Digital Commons Network^™

Geometric Multi-Resolution Analysis Across Signals, Images, And Networks, Felicia Schenkelberg

Dartmouth College Master’s Theses

This research delves into the transformative potential of Geometric Multi-Resolution Analysis (GMRA) as a robust tool for dimensionality reduction and data analysis in the context of high-dimensional graphs. Statistical techniques for classification have historically been tailored for scenarios wherein the number of observations significantly exceeds the number of features, a paradigm characteristic of low-dimensional datasets. However, recent advancements in technologies have ushered in a transformative era in data collection practices across diverse domains, resulting in the acquisition of extensive feature measurements. As a result of this shift, datasets have transitioned into a high-dimensional realm wherein the number of features significantly …

Biophysical Model Of Retraction Motor Neurons And Their Modification By Operant Conditioning, Maria Rasheed

Dissertations and Theses (Open Access)

Operant conditioning (OC) is a form of associative learning in which an animal modifies its behavior based on the consequences that follow that behavior. Despite its ubiquity, the underlying mechanisms of OC are poorly understood. Insights into the mechanisms of OC can be obtained by studying Aplysia feeding behavior as it can be modified by OC. This behavior is mediated by a central pattern generator (CPG) network in the buccal ganglia that contains a relatively small number of neurons. This CPG generates rhythmic motor patterns (BMPs) that move food into the gut by closing a tongue-like structure (i.e., radula) during …

Testing Resilience Of Microalgae Biofilms When Exposed To Hydrothermal Liquefaction Aqueous Phase, Davis Riley Haag

Undergraduate Honors Capstone Projects

There are a multitude of experimental and processing techniques in the bioenergy field that produce sustainable and carbon negative to carbon neutral methods of converting renewable resources into biologically based hydrocarbons. One example of a process is hydrothermal liquefaction (HTL) which specializes in converting wet biomass into biocrude oil. One reason that these processes are not used outside experimental testing is due to the high cost of performing these processes. There is potential to move these processes to larger scale testing and eventually industrial adaptation if breakthroughs are made to offset the process expenses. There is a waste product produced …

An In Vitro Investigation Of Urothelial Cell Function In Response To Hypoxia And Pressure In Relation To Bladder Outlet Obstruction, Britney Hudson

All Dissertations

Bladder outlet obstruction (BOO) is a prevalent urological condition and can be characterized by the presence of lower urinary tract symptoms (LUTS), such as hesitancy, weak stream, and nocturia. The main cause of BOO is a partial blockage of the urethra, which results in elevated voiding pressure, high storage pressure, and tissue ischemia, which are thought to be the triggers of bladder inflammation and subsequent fibrosis. Often patients do not seek treatment until the conditions get severe. Thus, it would be ideal to have an early diagnostic tool to detect changes in the bladder due to BOO. Extracellular vesicles (EVs) …

Optical Wavelength Measurement Based On Microwave-Photonics And Fiber Dispersion, Yongji Wu

All Dissertations

In modern photonics, combining microwave techniques with optical measurements has introduced a novel research direction. This study introduces a novel Microwave Photonics Wavelength Measurement System (MP-WMS), integrating microwave photonics with fiber chromatic dispersion to achieve direct wavelength measurement. Utilizing cost effective single mode optical fibers as dispersion devices, this system employs chromatic dispersion to convert optical frequency domain measurements into microwave time domain measurements. We established a mathematical model to describe how different wavelengths are detected, enhancing the system's effectiveness. The MP-WMS system offers an affordable solution with high resolution. In the experiment, we used a 35km long SM-28 single-mode …

Toxicokinetics And Toxicodynamics Of Radium-226 In An Estuarine Sentinel Species Geukensia Demissa, Sarah Donaher

All Dissertations

The historical use of radioluminescent objects, most notably those containing radium-226 (²²⁶Ra)-based paint, has contributed to contemporary environmental contamination of radioactive material, often near naval installations or other military-associated coastal sites. The risk to both human and environmental health from this small-scale, discrete radioactive material is challenging to predict due to large uncertainties in the source terms, bioavailability, and toxicity of these objects. The objective of this study was to provide information on the accumulation and toxicity of acute ²²⁶Ra exposure in a sentinel species to improve risk assessments for small-scale, coastal radiological contamination. The sentinel species …

Additive Manufacturing With Bioresorbable Polymers: Process-Structure-Property Relationships For Biomimetic Tissue Scaffolds, Clayton Joseph Culbreath

All Dissertations

Tissue engineering has a base requirement of scaffold structures to support cell growth, proliferation, and regeneration. However, attempts to use artificial scaffold structures have often fallen short of clinical needs to justify the change away from the established, biologic-based current standard of care. Based on the limited number of successful tissue scaffolds produced by material extrusion modes of additive manufacturing, fused filament 3d printing and electrospinning, critical design specifications for a tissue scaffold are six minimum requirements: 1) biocompatibility, 2) porosity, 3) mechanical properties, 4) bioresorbable medical grade materials, 5) bioactivity, and 6) appropriately scaled production methods compliant with medical …

Tin-Silver As A Novel Biodegradable Metallic Biomaterial, Charley Goodwin

All Dissertations

The Essure device is a non-hormonal, minimally-invasive, permanent female sterilization implant, removed from the market due to an increase in adverse events, hypothesized to be caused by corrosion of the Sn-Ag component of the implant. The goals of this dissertation were to first develop implant retrieval methods for Essure devices and surrounding tissue, documenting signs of degradation and metallic degradation products, then to characterize the electrochemical behavior of Sn-Ag in biologically representative environments and finally, to assess the biological interaction of Sn-Ag. Retrieval analyses developed successful methods, qualifying the degree of corrosion, primarily of the Sn-Ag component and finding Sn …

What Is Biological Engineering? – A Magazine, Morgan Christensen

Undergraduate Honors Capstone Projects

Biological Engineering is one of the less commonly known fields of engineering and can be challenging to describe to someone outside the discipline. The most common question I've been asked during my undergraduate career is "What is biological engineering?". My answer has changed throughout my time at Utah State University as I've had more experiences within the discipline. This project focuses on answering this question in the format of a magazine to help bridge the gap between those in the discipline and a general audience. By using a magazine as the format, the content must be organized and written in …

Modeling Sex-Specific Changes In Myocardial Fibrosis, Grace Martin

Chemical Engineering Undergraduate Honors Theses

Heart disease the leading cause of death for both men and women in the United States. Cardiac fibrosis, or accumulation of extracellular matrix proteins in the heart, can occur after a heart attack and increase the risk for further complications. Current treatments for heart disease do not include extracellular matrix regulators, partly due to the complicated signaling network responsible for the production of these proteins. By using a computational model of the signaling network in cardia fibroblasts, the relationship between particular molecules and downstream extracellular matrix production can be examined.

Biological sex is an important factor for cardiac health and …

Evaluation, Rating, And Numerical Modeling Of A Shock Mitigation Seat For High-Speed Craft Based On Laboratory Single Impact Testing, Darren Benn

UNLV Theses, Dissertations, Professional Papers, and Capstones

High-speed craft (HSC) are utilized in military and para-military maneuvers that are usually conducted in harsh environments. The Special Warfare Combatant-craft Crewmen (SWCC), a sub-unit of the United States Naval Special Warfare Command (NAVSOC), use an advanced HSC, known as the Combatant Craft Assault, to conduct coastal patrol and interdiction, and for infiltration and exfiltration of Navy SEALs. The United States Coast Guard, and the Drug Enforcement Agency (DEA), employ HSC for maritime patrol and to pursue ‘go-fast’ boats operated by contraband runners. In most of these intense applications, the mode of operation of the HSC results in planing. Planing …

Mammary Epithelial Cell Derived Extracellular Vesicles Influence Tumorigenic Phenotype Suppression In Her2-Positive Breast Cancer Cells, Brenda Okereke

All Dissertations

On a global scale, breast cancer remains the most commonly diagnosed cancer in the world. In 2020 alone, there were over 2.3 million new cases of breast cancer seen and a total of 685,000 deaths globally, this represents 16% or 1 in every 6 cancer deaths seen in women. By 2040 it is projected that the breast cancer burden will rise by over 40% to exceed 3 million new cases a year. Further understanding of the underlying biology and mechanisms behind tumor progression and breast cancers such as HER2+ breast cancer would allow for new therapeutic treatment targets to emerge. …

Mesenchymal Stromal Cell Response To Degenerated Intervertebral Disc-Like Ph, Kyle Cannon

All Dissertations

Intervertebral disc degeneration (IVDD) has become increasingly prevalent and is a common contributing factor to low back pain. There are currently no clinical treatment options for IVDD that alleviate the symptoms of IVDD while simultaneously promoting repair of IVD tissue. One treatment option being explored is intradiscal administration of mesenchymal stromal cells (MSCs). However, the microenvironment of the degenerating IVD places significant stress on both native IVD cells and implanted cells. There are several questions that need to be addressed which may help further inform the development of efficacious intradiscal MSC therapies for IVDD. These questions include: 1) Do MSCs …

Crystalline Colloidal Arrays: Exploring Light-Matter Interactions, Haley W. Jones

All Dissertations

Understanding and manipulating quantum light-matter interactions, especially in the context of nanostructured environments, is highly critical for technological progress and inventive solutions in the fields of telecommunications, energy-efficient lighting, and cutting-edge quantum computing technologies. The fundamental interactions of photons with a surrounding environment directly impact the performance and efficiency of devices such as lasers, light-emitting diodes (LEDs), and quantum computing elements, which leverage the unique properties of confined structured environments. Since the late 1980s, the connection between a structured environment and the decay kinetics of an embedded fluorophore has been a highly debated and unresolved topic in the literature. More …

Identifying Temporomandibular Disorder Morphological Risk Factors Via Explainable Deep Learning And Multiscale Biomechanical Modeling, Shuchun Sun

All Dissertations

Clarifying multifactorial musculoskeletal disorder etiologies supports risk analysis and development of targeted prevention and treatment modalities. Deep learning enables comprehensive risk factor identification through systematic analysis of disease datasets but does not provide sufficient context for mechanistic understanding, limiting clinical applicability for etiological investigations. Conversely, multiscale biomechanical modeling can evaluate mechanistic etiology within the relevant biomechanical and physiological context. We propose a hybrid approach combining 3D explainable deep learning and multiscale biomechanical modeling; we applied this approach to investigate temporomandibular joint (TMJ) disorder etiology by systematically identifying risk factors and elucidating mechanistic relationships between risk factors and TMJ biomechanics and …

Novel Nucleus Pulposus Biomaterial Development And Low Field Mri Assessment For Intervertebral Disc Degeneration, Mario Krussig

All Dissertations

Intervertebral disc degeneration (IVDD) is a prominent pathology in the modern world that causes debilitating pain for many patients. The onset of IVDD occurs in the nucleus pulposus (NP). NP biomaterials will play a vital role in mitigating the progression of IVDD. Within this work, we sought to synthesize a solubilized extracellular matrix (ECM)-based NP biomaterial. Utilizing pepsin or urea extraction, bovine NP ECM was successfully solubilized (SBNPs). SBNP formulations were characterized biochemically, evaluated for cytotoxicity, and down-selected for front-running formulations. Leading candidate SBNPs were incorporated into an alginate bead biomaterial model to determine the potential bioactivity with human adipose-derived …

Oscillations Of Capillary Surfaces With Volume And Edge Effects, Dingqian Ding

All Dissertations

Capillary surfaces are defined by an interface endowed with surface tension that is partially supported by a solid substrate and are susceptible to oscillations reflecting a balance between fluid inertia and the restorative force of surface tension. The wave dynamics strongly depend upon volume change within the domain and edge effects through the boundary conditions applied at the contact-line formed at the liquid-gas-solid interface, while the spatial wave structure conforms to the geometry of the capillary surface. This dissertation develops mathematical models to address these effects for several canonical capillary surfaces, which are organized into two parts that are focused …

Quantifying Image Quality In Aoslo Images Of Photoreceptors, Brea D. Brennan, Heather Heitkotter, Joseph Carroll, Sergey Tarima, Robert F. Cooper

Biomedical Engineering Faculty Research and Publications

The use of “quality” to describe the usefulness of an image is ubiquitous but is often subject to domain specific constraints. Despite its continued use as an imaging modality, adaptive optics scanning light ophthalmoscopy (AOSLO) lacks a dedicated metric for quantifying the quality of an image of photoreceptors. Here, we present an approach to evaluating image quality that extracts an estimate of the signal to noise ratio. We evaluated its performance in 528 images of photoreceptors from two AOSLOs, two modalities, and healthy or diseased retinas. The algorithm was compared to expert graders’ ratings of the images and previously published …

Development Of A Wearable Short-Wave Infrared Photoplethysmography Device For Detection And Monitoring Of Hemodilution During Postpartum Hemorrhage, Hannah Gruensfelder

McKelvey School of Engineering Graduate Student Theses & Dissertations

ABSTRACT OF THE THESIS

A Thesis on the Development of a Wearable Short-Wave Infrared Photoplethysmography Device for Detection and Monitoring of Hemodilution During Postpartum Hemorrhage

by

Hannah Gruensfelder

Master of Science in Biomedical Engineering

Washington University in St. Louis, 2024

Professor Christine O’Brien, Chair

Postpartum hemorrhage (PPH), the leading cause of maternal death and morbidity, affects nearly 14 million people worldwide each year, disproportionally impacting racial minorities and people in low resource settings. A timely diagnosis of PPH is key in providing optimal patient care, as an estimated 90% of deaths due to PPH are preventable with early diagnosis and …

Characterizing The Molecular And Cellular Changes Of Senescent Cells Induced By Diverse Stressors In 2d And 3d Microenvironments, Apoorva Chauhan

UNLV Theses, Dissertations, Professional Papers, and Capstones

Aging is a risk factor for myriad diseases and is often associated with the accumulation of senescent cells. Cellular senescence, a process of irreversible cell cycle arrest, is associated with various changes in cellular morphology and function. While senescence will occur naturally in a time-dependent manner, it can be prematurely induced by various extrinsic and intrinsic factors. Most senescence studies model cell behavior in two-dimensional (2D) microenvironments; however, these models are not physiologically relevant. In this study, the effects of naturally occurring reactive oxygen species (ROS) hydrogen peroxide (H2O2) and commonly used chemotherapy drugs, doxorubicin and palbociclib, on cellular senescence …

A Computational Framework For Predicting Cell-Specific Nucleo-Cytoskeletal Forces, Madison Leigh Goldfeldt

Boise State University Theses and Dissertations

Understanding the influence of mechanical forces on cell function and fate is crucial in unraveling the intricate mechanisms that govern cellular behavior. The cytoskeleton, a dynamic network of protein filaments, plays a pivotal role in sensing and transmitting mechanical cues within cells. The nucleus relies on cytoskeletal mechanical input through nuclear envelope adaptor proteins to sense external stimuli and respond by regulating intra-nuclear chromatin organization. This research provides a means for examining the interplay between mechanical forces and the cytoskeleton in regulating various cellular processes, including cell adhesion, migration, division, and differentiation. Through studying and simulating the cellular response to …

Development And Characterization Of A Low Intensity Vibrational System For Microgravity Studies, Omor Khan

Boise State University Theses and Dissertations

The advent of extended-duration human spaceflight demands a better comprehension of the physiological impacts of microgravity. One primary concern is the adverse impact on the musculoskeletal system, including muscle atrophy and bone density reduction. Ground-based microgravity simulations have provided insights, with vibrational bioreactors emerging as potential mitigators of these negative effects. Despite the potential they have, the adaptation of vibrational bioreactors for space remains unfulfilled, resulting in a significant gap in microgravity research. This paper introduces the first automated low-intensity vibrational (LIV) bioreactor designed specifically for the International Space Station (ISS) environment. Our research covers the bioreactor's design and characterization, …

Comparison Of Properties And Fracture Patterns In Aged And Fresh Cortical Bone, Mckenna Roan

Boise State University Theses and Dissertations

Bone is a complex natural material that presents many challenges to researchers interested in characterizing its mechanical properties. There are different techniques, such as drying, embalming, and freezing, to preserve bones for engineering and scientific study. There are advantages and disadvantages to these techniques, and there have been limited studies comparing the effect of preservation techniques on the mechanical and fracture properties. In this research, aged and fresh bovine bone specimens are tested in compression while monitoring acoustic emissions (AE). Three main aspects of testing are investigated: the force-displacement curves, acoustic emission activity, and fracture patterns observed in X-ray computed …

On-Chip Active Pulse-Clamp Stimulation (Apcs) For Rapid Recovery, Charge-Balanced Neural Stimulation, F. N. U. Tala

Boise State University Theses and Dissertations

Neurostimulations are widely utilized to modulate brains and nervous systems functions for therapeutic purposes. Traditional neurostimulation involves applying a direct current delivered to the excitable tissues to elicit neural response. There is a growing demand for a robust, rapid stimulation system that ensures chronic safety through charge balancing in vivo. This dissertation is a compilation of previously published works, detailing various board-level stimulators, an innovative on-chip stimulation technique, and a distributed modelling method.

Chapter one introduces MEDUSA, a cost-effective, multi-functional neurostimulation system capable of achieving multi-channel, arbitrary stimulation for neuroscience research.

Chapter two delves into a scripted distributed model framework …

Utilizing Spatial Transcriptomics To Compare Gene Expression In Volumetric Muscle Loss Injury Recovery, Colton Gattis

Biomedical Engineering Undergraduate Honors Theses

Volumetric Muscle Loss (VML) injuries are known to disrupt the normal regenerative process via fibrosis leading to an extensive permanent loss of muscle function. The specific causation of this disruption remains to be defined; however, with new developments in transcriptomics, genetic trends can be identified across regions of tissue over time. This study follows VML injuries within the tibialis anterior of a mouse model for fifteen days after initial injury to attempt to identify expected transitions in healing. Genetic presence began to become more diversified as recovery progressed from four to fifteen days post injury with spatial clusters becoming globalized …

Representation Learning For Generative Models With Applications To Healthcare, Astronautics, And Aviation, Van Minh Nguyen

Theses and Dissertations

This dissertation explores applications of representation learning and generative models to challenges in healthcare, astronautics, and aviation.

The first part investigates the use of Generative Adversarial Networks (GANs) to synthesize realistic electronic health record (EHR) data. An initial attempt at training a GAN on the MIMIC-IV dataset encountered stability and convergence issues, motivating a deeper study of 1-Lipschitz regularization techniques for Auxiliary Classifier GANs (AC-GANs). An extensive ablation study on the CIFAR-10 dataset found that Spectral Normalization is key for AC-GAN stability and performance, while Weight Clipping fails to converge without Spectral Normalization. Analysis of the training dynamics provided further …

Photo-Carbon Monoxide Releasing Molecules For Antibacterial Benefits In Vascular Grafts, Beste Caner

Theses and Dissertations

Globally, the annual hemodialysis procedures surpass 1.5 million, emphasizing the vital role of reliable vascular access methods. However, common challenges like access infections and clot-induced blood flow reduction necessitate innovative solutions. This study delved into the potential therapeutic role of carbon monoxide (CO) and its effects on both endothelialization and non-pathogenic bacteria causing infections. The primary focus was evaluating the impact of loading different concentrations of carbon monoxide-releasing molecules (CORMs), specifically CORM diketone 4 (DK4), within 2D spin-coated films on cultured E. coli and endothelial cells. Initial assessments of CO release kinetics from DK4-loaded films demonstrated that the 10% condition …

Yeast Surface Display Of Multiple Heterologous Proteins Via Molecular And Biochemical Processing Techniques, Shadrach Ibinola

Graduate Theses and Dissertations

The arming of yeast cell wall, also known as yeast surface display, is an effective technology for expressing target proteins extracellularly. It has been shown to provide bioengineered yeast with qualities that are not known to native yeast such as the ability to survive harsh conditions including high pH and temperature, for example. Furthermore, this technique has been implemented for various applications which include, protein engineering, bioethanol production, bioremediation, vaccine construction, and antibody development. The major mechanisms of yeast surface display exploit agglutination, flocculation, or proteins with internal repeats as the means by which a target (protein) is covalently attached …

Characterizing Brain And Skull Mechanics In The Minipig Using Magnetic Resonance Elastography, Shuaihu Wang

McKelvey School of Engineering Graduate Student Theses & Dissertations

Computational models and simulation are important tools to investigate the mechanisms underlying traumatic brain injury (TBI); their accuracy depends strongly on accurate model parameters, including the mechanical properties of the brain and its interactions with the skull. However, most existing TBI modeling studies are performed using material properties derived from animal tissue obtained after death. Magnetic resonance elastography (MRE) provides a non-invasive method for estimating the mechanical properties of soft tissue. The overall objective of this thesis is to characterize the biomechanical properties of brain tissue and brain-skull interface in the minipig by using MRE. This was achieved through pursuit …

Sediment Characteristics And Hydrocarbon Composition Of Makukwa Seep In Southern Tanzania: Potential Implications For Subterranean Hydrocarbon Accumulation, Makungu M. Madirisha

Tanzania Journal of Engineering and Technology (TJET)

Exploring the interplay between natural seeps and nearby sediment and hydrocarbon properties is key to unlocking subsurface hydrocarbon potential. This study presents findings on the hydrocarbon composition and sediment characteristics of the Makukwa seep in southern Tanzania, providing insight into subterranean hydrocarbon accumulation. Sediment analysis across areas A and B, located approximately 20 m apart, showed a decrease in porosity with depth, indicative of typical sandstone formations. Area A, near the seeps, exhibited porosity ranging from 23% to 36%, whereas Area B, further away, showed porosity ranging from 22% to 38%. This suggests that a lower cretaceous sandstone layer may …