Digital Commons Network^™

Making Molecular Movies: Using Single-Molecule Techniques To Unveil Hidden Features Of Protein-Chromatin Interactions, Gabriella N. L. Chua

Student Theses and Dissertations

Beyond the genetic code embedded within a sequence of DNA, the physical features of the double helix as a semi-flexible polymer is a critical dimension that regulates the function of every DNA-binding protein that exists. These proteins can assemble, translocate, and change conformation while bound to DNA and can even alter its physical state, which are often crucial to their physiological roles in the cell. Eukaryotic genomic DNA is also packaged into units called nucleosomes, which offer another layer of physical regulation for proteins operating on chromatin. Previously, tracking these protein behaviors on DNA and chromatin had been technically challenging, …

The Spatiotemporal Dynamics Of Nomadic Behavior In The Clonal Raider Ant, Ooceraea Biroi, Dennis Octavio Melendez

Student Theses and Dissertations

Nest relocation is integral to the lives of many social insects. Army ants have taken this behavior to the extreme, with many species relocating an entire colony of over 100,000 ants plus brood almost daily. Despite its prevalence, the question of how army ant colonies emigrate has been debated for many decades, and still awaits a definitive answer because conducting well-controlled field experiments with their massive and aggressive colonies is challenging. In ants, the Dorylinae subfamily has given rise to most known army ants. Therefore, performing experiments in non-army ant dorylines that can be maintained in a laboratory setting presents …

Serotonin-Mediated Sickness Behavior, Audrey Harnagel

Student Theses and Dissertations

Serotonin is an ancient and powerful neuromodulator that regulates diverse processes from fundamental physiology to complex emotions. Due to the many functions of serotonin distributed throughout the body and brain, governing principles of serotonin signaling have remained elusive. There is particular interest in how serotonin modulates internal states given that serotonin dysregulation is a feature of many psychiatric diseases. In this thesis, I use the simplified serotonergic system of C. elegans to explore how serotonin governs the internal state of sickness. In addition to activating the immune system and remodeling physiology, pathogenic infection results in adaptive behavioral changes that promote …

Towards Models Mesoscale Chromatin Structure And Radiative Dna Damage Via Computational Simulation, Devany Walsh West

Student Theses and Dissertations

The spatial organization of chromatin fiber at the level of several nucleosomes–the mesoscale–is an area of active study. Recent results have shown that it differs between functional states, affects higher orders of chromosome organization, and is likely involved in transcriptional control. However, the heterogeneity of nucleosome positioning and histone variant composition in cells as well as the high density of chromatin in situ make the mesoscale difficult to study. Recent methodological advances have made it possible to derive nucleosome-resolution three-dimensional contact information directly from cells. We therefore sought to develop a structural inference tool for inferring mesoscale chromatin structures consistent …

Gpcr To Channel Communication In A Membrane Signaling Pathway, Yuxi Zhang

Student Theses and Dissertations

G-protein-coupled receptors (GPCRs) regulate a variety of downstream effector proteins, making them essential for many physiological processes. For example, in the heart, the activation of beta-adrenergic receptors (βARs) and the stimulatory G protein (Gαs) leads to the opening of downstream hyperpolarization-activated cyclic nucleotide–gated (HCN) channels, resulting in an accelerated heart rate. In contrast, activation of M2 muscarinic receptors (M2Rs) and the inhibitory G protein (Gαi) opens G protein-gated inward rectifier K⁺ (GIRK) channels, slowing the heart rate. In addition to the Gαs and Gαi pathways, there is also the Gαq signaling pathway. In this pathway, activation of Gq-coupled GPCRs can …

Recovering From Dormancy: Fixation Of Csm6-Inducing Spacers In The Bacterial Population, Amanda K. Shilton

Student Theses and Dissertations

Organisms from every kingdom of life constantly need to contend with their parasites to survive and reproduce. Bacteriophages (phages) are the viruses that infect bacteria and often outnumber them in most ecological niches. As a result, prokaryotes have evolved a myriad of defense systems to restrict the propagation of phages as well as other parasitic mobile genetic elements such as plasmids. Genetic loci known as Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and their associated cas genes serve as one such defense system in both bacteria and archaea. A hallmark of CRISPR immunity is its adaptive nature in which memories …

A Neuronal Circuit Motif For Leaky Vector Integration, Abby Janke

Student Theses and Dissertations

To efficiently navigate their environments, animals ranging from insects to humans can keep track of their trajectory by continuously summing their direction and distance traveled over time. It is not clear how brains perform this fundamental computation––known as path integration––even though neural correlates and computer models abound. In arthropods, spatial-cognition related processes such as path integration are thought to be implemented in the central complex. Experimenters have shown that contiguously arrayed populations of neurons in the Drosophila fan-shaped body, a substructure of the central complex, display sinusoidally shaped bumps of calcium activity that signal vectors relevant for spatial navigation. The …

Benchmarking Reinforcement Learning And Off Policy Evaluation For Medical Decision Making, Mason Hargrave

Student Theses and Dissertations

Healthcare applications pose significant challenges to existing Reinforcement Learning (RL) methods due to implementation risks, low data availability, short treatment episodes, sparse re[1]wards, partial observations, and heterogeneous treatment effects (HTE). Despite significant interest in developing Dynamic Treatment Regimes (DTRs) for longitudinal patient care scenarios, no standardized benchmark has yet been developed. To address this gap, this thesis introduces Episodes of Care (EpiCare), a benchmark designed to mimic the challenges associated with applying RL to longitudinal healthcare settings. I leverage this benchmark to test seven state-of-the-art offline RL models as well as five common off-policy evaluation (OPE) techniques. My results suggest …

Replicative Senescence Is Atm-Driven, Reversible, And Delayed By Reduced Atm Activity At Low Oxygen, Alexander James Stuart

Student Theses and Dissertations

Somatic human cells have a limited proliferative capacity, dividing a certain number of times before entering a predictable proliferative arrest. Telomeres become shorter with every division until a few become 'critically-short' and activate the DNA Damage Response (DDR), thereby inducing this replicative senescence. However, the nature of the activated DDR is unclear. ATM kinase activation at critically short telomeres has been implicated in the induction of senescence, suggesting that the shortest telomeres lack su]icient TRF2 to repress ATM signaling. However, ATM-deficient cells also undergo replicative senescence, raising the question of POT1 deficiency and subsequent ATR signaling. Moreover, low oxygen culture …

Mechanisms And Evolution Of Mitoribosomal Small Subunit Biogenesis, Nathan Harper

Student Theses and Dissertations

The ribosome is the macromolecular machine responsible for all protein synthesis in the cell and is one of the ancient molecular machines involved in the transfer of genetic information to functional molecules. The ribosome is made up of two conserved ribonucleoprotein complexes: the large subunit, responsible for peptide bond synthesis, and the small subunit, responsible for interrogating the match between mRNA codon and tRNA anti-codon. The assembly of the ribosome is a complex process which is tightly controlled to generate functional subunits which exhibit high translational accuracy and processivity. During ribosome biogenesis, ribosomal proteins and a multitude of additional assembly …

Neuromast Optogenetics Reveals Rules Of Spatial Encoding In The Zebrafish Lateral Line, Nicolas Velez-Angel

Student Theses and Dissertations

For animals to respond effectively to their environment, their sensory circuits must learn to distinguish between similar patterns of sensory information. A lingering question in neuroscience is how neuronal circuits achieve this performance. In this study, I use the posterior lateral line (pLL) of larval zebrafish to address this question. In the wild, the pLL must differentiate among a variety of hydrodynamic stimuli. However, understanding how fish distinguish between different water-flow stimuli has been challenging due to difficulties in stimulating individual neuromasts. To tackle this, I introduce a novel method in this thesis that combines single-neuromast optogenetics with whole-brain calcium …

Decoding Dynamic Gene Regulation In Hair Cell Development And Regeneration, Caleb C. Reagor

Student Theses and Dissertations

Identifying the causal interactions between genes and their proteins during the differentiation of specialized cells such as mechanosensory hair cells in vertebrates' inner ears and fishes' lateral lines requires an accurate description of the time-lagged relationships between transcription factors and their target genes. Here I describe Depicting Lagged Causality (DELAY), a convolutional neural network for the inference of gene-regulatory relationships across pseudotime-ordered single-cell trajectories. I first show that combining supervised deep learning with joint probability matrices of pseudotime-lagged trajectories allows the neural network to overcome important limitations of ordinary Granger causality-based methods, for example, the inability to infer cyclic …

Molecular And Metabolic Regulation Of Gastrointestinal Cancer Metastasis, Norihiro Yamaguchi

Student Theses and Dissertations

Most of the cancer related mortality caused by metastatic disease rather than primary tumor growth. More than 80% of gastrointestinal cancers initially metastasize to the liver first. While the prognosis of early-stage cancers is improving, a significant proportion of patients have metastatic disease at the time of diagnosis leading to poor survival outcomes. I focused on colorectal cancer and pancreatic cancer, the second and third leading causes of cancer related death in the United States, due to the lack of molecularly targeted therapies available for these cancers. Moreover, understanding the pathophysiological basis of gastrointestinal cancer liver metastasis is of great …

Training Small Group Leaders For Effective Discipleship At Ilive Ministries In Pacolet, South Carolina, Kadeem Antonio Ellis

Doctor of Ministry Projects

This project examined the need for discipleship training among small group leaders at iLive Ministries in Pacolet, South Carolina. A four-week workshop incorporating lectures, discussions, and interactive activities was designed and implemented. Evaluation tools included Pre- and Post-Tests, structured observation, and participant interviews. Findings demonstrated measurable growth in confidence, facilitation skills, and discipleship understanding. The project concluded that intentional training not only equips leaders with biblical grounding and practical skills but also highlights ongoing needs for mentoring, refined assessment, and sustainable support, strengthening iLive Ministries’ discipleship culture and offering a replicable model for other congregations.

Scoring A New Jazz Standard: A Collaborative Approach To Implementing Spiritual Care At Erlanger Hospital Palliative Care, Richard Fleck

Doctor of Ministry Projects

Just like a jazz combo brings together professional musicians who are instrument specialists to improvise together, Palliative Care brings together healthcare specialists for holistic, patient-centered collaboration. This ministry project, which is a phenomenological inquiry based on the theological theme of suffering, follows a collaborative approach to implementing spiritual care at Erlanger Hospital in Chattanooga, TN. This project describes the researcher’s collaborative work in scoring a new jazz standard for Erlanger Palliative Spiritual Care, which includes recommendations for quality improvement and recommendations for professional development.

Coding In Webassign, Gary Malek

Sabbatical Projects

Sabbatical presentation from a 2024 Spring Sabbatical

From Transition To Transformation: Designing A First-Year Experience Course For Johnson County Community College, Valerie Mann

Sabbatical Projects

This sabbatical project examines the rationale, design, and implementation considerations for establishing a required First-Year Experience (FYE) course at Johnson County Community College (JCCC). As the first year of college represents a critical period of transition—particularly for community college students navigating academic, personal, and institutional challenges—this study investigates how a structured, research-based FYE course can support student persistence, engagement, and success. Drawing on an extensive review of national research, analysis of peer community college models, and site visits and interviews with faculty, administrators, advisors, and counselors, the project explores best practices for FYE course design with particular attention to equity, …

Floral Encounters: Examining The Role Of Experience Goods And Promoters In Specialty Cut Flower Workshops, Savannah L. Columbia

Theses and Dissertations--Agricultural Economics

This thesis provides insight for any farmer interested in agritourism, specifically, specialty cut flower workshops, by investigating consumer behavior related to specialty cut flower workshops as an experience good. It investigates which experience good cues may be important for a consumer’s decision-making process. It introduces a Specialty Cut Flower Workshop Experience Map, which explains how potential participants move from first learning about a specialty cut flower workshop to their long-term behaviors as consumers. These findings help to provide marketing support for smaller-scale specialty crop farmers, specifically, specialty cut flower farmers.

Days Of Future Past: The Legacy And Self-Efficacy Of Black And Hispanic Educators In Predominantly White School Districts, Tesfa S. Stewart

Selected Full Text Dissertations, 2011-

This mixed-methods dissertation investigates the self-efficacy of Black, Hispanic, and Multiracial educators in predominantly White institutions (PWIs), examining its connections to job satisfaction, career development, and perceived impact on students. Data from 34 participants, collected using the Teachers’ Sense of Efficacy Scale (TSES), indicated high overall self-efficacy, particularly in instructional strategies and classroom management. A one-way ANOVA revealed a statistically significant effect of race/ethnicity on total self-efficacy scores, with Black educators reporting significantly higher scores than their Hispanic and Multiracial peers (η² = .271). A simple linear regression using years of educational experience as the sole predictor did not produce …

Flaming Hot Queers: Queer Warmth In Forensics, Caleb Webb

All Graduate Theses, Dissertations, and Other Capstone Projects

In order for Queer people to feel safe enough to disclose their identity they must feel safe and comfortable to do so. In the context of forensics, Croucher et al. (2009) detailed how team identification and comfort carry similar variables, thus linking team identification and comfort. When Queer people can feel the comfort coming from the space reflecting Queerness, they sense the Queer warmth in the space. Sekimoto et al. (2020) described how Queer individuals use this warmth in the space as a social navigational tool in order to ensure safety. As forensics has seen an increase in Queer performances …

Administrator Leadership And Collective Efficacy: Enhancing Math Education In Public High Schools In California, Lina Ahmadieh

Dissertations

Purpose: The purpose of this qualitative, multicase study was to determine challenges that high school administrators experience when they establish the elements of collective teacher efficacy (CTE) based on the elements of common purpose, collective teacher accountability practices, protocols for collective practices, and interventions in their mathematics department and to determine the strategies that high school administrators use when they establish CTE in their mathematics department.Methodology: In this qualitative, multicase study, five interviews were conducted with public high school administrators in California. The researcher employed qualitative methods to explain the challenges that high school administrators experience when they establish the …

A Phenomenological Study: Implicit Bias In The Hiring Practices Of Health Care Organizations (Perception, Impact On Workforce Diversity, Mitigation Methods, And Implementation Assessment), Mohamed Boubrik

Dissertations

Purpose: The purpose of this phenomenological study was to explore how implicit bias influences hiring practices within health care organizations. Specifically, it investigated the perceptions of hiring professionals regarding implicit bias, its impact on workforce diversity, the strategies used to mitigate it, and the effectiveness of those strategies in real-world implementation.

Methodology: This qualitative study employed a phenomenological approach to capture the lived experiences of hiring professionals in Southern California health care organizations. A random sampling method was used to select participants across various health care facilities. Data collection was conducted through semistructured interviews, using a validated interview protocol as …

Breaking Barriers: A Delphi Study On Strategies Military Women Of Color Use To Advance Into Senior Leadership In The California Air National Guard, Michelle Leon Carrasco

Dissertations

Purpose: The purpose of this Delphi study was to determine what strategies military women of color (in ranks of E–8 and above or O–4 and above) used to overcome workplace barriers to advancement in the California Air National Guard (CAANG), to rate the importance of the strategies identified in Research Question 1, and to determine the methods by which they employed the top five most important strategies.Methodology: This study used a three-round Delphi method to collect data from women of color senior leaders in the CAANG. In Round 1, the expert panel identified strategies to overcome workplace barriers to advance …

Seedlings Of Pacific Northwest Plants: A Photographic Guide, Gabriel E. Campbell-Martinez, Roxy Olsson

Rae Selling Berry Seed Bank and Plant Conservation Program

This document presents a visual, non-technical field guide of native and exotic/invasive seedlings that grow wild in the Pacific Northwest. It contains over 550 taxa representing a broad range of families and ecosystems, focusing on species that occur in Oregon and Washington. Species were selected to reflect ecological importance, frequency of occurrence, and relevance to land management, restoration, and conservation. It is intended for a broad audience, including restoration practitioners, land managers, botanists, ecologists, students, naturalists, and others interested in identifying plants at early life stages.

Lower Electronic Health Record Adoption And Interoperability In Rural Versus Urban Physician Participants: A Cross-Sectional Analysis From The Cms Quality Payment Program, Alfred J. Anzalone, Carol R. Geary, Ran Dai, Shinobu Watanabe-Galloway, James C. Mcclay, James Campbell

Journal Articles: Epidemiology

BACKGROUND: The Health Information Technology for Economic and Clinical Health Act of 2009 introduced the Meaningful Use program to incentivize the adoption of electronic health records (EHRs) in the U.S. This study investigates the disparities in EHR adoption and interoperability between rural and urban physicians in the context of federal programs like the Medicare Access and CHIP Reauthorization Act of 2015 and the 21st Century Cures Act.

METHODS: A cross-sectional analysis was conducted using the 2021 Quality Payment Program Experience Report Public Use File to compare EHR adoption and Promoting Interoperability scores (PISs) between urban and rural physician participants. Data …

Comparative Analysis Of Machine Learning Models For Glioblastoma Survival., Muna Awel

All Graduate Theses, Dissertations, and Other Capstone Projects

Glioblastoma multiforme (GBM) remains one of the most lethal brain tumors, necessitating improved survival prediction models that integrate clinical and molecular data. This study develops a comprehensive machine learning pipeline leveraging TCGA-derived multi-omics datasets to predict binary survival outcomes. The framework integrates four classifiers Logistic Regression, Random Forest, XGBoost, and Support Vector Machine (SVM) and includes rigorous preprocessing with MCAR testing, KNN imputation, feature scaling, and hyperparameter optimization via GridSearchCV. SMOTE was applied to mitigate class imbalance and enhance model robustness for minority survival classes. Comparative performance analyses revealed Random Forest and XGBoost as top performers, achieving the highest recall …

Championing Change: Equipping Employees For Digital Transformation, Tracie Edwards

Doctor of Strategic Leadership (DSL) Capstone Abstracts

Title of Project: Championing Change: Equipping Employees for Digital Transformation Defense Date: March 5, 2025 Candidate Name: Tracie Edwards Personal Email Address: [email protected] First Advisor: Dr. Bethany Peters Second Advisor: Dr. Jolene Erlacher

DSL Final Project Abstract: According to various sources, 70% or more of digital transformation initiatives fail. Some authors believe the failures are due to “people” problems and the inability of organizations to overcome resistance or a lack of skills among employees. Many organizations also choose to downsize rather than skill up existing staff. However, doing so incurs costs, including the loss of business knowledge and the need …

Permission To Unpack: Releasing The Traumas From Toxic Relationships, One Brick At A Time, Tomasa Villaronga

Doctor of Strategic Leadership (DSL) Capstone Abstracts

"Permission to Unpack: Releasing the Traumas from Toxic Relationships, One Brick at a Time" is a transformative manuscript designed to empower women to confront and heal from the traumas tied to toxic relationships. This book serves as a comprehensive guide, offering practical tools and insights to help readers engage in self-discovery and healing at their own pace. Central to the narrative are the principles of transformational leadership, guiding women on a journey of self-exploration and empowerment.

The text delves into critical themes such as Depression, Cycles, Love Bombing, Domestic Violence, Relapse, Sex, Narcissism, Trauma Bonds, Rebounding, Grief, and Forgiveness, providing …

Dos Hemisferios: Rebranding Strategy For A Nascent Ecuadorian Wine Market, Jacob Massoud, Vafa Saboorideilami

Barowsky School of Business | Faculty Scholarship

The Ecuadorian winery, Dos Hemisferios, had started as a hobby in 1999 but quickly grew into a business and passion for the Wright family. After receiving an international award in 2009 for its cabernet sauvignon-malbec blend called Paradoja, the winery realized its potential and decided to expand its vineyards and production of wines. As part of the strategy to increase sales, Robert Wright, the Dos Hemisferios President, and his father, Guillermo Wright, developed a rebranding proposal for the next board of directors meeting. This rebranding initiative hinged on the belief that people in the Ecuadorian wine market did not know …

Abuse Of Contract: Boilerplate Erasure Of Consumer Counterparty Rights, Andrea Boyack

Faculty Publications

Contract law and the new Restatement of the Law of Consumer Contracts generally treats the entirety of a company’s boilerplate as presumptively binding. Entrusting the content of consumer contracts to companies creates a fertile legal habitat for abuse through boilerplate design.

There is no consensus on how widespread or severe abuse of contract is. Some consumer law scholars have warned of dangers inherent in granting companies unrestrained power to sneak waivers into their online terms, but others contend that market forces adequately constrain potential abuse. On the other hand, in the absence of adequate consumer knowledge and power, market competition …