Digital Commons Network^™

The Constitution Of Mathematical Knowledge With Augmented Reality, Rosa Monteiro Paulo, Anderson Luís Pereira, Elisangela Pavanelo

The Mathematics Enthusiast

Digital Technologies are increasingly present in our activities. Many things we do we are not even able to imagine how they would be done, if we did not have the technological resources at hand. However, perhaps in the opposite direction of this, in the school context, or in teaching and learning, the discussion about the potential and the viability of these resources is still subject of a non-consensual discussion. When this context is Higher Education, specifically in undergraduate courses, the situation is even worse, as stated by research that we bring in this text. In disciplines such as Differential and …

Comparative Analysis Of Genuine Acetaminophen By Raman Spectroscopy And Chemometrics, Elisabeth M. Good

Forensic Science Master's Projects

The use of Raman spectroscopy with Chemometric analysis has been well documented as an effective method for the identification of counterfeit pharmaceutical products. Due to an ongoing concern about the lack of transparency surrounding the manufacturing of generic pharmaceuticals in the US, this project aimed to examine the utility of the method for the differentiation of generic pharmaceuticals. A testing pool of six generic acetaminophen brands along with four unique samples of name brand Tylenol acetaminophen was obtained and representative tablets were characterized by Raman spectroscopy.

The results showed certain observable variance between brands and manufacturing lots. Two brands were …

Utility Of Ferritin And Inflammatory Biomarkers In The Diagnosis Of Different Stages Of Breast Cancer, Anila George, Zachariah Bobby, Biswajit Dubashi

Saudi Medical Journal

Objectives: To assess the utility of ferritin and inflammatory biomarkers in the diagnosis of stages of breast cancer. Methods: The study consisted of 4 groups of 20 women, including the healthy control. The patients of group 1 comprised of stages I and II, group 2: stage III and group 3: stage IV of the disease. High sensitive C-reactive protein (hsCRP) and hepcidin were estimated by enzyme linked immunosorbent assay and ferritin by chemiluminescence immunoassay. The study was carried out in 2018 at Jawaharlal Institute of Postgraduate Medical Education and Research, Puducherry-6, India. Results: The breast cancer disease progression correlated negatively …

Exploring Trauma, Loss, And Posttraumatic Growth In Poles Who Survived The Second World War And Their Descendants, Alexandra Rush

Theses, Dissertations and Culminating Projects

Life Course Theory’s (Elder, 1998) paradigmatic themes of historical time and place, linked lives, timing of events, and human agency were applied to explore the experiences of Poles who survived the Second World War in Poland and the impact of intergenerational transmission of traumatic effects and/or features of posttraumatic growth, and meanings constructed. A phenomenological analysis was based on 13 semi-structured, in-depth interviews with one 1st generation survivor, seven 2nd generation and five 3rd generation descendants; four females and nine males, ranging in age from 23 to 90. The conceptual framework of Posttraumatic Growth (Tedeschi & Calhoun, 2006); positive changes …

Characterizing Bacterial Communities Across A Nutrient Gradient Over Winter Months, Emily Jin Searles Stone

Theses, Dissertations and Culminating Projects

When trying to understand how anthropogenic activities affect patterns in community ecology, bacterial communities are frequently neglected. These bacterial communities are essential to the overall health and stability of several different ecosystems. As nutrient pollution increases, some bacterial taxa may increase, causing an imbalance in food web dynamics and disrupting biogeochemical cycles. Next-generation sequencing coupled with water chemistry measurements has allowed for association testing between site water characteristics and bacterial taxa. By examining bacteria along a natural nutrient gradient over winter months in Overpeck Creek in northern New Jersey, this research shows that anthropogenic activities, specifically nutrient pollution, can alter …

Determination Of The Structure, Function, And Mechanism Of Type Iv Crispr-Cas Prokaryotic Defense Systems, Hannah Nicole Taylor

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Bacteria are under constant threat of invasion by bacteriophage (viruses which infect bacteria). To prevent bacteriophage from entering and overtaking the bacteria, bacteria utilize defense systems to identify and destroy foreign elements. One method of defense is called CRISPR-Cas (Clustered Regularly Interspaced Short Palindromic Repeats – CRISPR-Associated). Many different bacteria and most archaea use CRISPR-Cas systems. There are many diverse types of CRISPR-Cas systems, each of which provides defense in a slightly different way. One such CRISPR-Cas type is called type IV. The type IV CRISPR-Cas system is poorly understood and there are very few studies published on type IV …

Tumor-On-Chip Modeling Of Organ-Specific Cancer And Metastasis, Nuala Del Piccolo, Venktesh S Shirure, Ye Bi, S Peter Goedegebuure, Sepideh Gholami, Christopher C W Hughes, Ryan C Fields, Steven C George

2020-Current year OA Pubs

Every year, cancer claims millions of lives around the globe. Unfortunately, model systems that accurately mimic human oncology - a requirement for the development of more effective therapies for these patients - remain elusive. Tumor development is an organ-specific process that involves modification of existing tissue features, recruitment of other cell types, and eventual metastasis to distant organs. Recently, tissue engineered microfluidic devices have emerged as a powerful in vitro tool to model human physiology and pathology with organ-specificity. These organ-on-chip platforms consist of cells cultured in 3D hydrogels and offer precise control over geometry, biological components, and physiochemical properties. …

Deep Learning-Based Mixed-Dimensional Gaussian Mixture Model For Characterizing Variability In Cryo-Em, Muyuan Chen, Steven J Ludtke

Faculty, Staff and Students Publications

Structural flexibility and/or dynamic interactions with other molecules is a critical aspect of protein function. Cryogenic electron microscopy (cryo-EM) provides direct visualization of individual macromolecules sampling different conformational and compositional states. While numerous methods are available for computational classification of discrete states, characterization of continuous conformational changes or large numbers of discrete state without human supervision remains challenging. Here we present e2gmm, a machine learning algorithm to determine a conformational landscape for proteins or complexes using a three-dimensional Gaussian mixture model mapped onto two-dimensional particle images in known orientations. Using a deep neural network architecture, e2gmm can automatically resolve the …

Thioredoxin Reductase Is A Major Regulator Of Metabolism In Leukemia Cells, Sheelarani Karunanithi, Ruifu Liu, Yongchun Hou, Giancarlo Gonzalez, Natasha Oldford, Anne Jessica Roe, Nethrie Idipilly, Kalpana Gupta, Chandra Sekhar Amara, Satwikreddy Putluri, Grace Kyueun Lee, Juan Valentin-Goyco, Lindsay Stetson, Stephen A Moreton, Vasanta Putluri, Shyam M Kavuri, Yogen Saunthararajah, Marcos De Lima, Gregory P Tochtrop, Nagireddy Putluri, David N Wald

Faculty, Staff and Students Publications

Despite the fact that AML is the most common acute leukemia in adults, patient outcomes are poor necessitating the development of novel therapies. We identified that inhibition of Thioredoxin Reductase (TrxR) is a promising strategy for AML and report a highly potent and specific inhibitor of TrxR, S-250. Both pharmacologic and genetic inhibition of TrxR impairs the growth of human AML in mouse models. We found that TrxR inhibition leads to a rapid and marked impairment of metabolism in leukemic cells subsequently leading to cell death. TrxR was found to be a major and direct regulator of metabolism in AML …

Transcriptional Milestones In Dictyostelium Development, Mariko Katoh-Kurasawa, Karin Hrovatin, Shigenori Hirose, Amanda Webb, Hsing-I Ho, Blaž Zupan, Gad Shaulsky

Faculty, Staff and Students Publications

Dictyostelium development begins with single-cell starvation and ends with multicellular fruiting bodies. Developmental morphogenesis is accompanied by sweeping transcriptional changes, encompassing nearly half of the 13,000 genes in the genome. We performed time-series RNA-sequencing analyses of the wild type and 20 mutants to explore the relationships between transcription and morphogenesis. These strains show developmental arrest at different stages, accelerated development, or atypical morphologies. Considering eight major morphological transitions, we identified 1371 milestone genes whose expression changes sharply between consecutive transitions. We also identified 1099 genes as members of 21 regulons, which are groups of genes that remain coordinately regulated despite …

Sugar-Sweetened Beverage Consumption May Modify Associations Between Genetic Variants In The Chrebp (Carbohydrate Responsive Element Binding Protein) Locus And Hdl-C (High-Density Lipoprotein Cholesterol) And Triglyceride Concentrations, Danielle E Haslam, Gina M Peloso, Melanie Guirette, Fumiaki Imamura, Traci M Bartz, Achilleas N Pitsillides, Carol A Wang, Ruifang Li-Gao, Jason M Westra, Niina Pitkänen, Kristin L Young, Mariaelisa Graff, Alexis C Wood, Kim V E Braun, Jian'an Luan, Mika Kähönen, Jessica C Kiefte-De Jong, Mohsen Ghanbari, Nathan Tintle, Rozenn N Lemaitre, Dennis O Mook-Kanamori, Kari North, Mika Helminen, Yasmin Mossavar-Rahmani, Linda Snetselaar, Lisa W Martin, Jorma S Viikari, Wendy H Oddy, Craig E Pennell, Frits R Rosendall, M Arfan Ikram, Andre G Uitterlinden, Bruce M Psaty, Dariush Mozaffarian, Jerome I Rotter, Kent D Taylor, Terho Lehtimäki, Olli T Raitakari, Kara A Livingston, Trudy Voortman, Nita G Forouhi, Nick J Wareham, Renée De Mutsert, Steven S Rich, Joann E Manson, Samia Mora, Paul M Ridker, Jordi Merino, James B Meigs, Hassan S Dashti, Daniel I Chasman, Alice H Lichtenstein, Caren E Smith, Josée Dupuis, Mark A Herman, Nicola M Mckeown

Faculty, Staff and Students Publications

BACKGROUND: ChREBP (carbohydrate responsive element binding protein) is a transcription factor that responds to sugar consumption. Sugar-sweetened beverage (SSB) consumption and genetic variants in the

METHODS: Data from 11 cohorts from the Cohorts for Heart and Aging Research in Genomic Epidemiology consortium (N=63 599) and the UK Biobank (N=59 220) were used to quantify associations of SSB consumption, genetic variants, and their interaction on HDL-C and triglyceride concentrations using linear regression models. A total of 1606 single nucleotide polymorphisms within or near

RESULTS: In a meta-analysis, rs71556729 was significantly associated with higher HDL-C concentrations only among the highest SSB consumers …

Cd148 Deficiency In Fibroblasts Promotes The Development Of Pulmonary Fibrosis, Konstantin Tsoyi, Xiaoliang Liang, Giulia De Rossi, Stefan W Ryter, Kevin Xiong, Sarah G Chu, Xiaoli Liu, Bonna Ith, Lindsay J Celada, Freddy Romero, Matthew J Robertson, Anthony J Esposito, Sergio Poli, Souheil El-Chemaly, Mark A Perrella, Yuanyuan Shi, James Whiteford, Ivan O Rosas

Faculty, Staff and Students Publications

Rationale: CD148/PTRJ (receptor-like protein tyrosine phosphatase η) exerts antifibrotic effects in experimental pulmonary fibrosis via interactions with its ligand syndecan-2; however, the role of CD148 in human pulmonary fibrosis remains incompletely characterized.

Objectives: We investigated the role of CD148 in the profibrotic phenotype of fibroblasts in idiopathic pulmonary fibrosis (IPF).

Methods: Conditional CD148 fibroblast-specific knockout mice were generated and exposed to bleomycin and then assessed for pulmonary fibrosis. Lung fibroblasts (mouse lung and human IPF lung), and precision-cut lung slices from human patients with IPF were isolated and subjected to experimental treatments. A CD148-activating 18-aa mimetic peptide (SDC2-pep) derived from …

Factors Related To Cognitive Reserve In Healthy Older Adults, Ann Tram Nguyen

Loma Linda University Electronic Theses, Dissertations & Projects

Background. Physical and cognitive impairments are two of the most prevalent age-related conditions, with evidence that both factors interact prior to or concurrently with the earliest detectable stages of cognitive impairment. Cognitive reserve (CR) allows an individual to cope more successfully with age-related brain and functional changes and is associated with better cognitive function and reduced risk of cognitive decline. However, it remains unclear to date the specific roles of individual markers of CR, and whether or not this relationship is modified by genetic risk (ApoE-4 genotype) and/or physical function. Method. We assessed cognitive functioning (global cognition, psychomotor …

The Moderating Role Of Social Support In Stigma And Symptoms Of Anxiety And Depression, Taylor Phillips

Undergraduate Honors Theses

In this study, we examine the relationship between having a support system and the stigma individuals face with depression and anxiety symptoms. The aim of this study was to examine if having a support system acts as a buffer between perceived stigma and mental health symptoms. For this study, I conducted an online survey to measure symptoms of depression and anxiety, experiences with both perceived and internalized stigma, and social support. While 93 total participants engaged in the survey, only 52 fully completed the survey and passed two attention-check questions to ensure no invalid participation (e.g., BOTS) were present. In …

The Immunoregulatory Landscape Of Human Tuberculosis Granulomas, Evan Li, Antony Rodriguez, Amber U Luong, David Allen, John Morgan Knight, Farrah Kheradmand, David B Corry

Faculty, Staff and Student Publications

The allergic airway diseases chronic rhinosinusitis (CRS), allergic fungal rhinosinusitis (AFRS), asthma, allergic bronchopulmonary mycosis/aspergillosis (ABPM/A), and cystic fibrosis (CF) share a common immunological signature marked by T H 2 and TH 17 cell predominant immune responses, the production of IgE antibody, and atypical inflammatory cell infiltrate that includes eosinophils and other innate immune effector cells. Severe forms of these disorders have long been recognized as being related to hypersensitivity reactions to environmental fungi. Increasingly however,environmental fungi are assuming a more primary role in the etiology of these disorders, with airway mycosis, a type of non-invasive airway fungal infection,recognized as …

Indigenous Science Network Bulletin - August 2021

Indigenous Science Network

In this edition of the bulletin, we present another collection of items related to First Nations peoples and their science for an audience of teachers, scientists and interested community members from across the globe.

Long Term Recovery From Cattle Grazing Disturbance And Climate Impacts At Capitol Reef National Park, Utah, Erin Tessens

Master's Theses

Cattle grazing has influenced the environment in the western United States since European settlement in the 1800’s. Continuous and heavy grazing on arid and semi-arid rangelands has resulted in decreased biodiversity, changes in vegetation structure, and vulnerability to exotic plant invasion. Heavy grazing has also been linked to decreased cryptobiotic soil due to trampling and susceptibility to erosion. With a lack of effective means of successful habitat restoration, there is a rising concern among land managers to maintain these intricate systems, notably under the threat of climate change. Consequently, there is a critical need to understand these system’s response to …

Ichthyofaunal Utilization Of A Man-Made Salt Marsh Creak In Mission Bay, California, 25 Years After Creation, Maria Angst

McNair Summer Research Program

Southern California’s wetlands are drastically declining due to human activities. Increasingly, marsh restoration and creation are being used to mitigate such losses. This study used minnow traps to resample the ichthyofauna of a created marsh (Crown Point Mitigation Site; CPMS) and an adjacent natural marsh (Kendall Frost) in Mission Bay, California, 26 years following the marsh creation. These data were compared to data collected from 1995-1998, immediately after marsh creation. Fishes trapped included Fundulus parvipinnis, Gillichthys mirabilis, Ctenogobius sagittula, Atherinops affinis, and Mugil cephalus. Species richness and dominance measures were higher in the natural relative to the created marsh. The …

"Chri"Sis At The Nicu: The Medley With Midazolam, Reeyan Bhakat, Nghi M. Nguyen, Victoria L. Schaal, Gurudutt Pendyala

Posters: 2021 Summer Undergraduate Research Program

Approximately 1.5 million neonates undergo anesthesia for surgical procedures in the United States every year¹. Midazolam is a commonly used anesthetic agent used in the Neonatal Intensive Care Unit (NICU). It is used to sedate neonates and facilitates complex procedures such as mechanical ventilation.² The extensive use of midazolam has raised questions about whether it affects the cognitive development of infants. In 2014, the International Anesthesia Research Society released a statement saying, “Surgeries and procedures requiring anesthetic and sedative drugs that could reasonably be delayed should possibly be postponed because of the potential risk to the developing …

Scientometric Analysis Of Indian Journal Of Traditional Knowledge (Ijtk), 2014-2020, Dr. Santosh Gupta, Rakesh Kumar Sahu

Library Philosophy and Practice (e-journal)

Traditional knowledge (TK) is indigenous knowledge, innovation, and practices developed, preserved, and passed down from one generation to other within a community, typically as a part of the community's cultural or spiritual identity. Traditional knowledge in its broadest sense encompassed both contents of knowledge and traditional cultural expressions, including specific signs and symbols associated with it. Scientometric is a technique and tool used to measure quantitative scientific activity and productivity of publication. This paper provides research trends in traditional knowledge through a critical scientometric analysis of 705 research articles published in 28 issues of the “Indian Journal of Traditional Knowledge …

Development Of A Highly Sensitive Pressure Sensing System With Custom-Built Software For Continuous Physiological Measurements, Masoud Panahi

Masters Theses

In this work, a pressure sensing system was designed and fabricated by developing a highly sensitive cone-structured pressure sensor with a custom-built software for physiological monitoring applications. A novel highly sensitive cone structured porous polydimethylsiloxane (PDMS) based pressure sensor capable of detecting very low-pressure ranges was developed for respiration monitoring. The pressure sensor was fabricated using a master mold, a hybrid-structured dielectric layer, and fabric-based electrodes. The master mold with inverted cone structures was created using a rapid and precise three-dimensional (3D) printing technique. The dielectric layer, with pores and cone structures, was prepared by annealing a mixture of PDMS, …

The Shortcomings Of Maize: Using Tipu To Assess Maize Consumption And Its Impact On Stature And Limb Proportions Among The Maya, Peter Mercier

Master's Theses

A reliance on maize among the ancient and modern Maya has been reasoned to cause short statures and short legs compared to overall height. The goal of this study was to test this proposition using a sample of contact period Maya from the site of Tipu in western Belize. Long bone length data from 100 individuals were compared to that from two other prehistoric maize agriculturalist societies: the Schild site in Illinois and Pecos Pueblo in New Mexico.

Four hypotheses were tested: 1) Tipu would be the shortest, 2) Tipu would have the shortest femora relative to tibiae, 3) Tipu …

Analyzing The Consistency Of Scoring Porotic Hyperostosis From 3d Scans, Carson Rouse

Master's Theses

The use of 3D scans is becoming more and more common in the field of bioarchaeology. They alleviate the need to travel, allow for larger sample sizes, and can help preserve bones with pathologies on them which make them more fragile. Though there are major benefits with using 3D scanning of human remains, there is a lack of studies which examine whether or not traditional pathology scoring methods can be used to consistently gather the same data from these 3D scans. This project examines how consistently six researchers of varying experience levels scored porotic hyperostosis from 25 3D scans on …

Haunted And Hunted: The Gothic And The Ghostly In The Light And Asylum, Adam Dunnells

Master's Theses

Young adult Gothic horror fiction acts as a coming-of-age story wherein the protagonists must confront the metaphorical and literal ghosts while simultaneously attempting to establish a sense of identity. Applying Gothic theory and ghost theory to the ghostly stories in young adult Gothic horror demonstrates how certain young adult Gothic stories represent the struggle of adolescents as they mature into adulthood and search for their identities. I use Madeline Roux’s Asylum (2013) and D.J. MacHale’s The Light (2010) as case studies to analyze how ghostly antagonists directly oppose adolescent protagonists on their coming-of-age journeys. Analyzing these young adult Gothic horror …

Comparison Of Supported Liquid Extraction And Solid Phase Extraction Of Methamphetamine From Urine And Method Validation By Gas Chromatography-Mass Spectrometry, Taylor Hood

Master's Theses

Applications of SLE (supported liquid extraction) is a relatively new extraction technique that is not widely used in forensic toxicology. SLE is also easier and less time consuming than traditional LLE (liquid-liquid extraction) and SPE (Solid phase extraction). This work will compare the extraction efficiencies between SLE and SPE for methamphetamine from urine with detection and quantitation using GC-MS (gas chromatography- mass spectrometry). The SLE cartridges provide better analyte recoveries, eliminate emulsion formation, and allow for shorter processing time than other extraction techniques. The SPE cartridges used have a mixed-mode non-polar/strong cation exchange retention mechanism to extract basic analytes like …

Polycyclic Aromatic Hydrocarbons And The Microbiomes Of Two Benthic Species, Samantha Ells

Master's Theses

The presence of oil has been shown to affect the microbiomes of the water column, sediments, and organisms, both by altering the diversity and the composition of those microbial communities. If the microbiome is altered it may no longer provide benefits to its host organism, impacting its ability to survive. Thus, it is important to understand the effects of large-scale contamination events including the Deepwater Horizon oil spill. This study set out to examine the effects of oil exposure on the microbiome of two benthic species, southern flounder (Paralichthys lethostigma) and eastern oysters (Crassostrea virginica) to further understand the effects …

Sedimentology And Shallow Groundwater Responses Of A Coastal Marsh Along A Salinity Gradient: A Case Study In Grand Bay National Estuarine Research Reserve, Mississippi, James Thompson

Master's Theses

Climate change and relative sea level rise is resulting in saltwater intrusion and inundation of coastal marshes. This study investigates factors affecting marsh hydrology, including sediment composition, seasonal variability, and coastal storms in Grand Bay National Estuarine Research Reserve (NERR) near Pascagoula, Mississippi. Analysis of sediment includes color, organic matter, carbonate, magnetic susceptibility, and particle size. Shallow groundwater hydrologic trends between Summer 2015 and Fall 2016 are established along a salinity gradient at four sites using water levels, temperature, and conductivity monitored at the surface and in piezometers at depths of 0.75m, 1.5m, and 2.25m.

Sediment analysis indicates reducing conditions …

Spatial And Seasonal Patterns Of Above- And Belowground Vegetation Biomass And Potential Drivers In The Pascagoula River Delta, Ms, Evan Grimes

Master's Theses

Coastal wetlands provide a valuable wealth of services to the greater coastal ecosystem and human communities. However, threats such as sea level rise and conservation projects, such as freshwater diversions, have the potential to alter coastal wetlands in different ways. In this thesis, I describe the effects of inundation and nitrogen on vegetation productivity using a field-sampling approach and an in situ controlled mesocosm experiment, called a marsh organ. The West Channel of the Pascagoula River contained significantly higher belowground biomass than the East Channel, which is more anthropogenically modified. Vertical distribution of belowground biomass did not strongly vary between …

Characterization Of The Bacterial Microbiome Of Exotic Tick Species Collected From Migratory Birds, Raima Sen

Master's Theses

Migratory birds often serve as natural/accidental hosts to ectoparasites like ticks (predominantly immature stages) and are known reservoirs of several pathogens transmitted by ticks. Parasitizing these birds, exotic tick species often hitch rides to non-native ecological niches, bringing along tick-borne pathogens. This study aims to profile the bacteriome of exotic tick species flying in and out of the US from the Neo-tropical South. A total of 421 tick samples comprised of several different tick species were collected off migratory songbirds at sites north of the Gulf of Mexico (Louisiana State). A 16S rRNA metagenomic multiplexed sequencing approach was used to …

Population Parameter Estimation And Stable Isotope Analysis Of Gulf Sturgeon (Acipenser Oxyrinchus Desotoi) In The Pascagoula River, Alfonso Cohuo

Master's Theses

Gulf Sturgeon (GS), Acipenser oxyrinchus desotoi, are a threatened, anadromous fish species in the northern Gulf of Mexico. Their range is from the Pearl River, LA, in the west to the Suwannee River, FL, in the east with a longitudinal divide at Mobile Bay, AL, creating a western population unit (WPU) and an eastern population unit (EPU). Sturgeon belonging to the WPU exhibit lower abundances, higher mortality rates, and are overall less studied than their EPU counterparts. Notable data gaps for the WPU includes the absence of recent population parameter estimations and confirmed feeding habitat. My thesis aims to …