Biomedical Engineering and Bioengineering Commons^™

Force Compensation And Recreation Accuracy In Humans, Benjamin Rigsby

USF Tampa Graduate Theses and Dissertations

As industry becomes increasingly reliant on robotic assistance and human-computer interfaces, the demand to understand the human sensorimotor system’s characteristics intensifies. Although this field of research has been going on for over a century, new technologies push the limits of the human motor system and our knowledge of it. With new technologies come new abilities, and, in the area of medical care and rehabilitation, the need to expand our knowledge of the sensorimotor system comes from both the patient and physician.

Two studies relating to human force interaction are presented in this thesis. The first study

focuses on humans’ ability …

Emg-Driven Inverse Dynamic Analysis Of Knee Contact Forces During Gait And Cycling Using Opensim, Megan V. Pottinger, Katherine Mavrommati, Scott Hazelwood, Stephen M. Klisch

Biomedical Engineering

Joint contact forces determine the loading experienced by cartilage tissue and, thus, may be used to predict risk of cartilage tissue damage and osteoarthritis (OA). Participating in low impact and/or non-weight bearing activities such as cycling may help reduce knee OA risk by limiting forces exerted during exercise [1]. Cycling is a common recommendation for rehabilitative or fitness sustainment exercise for select patients [1]. Although knee joint contact forces have been directly measured in gait and cycling using instrumented knee implants [2,3] and calculated in gait using EMG-driven analysis [4]; they have not been calculated in cycling using EMG-driven analysis. …

Principal Component Analysis Of Gait And Cycling Experiments: Crosstalk Error Reduction And Corrected Knee Axes, Jordan Skaro, Harsh Goel, Scott Hazelwood, Stephen M. Klisch

Biomedical Engineering

Crosstalk is a leading source of error in motion analysis [1-2]. Due to incorrect flexion axis direction that develops from marker placement error, crosstalk results in a strong, anatomically incorrect correlation between flexion-extension (FE) and adduction-abduction (AA) motions [1-2]. Thus, crosstalk limits the ability of biomechanical models to reflect the “true” motion of the knee. Principal Component Analysis (PCA) has been proposed as a post-hoc correction for crosstalk in prior gait studies [1-2]; however, previous studies have not proposed a method to determine PCA corrected knee axes. Further, it is not clear how PCA should be implemented in motion analysis …

Elbow And Shoulder Joint Torques Are Correlated With Body Mass Index But Not Game Pitch Count In Youth Baseball Pitchers, Jim Douglas Darke, Eshan M. Dandekar, Arnel Aguinaldo, Scott Hazelwood, Stephen M. Klisch

Biomedical Engineering

The number of ulnar collateral ligament (UCL) reconstructive (i.e. “Tommy John”) surgeries performed on youth baseball pitchers have more than doubled since 2000 [1]. Routinely pitching while fatigued is considered a leading factor associated with UCL injuries; adolescent pitchers who had elbow or shoulder surgery were 36 times more likely to have routinely pitched with arm fatigue [1]. MLB/USA Baseball Pitch Smart guidelines limit 9-10 yr. old pitchers to a maximum 75 pitches per game, a figure based on long-term studies related to injury prevention [2]. Several studies have shown that pitching kinematics (e.g. elbow flexion/extension and pronation/supination, scapulothoracic internal-external …

Knee Biomechanics During Cycling Are Similar For Normal Weight And Obese Subjects, Juan D. Gutierrez-Franco, Jordan Skaro, Scott Hazelwood, Stephen M. Klisch

Biomedical Engineering

Osteoarthritis (OA) is a degenerative disease of cartilage and bone tissue, and is linked to more than 70% of total hip and knee replacements [1]. In 1994 the direct and indirect costs of OA in the United States were $155 billion [2] and in 2006 OA resulted in approximately $10.5 billion in hospital charges [3]. Obesity is a risk factor for OA [1, 3, 4], likely due to increased knee loading [5, 6] and varus malalignment [7] in gait. Seated cycling has been recommended as a weight-loss exercise with lower knee loads than walking or jogging [8]. However, lack of …

Insights Into The Binding Mode Of Mek Type-Iii Inhibitors. A Step Towards Discovering And Designing Allosteric Kinase Inhibitors Across The Human Kinome, Zheng Zhao, Lei Xie, Philip E. Bourne

Publications and Research

Protein kinases are critical drug targets for treating a large variety of human diseases. Type- III kinase inhibitors have attracted increasing attention as highly selective therapeutics. Thus, understanding the binding mechanism of existing type-III kinase inhibitors provides useful insights into designing new type-III kinase inhibitors. In this work, we have systematically studied the binding mode of MEK-targeted type-III inhibitors using structural systems pharmacology and molecular dynamics simulation. Our studies provide detailed sequence, structure, interaction-fingerprint, pharmacophore and binding-site information on the binding characteristics of MEK type-III kinase inhibitors. We hypothesize that the helix-folding activation loop is a hallmark allosteric binding site …

Machine Learning Offers Predictive Insight Into The Silver Nanomaterial Protein Corona, Matthew Findlay

Bioengineering Senior Theses

The use of engineered nanomaterials (ENMs) in consumer and commercial products is increasing rapidly. The small size and high surface reactivity of ENMs gives them a range of attractive properties, and allows them to be incorporated into various materials. These properties make ENMs very appealing to modern industry, but also make ENMs toxic, causing serious health and environmental concerns. This toxicity is largely driven by the formation of a protein corona on the surface of ENMs. This protein corona is caused by proteins encountered in biological systems that bind to the surface of (ENMs). Despite the importance of the protein …

Exosome Membrane Bound Tnf-Receptor For The Treatment Of Rheumatoid Arthritis, Natalie Duong, Kevin Curley

Bioengineering Senior Theses

Rheumatoid arthritis (RA) is an autoimmune disease that causes painful inflammation of the synovium of the patient’s joints. However, current treatments for RA have a variety of drawbacks. They often are ineffective, expensive, invasive, risky, cause an immune response, and/ or only provide short term relief. Thus, we developed a new treatment for preventing inflammation: TNF-receptors anchored onto exosome surfaces. Exosomes are nanovesicles that are naturally secreted by most of the cells in our bodies. The many benefits of using exosomes include non-immunogenicity, natural stability in the body, and non-invasiveness. We have demonstrated that exosome membrane bound TNF-receptors have the …

Portable, Powerless Automation Of Valve Actuation For Microfluidic Large Scale Integration Technology, Andrew Schmidt, Matthew Fitzgerald

Bioengineering Senior Theses

Microfluidic large-scale integration (mLSI) is an emerging field that has the potential to fully automate the biological experimentation and technology development. mLSI offers high-throughput, while maintaining reduced costs and sample size in biochemical tests and experiments. The pneumatic control systems, and the use of solenoid valves that are needed for mLSI make this technology bulky and limits its use to specialized labs. Moreover, since the field is relatively new, few scientists are trained in microfluidic chip design and microfabrication. Eliminating the peripheral equipment from standard testing protocol will allow mLSI to be used in point-of-care settings and more widespread usage …

Exploration Of Sortase A-Inhibitor Binding Mechanisms Through Isothermal Titration Calorimetry, Eddy Liu

Bioengineering Master's Theses

The enzyme Sortase A plays a critical role in the virulence of gram-positive bacteria, facilitating their ability to attach to and infect host tissues. Because of its accessible location on the surface of bacteria and in light of the emergence of antibiotic-resistant bacterial strains, Sortase A has become an important target for novel drugs and their associated research. Here we investigate the thermodynamic characteristics and binding mechanism of Sortase A and inhibitors using isothermal titration calorimetry. The results support a two-step, sequential binding mechanism involving induced fit and conformational change. We recommend that further studies involving other small molecule inhibitors …

Effects Of Passive And Active Training Paradigms On Bone And Muscle Recovery After Spinal Cord Injury, Brittany Lynn King

Theses and Dissertations

The effects spinal cord injury (SCI) has have been studied in both human and animal models. Specifically in incomplete SCI, the bone degradation and muscle atrophy seen in the lower limbs has been documented, along with the effects of different training paradigms on bone and muscle loss. This study implemented a clinically relevant animal model of a moderate spinal contusion injury at the T9--T10 level, along with active body weight supported treadmill training (BWSTT) and passive bike training, to compare the effects such training methods have on the bone microstructure properties and muscle masses in the lower limbs of rats. …

The Development Of A Platform Interface With The Use Of Virtual Reality To Enhance Upper-Extremity Prosthetic Training And Rehabilitation, Ashley D. Knight

USF Tampa Graduate Theses and Dissertations

This dissertation focuses on the investigation and development of an effective prosthetic training and rehabilitation platform with the use of virtual reality to facilitate an effective process to return amputees to the highest level of independence and functioning possible.

It has been reported that approximately 10 million people live with a limb loss worldwide, with around 30% being an upper-extremity amputee. The sudden loss of a hand or arm causes the loss of fine, coordinated movements, reduced joint range of motion (ROM), proprioceptive feedback and aesthetic appearance, all which can be improved with the use of a prosthesis and proper …

Phosphate Contaminant Detection In Water Through A Paper-Based Microfluidic Device, Brandon Miura, Alex Wagner, Philip Wu

Bioengineering Senior Theses

This report describes a project aimed at developing a low-cost, portable, on-site, user-friendly system for detecting different concentrations of phosphate in drinking water. Phosphate is a natural chemical, but toxic in large concentrations; detection is therefore important to avoid drinking contaminated water. Despite this fact, no cheap, and/or nontoxic system for phosphate detection is yet on the market.

The detection system utilizes a paper-based microfluidic device to automate the electrochemical detection process, which normally requires expert use of lab equipment. When combined with a portable potentiostat that works with a mobile app, the device will allow untrained users to determine …

Human Biomechanics Ii Course Project, Abdelaziz Mohammad

Best Integrated Writing

Mohammad tested Human Arm Module PASCO ME-6807A, in order to determine some of the biomechanical characteristics, such as force, tension, instantaneous angular velocity, and acceleration vs. angular position required for various movements and arm positions in space.

Vital Sensory Kit For Use With Telemedicine In Developing Countries, Alejandra Pacheco, Jose Hernandez, Antonio Maldonado-Liu, Natalie Arrizon

Interdisciplinary Design Senior Theses

In many developing countries, a large percentage of the population lacks access to adequate healthcare. This is especially true in India where close to 70% of the population lives in rural areas and has little to no access to hospitals or clinics. People living in rural India often times cannot afford to pay to see a doctor should they need to make the journey to a hospital. Telemedicine, a breakthrough in the past couple decades, has broken down the barrier between the patient and the physician. It has slowly been implemented in India to make doctors more available to patients …

Engineering Synthetic Antibody By Expanded Genetic Code, Elizabeth Batiuk, Tracy Nguyen, Casey Kiyohara

Bioengineering Senior Theses

Antibodies are extensively used in research for diagnostic and therapeutic purposes because of their unrivaled specificity and biomarker binding strengths.1 Currently, monoclonal antibodies are most commonly used because of their production consistency and purity.1 However, there are significant ethical and economic challenges associated with producing monoclonal antibodies.¹ Synthetic antibodies provide a promising alternative to monoclonal antibodies in both clinical and research applications.²

Our proposed synthetic antibody system incorporates 3,4-dihydroxy-l-phenylalanine (L-DOPA), an unnatural amino acid used to increase binding affinity, into a peptide sequence specific for the prostate specific antigen (PSA), a biomarker for prostate cancer. This addition is …

Droplet-Microfluidic Device For The Characterization Of Perfluorinated Emulsions, Daniel Horvath, Nam Ahn Tran

Bioengineering Senior Theses

Microfluidics is being used throughout academia and industry today to perform large numbers of experiments with extremely small volumes of fluids. By doing this, those that study microfluidics hope to raise through-put, lower cost and limit the environmental impact of scientific research.2 Complementing the increased use of microfluidics, the use of perfluorinated emulsions in the field of droplet-based microfluidics is also experiencing large growth.3 However, many of the products available today are either proprietary and/or poorly understood. While some chemical structures are known, some of the most scientifically intriguing perfluorinated oils and surfactants do not have their chemical structures or …

Reactive Stepping With Functional Neuromuscular Stimulation In Response To Forward-Directed Perturbations, Alexander J. Hunt, Brooke M. Odle, Lisa M. Lombardo, Musa L. Audu, Ronald J. Triolo

Mechanical and Materials Engineering Faculty Publications and Presentations

Background: Implanted motor system neuroprostheses can be effective at increasing personal mobility of persons paralyzed by spinal cord injuries. However, currently available neural stimulation systems for standing employ patterns of constant activation and are unreactive to changing postural demands. Methods: In this work, we developed a closed-loop controller for detecting forward-directed body disturbances and initiating a stabilizing step in a person with spinal cord injury. Forward-directed pulls at the waist were detected with three body-mounted triaxial accelerometers. A finite state machine was designed and tested to trigger a postural response and apply stimulation to appropriate muscles so as to produce …

Measurement Of The Frequency Response Of Clinical Gas Analysers, Kabita Shakya, Catherine Deegan, Fran Hegarty, Charles Markham

The ITB Journal

A technique for the time and frequency response measurement of clinical CO2 analysers has been established. The time and frequency response of several analyser systems has been determined. This paper presents the case for the routine measurement of the dynamic performance of such systems in the context of their application in high-frequency ventilation schemes. The importance of these measurements has been demonstrated in the comparison of older and newer systems in the sense that older systems demonstrate significant deterioration in peiformance. In the context of the use of capnographs in life-support systems, it is essential to measure and monitor the …

Skin Tone Tracking Device (Chromaband), Ziyang Bian

Computer Engineering

It’s long been said that your skin is a window into your health and with many illnesses the first signs of trouble actually show up in your skin. So if we have this natural warning system, then why isn’t anyone able to effectively use it to predict changes in our health? The problem is that currently there is no reliable way to accurately measure the change in skin tone and how these changes may or may not change with variations in health. This project’s aim is to design and develop a device that will record the changes in a user’s …

Poly Drop, Zachary T. Scott, Lilly J. Paul

Computer Engineering

Poly Drop is a software interface to control an Open Drop digital micro-fluidics system. We obtained a hardware system from Gaudi labs. Our task was to create a Graphical User Interface that made the control of the device easier and more automated for better testing. We created software that had 3 parts: a control GUI, arduino code to control the hardware, and Image Analysis that gives the user information such as location and color of liquid drops as they move across the electrode grid of the Open Drop system. The GUI was developed using Java Swing. The communication between the …

Redesign Of The Medtronic Kyphon Bone Cement Mixer For Vertebral Compression Fractures, Mollie Benson, Sarah Freesemann, Aj Konnath, Benjamin Murray

Biomedical Engineering

The complete senior project report was submitted to the project advisor and sponsor. The results of this project are of a confidential nature and will not be published at this time.

Development And Characterization Of Tissue Engineered Blood Vessel Mimics Under "Diabetic" Conditions, Shelby Gabrielle Kunz

Master's Theses

The development of tissue engineered blood vessel mimics for the testing of intravascular devices in vitro has been established in the Cal Poly tissue engineering lab. Due to the prevalence of cardiovascular disease in diabetic patients and minimal accessible studies regarding the interactions between diabetes and intravascular devices used to treat vascular disease, there is a need for the development of diabetic models that more accurately represents diabetic processes occurring in the blood vessels, primarily endothelial dysfunction. This thesis aimed to create a diabetic blood vessel mimic by implementing a high glucose environment for culturing human endothelial cells from healthy …

Optimizing Hybrid Plate Fixation With A Locked, Oblique End Screw In Osteoporotic Fractures, Patrick Atkinson, Aaron Wynkoop, Osy Ndubaku, Paul M. Charpentier, Jeffrey B. Peck, Norman E. Walter

Mechanical Engineering Publications

Background

The end screw in a fracture plate creates the greatest resistance to bending. For osteoporotic fractures treated with plates, there is some question as to the optimal screw insertion technique for the screw farthest from the fracture. A locked, oblique end screw was previously shown to increase resistance to periprosthetic fracture. It is unknown, however, how this end screw configuration would resist pullout when subjected to bending.

Methods

Narrow, low contact 3.5 mm locking compression plates with 6 and 12 holes were anchored to simulated bone material with material properties representing osteoporotic bone. Four configurations were evaluated for the …

Isolation And Culture Of Myofiber-Derived Cells From The Extensor Digitorum Longus Muscle, Ethan M. Tietze

Biomedical Engineering

Peripheral arterial occlusive disease (PAOD) involves distal artery occlusion by atherosclerotic plaques, which restricts blood flow and leads to ischemia in downstream tissues. Increased blood flow through preexisting collateral vessels leads to increased shear stress that triggers an outward remodeling of the vessel called arteriogenesis. In some cases this natural compensatory mechanism is able to sufficiently restore blood flow following arterial occlusion. However, for many individuals this process is insufficient to relieve peripheral ischemia, and patients experience intermittent claudication, or limb pain with locomotion or exercise. Without treatment, reduced blood flow can lead to tissue necrosis and potentially amputation. The …

Raman Spectral Variation For Human Fingernails Of Postmenopausal Women Is Dependent On Fracture Risk And Osteoporosis Status, J. R. Beattie, M. C. Caraher, N. M. Cummins, O. M. O'Driscoll, R. Eastell, S. H. Ralston, Mark R. Towler

Chemical and Biochemical Engineering Faculty Research & Creative Works

Patients diagnosed with osteoporosis have reported loss of fingernail resilience as the disease progresses. Keratin is the predominant protein in human nail tissue, and its structure has been postulated to be different in fingernails clipped from subjects who have sustained fragility fractures and those who have not, which may offer a window into the donor's bone health. This study was designed to qualify these differences, which may lead to the development of a novel screening tool for fracture risk. Raman spectroscopy was used to measure the fingernails of 633 postmenopausal women who presented at six fracture clinics located across the …

Cancer Cell Redirection Biomarker Discovery Using A Mutual Information Approach, Kimberly Roche, F. Alex Feltus, Jang Pyo Park, Marie-May Coissieux, Chenyan Chang, Vera B.S. Chan, Mohamed Bentires-Alj, Brian W. Booth

Publications

Introducing tumor-derived cells into normal mammary stem cell niches at a sufficiently high ratio of normal to tumorous cells causes those tumor cells to undergo a change to normal mammary phenotype and yield normal mammary progeny. This phenomenon has been termed cancer cell redirection. We have developed an in vitro model that mimics in vivo redirection of cancer cells by the normal mammary microenvironment. Using the RNA profiling data from this cellular model, we examined high-level characteristics of the normal, redirected, and tumor transcriptomes and found the global expression profiles clearly distinguish the three expression states. To identify potential redirection …

Identity And Function Of A Cardiac Mitochondrial Small Conductance Ca2+-Activated K+ Channel Splice Variant, Meiying Yang, Amadou K. S. Camara, Mohammed Aldakkak, Wai-Meng Kwok, David F. Stowe

Biomedical Engineering Faculty Research and Publications

We provide evidence for location and function of a small conductance, Ca²⁺-activated K⁺ (SK_Ca) channel isoform 3 (SK3) in mitochondria (m) of guinea pig, rat and human ventricular myocytes. SK_Ca agonists protected isolated hearts and mitochondria against ischemia/reperfusion (IR) injury; SK_Ca antagonists worsened IR injury. Intravenous infusion of a SK_Ca channel agonist/antagonist, respectively, in intact rats was effective in reducing/enhancing regional infarct size induced by coronary artery occlusion. Localization of SK3 in mitochondria was evidenced by Western blot of inner mitochondrial membrane, immunocytochemical staining of cardiomyocytes, and immunogold labeling of isolated mitochondria. …

A Novel Approach To Increase Upper Extremity Active Range Of Motion For Individuals With Duchenne Muscular Dystrophy Using Admittance Control, Madeline Catherine Corrigan

Dissertations

Duchenne muscular dystrophy (DMD), a neuromuscular disease with a prevalence of 1 in 3,500-5,000 male births, results in progressive muscle weakness causing loss of independence and imposing the demands of costly and intrusive assistive support and personal care for daily living tasks. Upper extremity function begins to decline while ambulation is still possible and gradually progresses with time, playing a prominent role in loss of independence. Importantly, upper extremity functional limitations exist despite residual muscle strength that is insufficient to lift the arms against gravity. Presently, there exist a number of commercially available assistive devices aimed at augmenting upper extremity …

Profiling The Neurovascular Cell Interactions In Alcohol Exposure And Hiv-1 Infection, Agnieszka Agas

Theses

Alcohol use is known to exacerbate the progression of human immunodeficiency virus associated acquired immunodeficiency syndrome or HIV/AIDS in the brain, known as the NeuroAIDS. The mechanisms of this accelerated progression are still poorly understood. The purpose of my thesis is to review the parameters contributing to the co-morbid effects of alcohol in the progression of NeuroAIDS. The first aim will evaluate the exacerbating effects of alcohol on HIV-1 transmission, infection, and the role of metabolic energy imbalance during NeuroAIDS progression, which will enable me to formulate the possible mechanism for NeuroAIDS progression. The second aim will help me establish …