Biomedical Engineering and Bioengineering Commons^™

An Automated, Deep Learning Approach To Systematically & Sequentially Derive Three-Dimensional Knee Kinematics Directly From Two-Dimensional Fluoroscopic Video, Viet Dung Nguyen

Doctoral Dissertations

Total knee arthroplasty (TKA), also known as total knee replacement, is a surgical procedure to replace damaged parts of the knee joint with artificial components. It aims to relieve pain and improve knee function. TKA can improve knee kinematics and reduce pain, but it may also cause altered joint mechanics and complications. Proper patient selection, implant design, and surgical technique are important for successful outcomes. Kinematics analysis plays a vital role in TKA by evaluating knee joint movement and mechanics. It helps assess surgery success, guides implant and technique selection, informs implant design improvements, detects problems early, and improves patient …

Development And Implementation Of A Computational Modeling Tool For Evaluation Of Tha Component Position, Thang Dac Nguyen

Doctoral Dissertations

The human body is a complicated structure with muscles, ligaments, bones, and joints. Modeling human body with computational tools are becoming a trend [1]. More importantly, using computational tools to evaluate human body is a non-invasive technique that could help surgeons and researchers evaluate implant products [2]. Therefore, the development of a model which can analyze both implant sizing suggestion and kinematics of subject specific data could prove valuable. For total hip arthroplasty, one common complication is in vivo separation and dislocation of the femoral head within the acetabular cup [3] [4]. Developing a successful computational tool to address this …

A Rapid And Ultra-Sensitive Biosensing Platform Based On Tunable Dielectrophoresis For Robust Poc Applications, Yu Jiang

Doctoral Dissertations

With the ongoing pandemic, there have been increasing concerns recently regarding major public health issues such as abuse of organophosphorus compounds, pathogenic bacterial infections, and biosecurity in agricultural production. Biosensors have long been considered a kernel technology for next-generation diagnostic solutions to improve food safety and public health. Significant amounts of effort have been devoted to inventing novel sensing mechanisms, modifying their designs, improving their performance, and extending their application scopes. However, the reliability and selectivity of most biosensors still have much to be desired, which holds back the development and commercialization of biosensors, especially for on-site and point-of-care (POC) …

Brain Inspired Organic Electronic Devices And Systems For Adaptive Signal Processing, Memory, And Learning., Subhadeep Koner

Doctoral Dissertations

A new class of electronic device has emerged which bear the potential for low powered brain like adaptive signal processing, memory, and learning. It is a non-linear resistor with memory coined as memristor. A memristor is a two-terminal electrical device which simultaneously changes its resistance (processing information) and store the resistance state pertaining to the applied power (memory). Therefore, it can collocate memory and processing much like our brain synapse which can save time and energy for information processing. Leveraging stored memory, it can thereby help future engineered systems to learn autonomously from past experiences. There has been a growing …

Interactions Between Soft Nanoparticles And Mammalian Cells, Mitchell Raith

Doctoral Dissertations

Nanoparticles have been of interest to the pharmaceutical industry since the 1980s. The first FDA approved nanoparticle-based therapies included liposomal anesthesia agents. Since then, the amount of FDA-approved nanoparticle therapies remains low. This is because nanoparticle-patient interactions can be very complex and are not well understood. Complicating factors also include increasing obesity rates among the patient population and many small animal pre-clinical trials are completed with healthy, lean animals. The biochemical differences between lean and obese patients prevents early studies from accurately predicting nanoparticle clinical behaviors. Many nanoparticles fail in trails. In this thesis, I aimed to uncover how nanoparticles …

Quantifying And Reversing Compensatory Movements By Persons Post-Stroke In The Ambient Setting, Aaron Miller

Doctoral Dissertations

Nearly 800,000 people in the United States suffer stroke annually. Following the onset of stroke, survivors will exhibit deficits, such as hemiplegia, which will limit their function and ability to perform activities of daily living (ADLs). In order to regain independence, many stroke survivors will employ maladaptive compensatory strategies to help with the completion of tasks. Compensation is generally defined as any performance of a task that is different than the way it may have been performed before the onset of a neurodegenerative disorder. While for some severely impaired individuals, compensation may be necessary, for most these maladaptive strategies ultimately …

Enhancing Biomechanical Function Through Development And Testing Of Assistive Devices For Shoulder Impairment And Total Limb Amputation, Patrick Hall

Doctoral Dissertations

Assistive devices serve as a potential for restoring sensorimotor function to impaired individuals. My research focuses on two assistive devices: a passive shoulder exoskeleton and a muscle-driven endoprosthesis (MDE). Previous passive shoulder exoskeletons have focused on testing during static loading conditions in the shoulder. However, activities of daily living are based on dynamic tasks. My research for passive shoulder exoskeletons analyzes the effect that a continuous passive assistance has on shoulder biomechanics. In my research I showed that passive assistance decreases the muscular activation in muscles responsible for positive shoulder exoskeleton. An MDE has the potential to have accurate and …

Non-Contact Techniques For Human Vital Sign Detection And Gait Analysis, Farnaz Foroughian

Doctoral Dissertations

Human vital signs including respiratory rate, heart rate, oxygen saturation, blood pressure, and body temperature are important physiological parameters that are used to track and monitor human health condition. Another important biological parameter of human health is human gait. Human vital sign detection and gait investigations have been attracted many scientists and practitioners in various fields such as sport medicine, geriatric medicine, bio-mechanic and bio-medical engineering and has many biological and medical applications such as diagnosis of health issues and abnormalities, elderly care and health monitoring, athlete performance analysis, and treatment of joint problems. Thoroughly tracking and understanding the normal …

Motor Control-Based Assessment Of Therapy Effects In Individuals Post-Stroke: Implications For Prediction Of Response And Subject-Specific Modifications, Ashley Rice

Doctoral Dissertations

Producing a coordinated motion such as walking is, at its root, the result of healthy communication pathways between the central nervous system and the musculoskeletal system. The central nervous system produces an electrical signal responsible for the excitation of a muscle, and the musculoskeletal system contains the necessary equipment for producing a movement-driving force to achieve a desired motion. Motor control refers to the ability an individual has to produce a desired motion, and the complexity of motor control is a mathematical concept stemming from how the electrical signals from the central nervous system translate to muscle activations. Exercising a …

Optically Active Rare-Earth Doped Films Synthesized By Pulsed Laser Deposition For Biomedical Applications, Charles William Bond

Doctoral Dissertations

Optically active materials are used in many biomedical applications ranging from medical imaging to light therapies. Investigating the effects of differing nanostructure configurations on the optical performance of these materials can improve tunability, efficiency, and practicality for their respective applications. This work utilizes pulsed laser deposition (PLD) to develop nanostructured thin films and determines their optical performance for applications in computed radiography for medical imaging and in LEDs which can be used in biomedical applications such as photobiomodulation.

In computed radiography, scattering of the stimulation light by the storage phosphor crystal grain boundaries in imaging plates negatively impacts spatial resolution. …

Susceptibility Of Riverine Fishes To Anthropogenically-Linked Trauma: Strikes From Hydropower Turbine Blades, Ryan K. Saylor

Doctoral Dissertations

Hydropower accounts for nearly 40% of renewable electricity generation in the US; however, dams significantly impact the surrounding aquatic ecosystems. One of the most visible impacts of hydropower―beyond the dam itself―is the direct negative impacts (injury or death) to fish populations that must pass through hydropower turbines to access desired downstream habitat. During passage, fishes face many potential stressors that can cause severe injuries and often leads to high rates of mortality. In this dissertation, I have focused on quantifying how fishes respond to impacts from turbine blades that may occur during turbine passage. Laboratory research into blade strike impact …

Approaches To Studying Bacterial Biofilms In The Bioeconomy With Nanofabrication Techniques And Engineered Platforms., Michelle Caroline Halsted

Doctoral Dissertations

Studies that estimate more than 90% of bacteria subsist in a biofilm state to survive environmental stressors. These biofilms persist on man-made and natural surfaces, and examples of the rich biofilm diversity extends from the roots of bioenergy crops to electroactive biofilms in bioelectrochemical reactors. Efforts to optimize microbial systems in the bioeconomy will benefit from an improved fundamental understanding of bacterial biofilms. An understanding of these microbial systems shows promise to increase crop yields with precision agriculture (e.g. biosynthetic fertilizer, microbial pesticides, and soil remediation) and increase commodity production yields in bioreactors. Yet conventional laboratory methods investigate these micron-scale …

Automated Intelligent Cueing Device To Improve Ambient Gait Behaviors For Patients With Parkinson's Disease, Nader Naghavi

Doctoral Dissertations

Freezing of gait (FoG) is a common motor dysfunction in individuals with Parkinson’s disease (PD). FoG impairs walking and is associated with increased fall risk. Although pharmacological treatments have shown promise during ON-medication periods, FoG remains difficult to treat during medication OFF state and in advanced stages of the disease. External cueing therapy in the forms of visual, auditory, and vibrotactile, has been effective in treating gait deviations. Intelligent (or on-demand) cueing devices are novel systems that analyze gait patterns in real-time and activate cues only at moments when specific gait alterations are detected. In this study we developed methods …

Effect Of Ambient Oxidation On Chemical Composition And Structural Properties Of Iron Nanoparticles For Hyperthermia And Medical Imaging, Adam Wesley Evans

Doctoral Dissertations

With magnetization saturation roughly twice that of iron oxide nanoparticles, metallic iron nanoparticles (also termed zero-valent iron nanoparticles) have desirable properties for use as a magnetic resonance imagining (MRI) contrast agent as well as a medium for hyperthermia treatment of cancer. Metallic iron nanoparticles, however, are difficult to synthesize and maintain due to their high degree of reactivity and proclivity for oxidation. The main goal of this study was to investigate how ambient oxidation affects the chemical composition and structural properties of metallic iron nanoparticles initially synthesized through a facile reduction reaction of iron (III) chloride with sodium borohydride. A …

Phylogenetics And Association Analyses Illustrate Substantial Cryptic Diversity Of A Newly Isolated Collection Of Cenococcum Geophilum, Jessica Velez

Doctoral Dissertations

The ectomycorrhizal fungus Cenococcum geophilum is distributed worldwide across multiple climates and soil types and is known to positively associate with a multitude of plant genera, possibly contributing to plant ability to tolerate inorganic contaminants in a soil environment. New C. geophilum isolates are easily cultured from soils in a laboratory setting, making this an ideal candidate for a model species with which to study multiple plant-fungal effects across a collection of novel isolates. However, C. geophilum is also genetically complex and, at 178Mbp, features one of the largest fungal genomes, necessitating the use of the novel restriction-associated DNA sequencing …

Analysis And Enhancement Of Human Cognitive Control Using Noninvasive Brain-Computer Interfaces, Soheil Borhani

Doctoral Dissertations

Cognitive control including attention and working memory are crucial to human daily life. Whether a civilian who walks across a street or a military service member who is responsible for navigating a mission, cognitive control is involved, entirely. This ability is subject to impairment. People with attention disorder are easily disposed to distraction and lacks the ability to maintain the focus to a task. Multiple treatment strategies have been suggested which most of them has been pharmaceutical. Evidently, the medical treatment has side effects for long-term use. Moreover, it has a risk of drug misuse. Another line of treatment is …

Engineering Platforms For Advancing Plant Synthetic Biology, Tayler Marie Schimel Mcneillie

Doctoral Dissertations

This work describes research aimed at adapting advanced engineering systems for plant biotechnology. The droplet interface bilayer (DIB) is a robust and versatile platform for replicating model cell membranes, providing a bottom-up approach for synthetic cell- and tissue-like structures. In this work, a microfluidic device featuring five inlets, one for the continuous oil phase and four discrete aqueous channels for droplet generation was designed. Droplet production rates were controlled by adjusting the applied pressure of each inlet; and thus, altering the droplet sequence for capturing linear DIB networks in a downstream hydrodynamic trapping array. This microfluidic system provides a high-throughput …

Design And Synthesis Of Analogs Of Myo-Inositol, Serine, And Cysteine To Enable Chemical Biology Studies, Tanei J. Ricks

Doctoral Dissertations

Phosphorylated myo-inositol compounds including inositol phosphates (InsPs) as well as the phosphatidylinositol polyphosphate lipids (PIP_ns) are critical biomolecules that regulate many of the most important biological processes and pathways. They are aberrant in many disease states due to their regulatory function. The same is true of the phospholipid phosphatidylserine (PS) which can serve as a marker to begin apoptosis. However, the full scope of activities of these structures is not clear, particularly since techniques that enable global detection and analysis of the production of these compounds spatially and temporally are lacking. With all of these obstacles in …

Crafting Nanostructured Neural Interfaces With Hydrogel Particles, Emily Ann Morin

Doctoral Dissertations

Central nervous system neural device functionality hinges on effective communication with surrounding neurons. This depends on both the permissiveness of the device material to promote neuron integration and the ability of the device to avoid a chronic inflammatory response. Here, a facile approach has been developed exploring the multiple functionalities of hydrogel particles to provide cues to impart neural integration for such materials. Three distinct, yet interconnected tasks were undertaken: investigating hydrogel particle-modified substrate neuron integration and central nervous system inflammatory response, investigating guided hydrogel particle adsorption, and investigating hydrogel particles as local reservoirs for counteracting adverse effects from oxidative …

Development And Implementation Of A Forward Solution Hip Mathematical Model To Determine In Vivo Mechanics And Predict Hip Separation, Michael Thomas Lacour

Doctoral Dissertations

Osteoarthritis, signified by excessive wear of joint cartilage, is most common in hip, knee, and spinal joints [1]. Current treatment for extreme osteoarthritis is total joint arthroplasty, where the damaged bone and cartilage are removed and replaced by artificial bone representations separated by artificial cartilage representations. While this treatment does generally improve patient quality of life, current joint replacement systems unfortunately still yield atypically high forces, premature component wear, and abnormal kinematics compared to native joints [2] [3] [4] [5].

For total hip arthroplasty, one common complication is in vivo separation and dislocation of the femoral head within the acetabular …

Managing Exoelectrogenic Microbial Community Development Through Bioprocess Control For Conversion Of Biomass-Derived Streams, Alex James Lewis

Doctoral Dissertations

Bioelectrochemical systems are an emerging technology capable of utilizing aqueous waste streams generated during biomass conversion of lignocellulosic feedstocks to produce valuable co-products and thus, have potential to be integrated into biorefineries. In a microbial electrolysis cell, organic compounds are converted to electrons, protons, and CO₂ by fermentative and exoelectrogenic bacteria in the anode compartment. By having the ability to extract electrons from waste streams, these systems can treat water while also producing hydrogen, and thus can improve the efficiency of biomass to fuel production by minimizing external hydrogen requirement and enabling water recycle. The overall goal of this …

Dynamic Simulation And Analysis Of Gait Modification For Treating Knee Osteoarthritis, Taylor Elyse Schlotman

Doctoral Dissertations

Roughly 47.5 million people in the US have a disability, with 8.6 million reporting arthritis as their main cause of disability, making arthritis the leading cause of physical disability. With decreased mortality rates and a large, aging baby boomer generation, there will be more adults living with chronic musculoskeletal conditions causing disabilities that limit walking. Since walking ability is directly related to an individual’s independence at home and in the community, losing this ability is a major setback for patients with arthritis. Knee osteoarthritis (OA) is the most prevalent form of arthritis affecting approximately 27 million adults and accounts for …

Musculoskeletal Loads During Stationary Cycling And The Effects Of Pedal Modifications For Knee Osteoarthritis, Rachel Lynn Thompson

Doctoral Dissertations

Knee OA is a deteriorating joint disease affecting 27 million people in the US and current exercise prescriptions may be improved with new knowledge of their effects on muscle forces and joint contact loads. Cycling rather than other exercise modalities is generally considered an alternative for people with knee OA. If these research objectives were achieved, clinicians would have additional tools related to joint contact loads for treating people with OA with an cycling exercise while controlling progression of OA. The long-term goal of this research is to provide a scientific basis for planning, evaluation and improvement of subject-specific rehabilitation …

High-Throughput Functional System For Encapsulated Networks Of Model Cell Membranes, Mary-Anne Kim Anh Nguyen

Doctoral Dissertations

Synthetic lipid bilayers provide models of cell membranes to study biomolecular interactions and signal transduction. The droplet interface bilayer (DIB) is a highly versatile technique for assembling planar lipid membranes between water droplets in oil. The DIB method thus provides a unique capability for developing digital, droplet-based membrane platforms for rapid membrane characterization, drug screening and ion channel recordings. In this work, a new microfluidic system is presented that automates droplet generation, sorting, and sequential trapping in designated locations to enable rapid assembly of arrays of DIBs along with in situ electrical measurements. This platform provides repeatable processes for forming …

Characterization And Manipulation Of Lipid Self-Assembly To Construct Stable, Portable Synthetic Lipid Bilayers, Guru Anand Venkatesan

Doctoral Dissertations

The overarching goal of this research work is to further our understanding of lipid self-assembly and its organization at an oil-water interface to support the development of synthetic lipid bilayer systems that can be used in biologically relevant fields such as membrane biophysics, protein electrophysiology, development of synthetic biomolecules, drugs, nanoparticles and other applications. Self-assembly kinetics and interfacial properties of lipid monolayers formed at a liquid-air and liquid-liquid interface are characterized using Langmuir-Blodgett trough and pendant drop tensiometer. Insights gained from these studies not only allow us to answer questions related to droplet interface bilayer (DIB; a promising technique to …

Modeling, Analysis, Force Sensing And Control Of Continuum Robots For Minimally Invasive Surgery, Caroline Bryson Black

Doctoral Dissertations

This dissertation describes design, modeling and application of continuum robotics for surgical applications, specifically parallel continuum robots (PCRs) and concentric tube manipulators (CTMs). The introduction of robotics into surgical applications has allowed for a greater degree of precision, less invasive access to more remote surgical sites, and user-intuitive interfaces with enhanced vision systems. The most recent developments have been in the space of continuum robots, whose exible structure create an inherent safety factor when in contact with fragile tissues. The design challenges that exist involve balancing size and strength of the manipulators, controlling the manipulators over long transmission pathways, and …

Next Generation In-Vivo Forward Solution Physiological Model Of The Human Lower Limb To Predict Implanted Knee Mechanics, Bradley Allen Meccia

Doctoral Dissertations

Current total knee arthroplasty (TKA) evaluation methods are both time consuming and expensive. They require fabrication of the TKA and then utilize a wear or cadaveric simulator which does not necessarily replicate in-vivo conditions. Other analysis methods involve following the long-term success of TKA in subjects for five or more years. Mathematical modeling of TKA provide an efficient method at a greatly reduced cost for evaluating TKA. Obviously, the accuracy of a mathematical model is extremely important to the validity of the results.

Mathematical modeling of the knee faces many difficulties. The number of muscles actuating the knee is much …

Adaptive Kernel Estimation For Enhanced Filtering And Pattern Classification Of Magnetic Resonance Imaging: Novel Techniques For Evaluating The Biomechanics And Pathologic Conditions Of The Lumbar Spine, Nicholas Vincent Battaglia

Doctoral Dissertations

This dissertation investigates the contribution the lumbar spine musculature has on etiological and pathogenic characteristics of low back pain and lumbar spondylosis. This endeavor necessarily required a two-step process: 1) design of an accurate post-processing method for extracting relevant information via magnetic resonance images and 2) determine pathological trends by elucidating high-dimensional datasets through multivariate pattern classification. The lumbar musculature was initially evaluated by post-processing and segmentation of magnetic resonance (MR) images of the lumbar spine, which characteristically suffer from nonlinear corruption of the signal intensity. This so called intensity inhomogeneity degrades the efficacy of traditional intensity-based segmentation algorithms. Proposed …

In Silico Driven Metabolic Engineering Towards Enhancing Biofuel And Biochemical Production, Richard Adam Thompson

Doctoral Dissertations

The development of a secure and sustainable energy economy is likely to require the production of fuels and commodity chemicals in a renewable manner. There has been renewed interest in biological commodity chemical production recently, in particular focusing on non-edible feedstocks. The fields of metabolic engineering and synthetic biology have arisen in the past 20 years to address the challenge of chemical production from biological feedstocks. Metabolic modeling is a powerful tool for studying the metabolism of an organism and predicting the effects of metabolic engineering strategies. Various techniques have been developed for modeling cellular metabolism, with the underlying principle …

A Comparative Study On Calcification Of Aortic Valves, Shirin Masjedi

Doctoral Dissertations

Calcific Aortic Valve Disease (CAVD) is a major disorder in the developed countries among elderly. It is characterized by calcific deposition and stiffening of the aortic valve cusps. CAVD is a highly cell-mediated condition where valvular interstitial cells (VICs) become activated and differentiate into osteoblast-like cells. This is associated with upregulation of calcific markers like Alkaline phosphatase (ALP) and Runx2. ECM remodeling in another characteristic of stenotic aortic valves due to VIC activation. Reports show that CAVD initiates majorly on the noncoronary side of the aortic valves. Additionally, male sex is a significant risk factor of CAVD. Aortic valves are …