learning method for the inverse design of 2D multiphase materials, particularly porous materials. We first develop machine learning methods to understand the implicit relationship between a material's microstructure and its mechanical behavior. Specifically, we use ResNet-based models to predict the elastic …

Genomic Data Science Approaches For Understanding Human Diseases, Snehal Shah

All Dissertations

The intricate interplay of genetic predisposition, environmental influences, and lifestyle acts as the multifactorial landscape of diseases. Understanding this complexity presents a significant challenge. Molecular insights into disease mechanisms, particularly the interactions of DNA, RNA, and proteins with environmental and lifestyle factors, have revolutionized disease diagnosis, prognosis, and treatment. High-throughput technologies, such as next-generation sequencing, generate large amounts of molecular data, holding a wealth of knowledge. These datasets unveil the roles of genes and their interactions with various factors through analysis, shedding light on previously unknown molecular mechanisms underlying disease pathogenesis. Furthermore, they facilitate the discovery of biomarkers crucial for …

Low-Resource Icd Coding Of Discharge Summaries, Ashton Williamson

All Theses

Medical coding is the process by which standardized medical codes are assigned to patient health records. This is a complex and challenging task that typically requires an expert human coder to review health records and assign codes from a classification system based on a standard set of rules. Considering the downstream use of these codes in statistical analysis, billing, and patient care, improving the accuracy and efficiency of the medical coding process through automation could have a far-reaching impact on the healthcare domain. Since health records typically consist of a large proportion of free-text documents, this problem has traditionally been …

Design And Application Of Smart Systems To Address Analytical Problems, Lucas B. Ayres

All Dissertations

This dissertation is a multidisciplinary effort that integrates low-cost analytical instrumentation, redox chemistry, and artificial intelligence to overcome existing limitations in the fields of wearable sensing technology, Deep Eutectic Solvents (DES), and antioxidant chemistry. The overall goal behind each implemented strategy is to enhance the accuracy, efficiency, and accessibility of analytical processes and technologies. A general overview of the thesis, along with the research outcomes is included in Chapter One. The theoretical framework of this dissertation is presented in Chapter Two. Chapter Three describes the development of a wearable platform (sensor and instrumentation) to rapidly detect (~20 minutes) S. aureus …

Understanding The Role Of Interactivity And Explanation In Adaptive Experiences, Lijie Guo

All Dissertations

Adaptive experiences have been an active area of research in the past few decades, accompanied by advances in technology such as machine learning and artificial intelligence. Whether the currently ongoing research on adaptive experiences has focused on personalization algorithms, explainability, user engagement, or privacy and security, there is growing interest and resources in developing and improving these research focuses. Even though the research on adaptive experiences has been dynamic and rapidly evolving, achieving a high level of user engagement in adaptive experiences remains a challenge. %????? This dissertation aims to uncover ways to engage users in adaptive experiences by incorporating …

The Influence Of Allostery Governing The Changes In Protein Dynamics Upon Substitution, Joseph Hess

All Dissertations

The focus of this research is to investigate the effects of allostery on the function/activity of an enzyme, human immunodeficiency virus type 1 (HIV-1) protease, using well-defined statistical analyses of the dynamic changes of the protein and variants with unique single point substitutions ¹. The experimental data¹ evaluated here only characterized HIV-1 protease with one of its potential target substrates. Probing the dynamic interactions of the residues of an enzyme and its variants can offer insight of the developmental importance for allosteric signaling and their connection to a protein’s function. The realignment of the secondary structure elements can …

Machine Learning-Based Data And Model Driven Bayesian Uncertanity Quantification Of Inverse Problems For Suspended Non-Structural System, Zhiyuan Qin

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Inverse problems involve extracting the internal structure of a physical system from noisy measurement data. In many fields, the Bayesian inference is used to address the ill-conditioned nature of the inverse problem by incorporating prior information through an initial distribution. In the nonparametric Bayesian framework, surrogate models such as Gaussian Processes or Deep Neural Networks are used as flexible and effective probabilistic modeling tools to overcome the high-dimensional curse and reduce computational costs. In practical systems and computer models, uncertainties can be addressed through parameter calibration, sensitivity analysis, and uncertainty quantification, leading to improved reliability and robustness of decision and …

Modeling Antihypertensive Therapeutic Inertia And Intensification To Support Clinical Action Toward Hypertension Control, Benjamin Martin

All Dissertations

Background

Hypertension is the leading modifiable risk factor for cardiovascular disease and consequent mortality worldwide. In the U.S., more than half of hypertension cases remain uncontrolled, despite availability of effective pharmaceutical treatment options. Evidence suggests that therapeutic inertia, defined as clinician failure to initiate or increase therapy when treatment goals are unmet, is the most influential barrier to improving hypertension control. Substantial rates of therapeutic inertia have been reported in ambulatory primary care settings where hypertension is typically treated and managed. Understanding and overcoming the forces driving therapeutic inertia in hypertension management is a critical strategy to reach population health …

Explaining Spatio-Temporal Evolution Of Extreme Hydro-Climatic Events Using A Complex Network Framework, Somnath Mondal

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Severe hydroclimatic extreme events, such as droughts, heatwaves, and heavy rainfall, are occurring with increasing frequency and causing significant impacts on both people and the environment. These events also compound in space and time, leading to even more significant consequences. Therefore, it is essential to comprehend these phenomena' concurrent and time-delayed progression across different temporal and spatial scales to address adaptation and mitigation effectively. To accurately understand and map the co-evolution of extreme events, it's necessary to have a thorough grasp of their spatiotemporal patterns, how they propagate and interact with one another, and the underlying mechanisms driving their occurrence. …

State-Based Biological Communication, Nathan Clement

All Theses

Allostery (1) is the process through which proteins self-regulate in response to various stimuli. Allosteric interactions occur between nonadjacent spatially distant residues (1), and they are exhibited through the correlated motions (2) and momenta of participating residues. The location of allosteric sites in proteins can be determined experimentally but computational methods to predict the location of allosteric sites are being developed as well (2-4, 10). Experimental and computational methodologies for locating allosteric sites can be used to design specific targeted drug delivery (5-6, 19), but these methods have not yet …

Tempering The Adversary: An Exploration Into The Applications Of Game Theoretic Feature Selection And Regression, Stephen Mcgee

All Dissertations

Most modern machine learning algorithms tend to focus on an "average-case" approach, where every data point contributes the same amount of influence towards calculating the fit of a model. This "per-data point" error (or loss) is averaged together into an overall loss and typically minimized with an objective function. However, this can be insensitive to valuable outliers. Inspired by game theory, the goal of this work is to explore the utility of incorporating an optimally-playing adversary into feature selection and regression frameworks. The adversary assigns weights to the data elements so as to degrade the modeler's performance in an optimal …

Unsupervised Contrastive Representation Learning For Knowledge Distillation And Clustering, Fei Ding

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Unsupervised contrastive learning has emerged as an important training strategy to learn representation by pulling positive samples closer and pushing negative samples apart in low-dimensional latent space. Usually, positive samples are the augmented versions of the same input and negative samples are from different inputs. Once the low-dimensional representations are learned, further analysis, such as clustering, and classification can be performed using the representations. Currently, there are two challenges in this framework. First, the empirical studies reveal that even though contrastive learning methods show great progress in representation learning on large model training, they do not work well for small …

Intelligent Resource Prediction For Hpc And Scientific Workflows, Benjamin Shealy

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Scientific workflows and high-performance computing (HPC) platforms are critically important to modern scientific research. In order to perform scientific experiments at scale, domain scientists must have knowledge and expertise in software and hardware systems that are highly complex and rapidly evolving. While computational expertise will be essential for domain scientists going forward, any tools or practices that reduce this burden for domain scientists will greatly increase the rate of scientific discoveries. One challenge that exists for domain scientists today is knowing the resource usage patterns of an application for the purpose of resource provisioning. A tool that accurately estimates these …

Determining States Of Movement In Humans Using Minimally Processed Eeg Signals And Various Classification Methods, Maurice Barnett

All Theses

Electroencephalography (EEG) is a non-invasive technique used in both clinical and research settings to record neuronal signaling in the brain. The location of an EEG signal as well as the frequencies at which its neuronal constituents fire correlate with behavioral tasks, including discrete states of motor activity. Due to the number of channels and fine temporal resolution of EEG, a dense, high-dimensional dataset is collected. Transcranial direct current stimulation (tDCS) is a treatment that has been suggested to improve motor functions of Parkinson’s disease and chronic stroke patients when stimulation occurs during a motor task. tDCS is commonly administered without …

Visualizing Features From Deep Neural Networks Trained On Alzheimer’S Disease And Few-Shot Learning Models For Alzheimer’S Disease, John Reeder

All Theses

Alzheimer’s disease is an incurable neural disease, usually affecting the elderly. The afflicted suffer from cognitive impairments that get dramatically worse at each stage. Previous research on Alzheimer’s disease analysis in terms of classification leveraged statistical models such as support vector machines. However, statistical models such as support vector machines train the from numerical data instead of medical images. Today, convolutional neural networks (CNN) are widely considered as the one which can achieve the state-of-the- art image classification performance. However, due to their black box nature, there can be reluctance amongst medical professionals for their use. On the other hand, …