Data Science Commons^™

A Data-Driven Nutrient Density Scoring Framework For Beef Using Principal Component Analysis, Teja Vuppala

All Graduate Theses and Dissertations, Fall 2023 to Present

Beef is one of the most nutrient-rich foods in the human diet, providing high-quality protein, iron, omega-3 fatty acids, B vitamins, and a wide range of other compounds important to health. However, current nutrition scoring systems used on food labels were designed to compare different foods to one another — for example, beef versus broccoli — and do not work well for judging the nutritional quality of different beef samples relative to each other. A grass-fed steak and a conventionally-finished steak can carry nearly identical Nutrition Facts panels while differing substantially in their content of omega-3 fatty acids, vitamins, and …

Stylometric And Formal Patterns In The Scholarly Impact Of Scientific Literature, Joshua Ange, Eric Godat, Rajani Sudan

SMU Journal of Undergraduate Research

Scientific communication is typically tied to promoting public engagement and interest in science, increasing scientific literacy, and playing an essential role in policymaking. The success of public communication of scientific findings is largely associated with secondary characteristics of research (e.g. the style of writing and presentation), rather than the primary content or research quality. But it is unclear to what extent the success of scientific literature intended for working scientists is influenced by those same secondary characteristics. Does the writing style of scientific articles impact their success in academic spheres? In this study, we explore the stylometric and formal characteristics …

Data-Driven Characterization Of Counties In The Prison Industrial Complex Using Clustering Analysis, Riley N. Tuccio

Capstone Projects

This project investigates the complex relationship between counties that house prisons in the United States and the rurality associated with them. The central research question explores how both county characteristics, such as variables corresponding to cost of living and demographics of a county, and prison characteristics, such as programming available to inmates and staffing levels, differ across the census-designated rural-urban distinctions. Furthermore, the study examines whether modern data science methods can more accurately define and distinguish these characteristics, providing a nuanced understanding of the Prison Industrial Complex (PIC) and its manifestation across various American communities. The motivation for this research …

Integration Of Intraoperative Data In Interpretable Machine Learning Models To Predict Postoperative Aki In Noncardiac Surgery Patients, Justin Do, Karan H. Shah, Melissa Xu, Andrew Hyunwoo Kim, Vivaswat Suresh, Nidhir Guggilla, Michael Li, Rishi Kothari

Department of Anesthesiology Faculty Papers

OBJECTIVES: We aimed to (1) quantify changes in discrimination when adding intraoperative data to preoperative data and (2) compare tabular machine learning with feature engineering against a time-aware LSTM-based model.

MATERIALS AND METHODS: Retrospective cohort of 46 204 adults undergoing 57 055 eligible noncardiac surgery in the INSPIRE database. We extracted 38 preoperative and 49 intraoperative variables; acute kidney injury (AKI) was defined by KDIGO serum creatinine criteria and modeled as stage 2/3 postoperative AKI. Models were trained on preoperative-only and combined pre- and intraoperative data. Intraoperative series were summarized using eight statistical features for tabular models or integrated directly …

Developing A Humpback Whale Vocalization Detector Using Machine Learning Models, Lucas Kantorowski

Master's Theses

Humpback whale songs are notoriously complex. Identification of humpback whale song units requires bioacousticians to tediously listen, analyze, and annotate collected sound data. Even sparse data requires listening to the entirety of the collected acoustic data. In this study, three hours of audio containing over one-thousand humpback whale song units was collected in Monterey Bay, California.

Prior studies have seen success using convolutional neural networks by performing image classification on hundreds of hours worth of spectrograms. Our study uses traditional machine learning models, as they are less computationally demanding, and require less data.

We use time splitting and Mel-frequency cepstrum …

Crab: A Novel Clustering Score Using Clustering With Rivals And Buddies For Unsupervised Learning, Allen Choi

Master's Theses

Unsupervised clustering algorithms today are used across a wide variety of fields such as biology, engineering, and industry in order to classify observations into groups where labels are not provided. This can provide important latent information regarding the observations within groups, as well as insight regarding the groups themselves. In order to judge the optimal number of clusters for an unsupervised clustering algorithm, many methods exist such as the Elbow Method and Silhouette Score; however, these methods come with drawbacks and are not necessarily flexible across many unsupervised methods. We present a novel clustering score framework relying on a resampling-based …

Inductive Biases In Field-Level Cosmological Inference From Galaxy Catalogs, James O'Connor Baldwin

Dissertations, Theses, and Capstone Projects

We perform field-level likelihood-free inference of the matter density parameter Ωm from simulated galaxy catalogs using machine learning models with differing inductive biases. Using features extracted from hydrodynamic simulations in the CAMELS suite, we investigate how both observable choice and model architecture govern the extraction of cosmological information. We consider galaxy positions and line-of-sight peculiar velocities, both separately and in combination, and compare permutation-invariant Deep Sets, implemented with either standard multilayer perceptrons (MLPs) or Kolmogorov–Arnold Networks (KANs), to graph neural networks (GNNs) implemented with MLPs, which explicitly encode spatial relations. We evaluate inference performance under both in-distribution and out-of-distribution (OOD) …

A Generative Ai-Driven Computational Framework For Industry-Scale Discovery Of Novel Battery Materials, Joy Datta

Dissertations

The growing demand for sustainable, high-energy-density electrochemical storage has motivated the exploration of multivalent-ion batteries based on earth-abundant elements such as aluminum, calcium, magnesium, and zinc. While multivalent charge carriers offer higher theoretical energy density than lithium, their practical deployment is hindered by sluggish ion transport, strong ion-host interactions, and structural degradation of electrode materials. Identifying host materials that can reversibly accommodate multivalent ions while maintaining structural integrity remains a fundamental challenge. The dissertation develops a scalable, end-to-end computational framework that integrates density functional theory (DFT), machine learning (ML), and generative artificial intelligence (GenAI) to accelerate the discovery of next-generation …

Toward Learning-Based Reconstruction And Part Decomposition Of Man-Made 3d Geometry: Neural Implicit Representations And Scalable Supervision, Shen Fan

Dissertations

Digital three-dimensional (3D) models are central to engineering design, analysis, and manufacturing, but learning pipelines for man-made geometry often operate on sampled carriers that do not preserve all of the structure present in exact CAD representations. This dissertation studies learning-based reconstruction and part decomposition for structured man-made 3D geometry, from general object benchmarks to CAD-derived datasets, with a focus on neural implicit representations trained from signed-distance samples, point clouds, and tessellated meshes. The goal is to make these models more accurate, more part-aware, and more consistently supervised.

First, signed distance function (SDF) reconstruction with implicit neural representations is improved through …

Predicting The Outcome Of Ischemic Hepatitis With Real-Patient Data Using Machine Learning Tools, Christiana Beard, Madison Utterback, Olcay Akman, Priya Kohli, William M. Lee, Aditi Ghosh

Spora: A Journal of Biomathematics

Ischemic hepatitis (IH) results from shock-related conditions that impair oxygenated blood flow to the liver, causing hepatocyte death. Diagnosis relies largely on clinical history due to the absence of specific diagnostic tests and limited ability to predict outcomes. This study applies machine learning methods to real-world IH patient data to improve outcome prediction. Biomedical indicators analyzed include creatinine, international normalized ratio (INR), aspartate aminotransferase (AST), alanine transaminase (ALT), and bilirubin. Data were collected from multiple U.S. centers through the Acute Liver Failure Study Group (ALFSG), a multicenter network focused on this rare condition. We implemented logistic regression, regression tree methods …

Prescribing Company Action Through Machine Learning And Ai, Breck T. Husong

Data Science Undergraduate Honors Theses

The purpose of this research is to implement an OpenAI Reinforced Learning prescription-giving model for improving sales on a week-by-week basis. The data used comes from a segment of High Impact Analytics’s sales data that has been anonymized for proprietary reasons. The features among the data include inventory numbers, shipments in transit, total quantity and dollars of products sold each week for the past 2 years, all aggregated at the store-item-week level. In order to build this model, Tigramite, a causal discovery model combined with prediction models XGBoost, Linear Regression, Ridge Regression, Lasso Regression, Scikit-learn’s MLP, and Keras’s Neural Model …

Artificial Intelligence In Medicine: Barriers, Solutions, And Strategies, Anil Harrison, Melissa Stradley Moreno, Caroline E. Williams, Munevver Mine Subasi, Ersoy Subasi

HCA Healthcare Journal of Medicine

The integration of artificial intelligence (AI) and machine learning (ML) into health care holds the potential to revolutionize patient care by enhancing clinical decision-making, improving diagnostic accuracy, and reducing costs. Despite this promise, adoption remains limited due to a range of technical, regulatory, educational, and cultural barriers. This paper examines these challenges and proposes strategies to support safe and effective implementation of AI in clinical practice.

Key barriers include the lack of model interpretability, often referred to as the "black box" problem, which undermines clinician trust and accountability in clinical settings, evolving regulatory frameworks and unresolved questions surrounding liability, and …

The Texture Of A Threat: Adversarial Training, Cnns, And Obfuscated Malware Detection, Kaelyn Haynie

Senior Honors Theses

Accurately detecting malicious programs is an expanding field of research for machine learning (ML), with a novel approach incorporating a bytecode-to-image pipeline that produces images representative of software. These images are provided to convolutional neural networks (CNNs) to be examined for malicious pattern indicators. However, CNNs struggle to generalize these patterns effectively while still being robust against adversarial data, an issue which this research addresses with adversarial training. In this paper, three unique CNN architectures (a DBFS-MC-inspired baseline, MIRACLE, and PSP-CNN) are trained for binary classification with 15,000 benign and malicious software samples encoded into images for Android, Windows, and …

Addressing The Problems Of Data Variations, Quality, And Scarcity In Training Deep Neural Networks, Jian Sun

Electronic Theses and Dissertations

The performance of deep neural networks (DNNs) is strongly influenced by the characteristics and quality of the underlying datasets. This Ph.D. dissertation addresses three pervasive data challenges-imbalance, quality degradation, and scarcity-that commonly hinder the effectiveness of DNNs in computer vision (CV) and natural language processing (NLP) applications.

Class imbalance remains one of the most frequent causes of degraded model generalization. While Focal Loss effectively mitigates inter-class imbalance by assigning higher weights to minority classes, it struggles with intra-class imbalance, particularly in video datasets where longer clips dominate feature representation. To address this, I implement and utilize …

Data-Driven Climate Damage Functions For Capital Formation: Estimating The Climate Penalty Using Maching Learning, Pramudya Wicaksono

All Graduate Theses, Dissertations, and Other Capstone Projects

Traditional integrated assessment models assume parametric climate damage functions that may miss nonlinearities, heterogeneity, and dynamic effects on investment. This thesis develops a data-driven climate damage function for capital formation by estimating the predictive relationship between climate conditions and future gross fixed capital formation (% GDP) across 125 countries over 1982–2019. We construct a panel dataset by combining daily ERA5 climate reanalysis data (accessed via the Copernicus Climate Data Store API and aggregated to yearly country-level variables including temperature anomalies, extreme heat days, frost days, precipitation, and solar radiation) with economic indicators from the World Bank World Development Indicators and …

Neighborhood Embeddings And Scalable Learning For Optimal Transport And Unbalanced Optimal Transport, Muhammad S. Rana

Mathematics Dissertations - Archive

Dimensionality reduction techniques are developed from the assumption that high-dimensional data often arises from low-dimensional structures embedded into the high-dimensional ambient space. Classical dimensionality reduction methods rely on the Euclidean distance, which may fail to capture the geometric structures of the datasets. This dissertation includes alternative metrics for dimensionality reduction techniques and challenges in applying these techniques.

First, we investigate the Wasserstein distance based neighbor embeddings for dimensionality reduction methods and compare the classification and clustering performance with the classical Euclidean based methods. The Wasserstein distance models the data as probability distributions and compares two distributions applying optimal transport (OT) …

A Bayesian Late-Fusion Supportability Framework For Rare-Disease Severity Prediction In Glut1 Deficiency Syndrome, Jordan M. Rodriguez

Mathematics Dissertations

Glucose transporter type 1 deficiency syndrome (GLUT1-DS) is a rare neurometabolic disorder with heterogeneous neurological and developmental severity. Because patient-level severity is not observed as a single validated outcome, this dissertation develops a Bayesian late-fusion supportability framework for constructing and predicting an ordered latent severity phenotype from clinical, genetic, and EEG-derived evidence. The primary target was constructed in a larger clinical cohort using age-5 symptom burden and learning cognition, then assigned to an aligned multimodal prediction cohort. Target-defining variables were excluded from supervised predictors, and models were evaluated using patient-exclusive cross-validation with training-fold preprocessing and fold-wise EEG PCA.

The primary …

An Integrated Data-Driven Framework For Arctic Shipping: Analyzing Vessel Speed, Environmental And Ecological Factors Through Innovative Statistical Spatio-Temporal Methods, Inverse Optimization And Machine Learning, Mauli Pant

Theses and Dissertations

This dissertation develops an integrated data-driven framework to analyze vessel navigation and ecological risk in the United States Arctic from 2010 to 2019. As environmental change and maritime activity increase in the region, understanding how vessels respond to dynamic conditions and how those responses interact with marine ecosystems has become increasingly important. A central theme of this dissertation is the treatment of vessel speed as both an observed outcome and a decision variable reflecting trade- offs among operational, environmental, and ecological factors. The first chapter develops a predictive framework for vessel speed over ground (SOG) using Gaussian Process Boosting (GPBoost), …

Machine Learning-Based Intrusion Detection System For Iot Networks Using The Rt-Iot 2022 Dataset, Bukunmi Ebenezer Afolabi

Theses, Dissertations and Capstones

The rapid expansion of the Internet of Things (IoT) has transformed modern computing by enabling seamless connectivity among heterogeneous devices across diverse application domains. However, this increased interconnectivity has significantly enlarged the attack surface of IoT networks, exposing them to a wide range of sophisticated cyber threats. Conventional security mechanisms often lack the capability to detect emerging attacks in real time, thereby necessitating the development of intelligent Intrusion Detection Systems (IDS) capable of accurately identifying malicious network activities. This study developed and evaluated a machine learning-based intrusion detection framework for multiclass IoT attack detection using the RT-IoT2022 dataset. The dataset …

Generalized Detection Of Animal Behavior Using Accelerometers, Alexander J. Arrieta

Master's Theses

Animal mounted sensors are becoming increasingly used to passively monitor both domestic and wild animals. Advances in lightweight accelerometer and GPS technology have allowed many animals to be fitted with high accuracy sensors for extended periods of time. This leads to new opportunities to study animal behavior without direct observation. However, interpreting the raw data is difficult due to the high volume and missing context of the information. Machine learning techniques excel at extracting information from raw data streams and are excellent candidates for processing the sensor data. However, due to large variance in how different animals execute the same …

Interpretable Machine Learning For Cardiovascular Risk Prediction: Insights From Nhanes Dietary And Health Data, Md Ahiduzzaman, Md Nahid Hasan

Faculty Publications

Background: Cardiovascular diseases (CVD) are one of the leading global causes of death, which requires an accurate early prediction. This study aimed to develop transparent machine learning (ML) models using National Health and Nutrition Examination Survey (NHANES) data from 2017–2023 to predict CVD risk based on dietary and health factors.

Methods: We analyzed data from 12,382 adults (aged 18 and older) from NHANES 2017–2023, including 41 dietary, anthropometric, clinical, and demographic variables. Recursive Feature Elimination (RFE) was used to select an optimal subset of 30 predictors. To address substantial class imbalance in the outcome, we applied the Random Over-Sampling Examples …

Leveraging Machine Learning And Causal Inference For Loan Default Prediction, Luca Guida

Doctoral Dissertations and Master's Theses

This research explores a systematic application of machine learning techniques combined with causal inference to predict loan defaults in peer-to-peer lending. Accurately forecasting loan defaults is crucial for mitigating financial risk and optimizing lending strategies. This analysis is based on multiple datasets of loan applications spanning over a decade, containing detailed financial and credit information about borrowers. Beginning with extensive Exploratory Data Analysis (EDA) coupled with scaling strategies, the research identifies key trends in loan performance across a large number of factors, such as interest rates or borrower creditworthiness, and one objective is to determine from the many available predictors …

Harnessing Graphs For Knowledge Representation In Natural Language Processing, Uras Varolgunes

Dissertations

This work proposes innovative methods for integrating domain-specific knowledge into natural language processing tasks through the use of graphs, aiming to enhance the performance of models across various domains, including finance and healthcare. Several novel approaches are proposed that fuse graph structures with modern deep learning techniques, addressing the challenges of missing word embeddings, label prediction, and graph representation learning for large language models.

First, a powerful embedding method built on top of the recent advances in latent graph learning is introduced to address the critical problem of word embedding imputation. Second, a graph-enhanced label attention model designed for medical …

Non-Blackbox Robust Design Of Machine Learning In Networks, Venkat Sai Suman Lamba Karanam

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Networked systems have become increasingly complex, with newer communication technologies and standards being added every day. Machine Learning (ML) and Artificial Intelligence (AI) paradigms have been adopted in networks to not only solve many fundamental problems, but also to allow seamless integration of components comprising them. The saying “let’s not reinvent the wheel” in ML/AI adoption implies that model architecture design be left for pure ML/AI researchers, while network researchers focus on input preprocessing (e.g. formatting the packet data to be fed to a model), hyperparameter fine-tuning and a trial-and-error approach to find the “best” result. …

Towards Leveraging Social Media Data For Fostering Collaborations Among Non-Profits, Monazil Chowdhury

LSU Doctoral Dissertations

Nonprofit organizations serve a crucial role in tackling a wide range of significant social, environmental, and economic issues. But it is often hard to get a clear picture of their work because their information is spread out and it is difficult to see how they are collaborating. To address this issue we developed a web-based tool to collect scattered data—from a variety of sources, such as the IRS, social media, and the Census, into one easy-to-use resource. The tool begins by taking IRS records and geocoding each nonprofit’s physical address With its coordinates. It then retrieves census tract information from …

Seeking Structure In Complex Systems: From Feature Analysis To Space-Time Causal Discovery With Earth Science Applications, Jeffrey J. Nichol

Computer Science ETDs

Complex systems are difficult to study because of their many interacting parts, emergent phenomena, and feedback loops. These systems underpin all life on Earth. We need improved tools for seeking an understanding of them. This body of research presents my investigations into data-driven methods for understanding complex systems, including my invention of a novel causal discovery meta-algorithm for space-time gridded data. I demonstrated machine learning feature importance and causal discovery capabilities for comparing simulated and observed climate data. I developed a new benchmark for modeling space-time dynamics of locally driven phenomena and examined a prominent causal discovery algorithm. Finding that …

Towards Explainable Ai On Graph Neural Networks: Xaig, Jiaxing Zhang

Dissertations

In the evolving landscape of artificial intelligence (AI), Graph Neural Networks (GNNs) have garnered growing prominence for their adeptness in processing graph-structured data. Despite this, the interpretability of their predictions often remains elusive. The demand for transparency and explainability in complex prediction models has reached unprecedented levels. To address this, post-hoc instance-level explanation techniques have emerged, aiming to unveil the rationale behind GNN predictions. These techniques endeavor to unearth substructures that elucidate the predictive behavior of trained GNNs.

This dissertation embarks on an exploration of Explainable AI (XAI) technologies within the realm of GNNs. Amid the challenges posed by the …

A Complete Transfer Learning-Based Pipeline For Discriminating Between Select Pathogenic Yeasts From Microscopy Photographs, Ryan A. Parker, Danielle S. Hannagan, Jan H. Strydom, Christopher J. Boon, Jessica Fussell, Chelbie A. Mitchell, Katie L. Moerschel, Aura G. Valter-Franco, Christopher Cornelison

Faculty Articles

Pathogenic yeasts are an increasing concern in healthcare, with species like Candida auris often displaying drug resistance and causing high mortality in immunocompromised patients. The need for rapid and accessible diagnostic methods for accurate yeast identification is critical, especially in resource-limited settings. This study presents a convolutional neural network (CNN)-based approach for classifying pathogenic yeast species from microscopy images. Using transfer learning, we trained the model to identify six yeast species from simple micrographs, achieving high classification accuracy (93.91% at the patch level, 99.09% at the whole image level) and low misclassification rates across species, with the best performing model. …

Enhancing Product Image Classification: Utilizing Machine Learning Models For Retail Applications, Avery A. Thompson

Data Science Undergraduate Honors Theses

The expansion of e-commerce has continued at a blinding pace since the COVID-19 pandemic, and retailers are constantly looking for new ways to retain customers. Ensuring that diverse and well-classified images are on product pages has been a paramount method for retailers to ensure retention as they increase product engagement and sales and enhance user experience. Managing and labeling these vast catalogs of images by hand is becoming increasingly infeasible, so some online retailers have started to turn to automated classification models to assist them. Accuracy in these classification models is integral, as a good image classification model can improve …

Towards Advancing Streamflow And Peak Flow Prediction With Machine Learning: Identifying Infrastructure At Risk, Sudan Pokharel

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Due to climate change and its impact, the need for adaptive strategies for natural disaster mitigation and resource management has never been more urgent. Central to this is water resource management, which is essential for sustainable human activities, ecological balance, and the mitigation of natural hazards like floods. Streamflow is a crucial element of water resource management and plays a vital role in planning and building water infrastructure, implementing emergency response plans, supporting flood mitigation initiatives, and regulating agricultural and industrial use. However, accurate prediction of streamflow still remains a challenge due to the complex non-linear and non-stationary interaction between …