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2025

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Towards Models Mesoscale Chromatin Structure And Radiative Dna Damage Via Computational Simulation, Devany Walsh West Jan 2025

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 Jan 2025

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 Jan 2025

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 Jan 2025

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 …


Replicative Senescence Is Atm-Driven, Reversible, And Delayed By Reduced Atm Activity At Low Oxygen, Alexander James Stuart Jan 2025

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 Jan 2025

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 Jan 2025

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 Jan 2025

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 Jan 2025

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 …


Citizen’S Rare Plant Watch, Nora Dunkirk, Gabriel Campbell, Kris Freitag Jan 2025

Citizen’S Rare Plant Watch, Nora Dunkirk, Gabriel Campbell, Kris Freitag

Rae Selling Berry Seed Bank and Plant Conservation Program

Rare species data for plants is lacking, hindering land management decisions and conservation outcomes. With Citizen's Rare Plant Watch, we empower citizen scientists to provide the “eyes on the ground” and collect data needed for conservation decision making in Oregon.


Seedlings Of Pacific Northwest Plants: A Photographic Guide, Gabriel E. Campbell-Martinez, Roxy Olsson Jan 2025

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.


Comparative Analysis Of Machine Learning Models For Glioblastoma Survival., Muna Awel Jan 2025

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 …


Think Globally And Act Locally: Collaboration Across Borders To Address Climate Change, Allan T. Marks Jan 2025

Think Globally And Act Locally: Collaboration Across Borders To Address Climate Change, Allan T. Marks

Denver Journal of International Law & Policy

Climate change is a global challenge. International cooperation is essential yet insufficient. This tension is evident in negotiations of international climate agreements and at global climate conferences. In this context, it is worth asking why international law has so far failed sufficiently to address the global challenge of climate change and whether other types of cross-border collaboration can fill the void. Economic, political, and social factors inhibit accelerated and coordinated responses to climate challenges. The scope and direction of climate mitigation and adaptation are uneven, especially in the energy transition. The failure to reduce greenhouse gas emissions fast or far …


Education Is Not A Commodity – It Is A Human Right, Barbara Stark Jan 2025

Education Is Not A Commodity – It Is A Human Right, Barbara Stark

Denver Journal of International Law & Policy

America has embraced neoliberalism, and virtually everything that is tangible—and much that is not—has been commodified. Natural resources once thought of as ‘free,’ such as water, have been packaged and branded. ‘Value’ is routinely conflated with ‘cost.’ This article explains why education should not be regarded as a commodity, but as an internationally recognized human right. Like the right to free speech, it should be free and meaningful. It should be a national priority. The United States does not recognize education as a human right. If it did, public education in this country would probably be in better shape. Equally …


A Scent Of Direction: Exploring Adaptive Olfactory Navigation In Drosophila, Chad Morton Jan 2025

A Scent Of Direction: Exploring Adaptive Olfactory Navigation In Drosophila, Chad Morton

Student Theses and Dissertations

Animals rely on environmental cues, such as odors, to navigate through complex and often dynamic landscapes. While olfactory navigation has traditionally been modeled as a reflexive behavior driven by immediate sensory cues, whether flies can leverage more sophisticated strategies, integrating sensory input with spatial memory and internal representations of their surroundings, remains unclear. A key challenge in studying olfactory navigation lies in the invisible and unpredictable nature of odor plumes, which has made it challenging to accurately assess the ongoing sensory experiences of an animal. To address this challenge, we developed a novel virtual reality (VR) system that head-fixed Drosophila …


Completions 2024-25, Southwestern Oklahoma State University Jan 2025

Completions 2024-25, Southwestern Oklahoma State University

IPEDS

Welcome to the IPEDS Completions survey component. The Completions component is one of several IPEDS components that is conducted during the Fall data collection period. It collects the number of degrees and certificates awarded by field of study, level of award, race/ethnicity, and gender. The reporting period for the Completions component is during the12-month time period beginning July 1 of the previous calendar year and ending June 30 of the current calendar year; therefore, for this year’s Completions component, the reporting period is between July 1, 2023 and June 30, 2024. The Completions component is also collecting the number of …


Fall Enrollment 2024-25, Southwestern Oklahoma State University Jan 2025

Fall Enrollment 2024-25, Southwestern Oklahoma State University

IPEDS

IPEDS Report created by the SWOSU Office of Institutional Research


Examining The Role Of Peer And Family Belongingness In The Mental Health Of Black Lgbtq+ Youth, Keith J. Watts, M. Alex Wagaman, Andrew D. Eaton, Vivian W. Y. Leung, Shelley L. Craig Jan 2025

Examining The Role Of Peer And Family Belongingness In The Mental Health Of Black Lgbtq+ Youth, Keith J. Watts, M. Alex Wagaman, Andrew D. Eaton, Vivian W. Y. Leung, Shelley L. Craig

Social Work Faculty Publications

A sense of belonging to familial and peer networks is crucial for the mental health of LGBTQ + youth. Black LGBTQ + youth report feeling rejected and isolated due to their sexual and/or gender identities. Utilizing linear regression analyses, this study explored the relationship between peer and family belongingness and levels of depression, anxiety, and self-rated mental health among 181 Black LGBTQ + youth in the United States and Canada. Findings suggest that family and peer belongingness are important factors in Black LGBTQ + youth’s mental health and warrant further study into the protective nature of peer and family relationships …


Occupational Exposures To Chemicals In Dentistry: A Scoping Review, Geneviève Picard, Tisha Prakash, France Labrèche, Sabrina Gravel Jan 2025

Occupational Exposures To Chemicals In Dentistry: A Scoping Review, Geneviève Picard, Tisha Prakash, France Labrèche, Sabrina Gravel

Revues de littérature, synthèses de connaissances

The dental workforce comprises a variety of professions, most of which are predominantly occupied by women. Dental workers can be exposed to numerous toxic chemicals such as mercury, methacrylate polymers, and silica. This scoping review aims to synthesize the scientific literature on quantified chemical exposures and to identify research gaps in occupational chemical hazards faced by dental professionals. This review followed the Joanna Briggs Institute approach and PRISMA-ScR guidelines, using three concepts to search PubMed, Embase, and Web of Science: workers, dental care, and chemicals. Studies from high-income countries, published in French or English between 2000 and 2024 and reporting …


The Impact Of Staff Education On Menopausal Care, Oluwatoyosi Olumide Jan 2025

The Impact Of Staff Education On Menopausal Care, Oluwatoyosi Olumide

Doctor of Nursing Practice Projects

Natural menopause typically occurs around the age of 51. During this transition, many women experience a variety of vasomotor symptoms, with hot flashes and night sweats being the most common. As women age, diminishing levels of estrogen, progesterone, and testosterone can lead to various health complications. Without proper assessment, diagnosis, and treatment, many may suffer in silence. This quality improvement project sought to evaluate the impact of staff education on menopausal care. The symptom checklist, or the Menopause Rating Scale (MRS), is a standardized, evidence-based tool for assessing menopause symptoms and serves as an essential component of the admission process …


Optimal Tissue Clearing Of Gastric Cancerous Organoids Imaged Via High Resolution Light Sheet Microscopy, Lauren D. Lieu Jan 2025

Optimal Tissue Clearing Of Gastric Cancerous Organoids Imaged Via High Resolution Light Sheet Microscopy, Lauren D. Lieu

2025 Fall Honors Capstones Projects - Archive

While the rate of surviving a myocardial infarction has increased in the past 60 years from 60% to 90%, the rate of Americans developing chronic heart disease such as heart failure, arrhythmias, and hypertensive heart disease has risen. This has led to the development of imaging technology such as Light Sheet Microscopy (LSM) and Light Field Microscopy (LFM) to study heart contractility and congenital heart disease via models such as cancerous organoids or Zebrafish. However, LSM and LFM results are highly dependent on the quality of the staining and cleared samples. This study looks to add to the growing field …


Identifying The Constituents Of Pyrolysis Oil Using Supercritical Fluid Chromatography- Fraction Collection (Sfc-Fc) And Gas Chromatography- Mass Spectrometry/Vacuum Ultraviolet Spectroscopy (Gc-Ms/Vuv), Sadid Morshed Jan 2025

Identifying The Constituents Of Pyrolysis Oil Using Supercritical Fluid Chromatography- Fraction Collection (Sfc-Fc) And Gas Chromatography- Mass Spectrometry/Vacuum Ultraviolet Spectroscopy (Gc-Ms/Vuv), Sadid Morshed

2025 Fall Honors Capstones Projects - Archive

Plastic waste continues to accumulate as production increases and disposal methods remain insufficient. Even with recycling programs in place, much of the discarded plastic still ends up in landfills or waterways, eventually breaking down into harmful microplastics. One promising solution is the conversion of plastic waste into pyrolysis oil, which can also serve as an alternative feedstock for chemicals. Pyrolysis oil is produced by heating plastics to approximately 800 °C in the absence of oxygen, resulting in a complex mixture of hydrocarbons that includes paraffins, isoparaffins, olefins, naphthenes, and aromatics. Analyzing the amount of oxygen, nitrogen, and sulfur in these …


Pathways To Green River District Health Department, Gracelyn P. Bush Jan 2025

Pathways To Green River District Health Department, Gracelyn P. Bush

Theses and Dissertations--Public Health (M.P.H. & Dr.P.H.)

In an effort to decrease Neonatal Abstinence Syndrome (NAS) in the Green River District of Western Kentucky, this grant proposes the expansion of the evidence-based University of Kentucky PATHways program to the Green River District Health Department (GRDHD). To protect the health of both women and children, this program will specifically target pregnant women with substance use disorder (SUD). This program will deliver a group-based prenatal and postpartum curriculum with the integration of Peer Recovery Support Specialists, specifically modeled on Social Cognitive Theory and the adoption of whole-person care. The proposed program spans a three-year time frame, beginning with program …


An Ethnography Of Love Jihad: The Governance Of Interfaith Marriages In Times Of Hindutva, Snehal Sharma Jan 2025

An Ethnography Of Love Jihad: The Governance Of Interfaith Marriages In Times Of Hindutva, Snehal Sharma

Theses and Dissertations--Gender and Women's Studies

My doctoral research focuses on the violations of human and citizenship rights of women and religiously marginalized communities (based on religious differences) in the backdrop of right-wing movements in India. I assess the Hindu nationalist propaganda named “love jihad” to demonstrate the way it weaponizes religious exogamy. This propaganda legitimizes violence against Indian religious minorities and women as it claims that marriages between Hindu women and Muslim men are acts of terrorism against Hindus with the sole aim of increasing the Muslim population using Hindu women's bodies. I have used ethnographic research methods to explore the legal process of interfaith …


The Effect Of Zebra Mussels On Minnesota Fish Communities, Benjamin D. Strei Jan 2025

The Effect Of Zebra Mussels On Minnesota Fish Communities, Benjamin D. Strei

Journal of Earth and Life Science

Zebra mussels Dreissena polymorpha are an aquatic invasive species that has been spreading quickly throughout Minnesota water bodies since 1989. Zebra mussels are known to change certain morphological conditions in lakes such as turbidity, phytoplankton abundance, and aquatic invertebrate populations. However, studies showing impacts of the infestation of zebra mussels on the health of a fish community have been hard to prove due to a lack of repeated surveys and a suite of other confounding variables such as natural and seasonal variability, plant community, and lake morphometry. Therefore, the objective of this study is to determine whether zebra mussels have …


Kenyon Alumni Magazine - Winter 2025 Jan 2025

Kenyon Alumni Magazine - Winter 2025

Kenyon College Alumni Bulletin

No abstract provided.


Growing Up In A Blended Family: A Narrative Review Of Mental And Emotional Health Impact, Gerald K. Evans, Gerald Kevin Evans-Mayner Jan 2025

Growing Up In A Blended Family: A Narrative Review Of Mental And Emotional Health Impact, Gerald K. Evans, Gerald Kevin Evans-Mayner

Social Work Theses - Archive

Adolescents growing up in blended families are at a higher risk of experiencing emotional and mental health challenges compared to adolescents growing up in nuclear families. This thesis examines this impact as adolescents transition into adulthood. This narrative review gathered data from articles published from 2019 to 2024 in the United States that were archived in the Family Studies Abstracts database. The findings primarily concerned romantic and parent-teen relationships, effects that began and lingered after adolescence, exposure to violence, and lack of intimacy and security. The implications of this research are that future investigations are needed to better understand the …


Investigating Sex-Specific Role Of The Kynurenine Pathway In Opioid Withdrawal, Blake Brady Jan 2025

Investigating Sex-Specific Role Of The Kynurenine Pathway In Opioid Withdrawal, Blake Brady

Psychology Theses - Archive

The opioid epidemic has led to a surge in opioid use disorder (OUD) and overdose deaths, making opioid withdrawal a critical area of study. Opioid withdrawal is characterized by both somatic and affective symptoms, including anxiety-like behaviors and physical withdrawal signs, yet the underlying neurobiological mechanisms remain insufficiently understood. The kynurenine pathway (KP), a primary metabolic route for tryptophan (TRP), is increasingly implicated in neuroinflammatory responses and neuropsychiatric disorders, yet its involvement in opioid use and withdrawal remains poorly studied, with even less known about potential sex-specific differences. Historically, the predominant use of male subjects in preclinical research has compounded …


Signal Analysis Of Calcium Dynamics In Pancreatic Cells, Abhidha Kunwar Jan 2025

Signal Analysis Of Calcium Dynamics In Pancreatic Cells, Abhidha Kunwar

2025 Fall Honors Capstones Projects - Archive

Calcium (Ca²⁺) signaling plays a critical role in insulin secretion from pancreatic βcells. Photo-biomodulation (PBM) of red or near-infrared wavelengths is applied to enhance cellular metabolism and Ca²⁺ activity in pancreatic cells. This study aims to rigorously analyze how PBM influences calcium dynamics in pancreatic cells by applying the Fast Fourier Transform (FFT), converting Ca²⁺ spiking patterns to the frequency domain to determine dominant oscillatory behaviors. Using a calcium-binding fluorophore, Ca²⁺ activity was acquired before and after PBM at 810 nm, processed with a machine learning algorithm, and further analyzed in MATLAB using FFT to assess changes in calcium signal …


Cdh-3/Cadherin, Yap-1/Yap And Egl-44/Tead Promote Syx-2/Syntaxin And Eff-1 Fusogen-Mediated Phagosome Closure, Alec Whited, Aladin Elkhalil, Ginger Clark, Piya Ghose Jan 2025

Cdh-3/Cadherin, Yap-1/Yap And Egl-44/Tead Promote Syx-2/Syntaxin And Eff-1 Fusogen-Mediated Phagosome Closure, Alec Whited, Aladin Elkhalil, Ginger Clark, Piya Ghose

Biology Theses - Archive

Physical interactions between cells, such as cell-cell junctions, can profoundly impact cell fate. A vital cell fate for normal development and homeostasis is programmed cell death. Cells fated to die must be efficiently cleared away via phagocytosis, and defects are associated with a variety of diseased states. Whether cell-cell physical associations affect programmed cell elimination has not been well-explored. Here we describe, in vivo, a cell-cell adhesion-driven signaling pathway that ensures compartment-specific cell clearance during development. We previously described the specialized cell death program “Compartmentalized Cell Elimination” (CCE) in the C. elegans embryo. During CCE, the tail-spike cell (TSC), a …