Digital Commons Network^™

Designing And Sample Size Calculation In Presence Of Heterogeneity In Biological Studies Involving High-Throughput Data., Sudhir Srivastava

Electronic Theses and Dissertations

The designing and determination of sample size are important for conducting high-throughput biological experiments such as proteomics experiments and RNA-Seq expression studies, thus leading to better understanding of complex mechanisms underlying various biological processes. The variations in the biological data or technical approaches to data collection lead to heterogeneity for the samples under study. We critically worked on the issues of technical and biological heterogeneity. The quantitative measurements based on liquid chromatography (LC) coupled with mass spectrometry (MS) often suffer from the problem of missing values (MVs) and data heterogeneity. We considered a proteomics data set generated from human kidney …

Characterizing The Role Of Extracellular Matrix In Non-Small Cell Lung Carcinoma Metastasis Using A 3d Microenvironment Mimetic In-Vitro Culture System., Douglas John Owulaku Saforo

Electronic Theses and Dissertations

Lung cancer is the leading cause of cancer related death in the United States and worldwide. Five-year survival rates for non-small cell lung carcinoma patients have not improved in decades, and a majority of patients succumb to metastasis. Identification of therapeutic targets for metastatic disease is essential for the development of novel therapies. However, current 2-dimensional (2D) in vitro models are not reflective of the tumor microenvironment (TME) and are inadequate in identifying therapeutic targets. We adapted a 3-dimensional (3D) extracellular matrix (ECM) in vitro model to a hypoxic incubator to approximate physiological hypoxia of the TME in a microenvironment …

An Explainable Recommender System Based On Semantically-Aware Matrix Factorization., Mohammed Sanad Alshammari

Electronic Theses and Dissertations

Collaborative Filtering techniques provide the ability to handle big and sparse data to predict the ratings for unseen items with high accuracy. Matrix factorization is an accurate collaborative filtering method used to predict user preferences. However, it is a black box system that recommends items to users without being able to explain why. This is due to the type of information these systems use to build models. Although rich in information, user ratings do not adequately satisfy the need for explanation in certain domains. White box systems, in contrast, can, by nature, easily generate explanations. However, their predictions are less …

A Distinct Pattern Of Sterile Inflammation Induced By Zinc Oxide Nanowires., Ruqaih Salem Alghsham

Electronic Theses and Dissertations

In recent years, there has been an increasing interest in nanotechnology. Engineered nanomaterials (ENMs) become an increasingly important area in nanotechnology. Recent developments in ENMs have drawn commercial and research attention in many areas such as agriculture, medicine, and Industry. High-aspect ratio zinc oxide nanowires (ZnONWs) have become one of the most significant ENMs due to their remarkable physical properties which makes them useful in a wide-range of applications. However, questions have been raised about ZnONW safety uses and biological consequences. In this dissertation, we investigated the inflammatory potential of ZnONWs in mouse models. C57BL/6 mice were exposed to ZnONW …

Plant Protein Prenylation In Environmental Responses And Protein Production., Parul Singh

Electronic Theses and Dissertations

Lipid post-translational modifications enhance a protein’s interaction with membranes and other proteins. In this dissertation, I studied a recently identified Arabidopsis gene, PROTEIN PRENYLTRANSFERASE ALPHA SUBUNIT-LIKE (PPAL), by mapping a second-site mutation that rescues the original mutation phenotype and could be an additional factor involved in sugar homeostasis/sensing. I found that mutant phenotype associated with suppressor line was too weak and variable to consistently score, which resulted in not finding any linked markers. I also generated crosses between ppal-1 and ABA biosynthesis and signal transduction mutants to find any possible connection between these pathways and PPAL. By …

Opioid And Stimulant Use Among A Sample Of Corrections-Involved Drug Users : Seeking An Understanding Of High-Risk Drug Decisions Within A System Of Constraint., Kirsten Elin Smith

Electronic Theses and Dissertations

In the United States, high-risk drug use remains a significant social problem. Opioids and stimulants are two drug classes that have contributed to substantial recent increases in drug-related arrests, overdose, and mortality. Kentucky has been particularly devastated by high rates of opioid and stimulant use. Opioid and stimulant effects, while highly rewarding, can result in adverse consequences. Still, some people choose to use these drugs, and choose to continue using even after experiencing adverse consequences, such as incarceration. The aim of this study was to explore high-risk drug use among a sample of corrections-involved adults in Kentucky and to identify …

The Effect Of Spinal Cord Injury On Sexual Function., Casey J. Steadman

Electronic Theses and Dissertations

Spinal cord injury (SCI) causes severe neurological impairment with widespread motor, autonomic and sensory deficits, leading to a substantial quality of life impairment. The number of individuals with SCI increases by approximately 12,500 annually, and over 80% of individuals with SCI are males. SCI individuals rate sexual function as a top priority quality of life issue, and men with SCI likely suffer from sexual dysfunction, such as erectile and ejaculatory dysfunction, as well as infertility. Regardless of the high status of importance of sexual function, limited numbers of experimental studies in SCI animal models have focused on sexual function after …

Characterization Of A More Clinically Relevant Human Leukemia Xenograft Model To Examine Perturbation Of Met/Sam Metabolism As A Novel Therapeutic Paradigm For Mll-R Leukemia In Vivo., Aditya Barve

Electronic Theses and Dissertations

Acute myeloid leukemia (AML), is a heterogeneous clonal disorder characterized by an accumulation of malignant myeloid progenitors in the bone marrow (BM), hindering normal hematopoiesis. AML exhibits dramatic heterogeneity in terms of cytogenetics, morphology, and chemotherapeutic sensitivity. Therefore, the investigation of novel, efficacious AML therapeutics will require advanced preclinical in vivo model systems, capable of recapitulating patient specific disease heterogeneity, and induction chemotherapy outcomes. A major focus and eventual outcome of this work was the establishment and development of a more clinically relevant mouse xenograft model of patient AML, that efficiently harbors patient derived xenografts (PDXs), and unlike more prevalent …

Improving Flow-Induced Hemolysis Prediction Models., Mohammad Mohaghegh Faghih

Electronic Theses and Dissertations

Partial or complete failure of red blood cell membrane, also known as hemolysis, is a persistent issue with almost all blood contacting devices. Many experimental and theoretical contributions over the last few decades have increased insight into the mechanisms of mechanical hemolysis in both laminar and turbulent flow regimes, with the ultimate goal of developing a comprehensive, mechanistic and universal hemolysis prediction model. My research is broadly divided into two sections: theoretical/analytical/Computational Fluid Dynamics (CFD) analyses and experimental tests. The first part of my research revolved entirely around analyzing the simplest and most popular hemolysis model, commonly called as the …

Algebraic Properties Of Neural Codes., Katie C. Christensen

Electronic Theses and Dissertations

The neural rings and ideals as algebraic tools for analyzing the intrinsic structure of neural codes were introduced by C. Curto, V. Itskov, A. Veliz-Cuba, and N. Youngs in 2013. Since then they have been investigated in several papers, including the 2017 paper by S. G\"unt\"urk\"un, J. Jeffries, and J. Sun, in which the notion of polarization of neural ideals was introduced. We extend their ideas by introducing the polarization of motifs and neural codes, and show that these notions have very nice properties which allow the studying of the intrinsic structure of neural codes of length $n$ via the …

Character Arcs: Mapping Creative Writers' Trajectories Into The Composition Classroom., Jon Udelson

Electronic Theses and Dissertations

This dissertation develops a theoretical and empirical approach to the study of professional creative writers and teachers. Specifically, it examines how these writers developed their knowledge of creative writing and writing pedagogy and how that knowledge informs their work as instructors of composition. Despite the common practice across writing programs of hiring formally-trained creative writers (M.A., M.F.A, Ph.D.) to teach first-year composition and related courses, little scholarship in the field of rhetoric and composition or writing studies more broadly specifically focuses on the disciplinary and professional development of these writer-teachers. Through case studies of graduate students, contingent faculty, lecturers, and …

Leonora Carrington : A Bestiary., Stephanie Wise

Electronic Theses and Dissertations

Similar to the painted creatures that dwell within the illuminated manuscripts of ancient and medieval bestiaries, the beasts in Leonora Carrington’s early work are used metaphorically. She was deeply influenced in her formative years by mythology and animals; tales with heraldic characters, obscure adventures, and symbolic meanings were foundational to her works. World War II and a subsequent internment in a sanitorium initiated Carrington to wrestle with an existential crisis. Her capacity and appetite for sources of inspiration and knowledge was boundless; infinite symbolic references were readily available for her artistic executions. The metaphors adapted or created by Carrington enabled …

Does Thermotolerance In Daphnia Depend On The Mitochondrial Function?, Rajib Hasan

Electronic Theses and Dissertations

Thermotolerance limit in aquatic organism is set by the ability to sustain aerobic scope to sudden temperature shifts. This study tested the genetic and plastic differences in thermotolerance of Daphnia that can be explained by the differences in the ability to retain mitochondrial integrity at high temperatures. Five genotypes with different biogeographic origins were acclimated to 18^ᵒC and 25^ᵒC. We developed a rhodamine 123 in-vivo assay to measure mitochondrial membrane potential and observed higher fluorescent in heat damaged tissues as the disruption of the mitochondrial membrane potential. Significant effects on temperature tolerance were observed with CCCP …

Purification Of Biomass Hydrolyzates For The Promotion Of Xylose Diester Formation, Laura Fernandez

Electronic Theses and Dissertations

The application of a novel xylose isolation procedure using phenyl boronic acid esterification has been limited to the hydrolyzates of low extractive biomasses like hardwoods and agricultural resides. Hydrolyzates with lower sugar and higher extractive concentrations, like softwoods, have not yielded xylose, or even xylose diester (XDE), the first intermediate product in the new process, under the same conditions. This research applied evaporation concentration, adsorbent separation and membrane filtration to these lower performing biomass hydrolyzates to maximize the yield of the XDE formation step of the new xylose extraction process. Lab-scale tests of these techniques were applied to pine hydrolyzate …

Electrodeposition Of Hydrogen Molybdenum Bronze Films And Electrochemical Reduction Of Carbon Dioxide At Low Over Potentials, Sami Alharbi

Electronic Theses and Dissertations

Hydrogen molybdenum oxide, known has molybdenum bronze, is a material of interest due to catalyzing electron transfer reactions. Specifically, molybdenum bronze is an electrocatalyst toward carbon dioxide reduction. Electrochemical deposition from a peroxymolybdic acid solution is a method for preparing molybdenum bronze films. This work demonstrates reproducible electrodeposition on indium tin oxide substrates and conductive carbon paper. Film thickness depends on concentration, time and pH. After characterization by film thickness, resistance, XRD and XPS, the as deposited films served as the working electrode for electrochemical reduction of carbon dioxide in 0.1 M NaHCO₃. Ion chromatography determined formate resulting …

Comparing Structure From Motion Photogrammetry And Computer Vision For Low-Cost 3d Cave Mapping: Tipton-Haynes Cave, Tennessee, Clinton Elmore

Electronic Theses and Dissertations

Natural caves represent one of the most difficult environments to map with modern 3D technologies. In this study I tested two relatively new methods for 3D mapping in Tipton-Haynes Cave near Johnson City, Tennessee: Structure from Motion Photogrammetry and Computer Vision using Tango, an RGB-D (Red Green Blue and Depth) technology. Many different aspects of these two methods were analyzed with respect to the needs of average cave explorers. Major considerations were cost, time, accuracy, durability, simplicity, lighting setup, and drift. The 3D maps were compared to a conventional cave map drafted with measurements from a modern digital survey instrument …

A Tactful Conceptualization Of Joint Attention: Joint Haptic Attention And Language Development, Lauren P. Driggers-Jones

Electronic Theses and Dissertations

Research investigating associations between joint attention and language development have thus far only investigated joint attention by way of visual perceptions while neglecting the potential effects of joint attention engaged through other sensory modalities. In the present study, I aimed to investigate the joint attention-language development relationship by investigating the possible links between joint haptic attention and language development, while also exploring the likely contributions of joint visual attention through a mediation analysis. Using video recordings from an archival dataset, measures of joint haptic attention and joint visual attention were derived from behavioral tasks, and measures of vocabulary development were …

The Life And Political Career Of Hubert Horatio Humphrey, Dylan Mcnutt

Electronic Theses and Dissertations

Hubert Horatio Humphrey never reached the Oval Office, but his accomplishments during his tenure as mayor, senator, and Vice President are just as noteworthy. During Humphrey’s political career he played a pivotal role in the most influential period of liberal American politics. During his youth and college years Humphrey became learned how to remain loyal to the people around him, and about the racial divisions of the South. Most research on Vice President Humphrey analyzes his time as a Senator, Vice President, and the 1968 Presidential election. The Life and Political Career of Hubert Humphrey, examines Humphrey’s life in its …

The Effects Of Urbanization On Avian Seed Dispersal Success Of Toxicodendron Radicans (Anacardiaceae), Aiden M. Stanley

Electronic Theses and Dissertations

Urbanization is increasing at a dramatic rate as the human population increases. While it is well-known that urbanization tends to decrease species diversity (i.e., biotic homogenization), it is not known how urbanization affects the frequency and efficiency of species interactions. Seed dispersal is a plant-animal interaction that depends on disperser feeding rate, disperser diversity, probability of seed dispersal and germination. How these factors are affected by urbanization however is unknown. In this study, we evaluate how urbanization alters these factors. Urban sites had 2x higher feeding rate and 3x higher number of disperser species. The probability of seed dispersal however …

The Distinct Expressions Of Integrins Αdβ2 And Αmβ2 Differently Regulate Macrophage Migration In 3d Matrix In Vitro And In Tissue During Inflammation, Kui Cui

Electronic Theses and Dissertations

Chronic inflammation is an essential mechanism during the development of cardiovascular and metabolic diseases. The outcome of diseases depends on the balance between the migration and accumulation of macrophages in damaged tissues. Macrophage motility is highly regulated by adhesive receptors, integrins. Namely, intermediate expression of integrin supports macrophage migration, while a high integrin density inhibits it. Our studies are focused on evaluation of the contribution of related integrins α_Dβ₂ and α_Mβ₂ to macrophage migration and development of chronic inflammation.

We found that integrin α_Dβ₂ is upregulated on M1-macrophages in vitro and …

The Influence Of Chronic Branched-Chain Amino Acid Supplementation On Measures Of Central And Peripheral Fatigue In Training Athletes, Tara K. Whiton

Electronic Theses and Dissertations

Branched-chain amino acid (BCAA) supplementation may improve recovery from competitive endurance training by reducing symptoms of central and peripheral fatigue. The purpose of this dissertation was to provide evidence for the use of BCAAs as a training nutrition strategy in order to improve recovery from training and further drive adaptive processes to training by increasing readiness to train. Collegiate distance runners undergoing intense competitive endurance training were monitored for symptoms of muscular soreness and psychological stress through a rated soreness chart and the Daily Analysis of Life Demands for Athletes Survey (DALDA) while taking either a BCAA supplement or a …

Ensuring A Holistic And Quality Education For Every Child: A Phenomenological Inquiry Of Principals’ Transformational Leadership, Elijah Granger

Electronic Theses and Dissertations

Researchers have not fully examined how school leaders impact the teaching and learning environment when working toward generating students’ academic success. Balyer (2012) called for more work on understanding the transformational leadership behaviors that create conditions conducive to generating student achievement within educational accountability. Therefore, the purpose of this phenomenological inquiry is to explore the lived experiences of principals and their perceptions concerning the state accountability system and how it may impact their transformational efforts in ensuring a holistic and quality education for every child. The phenomenological inquiry will yield the opportunity to compare administrators’ in-depth perceptions of the accountability …

Visual Opsin Diversity In Anurans, Leah Perez

Electronic Theses and Dissertations

Among major vertebrate groups, anurans are understudied with regards to their visual systems and how they function. This study sampled North American anurans representing diverse evolutionary and life histories and which likely possess visual systems adapted to meet different ecological needs. Using standard molecular techniques, sequences were obtained for four opsins—the protein component of visual pigments—expressed in anuran retinas. Amino acid sequences of the genes RH1, LWS, SWS1, and SWS2 were compared across taxa to identify variable sites, as such variation can shift the spectral sensitivity of visual pigments and thus alter dim-light and color vision. Some of the amino …

Evaluating Fluid Fluxes From Deep-Sea Seepage Habitats, Leigha E. Peterson

Electronic Theses and Dissertations

The permanently dark deep-sea, located at oceanic water depths greater than 200 m, represents the largest potential habitat space on Earth. The physicochemical conditions of the planet’s largest biome are tightly coupled to the exchange of matter and energy from terrestrial and sea-floor end-members. In fact, global ocean and climate systems are significantly impacted by deep-sea processes. Seafloor vents and seeps appear to act as geologic exchange conduits, returning recycled materials to the hydrosphere to sustain another generation of life. Despite submarine seepage having control on global elemental cycling, it is estimated that less than 1% of the deep-sea has …

Feasibility Study Of Intelligent Lvad Control For Optimal Heart Failure Therapy., John A. Karlen Iii

Electronic Theses and Dissertations

Background: Left ventricular assist devices (LVAD) are operated at constant speeds (rpm), consequently, pump flow is passively determined by the pressure difference between the LV and aorta. Since the diastolic pressure gradient (~70 mmHg) is much larger than the systolic gradient (~10 mmHg), the majority of pump flow occurs during systole. This limitation results in sub-optimal LV volume unloading, LV washing, and diminished vascular pulsatility that may be associated with increased risk for clinically-significant adverse events, including stroke, bleeding, arteriovenous malformations, and aortic insufficiency. To address these clinical adverse events, an intelligent control strategy using pump speed modulation was developed …

A Population-Based Study On The Correlates Of Trauma And Non-Suicidal Self-Injury Behaviors Among Adolescents Aging Out Of Foster Care., Jennifer Artis

Electronic Theses and Dissertations

Children in foster care are confirmed victims of maltreatment who may suffer from chronic trauma. These adverse childhood experiences will often increase the risk of physical and psychological adversities such as self-harm (SH), substance abuse, anxiety, post-traumatic stress disorder (PTSD), heart disease, depression, etc. Based on previous and current research studies, youth in foster care are less likely to receive adequate treatment for their self-harm behaviors and mental health needs. Failing to provide proper treatment could lead to harmful activities such as deliberate self-harm and potential suicide. This population-based study focuses on the prevalence of SH among youth in foster …

Postsecondary Students’ Perceptions Toward Accepting And Understanding Biological Evolution: A Qualitative Metasynthesis, Erin Childress

Electronic Theses and Dissertations

The purpose of this qualitative meta-synthesis is the exploration and analysis of postsecondary students’ perceptions towards accepting and understanding evolution. Evolution as a process and theory is a foundation for understanding the biological sciences. Within the scientific and educational communities, evolution is a central theme tying the fabric of the biological sciences together. A three-tiered analysis was used to determine postsecondary students’ perceptions towards accepting and understanding evolution. This meta-synthesis analysis was guided by the following research questions: (1) What perceived conflicts do post-secondary students face when learning about evolution? and (2) Based on post-secondary students’ perspectives, how do personal …

A Tale Of Two Dogs Fine Art Exhibit, Jeff Harris

Electronic Theses and Dissertations

The purpose of this paper is a formal examination of the fine art exhibit titled A Tale of Two Dogs by Jeffrey A. Harris as a partial fulfillment of requirements for a Master of Fine Arts degree from Stephen F. Austin State University.

By examining the multiple established points of view within his artwork, the author questions these establishments and asks if this approach leads to a relevant way of seeing. Using expanded polystyrene foam as a sculpture medium, a series of artworks created during the MFA research process are conceptually analyzed to explore the value of maintaining a multiplicity …

Evaluating The Effectiveness Of Supplemental Instruction On Generation Z Students In Agn 331, Shania Simons, Candis L. Carraway, Stephanie Jones, Frantisek Majs

Electronic Theses and Dissertations

The purpose of this research was to determine the effectiveness, barriers and benefits of Supplemental Instruction (SI) on Generation Z students in AGN 331. The theory used as a model for this research was the Pace’s Model of College Impress. Prior research indicated that SI improves test scores, final grades, and persistence in historically difficult courses. Correlations and ANOVA’s were performed on SAS in order to determine a relationship between the non-SI attendees to those who did attend SI. The final grade reported an average of 0.56 points higher and on the final exam 4.26 points higher if the student …

Molecular Characterization Of The Putative Nucleotide- Binding And Hydrolyzing Activities Of The Ellis Van Creveld (Evc) Protein, Giang Nguyen

Electronic Theses and Dissertations

Ellis–van Creveld (EvC) syndrome is a rare autosomal recessive disorder that is characterized by short-limb dwarfism, extra fingers or toes, malformed teeth and nails, and congenital heart defects. Mutations in two genes, EVC and EVC2, which are located on chromosome 4, have been shown to be responsible for EvC syndrome. The protein products of these genes, EVC and EVC2 physically interact and together, they are tethered to the base of the primary cilium of cells. This multi-protein assembly positively regulates the Sonic and Indian hedgehog signaling pathways by promoting downstream processes after activation of the smoothened receptor (Smo), by the …