Digital Commons Network^™

Overlap Matrix Completion For Predicting Drug-Associated Indications, Menhyun Yang, Huimin Luo, Yaohang Li, Fang-Xiang Wu, Jianxin Wang

Computer Science Faculty Publications

Identification of potential drug-associated indications is critical for either approved or novel drugs in drug repositioning. Current computational methods based on drug similarity and disease similarity have been developed to predict drug-disease associations. When more reliable drug- or disease-related information becomes available and is integrated, the prediction precision can be continuously improved. However, it is a challenging problem to effectively incorporate multiple types of prior information, representing different characteristics of drugs and diseases, to identify promising drug-disease associations. In this study, we propose an overlap matrix completion (OMC) for bilayer networks (OMC2) and tri-layer networks (OMC3) to predict potential drug-associated …

Evaluation Of A Proprietary Slow-Release Oxytocin Therapy And Return Of The Luteolytic Mechanism In Mares, Brendan Andrew Sarnecky

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Prolonging function of the corpus luteum (CL) is a method of suppressing estrus that maintains secretion of endogenous progesterone to keep mares out of heat naturally. The use of oxytocin to prolong CL function is becoming more popular. In these therapies, upregulation of cyclooxygenase-2 is inhibited, which impairs prostaglandin F2α ( PGF2α) production. Intramuscular (IM) administration of 60 IU of oxytocin once daily from 7 to 14 days after ovulation is currently the most common treatment protocol. Although that protocol is efficacious in ≥70% of treated mares, the need for daily administration is a drawback to its use. A proprietary …

Integrating Social Dimensions Into Spatial Connectivity Planning For Grizzly Bears, Abigail Sage

Boise State University Theses and Dissertations

In anthropogenic landscapes, which prevail globally, preserving key habitat corridors or routes between wildlife populations is vital for long-term species persistence. Animals moving through these corridors can encounter a number of barriers, including roads, fences, or other human land-uses. Additionally, people unwilling to cohabitate with wildlife can also kill animals considered nuisances or disturb animals in ways that reduce their fitness. The spatial patterns of human tolerance therefore play an important role in the efficacy of habitat corridors. Although there are large bodies of research on habitat corridors and human attitudes toward wildlife, studies that examine the spatial interaction of …

Controlling Strain Energy Density In 3d Cellular Collagen Constructs During Complex Loads, Katherine Hollar

Boise State University Theses and Dissertations

Mechanical stimulation applied to damaged soft tissues, such as ligament, can promote tissue remodeling to accelerate healing. To help identify treatments that encourage ligament healing, bioreactors have been designed to subject 3D cellularized constructs to various loading conditions in order to determine the mechanical mechanisms that trigger cell-mediated repair. An innovative approach is to use a bioreactor to apply controlled states of biaxial stress to study the effects of strain energy density and distortion energy on cell activity. Tissue distortion has been linked to changes in the structure and function of ligament, yet the specific impact of distortion energy on …

Comprehensive Investigation Of Bioactive Steroidal Alkaloids In Veratrum Californicum, Matthew West Turner

Boise State University Theses and Dissertations

Veratrum californicum, commonly referred to as corn lily or Californian false hellebore, grows in high mountain meadows and produces bioactive steroidal alkaloids, including cyclopamine. Cyclopamine is a potent inhibitor of the Hedgehog (Hh) signaling pathway. Our lab has optimized methods to extract cyclopamine and related steroidal alkaloids from V. californicum, and implemented in-house Hh signaling bioactivity evaluation of these steroidal alkaloids using a Shh-Light II cell assay. A survey of extraction methods and solvents resulted in the identification of conditions most favorable for alkaloid extraction yield and antagonist activity in the Shh-Light II cell assay. The highest amount …

Vauban In The Wilderness: The Military Revolution And The Seven Years' War In North America, Joseph M. Green

Boise State University Theses and Dissertations

For the past thirty years there has been an ongoing debate regarding the nature of the Early Modern European Military Revolution. Much of this debate centers around whether the military and technological changes which are at the heart of the military revolution created the conditions for the bureaucratic systems of the modern nation state, or if those bureaucratic systems made possible the creation of larger, state sponsored armies and navies, as well as when these changes took place. Instead of focusing on what came first, the chicken or the egg, this thesis explores one aspect of the Military Revolution, focusing …

In Silico Sequence Optimization For The Reproducible Generation Of Dna Structures, Michael D. Tobiason

Boise State University Theses and Dissertations

Biologically, deoxyribonucleic acid (DNA) molecules have been used for information storage for more than 3 billion years. Today, modern synthesis tools have made it possible to use synthetic DNA molecules as a material for engineering nanoscale structures. These self-assembling structures are capable of both resolutions as fine as 4 angstroms and executing programed dynamic behavior. Numerous approaches for creating structures from DNA have been proposed and validated, however it remains commonplace for engineered systems to exhibit unexpected behaviors such as low formation yields, poor performance, or total failure. It is plausible that at least some of these behaviors arise due …

Isolated Nucleus Stiffens In Response To Low Intensity Vibration, Joshua Newberg

Boise State University Theses and Dissertations

The nucleus, central to all cellular activity, relies on both direct mechanical input and its molecular transducers to sense and respond to external mechanical stimuli. This response occurs by regulating intra-nuclear organization that ultimately determines gene expression to control cell function and fate. It has long been known that signals propagate from an extracellular environment to the cytoskeleton and into nucleus (outside-in signaling) to regulate cell behavior. Emerging evidence, however, shows that both the cytoskeleton and the nucleus have inherent abilities to sense and adapt to mechanical force, independent of each other. While it has been shown that isolated nuclei …

Acute Exposure To Tcdd Increases Liver Disease Progression In Mice With Carbon Tetrachloride-Induced Liver Injury, Giovan N. Cholico

Boise State University Theses and Dissertations

Liver disease is a worldwide problem and the 9^th leading cause of death in the United States. Common causes of liver disease include alcohol abuse, virus infection, and nonalcoholic fatty liver. Regardless of etiology, liver damage elicits inflammation and drives the activation of hepatic stellate cells (HSCs), which deposit collagen throughout the liver. During chronic injury, excessive collagen deposition, referred to as fibrosis or “scarring”, can progress to cirrhosis, cancer, and organ failure. Emerging evidence indicates a strong association between liver disease and exposure to environmental chemicals. This research investigated mechanisms by which exposure to the environmental contaminant 2,3,7,8-tetrachlorodibenzo- …

Transcriptomic Data Support A Nocturnal Bottleneck In The Ancestor Of Gecko Lizards, Brendan J. Pinto, Stuart V. Nielsen, Tony Gamble

Biological Sciences Faculty Research and Publications

Gecko lizards are a species-rich clade of primarily-nocturnal squamate reptiles. In geckos, adaptations to nocturnality have dramatically reshaped the eye. Perhaps the most notable change is the loss of rod cells in the retina and subsequent “transmutation” of cones into a rod-like morphology and physiology. While many studies have noted the absence of some rod-specific genes, such as the visual pigment Rhodopsin (RH1), these studies have focused on just a handful of species that are nested deep in the gecko phylogeny. Thus, it is not clear whether these changes arose through convergence, are homologous and ubiquitous across geckos, or restricted …

Synthesis, Characterization, And Drug Delivery Applications Of Carbohydrate Based Low Molecular Weight Gelators, Kristen Elizabeth Bashaw

Chemistry & Biochemistry Theses & Dissertations

The main aim of the research focuses on the study of self-assembly and gelation by several classes of simple sugar derivatives and the potential applications of them as drug delivery vehicles. Since carbohydrates are naturally abundant renewable resources and are therefore readily available and many of them are inexpensive compared to other raw materials. They are also biocompatible which makes them suitable for a wide variety of applications. Combining the use of carbohydrates with low molecular weight gelators (LMWGs) we can introduce a new class of soft materials that are able to self-assemble into spheres, fibers, sheets, and micelles in …

Method For Spatial Overlap Estimation Of Electroencephalography And Functional Magnetic Resonance Imaging Responses, N. Heugel, E. Liebenthal, Scott A. Beardsley

Biomedical Engineering Faculty Research and Publications

Background

Simultaneous functional magnetic resonance imaging (fMRI) and electroencephalography (EEG) measurements may represent activity from partially divergent neural sources, but this factor is seldom modeled in fMRI-EEG data integration.

New method

This paper proposes an approach to estimate the spatial overlap between sources of activity measured simultaneously with fMRI and EEG. Following the extraction of task-related activity, the key steps include, 1) distributed source reconstruction of the task-related ERP activity (ERP source model), 2) transformation of fMRI activity to the ERP spatial scale by forward modelling of the scalp potential field distribution and backward source reconstruction (fMRI source simulation) …

Working With Environmental Economists, Annika Marie Rieger, Joerg Rieger

Research Collection School of Social Sciences

Awareness of environmental degradation, culminating in the broad global transformations of human-caused climate change, is no longer a peripheral issue. And while there may be some debate of climate change, a simple denial is no longer an option in light of the data and the agreement of 97 per cent of scientists. In light of the sheer magnitude of the challenge, which has the potential to threaten human survival, much of what we know must be rethought, including traditional academic disciplines. In this essay, an environmental sociologist and a theologian enter into a conversation with environmental economists and others concerned …

Dark Carbon Fixation In The Arabian Sea Oxygen Minimum Zone Contributes To Sedimentary Organic Carbon (Som), Sk Lengger, D Rush, Jp Mayser, J Blewett, Et Al

School of Geography, Earth and Environmental Sciences

In response to rising CO2 concentrations and increasing global sea surface temperatures, oxygen minimum zones (OMZ), or “dead zones”, are expected to expand. OMZs are fueled by high primary productivity, resulting in enhanced biological oxygen demand at depth, subsequent oxygen depletion, and attenuation of remineralization. This results in the deposition of organic carbon-rich sediments. Carbon drawdown is estimated by biogeochemical models; however, a major process is ignored: carbon fixation in the mid- and lower water column. Here, we show that chemoautotrophic carbon fixation is important in the Arabian Sea OMZ; and manifests in a 13C-depleted signature of sedimentary organic carbon. …

First Record Of Ectoparasitic Isopods On The Invasive Lionfish Pterois Miles (Bennett, 1828), C Antoniou, P Kleitou, F Crocetta, M Lorenti

School of Biological and Marine Sciences

No abstract provided.

Reconciling The Stratigraphy And Depositional History Of The Lycian Orogen-Top Basins, Sw Anatolia, Mc Alçiçek, Serdar Mayda, Veen Jh Ten, Sarah J. Boulton, Thomas A. Neubauer, H Alçiçek, Alexey S. Tesakov, Gerçek Saraç, H. Yavuz Hakyemez, Fikret Göktaş, Alison M. Murray, Vadim V. Titov, Gonzalo Jiménez-Moreno, Yeşim Büyükmeriç, Frank P. Wesselingh, Johannes M. Bouchal, F. Arzu Demirel, T. Tanju Kaya, Kazım Halaçlar, Melike Bilgin, Den Hoek Ostende Lw Van

School of Geography, Earth and Environmental Sciences

Terrestrial fossil records from the SW Anatolian basins are crucial both for regional correlations and palaeoenvironmental reconstructions. By reassessing biostratigraphic constraints and incorporating new fossil data, we calibrated and reconstructed the late Neogene and Quaternary palaeoenvironments within a regional palaeogeographical framework. The culmination of the Taurides in SW Anatolia was followed by a regional crustal extension from the late Tortonian onwards that created a broad array of NE-trending orogen-top basins with synchronic associations of alluvial fan, fluvial and lacustrine deposits. The terrestrial basins are superimposed on the upper Burdigalian marine units with a c. 7 myr of hiatus that corresponds …

Guidelines On The Diagnosis And Management Of The Progressive Ataxias, Silva R. De, J Greenfield, A Cook, H Bonney, J Vallortigara, B Hunt, P Giunti

More Faculty of Health Research

No abstract provided.

Phosphorus Runoff Risk Assessment In Karstic Regions Of The United States, Andrew N. Sharpley, Phillip D. Hays, Karl W. Vandevender, Mike B. Daniels

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

The Phosphorus (P) Index risk assessment tool has been widely adopted across the United States to identify and rank site vulnerability to P runoff as part of the Natural Resources Conservation Service nutrient management planning (NMP) process. However, limited success has been achieved in addressing the risk of P loss by subsurface flow pathways, despite its relative importance in certain areas of the United States, particularly in those U.S. states dominated by karst terrain. Here we review how states with varying land areas classified as having karst features address the risk of P runoff during the NMP process. Indices adopted …

The Influences Of Calculus I On Engineering Student Persistence, Amie Baisley

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

About half of the students that are declared engineering majors end up leaving engineering within their first two years at the university. This happens following the required math and science courses that these students must take before getting into the technical engineering coursework. There are two systems that students must be a part of at the university to feel comfortable and have the desire to continue on in their degree. These include the academic system and the social system. The experiences engineering students have during their first required math course, Calculus I, is likely not promoting integration into these two …

Redefining Ceremony And The Sacred: Short Stories From The Dinétah, Stacie S. Denetsosie

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

This is a creative thesis comprised of three short stories centered on the experiences of three Navajo protagonists living on the Navajo reservation. The short stories fit within the field of Native American Literature and highlight issues of mortality, sexuality, and ceremony. The stories illustrate the experiences of modern-day Navajo youth grappling to understand how to connect traditional knowledge with modernity. The three stories featured within this thesis are offered as a way to understand these challenges. Each protagonist is faced with an issue of morality, sexuality, or ceremony, and each reach differing conclusions about these topics within their lives. …

Relationship Maintenance Behaviors And Marital Stability In Remarriage: The Examination Of Stepfamily Constellations And Associated Challenges, Ron C. Bean

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Research on stepfamily life in the 21^st century reveals unexplored variables at every turn. This is important because around half of American adults report close step-relationships and the challenges and demographic and relational differences for different types of stepfamilies remains unexplored. The first of these studies explored data for 879 husbands and wives couples to explore how positivity, negativity, and sexual interest levels differ depending which of the couple, both partners, or neither had previous children. Wives reported higher levels of marital instability and positivity than husbands. Marital instability was linked with one’s own and one’s partners’ negativity, and …

The Role Of Social Support In Dementia Care Facilities: Staff Member Perspectives, Malinda K. Dokos

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

In this study, certified nursing assistants (CNAs) who work regularly with long-term care residents with dementia were interviewed to investigate whether they considered providing social and emotional support to people with dementia an important part of their jobs. They were given an online survey, then each participated in an in-person interview that was recorded and later transcribed and analyzed for common themes. Through data analysis, I found that the participating CNAs unanimously considered social support to be an important aspect of caring for someone with dementia, and several personal values were associated with this perspective. They also reported the trainings …

Seeding Treatments To Enhance Seedling Performance Of The Bulrushes Bolboschoenus Maritimus, Schoenoplectus Acutus And S. Americanus In Wetland Restorations, David M. England

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

A major goal in restoration is to reestablish native plant communities. There are several ways to reestablish species, but for large areas the most logistically feasible approach is to sow seed of desirable species. However, most wetland seeds are buoyant and are extremely difficult to establish in designated areas before floating away. In upland areas, tackifiers have been used to stabilize hill slopes from erosion and to keep seeds in place. The tackifier works as an adhesive that binds the seeds to the soil. However, the use of a tackifier has not been widely employed in wetland restorations, and prior …

Coaching Parents To Use Positive Behavior Support: Function-Based Interventions For Preschool Children With Challenging Behavior, Lauren E. Pace

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Parents who have children with challenging behavior may feel stressed, overwhelmed and at a loss for solutions. Challenging behavior can cause problems with children’s relationships with others and their school success. There are many resources for schools and children with special needs; however, resources for parents for young children (ages 3 to 5) with challenging behavior are limited. This study examined the impact of a 6-week intervention to coach parents to use strategies that encouraged children to develop skills that helped them to express frustration and solve problems in positive ways. Parents were better able to understand what the children …

Measuring The Self-Efficacy Of Students Participating In Vex Robotics Competitions, Joseph S. Furse

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Robotic competitions have become an increasingly popular educational tool to increase students’ interest and achievement in STEM. The largest and fastest growing of these is VEX Robotics Competitions (VRCs). Although millions of dollars of funding are allocated, and countless hours of effort are expended annually to provide students with the opportunity to compete in VRCs, little research has been done to investigate the educational impacts of participation in these competitions. One promising research framework in this area is to investigate the self-efficacy of students who participate in VRCs. Self-efficacy, or the beliefs one holds about one’s own abilities in a …

Enteric Methane And Nitrogen Emissions In Beef Cattle Grazing A Tannin-Containing Legume Relative To Feedlot And Traditional Pasture-Based Production Systems, Raúl David Guevara Ballesteros

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Beef cattle production is highly criticized because of the high use of land and water resources, and by the pollution (e.g., the gas methane in a cow’s breath and nitrogen in urine) produced by cows fed in feedlots. In contrast to feedlots diets and grasses, some plants (e.g., legumes) contain bioactive compounds (condensed tannins) that reduce pollution and enhance animal nutrition. In my research, I observed that cows grazing a tannin-containing legume (birdsfoot trefoil; BFT) had methane emissions similar to cows fed a feedlot ration with comparable weight gains. Cows in the BFT treatment gained more weight than cows grazing …

Exploring The Physiology And Evolution Of Hornworts, Tanner A. Robison

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Plants contain organelles called chloroplasts, which is where photosynthesis takes place. Chloroplasts also contain their own DNA, which is separate from the DNA in the nucleus. This DNA does not change much over evolutionary time, so it can be used to investigate relationships between organisms. Here we created a tool that makes it easier to analyze this chloroplast DNA as well making it easier to share complete chloroplast genomes on public databases. In addition, we also found a mobile element in the chloroplast DNA of a group of ferns, which appears to be driving structural changes in their genomes.

The Influence Of Adjacent Weed Populations On Thrips And Iysv In Onion, S. Andrew Swain

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Onion thrips (Thrips tabaci) and Iris Yellow Spot Virus (IYSV) constitute a pest complex of global concern for allium growers. Yield losses due to onion thrips alone can be heavy, and in tandem with IYSV, these losses can be complete.

This study was one phase of a multi-phase research project intent on exploring the potential drivers of thrips and virus infestation in onion. Preliminary observations in participating growers’ fields in northern Utah pointed towards a potential link between weedy field borders and thrips/IYSV infestation in onion. Field work was carried out at the Kaysville experiment station examining the …

Dry Heat Among The Red Rocks: Risk Perceptions And Behavioral Responses To Extreme Heat Among Outdoor Recreationists In Southeastern Utah, Kirsten M. Goldstein

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Communicating the risks related to extreme heat is important and essential for saving lives. This study looks at how tourists think about extreme heat in a hot and dry environment. It looks at relationships between an individual’s local climate, their thoughts about the current weather conditions, and demographics. The results from this study are intended to help tourist agencies, emergency managers and emergency planners, and policymakers in creating and carrying out communication strategies for extreme heat.

Thoughts about and physical responses to weather are different for everyone and shaped by personal experiences. How one thinks and feels about the weather …

Evaluation Of Stream Bank Restoration To Improve Water Quality In A Semi-Arid Stream, Johnathan Neenan

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Human watershed activities such as converting land cover to agriculture and livestock grazing have negatively impacted stream water quality worldwide. One such case is Utah’s Upper Sevier River where a loss of woody bank vegetation (reduced shading) and accelerated bank erosion (increased fine sediment inputs) has led to increased stream temperature and water turbidity. As a result, the state of Utah sought to improve water quality conditions using streambank restoration. While commonly recommended and performed, the effectiveness of this sort of restoration has rarely been quantified. Here, I evaluated a restored reach of the Upper Sevier River near Hatch, UT …