Digital Commons Network^™

Machine Learning Classification Of Prostate Cancer Genomic Sequences Using K-Mer And Sequence-Derived Features, Kuldeep Rawat, Hirendra Nath Banerjee, Jamie Noble, Saa Naudia Deloatch, Satyendra Banerjee, Sachin Shetty, Soumya Banerjee

VMASC Publications

Prostate cancer disproportionately impacts African American men, who experience significantly higher mortality rates and earlier disease onset than other populations. Current diagnostic approaches, including prostate-specific antigen testing and biopsy, lack sufficient specificity and sensitivity, underscoring the need for accurate, molecular-level classification tools. This paper presents a machine learning framework for binary classification of genomic DNA sequences as cancerous or healthy. A dataset of 1684 FASTA-formatted sequences obtained from the National Library of Medicine - GenBank was analyzed, with 1662 sequences retained after quality control filtering. Feature engineering yielded 67 attributes, including GC content, Shannon entropy, sequence length, and trinucleotide k-mer …

Dyno : Dynamic Neurosymbolic Orchestrator For Multi-Agent Systems, Ritvik Garimella, Chathurangi Shyalika, Renjith Prasad, Amit Sheth

Publications

Large Language Model (LLM)-based multi-agent systems (LaMAS) represent an emerging paradigm for tackling complex, multi-step reasoning and decision-making problems. As these systems scale, orchestration, which is the ability to coordinate, manage, and evaluate the interactions among diverse agents, becomes central to their success. While recent orchestrators such as AgentFlow have demonstrated promise in managing communication and task delegation, they remain limited in their ability to understand task semantics, coordinate heterogeneous agent types (e.g., reactive vs. cognitive), and adaptively align outputs with human-defined goals. In this position paper, we introduce the DYNO (Dynamic Neurosymbolic Orchestrator), a system developed as part of …

Using Nmr Spectroscopy And Linear Discriminant Analysis To Molecular Profile Varietal Honey, Taylor Mac

Master's Theses and Doctoral Dissertations

In recent years, varietal honey has been a massive target of adulteration through mislabeling and the addition of other sugars. Unethical companies do this to cut production costs while still charging the consumer full price. Previous studies have used nuclear magnetic resonance (NMR) to unravel possible adulteration in honey, but currently, there are no standard rapid methods to authenticate varietal honey. In our research, we collected NMR signatures (“fingerprints”) and combined them with linear discriminant analysis (LDA) to predict the varietal, country, and region of varietal honey. As a part of the project, we investigated whether an adjustment to the …

Time Series Decomposition And Forecasting Of Alzheimer’S Disease Mortality Using A Kolmogorov-Zurbenko Filter, Jack D. Farrell

Electronic Theses & Dissertations (2024 - present)

Alzheimer’s disease mortality has substantially risen in recent history, placing a significant burden on public health infrastructure and highlighting the need for improved analytical methods to better understand mortality data patterns and offer reliable predictions. Time series methods often struggle to balance both accuracy and interpretability, which hinders the ability to gather meaningful insights from time series data. To address these limitations, this study applies the Kolmogorov-Zurbenko (KZ) filter to monthly U.S. Alzheimer’s mortality data spanning from 1999 to 2023 and decomposes the series into long-term trend, seasonal, and noise components on a logarithmic scale. Long-term trend accounts for 86.49% …

Solving High-Dimensional Differential Equations Using Recurrent And Residual Neural Network Architectures, Hind Khaled Kolaib

Knowledge Engineering and Data Science

High-dimensional Partial Differential Equations (PDEs) form the foundation of complex process modeling in various scientific and engineering applications, including finance, physics, and optimal control. However, classical numerical methods are adversely affected by the curse of dimensionality, making them inapplicable for large-scale problems. Recently, however, deep learning-based approaches have provided a new toolbox for these high-dimensional PDEs, including methods such as the Deep Backward Stochastic Differential Equation (Deep BSDE) method. Our approach draws on a more sophisticated deep learning backbone, using neural networks (in our case, a Residual Neural Network and a Long Short-Term Memory network (LSTM) integrated into the Deep …

Innovative Methods In Intact Rock Deformation Detection, Ali Abdullah M Alzahrani

Doctoral Dissertations

"An accurate assessment of intact rock deformation is imperative in engineering activities carried out either in or above rock masses. However, instruments used for post-peak deformation are easily debonded and cannot record the whole process of post-peak deformation required in the failure modeling of rocks. This dissertation focuses on the investigation of the performance of two non-contact measuring systems (Laser Displacement Sensor (LDS) and Inductive Proximity Sensor (IPS)) compared to the contact type instrument (conventional Strain Gauge System (SGS)) in monitoring intact rock deformations. Subsequently, an IPS was installed in a high-pressure triaxial testing system before investigating its performance in …

The Spacetime Finite Element Method For Investigations Into Physics Ghost Systems And Time Parallel Preconditioning, Jax Wysong

Electronic Theses and Dissertations

This work operates on two fronts, focusing on interesting physical phenomena before turning our attention to an interesting numerical math problem. First, using the spacetime finite element method (FEM), we investigate a PDE system consisting of two Klein Gordon equations, which are coupled nonlinearly through the potential energy. The system contains a ghost (negative kinetic energy term). Systems such as these are generally deemed physically unstable, resulting in infinite energy in finite time. However, recent work has shown that this is not always the case. We investigate multiple scenarios arising from different initial conditions to characterize if/when a ghost system …

To Print A Remake: An Analysis Of Hollywood Remakes And Their Cultural Value, Connor F. Seaton

Honors Undergraduate Theses

In recent years, audiences and movie critics have expressed concern that Hollywood’s growing reliance on remakes, sequels, franchises, and similar adaptations has led to a broader worry that originality is fading from modern cinema and that the industry is instead focused on using adaptations to maximize profits. Although adaptation is often seen as a commercially driven framework for reproducing existing intellectual property in a new media format, this thesis argues that it should be recognized as an autonomous cultural category with its own artistic, historical, and social significance and merit. By analyzing adaptation scholarship and reviewing its complex historical development, …

A Comparative Evaluation Of Data Imbalance Handling Techniques In Machine Learning Models For One-Year Mortality Prediction In Liver Cirrhosis, Sumiya Hasan Trisha

UNF Graduate Theses and Dissertations

Liver cirrhosis is associated with substantial morbidity and mortality, making one-year mortality prediction a clinically relevant problem. Using a liver cirrhosis dataset as the motivating application, this thesis evaluates five machine learning classifiers—Logistic Regression, Random Forest, XGBoost, LightGBM, and CatBoost—under five class-imbalance handling strategies: Baseline learning, Random Oversampling, SMOTE-NC, ADASYN, and Cost-Sensitive Learning. Hyperparameter tuning was conducted using randomized search, and predictive performance was assessed over 200 iterations of Monte Carlo Cross-Validation using Accuracy, Precision, Recall, Fl-score, and ROC-AUC.

The results suggest that imbalance-handling strategies can materially affect predictive performance, particularly recall. Because the outcome of interest is death within …

Variance Shrinkage In Dunnett-Type Multiple Comparisons With Missing Data, Md Habibullah

UNF Graduate Theses and Dissertations

Dunnett’s procedure is widely used for comparing multiple treatments with a control, but its application becomes challenging in the presence of missing data and multiple com- parisons. An improved Dunnett-type procedure addresses this by using multiple imputation under Rubin’s framework and constructing unified confidence intervals based on a multi- variate t distribution, allowing valid simultaneous inference while controlling the family-wise error rate (FWER). This work further extends the method by incorporating shrinkage-based variance estimation. Specifically, individual group variances are shrunk toward a common value to improve stability. This approach is particularly effective when group variances are similar or moderately different, …

Ridit-Based Adaptive Allocation In Two-Stage Clinical Trials With Binary Outcomes, Dewan Fahim

UNF Graduate Theses and Dissertations

This study explores better ways to assign patients to treatments in clinical trials with binary outcomes, such as success or failure. Adaptive methods are used to learn from early results and adjust treatment assignments during the trial, helping more patients receive better performing treatments while maintaining reliable conclusions. We focus on trials comparing multiple treatments using a two-stage design. In the first stage, several treatments are tested to identify the most promising one; in the second stage, that treatment is compared with a control. Unlike traditional equal assignment, we use adaptive allocation in the second stage to make better use …

A Comparative Study Of Classification Methods For Healthcare Analytics, Xueting Zhao

UNF Graduate Theses and Dissertations

This thesis presents a comparative study of logistic regression, Linear Discriminant Analy- sis (LDA), and Quadratic Discriminant Analysis (QDA) for binary classification in healthcare analytics, integrating theoretical derivation, simulation, and real-data application. A facto- rial simulation study crosses the covariance structure (equal vs. unequal), predictor correla- tion (ρ ∈ {0, 0.5, 0.9}), dimensionality (p ∈ {2, 5, 10}) and sample size (n ∈ {50, 100, 200}) across 54 scenarios with 1,000 Monte Carlo replicates each. Three main findings emerge. Logistic regression and LDA are nearly interchangeable when the assumption of equal-covariance holds. QDA achieves substantially better discrimi- nation when class-specific …

Two-Stage Response-Adaptive Randomization Designs For Multi-Arm Trials With Normal Outcome, Tanjin Tamanna Happy

UNF Graduate Theses and Dissertations

This study focuses on improving how clinical trials compare new treatments with a standard treatment, when the response is quantitative (normally distributed). In a common two-stage design, several new treatments are first evaluated, and the best-performing one is selected if it appears better than the standard. In the second stage, this selected treatment is compared again with the standard using additional data to confirm its effectiveness. This approach is known to be efficient in terms of accuracy and sample size savings. We extend this design by introducing an adaptive method for assigning patients to treatments in the second stage. Instead …

A Stability Analysis Of The Phase-Lock Equations, Brian M. Sunguza

UNF Graduate Theses and Dissertations

Ginzburg and Landau have provided a set of equations that relate superconductivity to magnetic fields. Through a transformation process, Zhan has derived what are now called the phase-lock equations. A stability analysis of the spatially-independent phase-lock equations is the purpose of this presentation. This simplification is significant since it allowed for the analytical determination of equilibria, their stability, and the influence of a periodic forcing function. Through the use of an original code, numerical simulations are shown to corroborate the analytical results described above.

This analysis includes novel Lyapunov functions that allowed for the analytical determination of the instability region. …

Energy-Efficient Security For Narrowband Iot Using Blockchain And Ep-Cumac, Hafizullah Kakar

UNF Graduate Theses and Dissertations

The Narrowband Internet of Things (NB-IoT) continues to expand but faces challenges such as cryptographic overhead and energy consumption. Security frameworks such as blockchain and Energy-Performance Cumulative Message Authentication Codes (EP-CuMAC) rely heavily on SHA-256, which is not optimized for energy-limited devices.

This work unifies two complementary approaches, a hybrid blockchain-based NB-IoT framework and an EP-CuMAC-based framework, by engineering their cryptographic core with an Energy Complexity Model-optimized SHA-256 (ECM-SHA256). ECM applies parallel memory-bank mapping and block-level access optimization to reduce redundant power usage while preserving algorithmic integrity.

Experimental evaluation on identical Intel DDR3 systems using pyRAPL shows energy savings of …

Growth And Dielectric Characterization Of Epitaxial Sr1-Xmgxtio3 Thin Films, Richard Badu

UNF Graduate Theses and Dissertations

Complex oxide materials with ferroelectric ground states remain promising candi dates for next-generation high-capacitance and nonlinear microelectronic applica tions. One of those materials is SrTiO3 (STO). However, STO is an incipient fer roelectric with anomalously high dielectric permittivity at low temperatures. STO crystals possess a highly polarizable lattice that is sensitive to even small amounts of impurities. Substituting Mg into the STO matrix is predicted to induce a corre lation between ferroelectric and relaxor behavior. In this thesis, we demonstrated the growth of a series of epitaxial STO and Sr1-xMgxTiO3 thin films using molec ular beam epitaxy. The surface evolution …

Watch Your Step, Mind The Crowd: Socially Compliant Navigation In Unstructured Environments, Jack Vice

Graduate Studies Theses and Dissertations 2026

Autonomous mobile robots increasingly operate in complex real-world environments characterized by uneven terrain, dynamic obstacles, and human presence. This dissertation addresses the fundamental challenge of developing adaptive navigation strategies that enable robots to safely and effectively traverse unstructured outdoor environments including construction sites, agricultural fields, and disaster areas while maintaining social compliance around people. We advance this capability through five complementary contributions that collectively target dynamic, unstructured, human-occupied environments. First, we demonstrate evolutionary optimization of legged mobility for uneven terrain. Second, we propose using a spatiotemporal autoencoder to learn the temporal dynamics of moving people and objects. Third, we introduce …

Using Inferences From Natural Language Narratives To Improve Video Question Answering, Hoang Bao Truong

Graduate Studies Theses and Dissertations 2026

The purpose of this thesis is to examine how structured narrative representation and reasoning strategies jointly affect the performance of Video Question Answering (VideoQA). Although recent advances in large multimodal and language models have improved video description and retrieval, causal and counterfactual reasoning remain challenging. This thesis studies an inference-only pipeline in which videos are converted into natural-language narratives, and those narratives may optionally be transformed into a structured NarrativeML format before multiple-choice questions are answered without task-specific fine-tuning. NarrativeML is a machine-readable narrative representation that explicitly encodes entities, events, and their causal and temporal relations. Three representational contexts are …

Learning Weibull Loss Severity Models From Truncated And Censored Data, Majed Alkhasha

Graduate Studies Theses and Dissertations 2026

In modern actuarial science and risk management, due to various loss control mechanisms, observed severity losses are typically left-truncated at the deductible, right-censored at the policy limit, and scaled by a pre-specified co-insurance factor. This results in two types of actuarial payment random variables: payment-per-payment (PPP) and payment-per-loss (PPL). To learn ground-up Weibull loss severity models from PPP and PPL sample data, we implement two estimation techniques: Maximum Likelihood Estimation (MLE) and the dynamic Method of Trimmed Moments (MTM). MLE is employed to obtain efficient estimates of the Weibull shape and scale parameters. However, MLE may assign unnecessarily large point …

A Systematic Review And Characterization Of Privacy Noncompliance In Real-World Applications, Alexander E. Charkiewicz

Graduate Studies Theses and Dissertations 2026

Software applications increasingly rely on user data to provide their functionality, but improper handling of such data can lead to serious privacy noncompliance with applicable regulations and policies. A prominent example is the Facebook–Cambridge Analytica scandal, in which a third-party application collected the personal data of approximately 87 million Facebook users without users' consent. Despite growing attention to privacy compliance, two key challenges hinder the systematic understanding and analysis of privacy noncompliance. First, unlike security vulnerabilities, which have been systematically categorized through taxonomies such as the Common Weakness Enumeration (CWE), privacy noncompliance lacks a technical taxonomy describing how it manifests …

Design, Fabrication Modeling, And Optical Metrology Of Mwir Silicon Metalenses, Weiyu Chen

Graduate Studies Theses and Dissertations 2026

Mid-wave infrared (MWIR) optical systems require compact, broadband, manufacturable components whose performance can be predicted and measured reliably. Silicon metalenses are attractive because silicon combines high refractive index, MWIR transparency, and semiconductor-compatible fabrication. This dissertation develops a scale-bridging design–fabrication-modeling–metrology framework for MWIR silicon metalenses.

A shared full-aperture framework connects meta-atom libraries, physical layout generation, angular-spectrum propagation, point-spread-function calculation, and focal-plane energy metrics. Building on this foundation, the Dispersive Sweatt Model (DSM) incorporates meta-atom dispersion into conventional ray-tracing software, enabling broadband co-optimization of metasurfaces and refractive elements. A process-aware design framework then incorporates scanning electron microscopy (SEM)-measured height–radius relationships produced by …

An Empirical Comparison Of K-Nearest-Neighbors And Logistic Regression Classification Models, Jackson Cushing

Graduate Studies Theses and Dissertations 2026

This thesis presents an empirical comparison of two classification methods: Logistic Regression and K Nearest Neighbors (KNN). The primary objective of this research is to evaluate the strengths and limitations of each method when applied to real-world datasets. Several publicly available datasets on diabetes, breast cancer, heart attack risk, and cardiovascular disease, were analyzed. For each dataset, K Nearest Neighbors models were implemented in the same way logistic regression had already been applied. The results demonstrate that while logistic regression offers interpretable parameter estimates and performs well when the underlying predictor and outcome relationship is approximately linear, however KNN can …

Integrated Optical Probes For Confocal Scanning Imaging And Adjustable Coherent-Gated Dynamic Sensing, Yonglin Huang

Graduate Studies Theses and Dissertations 2026

Optics and photonics have been one of the most important sciences and technologies that impact modern human life in a big way. For example, fiber-optics for communications and artificial intelligence. Optical probes are critical components for optical imaging and optical sensing technologies that have been actively researched and developed in the past decades. Advanced fiber-optic sensor probes with smaller size, better performance, lower noise, higher photon efficiency, rapid sensing time, and lower cost are needed in many applications, such as nanoscale material science, chemistry, and biomedical fields, etc.  In this project, new fiber-optic sensor probe technologies and integrated micro-optic devices …

Visual Cues Of Human-Likeness, Not Salience, Impact Trust-Related Human-Computer Interaction, Jordan Schotz

Graduate Studies Theses and Dissertations 2026

As interactions with digital agents become increasingly integrated into daily life, understanding how visual representations influence social decision-making is critical. Previous research in human-computer interaction has frequently confounded the psychological effects of an agent's perceived human-likeness with the underlying visual salience of the stimuli. To address these persistent gaps, the present study systematically isolated the effects of human-likeness and visual cue trustworthiness on trust behavior while controlling for objective image properties. The present study expanded on and normed the Virtual Avatar Facial Stimuli Set (VAFSS), a comprehensive database comprising hundreds of identity-matched photographs and computer-generated avatars varying across a spectrum …

Volumetric Fluorescence Microscopy For High-Throughput And High-Sensitivity Imaging: From Single Molecules To Tissues, Le-Mei Wang

Graduate Studies Theses and Dissertations 2026

Fluorescence microscopy is an indispensable tool in the biological sciences, enabling researchers to investigate intricate subcellular structures, particularly for volumetric studies. However, conventional optical microscopy for volumetric imaging remains fundamentally constrained by imaging speed and throughput. To bypass traditional serial z-scanning, we introduce an axially scan-free method using a phase layer cake to modulate the system's point spread function. This approach projects volumetric information onto a 2D plane in a single shot, offering high flexibility in tuning axial depth alongside simultaneous multicolor imaging with high spatial resolution and sensitivity. This dissertation divides these technical advancements into cellular and tissue imaging …

Deceptive Design And Disability: How Dark Patterns Affect Users With Visual Impairments, Konstantin Metz

Graduate Studies Theses and Dissertations 2026

Dark patterns are deceptive interface designs that steer users toward unintended actions, often at financial or privacy cost. This thesis examines how those that are vision impaired are at greater risk of these dark patterns given their visual acuity deficit. We conducted semi structured interviews with nine participants across common contexts including e-commerce checkout, subscription and cancellation flows, software download pages, and mobile permission prompts. The data show recurring exposure to dark patterns such as hidden or de-emphasized fees, pre-selected add-ons, deceptive advertising and fake download buttons along with unequal consent paths, repeated permission nagging, and cancellation friction. Participants reported …

A Theoretical Study Of Molecular Photoionization: Applications To Molecules Of Astrophysical And Atmospheric Interest, Conner Penson

Graduate Studies Theses and Dissertations 2026

This thesis is devoted to the development of the model for total molecular photoionization spectra which is general to diatomic molecules and the application of this model to two benchmark systems, CH and N2, for verification. This model combines multi-channel quantum defect theory, first-principles ab initio molecular calculations, and vibrational frame transformation to accurately model molecular photoionization and electron impact including vibrational dynamics. The scattering data and transition dipole moments for the molecular systems were calculated using R-matrix method through the UKRMol+ codes. A vibrational frame transformation is then performed and multi-channel quantum defect theory is used to calculate closed …

Exploring New Poly-Anion Based Materials For Lithium – Ion Battery Cathodes, Sutapa Bhattacharya

Doctoral Dissertations

The escalating global demand for sustainable energy storage solutions has driven intensive research into novel electrode materials. Polyanion-based cathode materials have emerged as promising candidates due to their structural stability, safety, and voltage tunability enabled by the inductive effect of polyanionic groups. This research explores the synthesis, crystal structure, and electrochemical performance of new polyanion-based cathode materials featuring vanadium, molybdenum, and iron within phosphate and selenite frameworks.

Novel selenite-based materials, such as LiFe(SeO₃)₂ and Li₀.₂₅V₂O₃(SeO₃)₂, were synthesized and characterized, revealing stable electrochemical cycling associated with Fe2+/Fe3+ and V⁴⁺/V⁵⁺ transitions. Additionally, a systematic investigation was conducted on molybdenum phosphate compounds, including …

Fully Differential Studies On Dissociative Capture In P + D2 Collisions And On Ionization In P + He Collisions, Shruti Majumdar

Doctoral Dissertations

Advancing our understanding of few-body dynamics in simple atomic systems is a fundamental objective in atomic scattering research. The underlying problem is that the Schrödinger equation is not analytically solvable for more than two mutually interacting particles. This involves a comprehensive exploration of various channels, such as ionization, capture, and excitation. A common theoretical approach to describe ion-atom collisions is based on perturbation theory, where the scattering amplitude is expanded in powers of the interaction potential. Here, understanding the few-body problem means accurately describing the relative importance of the higher- vs the first order terms.

In the case of ionization, …

Laws Of Mechanics And Stationary Black Holes, Asma Iqbal

Master of Science in Mathematics

The aim of this thesis is to study laws of mechanics of Black Holes in the context of General Relativity. Important tools of General Relativity have been covered including concept of curvature and causal structure of spacetime. It then explore some characteristics of Schwarzschild and Kerr Black Holes and derived global quantities of them. These global quantities which are defined on Event Horizon of Black Hole makes analogy with the thermodynamics of physics. It then presents the Black Hole analogue of the zeroth, first, second and third laws of classical mecanics in General Relativity.