Digital Commons Network^™

Artificial Intelligence Methods For Circadian Rhythm Recovery And Disease Identification From High-Dimensional Omics Data, Aram Ansary Ogholbake

Theses and Dissertations--Computer Science

High-throughput transcriptomic and proteomic technologies have enabled opportunities for studying biological processes and disease mechanisms. However, extracting meaningful biological information from these high-dimensional datasets remains challenging due to limited sample sizes, biological heterogeneity, measurement noise, and the absence of biological annotations. In particular, many molecular datasets lack temporal information required for circadian analysis, making the study of circadian rhythms difficult. Moreover, disease diagnosis and biomarker discovery from transcriptomic data often rely on complex machine learning models whose predictions are difficult to interpret and may not generalize well across independent datasets and experimental platforms. These limitations motivate the development of artificial …

Ai For Life Sciences: From Geometric Protein Modeling To Multimodal Drug Design, Feng Jiang

Computer Science and Engineering Dissertations

Predicting biomolecular interactions, from immune recognition to drug–target binding, is a central problem in the life sciences and computational drug discovery. Deep learning has advanced this area, yet three challenges persist: the topology of large, highly imbalanced interaction networks; structural noise in computationally predicted protein models; and the integration of multimodal information such as functional text and taxonomic annotations. This dissertation develops a coherent set of models spanning immune complex prediction and small-molecule drug design: graph learning that addresses network topology and severe class imbalance; a noise-tolerant method that fuses predicted structures with evolutionary sequence features; and multimodal representation learning …

Operational Hallucination And Safety Drift In Ai Agents, Shasha Yu, Fiona Carroll, Barry L. Bentley

School of Professional Studies

Large language models (LLMs) serving as planners in tool-using autonomous agents introduce dynamic reliability risks in multi-turn execution. While single-turn safety mechanisms are relatively mature, extended interactions reveal structural vulnerabilities where initial alignment degrades over time. This paper empirically characterizes two observed failure modes across multiple state-of-the-art LLMs: Safety Drift, the gradual erosion of declared safety intent leading to constraint-violating actions (e.g., textual refusal followed by reconnaissance and unsafe execution), and Operational Hallucination, persistent repetitive tool calls indicative of flawed state perception (e.g., livelocks even in legitimate tasks). Through controlled multi-turn evaluation on high-stakes ethical dilemmas, malicious requests, and benign …

When Saying "No" Is Not Enough: Cognitive-Action Decoupling And The Illusion Of Safety In Llm Agents, Shasha Yu, Fiona Carroll, Barry L. Bentley

School of Professional Studies

Current safety evaluations of large language models (LLMs) predominantly rely on textual compliance, implicitly assuming that refusal-style responses correspond to safe behavior. This assumption becomes fragile when LLMs are embedded in agentic systems with the ability to execute state-changing actions. In this paper, we present an empirical critique of text-centric safety evaluation through an action-aware study of LLM agents under controlled conditions. Across multiple state-of-the-art models, we observe a recurring cognitive–action decoupling: agents generate policy-aligned refusal language while still producing unsafe tool-mediated action proposals. This produces an illusion of safety, where conversational audits indicate compliance even as operational risk persists. …

Big Tech As Transnational Spyware Regulator, Natalie R. Davidson

Fordham Intellectual Property, Media and Entertainment Law Journal

Spyware has emerged as a potent tool for leaders to shrink dem- ocratic contestation. In response to calls for constraints on the trade in spyware, states have updated the principal multilateral agree- ment on export controls, civil society groups have employed strate- gic litigation, and the European Union has altered its regulation, in each case with the aim of limiting exports where there is a risk of human rights violations. Yet, scandals involving the Israeli company NSO, among others, have made clear that even the updated regula- tory landscape is inadequate. Many actors are currently debating the reasons for existing …

Ransomware As Organization: A Comparative Analysis Of Corporate And Criminal Structures In Conti, George Urling

Theses, Dissertations and Capstones

Cybercriminal groups continue to pose major threats to global cybersecurity. One of the most common types of cybercriminal groups are, “Ransomware-as-a-Service (RaaS)" groups, who create and sell ransomware. While research is conducted into the development of ransomware, there is limited reporting on the organizational structure and habits of RaaS groups. In 2022, prominent RaaS group Conti had their chat logs leaked, with the logs ranging from 2020 to 2022. This study seeks to provide a deeper understanding of RaaS group structures by utilizing the Conti leaked logs as a case study. The study, entitled “Ransomware as Organization: A Comparative Analysis …

A Macrocognitive Design Taxonomy For Simulation-Based Training Systems: Bridging Cognitive Theory And Human-Computer Interaction, Jessica M. Johnson

Virginia Digital Maritime Center (VDMC) Faculty Publications

Simulation-based training systems are increasingly deployed to prepare learners for complex, safety-critical, and dynamic work environments. While advances in computing have enabled immersive and data-rich simulations, many systems remain optimized for procedural accuracy and surface-level task performance rather than the macrocognitive processes that underpin adaptive expertise. Macrocognition encompasses higher-order cognitive processes that are essential for performance transfer beyond controlled training conditions. When these processes are insufficiently supported, training systems risk fostering brittle strategies and negative training effects. This paper introduces a macrocognitive design taxonomy for simulation-based training systems derived from a large-scale meta-analysis examining the transfer of macrocognitive skills from …

Towards Multimodal Guideline-Aligned Agentic Systems, Wenliang Zhong

Computer Science and Engineering Dissertations - Archive

I present my work on building multimodal guideline-aligned agentic systems designed to enable AI agents to solve complex real-world tasks. My research addresses two critical perspectives: (1) Instruction-Aware Embedding Models for flexible and universal embedding tasks, and (2) Guideline-Driven LLM Agents that leverage domain-specific guidelines to perform expert-level tasks. These components address embedding and generation tasks, respectively, and lay the foundation for a hybrid agent capable of tackling challenging real-world applications.

From the embedding perspective, I first address the instruction-following capabilities of embedding models. While Large Language Models (LLMs) excel at instruction following, they are primarily designed for generation rather …

Computational Clinical Judgment: Predicting Risk With Large Language Models, Hannah Laqueur, Ryan W. Copus

Faculty Works

For seventy years, research has shown actuarial methods outperform clinical judgment. Yet actuarial approaches have limitations: they generally rely on structured data; cannot exploit rare case-specific details; have limited accuracy where outcome data are scarce or incomplete; and cannot offer case-level justifications. Large language models (LLMs) offer a different approach. Like actuarial methods, they aggregate information algorithmically, but like clinicians, they bring general knowledge and can provide case-level justifications. We prompted seven LLMs to assess rearrest risk from 113 parole hearing transcripts and compared their predictions to a machine learning model trained on 4,000 cases with 91 administrative variables. GPT-5 …

Do Algorithms Dream Of Electric Muses? Teaching Creative Writing In The Age Of Generative Ai, Anna Leahy

English Faculty Articles and Research

In Philip K. Dick’s novel Do Androids Dream of Electric Sheep? androids are given a psychological test to confirm they are not human before killing them. The story’s end suggests that humans will treat a seemingly harmless android as authentically as a human even when humans are aware the android is not human. Students use tools like ChatGPT, which function as autocomplete on steroids, to produce text using probabilistic relationships among words, and instructors can’t always tell the difference between average student writing and Gen AI text. In creative writing classes, instructors might use thinking for oneself as a central …

Ai In The Workplace: Understanding Role Ambiguity, Employee Motivation, And Learning Engagement, Sheena Leah Metzger

Theses, Dissertations and Capstones

The rapid integration of artificial intelligence (AI) into organizational processes has altered how work is performed and experienced by employees, yet empirical research examining the human implications of AI-driven change remains limited. This study examined the perceived impact of AI implementation on role ambiguity, employee motivation, and training engagement, and investigated the moderating role of perceived organizational support (POS). Grounded in Job Demands–Resources (JD-R) Theory and Organizational Support Theory (OST), the research examined how employees interpreted and responded to AI-related changes in their work environment.

The results offer valuable insights into a shifting perception of how employees experience technology in …

Multimodal Deep Learning For Biological Data Understanding, Saiyang Na

Computer Science and Engineering Dissertations

This dissertation presents three contributions to multimodal deep learning for biological data understanding, addressing the fundamental challenge of cross-modal alignment from two complementary perspectives: designing effective multimodal fusion methods for specific biomedical applications, and proposing a general framework for higher-order multimodal alignment that captures hierarchical structure in data.

First, we develop Cmai, a deep learning framework for B cell receptor (BCR) to antigen binding prediction that aligns BCR sequence information with antigen three-dimensional structures using contrastive learning. Cmai achieves an average AUROC of 0.907 across 17 antigens and 5 independent cohorts, and demonstrates clinical utility in predicting immune checkpoint inhibitor …

Evaluating Llms For Cpe Identification In Iot Reconnaissance, Christopher Davisson

EWU Masters Thesis Collection

Vulnerability identification during penetration testing relies on rigid string-matching to map network scan data to Common Platform Enumeration (CPE) identifiers and downstream Common Vulnerabilities and Exposures (CVEs). The approach frequently fails on physical Internet of Things (IoT) devices, which produce non-standard, irregular service banners that resist deterministic parsing. Large Language Models can reason through these fuzzy associations, but cloud-hosted models introduce cost, latency, and operational security concerns when processing reconnaissance data from live networks. This thesis asks whether locally-hosted open-weight Large Language Models (LLMs) can perform this task well enough to be useful, and how performance varies with model scale, …

Handwriting Recognition In Vr, Dominique Mosley

EWU Masters Thesis Collection

Virtual Reality (VR) is slowly becoming more popular for more than just entertainment. VR can be found in educational, office, and even healthcare settings to help discover more intuitive ways to teach, collaborate, and treat patients. Outside of the virtual world, these environments typically rely on writing for communicating or note-taking. Currently, VR input forces users to rely on clunky on-screen keyboards which disrupts the user’s immersion and breaks the flow of natural interaction. This thesis explores the potential of VR as a learning platform by combining it with artificial intelligence (AI). It aims to develop a VR-enhanced handwriting practicing …

Legal Ethics Of Ai Snake Oil: Navigating The Hype, Harm, And Hope Of Legal Ai, Drew Simshaw

Scholarly Works

This paper argues that the legal ethics of AI extend far beyond competence and hallucinations. It shows how AI often functions as a mirror, exposing deeper ethical questions about institutional incentives, lawyer wellbeing, access to justice, and AI's broader social and environmental impacts.

Advancing Food Equity Through Explainable Ai (Xai): Identifying Place-Based Factors And Conditions Of Food Security, Leslie Hoglund, Hyoshin Park

Health Behavior, Policy & Management Faculty Publications

Food behaviors, food security, and their association with socioeconomic factors constitute a critical area of study with implications for public health, economic stability, and social equity. Understanding these relationships are essential for developing effective policies and interventions that promote sustainable, healthy food systems and greater food equity. This paper employs explainable artificial intelligence (XAI) methods to identify key features influencing household food behaviors. The insights gained from the XAI analysis are further utilized in conjunction with inverse reinforcement learning (IRL) to examine expert behaviors related to eating habits satisfaction. The XAI results reveal that household health conditions, spending patterns, and …

Machine Learning: Thematic Feature Grouping, And The Magnificent Seven: A Forecasting Analysis, Mirarmia Jalali, Mohammad Najand, Andrew Cohen

Finance Faculty Publications

This study examines the predictability of monthly excess returns for the “Magnificent Seven” U.S. technology firms using machine learning and economically motivated thematic feature grouping. Framed as a focused study of the most systemically consequential equity panel in modern markets—seven firms representing over 30% of the S&P 500—the analysis confronts a small-N, large-P environment where economically structured dimensionality reduction is essential. Using 154 firm-level characteristics categorized into 13 economic themes, we evaluate linear, penalized, tree-based, and neural network models in a small-N, large-P setting. Unrestricted models suffer substantial overfitting and fail to outperform the historical average benchmark out-of-sample. In contrast, …

A Hybrid Response Surface Methodology And Machine Learning Framework For Quantifying Effects Of Physicochemical Parameters On Pfas Distribution, Harsh V. Patel, Jazmin Green, Hyoshin Park, Stephanie Luster-Teasley Pass, Renzun Zhao

Engineering Management & Systems Engineering Faculty Publications

Predicting PFAS adsorption across diverse adsorbents and environmental matrices remains challenging because adsorbent physicochemical properties, PFAS molecular descriptors, and operational conditions simultaneously influence adsorption. This study develops and evaluates a unified hybrid modeling framework that integrates Response Surface Model (RSM) with machine-learning algorithms to quantify how six key variables, surface area, Log K_ow, pH_pzc, pK_a, log dose, and log-initial concentration, affect PFAS distribution coefficients (Log K_d). A data set of more than 1000 adsorption observations spanning 15 PFAS compounds, multiple adsorbent types, and a broad operational range was compiled and preprocessed using …

Use Of Tezepelumab For Chronic Rhinosinusitis With Nasal Polyps By Eosinophilic Endotype: Waypoint Post-Hoc Analysis, Shigeharu Fujieda, Nobuyoshi Otori, Joseph K. Han, Tadataka Yabuta, Claudia Chen, Claudio Marchese, Andrews Foster, Sandhia S. Ponnarambil, Yun Chan, Brian J. Lipworth

Department of Otolaryngology (ENT) Faculty Publications

Background

The phase 3 WAYPOINT study (NCT04851964) reported that tezepelumab improved outcomes in patients with chronic rhinosinusitis with nasal polyps (CRSwNP), including nasal polyp size, nasal congestion, and sinonasal symptoms, and reduced the need for surgery and systemic corticosteroids (SCS).

Objective

To evaluate the efficacy and safety of tezepelumab across Japanese Epidemiological Survey of Refractory Eosinophilic Chronic Rhinosinusitis-defined eosinophilic chronic rhinosinusitis (ECRS) subgroups.

Methods

Adults with severe CRSwNP were randomized to tezepelumab 210 mg or placebo every 4 weeks. Coprimary end points were the change from baseline to week 52 in total Nasal Polyp Score and the biweekly mean Nasal …

Logistic-T Multinomial Mixture Model For Clustering For Microbiome Data, Wenshu Dai, Yuan Fang, Sanjeena Subedi

Mathematics & Statistics Faculty Publications

The logistic-normal multinomial distribution has been used for modelling microbiome data obtained from high-throughput sequencing technologies, which are compositional in nature. A logistic-normal multinomial distribution is a hierarchical multinomial distribution that assumes the latent variable which are the additive log-ratio (ALR) transformed proportions in a multinomial distribution follows a Gaussian distribution. Model-based clustering algorithms have also been developed for clustering microbiome data based on the logistic-normal models. However, the Gaussian assumption may violated when the ALR transformed variable exhibit heavy-tailed distributions or has outliers. Our study introduces a novel mixture of logistic-t multinomial models that effectively address these challenges. Utilizing …

Ai Deployment Authorisation: A Global Standard For Machine-Readable Governance Of High-Risk Artificial Intelligence, Daniel Djan Saparning

Student Publications

Modern artificial intelligence (AI) governance lacks a formal, enforceable mechanism for determining whether a given AI system is legally permitted to operate in a specific domain and jurisdiction. Existing approaches-such as model cards, audits, and benchmark evaluations provide descriptive information about model behaviour and training data but do not produce binding deployment decisions with legal or financial force. This paper introduces the AI Deployment Authorisation Score (ADAS). This machine-readable, regulator-grade framework evaluates AI systems across five legally and economically grounded dimensions: Risk, Alignment, Externality, Control, and Auditability, derived from safety engineering, alignment theory, algorithmic accountability, and liability economics. ADAS produces …

Detecting And Repairing Conflicting Constraints In Co-Trained Physics-Informed Neural Networks For Composite Curing Processes, Cooper J. Evans

Dissertations, Master's Theses and Master's Reports

Composite materials have become a critical component of modern manufacturing, especially in the automotive and aerospace industries. The curing process for these composites has been modeled using a variety of partial differential equations representing the heat transfer and composite curing kinetics. Optimizing the applied temperature profile is critical for maximizing the efficiency and capacity of composite part manufacturers. Constraints must be placed on the inputs and outputs of the model, including but not limited to, the applied temperature profile, part temperature, and final degree of cure. Conflicting sets of constraints are easy to unknowingly impose due to the highly coupled …

Systematic Approaches To Characterizing Vulnerabilities And Enhancing Robustness Of Text And Vision-Language Models, Poojitha Thota

Computer Science and Engineering Dissertations

The proliferation of artificial intelligence (AI) across critical domains, including news summarization, privacy-policy analysis, and medical decision support, has raised growing concerns about the security and robustness of these systems against adversarial manipulation. This dissertation investigates adversarial robustness in generative AI by addressing three key research goals: (1) characterizing adversarial vulnerabilities across generative models, (2) developing systematic defenses to improve the robustness of generative models, and (3) designing deployment-time safeguards for securing LLM interactions.

Towards the first goal, we characterize adversarial vulnerabilities across text-based and multimodal systems. In abstractive text summarization, we show that inference-time perturbations can exploit lead bias …

Experiments In Graph Structure And Knowledge Graph Embeddings, Antrea Christou, Cogan Shimizu

Computer Science and Engineering Faculty Publications

Knowledge graphs (KGs) are an established paradigm for integrating heterogeneous data and representing knowledge. As such, there are many different methodologies for producing KGs, which span notions of expressivity, and are tailored for different use-cases and domains. Now, as neurosymbolic methods rise in prominence, it is important to understand how the development of KGs according to these methodologies impact downstream tasks, such as link prediction using KG embeddings (KGEs). In this article, we examine how various perturbations of graph structures impact downstream tasks. These perturbations are sourced from how various methodologies (or design practices) would impact the model, starting with …

All Games Have Equilibria, Arthur Paul Pedersen, M. Ali Khan, Maxwell B. Stinchcombe

Publications and Research

Research on Nash equilibrium existence for infinite games has grown into a patchwork of technical preconditions and counterexamples. This paper presents a unified program in equilibrium theory by revising the predominant model of mixed strategies based on countable additivity. A game is specified by a nonempty set of players and, for each player, a nonempty action set and a bounded von Neumann-Morgenstern utility function. Every such game is shown to admit a Nash equilibrium in finitely additive mixed strategies. In addition, the equilibrium correspondence for any such game is shown to be nonempty, compact-valued, and upper hemicontinuous, and the same …

Operationalizing Cyber-Routine Activities Theory For Senior Cybercrime Prevention: An Evaluation Of The Shield Training-The-Trainer Program, Kyung-Shick Choi, Insun Park, Mijin Kim, Ji Yae Bong

International Journal of Cybersecurity Intelligence & Cybercrime

Older adults face growing risks of cyber-enabled fraud, yet scalable, evidence-based prevention programs remain limited. Guided by Cyber-Routine Activities Theory (Cyber-RAT), this study evaluates the pilot implementation of the Seniors Harnessing Internet Education for Lasting Defense (SHIELD) Training-the-Trainer program, designed to prepare law enforcement officers and community leaders to deliver cybercrime prevention education to older adults. A key innovation of SHIELD is its integration of interactive game-based simulations, which allow participants to practice verification, refusal, and reporting behaviors in realistic cybercrime scenarios. Following the December 2025 pilot session in Boston, semi-structured interviews were conducted with 12 participants from law enforcement, …

From Authorization To Loss: A Blockchain Forensic Analysis Of Transaction-Level Mechanisms In Cryptocurrency Airdrop Scams, Chanwoo Shin, Kyung-Shick Choi

International Journal of Cybersecurity Intelligence & Cybercrime

Cryptocurrency airdrop scams have emerged as a rapidly growing form of cyber-enabled financial crime, yet remain underexplored in empirical research. This study examines how transaction-level mechanisms and offender strategies influence variation in monetary loss in airdrop scam incidents. Grounded in Cyber-Routine Activities Theory (Cyber-RAT), the study conceptualizes financial harm as occurring within decentralized environments where users’ online behaviors, particularly transaction authorization, intersect with limited digital capable guardianship. Data were drawn from 112 validated airdrop scam cases reported on Chainabuse.com between January and December 2025. Blockchain forensic analysis using Breadcrumbs was conducted to reconstruct transaction pathways, identify exchange interactions, and detect …

Leading The Change: Staff-Driven Ai Transformation In Smu Libraries’ Collection Team, Siew Khim Lim, Fion Goh

Research Collection Library

Why do libraries need to use AI? It is crucial for Libraries to stay relevant in this digital age by improving efficiency, access, and user experience. By adopting AI, libraries can better manage growing digital collections, provide innovative services, and ensuring they remain essential as hubs for knowledge and learning in an AIdriven world.

Shaping The Future: Emerging Technologies And Their Role In Industry 4.0 And Beyond, Liuliu Qin

Information Technology & Decision Sciences Faculty Publications

This paper provides a comprehensive review of emerging technologies driving the transition from Industry 4.0 to Industry 5.0. It examines the foundational concepts and pillars of Industry 4.0 and explores the transformative roles of Artificial Intelligence (AI), Extended Reality (XR), Collaborative Cobots (Cobots), Brain–Computer Interfaces (BCIs), quantum technologies, and next-generation connectivity (5G/6G). By integrating technological, human-centric, and sustainability perspectives, the study outlines how these emerging technologies reshape industrial systems and enable intelligent, adaptive, and inclusive futures.

Beyond Fixed Thresholds: Per-Label Calibration For Fine-Grained Emotion Detection On The Goemotions Dataset, Sai Puneet Naga Venkata Subramanyam Patchipulusu

Selected Full-Text Master Theses 2021-

This study investigates the effectiveness of five community fine-tuned transformer models for fine-grained emotion detection on the GoEmotions dataset: SamLowe/roberta- base-go_emotions (RoBERTa-base), cirimus/modernbert-base-go-emotions (ModernBERT), mrm8488/deberta-v3-base-goemotions (DeBERTa-v3-base), bhadresh-savani/bert-base-go- emotion (BERT-base-cased),and tasinhoque/distilbert-go-emotions (DistilBERT) . While the original GoEmotions research by Demszky et al. (2020) established a BERT-base baseline with a macro-F1 of 0.46, this thesis extends that work through independent empirical evaluation of five derivative models, systematic per-label threshold optimization, and comparative analysis of architectural trade-offs across the full transformer model family. Using the GoEmotions simplified test split (5,427 examples across 28 categories), all five models were evaluated at a fixed 0.5 …