Engineering Commons^™

Transcriptomics To Develop Biochemical Network Models In Cyanobacteria, Bridget E. Hegarty, Jordan Peccia, Ratanachat Racharaks

Yale Day of Data

Through targeted genetic manipulations guided by network modeling, we will create a flexible, cyanobacteria-based platform for the production of biofuel-precursors and valuable chemical products. To build gene-metabolite predictive models, we have characterized Synecococcus elongatus sp. UTEX 2973’s (henceforth, UTEX 2973) gene expression and metabolite production under a number of environmental conditions.

Renal Granulomatosis Post Intravesical Bacillus Calmette-Guerin Therapy For Non-Muscle-Invasive Bladder Cancer, Karen Tran-Harding, Rashmi T. Nair, Halemane S. Ganesh

Radiology Faculty Publications

Intravesical Bacillus Calmette–Guerin (BCG) immunotherapy is a proven, effective treatment for intermediate- and high-risk non-muscle-invasive bladder cancer. Minor side effects are common and expected but systemic effects can occur in < 5% of treated patients. We present a rare case of a 49-year-old male that presented with fever and chills after 3 weeks of intravesical BCG therapy post transurethral resection of bladder tumor. New renal lesions were present on contrast-enhanced computed tomography scan which was histologically proven to be necrotizing renal granulomatosis.

Stepping Responses To Treadmill Perturbations Vary With Severity Of Motor Deficits In Human Sci, Virginia W. T. Chu, T. George Hornby, Brian D. Schmit

Biomedical Engineering Faculty Research and Publications

In this study, we investigated the responses to tread perturbations during human stepping on a treadmill. Our approach was to test the effects of perturbations to a single leg using a split-belt treadmill in healthy participants and in participants with varying severity of spinal cord injury (SCI). We recruited 11 people with incomplete SCI and 5 noninjured participants. As participants walked on an instrumented treadmill, the belt on one side was stopped or accelerated briefly during mid to late stance. A majority of participants initiated an unnecessary swing when the treadmill was stopped in mid stance, although the likelihood of …

An Area Based Fan Beam Projection Model, Richard E. Steele, Jiehua Zhu

Honors College Theses

Area based projection models for computed tomography mitigate raw data errors by treating X-Rays as beams, whereas traditional line based projection models treat an X-Ray like a line, thus generating significant error. In an existing area based fan beam projection model, a rotation matrix, Q, simulates the rotation of the emitter detector pair to reduce computational load, but this introduces approximations by using an approximated rotation matrix. We eliminate approximations by deriving an exact formula for the entries of Q. Using a rotation of axes and by considering the neighboring cells' contributions to the area, the result has formulations for …

Algal Biofuel: The Future Of Green Jet Fuel In Air Transportation, Rajee Olaganathan

Publications

The aviation industry is one of the major contributors for the greenhouse gases. As air travel has become inevitable in this modern era, and fossil fuel usage is not sustainable, it is essential to produce renewable fuel and commercialize it to reduce the greenhouse gas emissions. In order to produce an alternate aviation biofuel a lot of industrial and academic collaborations have been developed worldwide. The main concern of this collaborative research is to produce aviation biofuel from renewable resources with low environmental impacts, and which is sustainable at an economically viable price. This mini-review briefly discusses the biotechnological approaches …

Effects Of Game Pitch Count And Body Mass Index On Pitching Biomechanics In 9-To 10-Year-Old Baseball Athletes, Jim D. Darke, Eshan M. Dandekar, Arnel L. Aguinaldo, Scott J. Hazelwood, Stephen M. Klisch

Biomedical Engineering

Background: Pitching while fatigued and body composition may increase the injury risk in youth and adult pitchers. However, the relationships between game pitch count, biomechanics, and body composition have not been reported for a study group restricted to 9-to 10-year-old athletes.

Hypothesis: During a simulated game with 9-to 10-year-old athletes, (1) participants will experience biomechanical signs of fatigue, and (2) shoulder and elbow kinetics will correlate with body mass index (BMI).

Study Design: Descriptive laboratory study. Methods: Thirteen 9-to 10-year-old youth baseball players pitched a simulated game (75 pitches). Range of motion and muscular output tests were conducted before and …

Dynamic Classification Of Moisture Stress Using Canopy And Leaf Temperature Responses To A Step Changes Of Incident Radiation, Erin E. Stevens, George E. Meyer, Ellen T. Paparozzi

Honors Program: Senior Projects (Public)

Environmental conditions affect plant productivity and understanding how plants respond to drought stress can be measured in different ways. This study focused on measuring leaf response time to induced water stress. Leaf response time to a step increase and step decrease in radiation was computed for four species of well-watered and water-stressed plants in a controlled environment. The canopy temperature was measured with an infrared thermometer and a thermal imaging camera. Thermal images were analyzed to determine the average temperature of a selected single, unobstructed leaf at the top of the canopy. Both the canopy response time and the single …

Integration And Cross-Coupling Of A Notched-Turbine Symbiotic Power Source For Implantable Medical Devices, Samuel Perez

USF Tampa Graduate Theses and Dissertations

The purpose of this research is to design and integrate a symbiotic notched-turbine energy generator for implantation as a cross-coupled system capable of continuously and perpetually powering an electronic implantable medical device (IMD), which is a device designed to operate inside the body of a higher mammal to enhance, correct or provide the body with a function that has deviated from the norm or has stopped altogether. The list of IMDs available for implantation keeps growing every year, one of the newest being the VBLOC, produced by EnteroMedics®, and approved by the Food and Drug Administration (FDA) on January 15th, …

Tactile-Star: A Novel Tactile Stimulator And Recorder System For Evaluating And Improving Tactile Perception, Giulia Ballardini, Giorgio Carlini, Robert A. Scheidt, Ilana Nisky, Maura Casadio

Biomedical Engineering Faculty Research and Publications

Many neurological diseases impair the motor and somatosensory systems. While several different technologies are used in clinical practice to assess and improve motor functions, somatosensation is evaluated subjectively with qualitative clinical scales. Treatment of somatosensory deficits has received limited attention. To bridge the gap between the assessment and training of motor vs. somatosensory abilities, we designed, developed, and tested a novel, low-cost, two-component (bimanual) mechatronic system targeting tactile somatosensation: the Tactile-STAR—a tactile stimulator and recorder. The stimulator is an actuated pantograph structure driven by two servomotors, with an end-effector covered by a rubber material that can apply two different …

Characterization Of Computed Tomography Radiomic Features Using Texture Phantoms, Muhammad Shafiq Ul Hassan

USF Tampa Graduate Theses and Dissertations

Radiomics treats images as quantitative data and promises to improve cancer prediction in radiology and therapy response assessment in radiation oncology. However, there are a number of fundamental problems that need to be solved in order to potentially apply radiomic features in clinic. The first basic step in computed tomography (CT) radiomic analysis is the acquisition of images using selectable image acquisition and reconstruction parameters. Radiomic features have shown large variability due to variation of these parameters. Therefore, it is important to develop methods to address these variability issues in radiomic features due to each CT parameter. To this end, …

Metabolism-Driven High-Throughput Cancer Identification With Glut5-Specific Molecular Probes, Srinivas Kannan, Vagarshak Begoyan, Joseph Fedie, Shuai Xia, Łukasz J. Weseliński, Marina Tanasova, Smitha Rao

Michigan Tech Publications, Part 1

Point-of-care applications rely on biomedical sensors to enable rapid detection with high sensitivity and selectivity. Despite advances in sensor development, there are challenges in cancer diagnostics. Detection of biomarkers, cell receptors, circulating tumor cells, gene identification, and fluorescent tagging are time-consuming due to the sample preparation and response time involved. Here, we present a novel approach to target the enhanced metabolism in breast cancers for rapid detection using fluorescent imaging. Fluorescent analogs of fructose target the fructose-specific transporter GLUT5 in breast cancers and have limited to no response from normal cells. These analogs demonstrate a marked difference in adenocarcinoma and …

Elastin-Like Polypeptide Fusion Tag As A Protein-Dependent Solubility Enhancer Of Cysteine-Knot Growth Factors, Tamina L. Johnson

USF Tampa Graduate Theses and Dissertations

Elastin-like peptide (ELP) fusions promote therapeutic delivery and efficacy. Recombinant proteins, like neurotrophins, lack bioavailability, have short in vivo half-lives, and require high manufacturing costs. Fusing recombinant proteins with genetically encodable ELPs will increase bioavailability, enhance in vivo solubilization, as well as provide a cost-effective method for purification without the need for chromatography. During expression of neurotrophin-ELP (N-ELP) fusions, dense water-insoluble aggregates known as inclusion bodies (IBs) are formed. Inclusion bodies are partially and misfolded proteins that usually require denaturants like Urea for solubilization. Strong denaturants arrest ELPs stimuli-responsive property and increase unwanted aggregation, making purification difficult, yet possible. The …

Effects Of Game Pitch Count And Body Mass Index On Pitching Biomechanics In 9- To 10-Year-Old Baseball Athletes, Scott Hazelwood, Jim D. Darke, Eshan M. Dandekar, Arnel L. Aguinaldo, Stephen M. Klisch

Biomedical Engineering

Background:

Pitching while fatigued and body composition may increase the injury risk in youth and adult pitchers. However, the relationships between game pitch count, biomechanics, and body composition have not been reported for a study group restricted to 9- to 10-year-old athletes.

Hypothesis:

During a simulated game with 9- to 10-year-old athletes, (1) participants will experience biomechanical signs of fatigue, and (2) shoulder and elbow kinetics will correlate with body mass index (BMI).

Study Design:

Descriptive laboratory study.

Methods:

Thirteen 9- to 10-year-old youth baseball players pitched a simulated game (75 pitches). Range of motion and …

Development Of Stable Cell Lines For The Production Of Hematopoietic Stem Cell Targeted Exosomes, Anja Beard, Zach Ehlinger

Bioengineering Senior Theses

Exosomes represent a promising new approach to targeted drug delivery. Current research explores the ability of these naturally occurring nanoparticles to transport therapeutic cargo to specific tissues of the body and to subsequently enter the cells of those tissues. Human cells act as an efficient source of these nano-vesicles. Our project ultimately focuses on the establishment of a cell line that produces exosomes tagged with the RD114 protein, which allows for the targeting of hematopoietic stem cells. With the ability to deliver therapeutic cargo to these specific cells, exosomes can serve as a vehicle for many effective hematopoietic stem cell …

Engineering Synthetic Antibody For Prostate Cancer Detection, Kimberley Gonzalez, Tatum Prosswimmer, Cassandra Stawicki

Bioengineering Senior Theses

This Senior Design project seeks to manufacture an E. Coli based antibody for prostate cancer detection using unnatural amino acid incorporation. Current diagnostic techniques take advantage of the high binding specificity of monoclonal antibodies to detect the concentration of prostate specific antigen (PSA) in a blood sample. Production of this technology is lengthy and costly, while simultaneously incurring countless ethical problems related to animal welfare and accessibility. This project proposes a synthetic antibody that can be produced efficiently in single E. Coli cells and exhibits complementary binding to PSA. By incorporating an unnatural amino acid into a recombinant peptide sequence, …

Hands-Free Wearable Crutch, Cooper Schwabe, Marcus Kraus, Tk Wasserman

Bioengineering Senior Theses

Traditional crutches have long been the primary mobility aid for patients with a lower-leg injuries. However, forced to place most of their weight on their hands and underarms while balancing on only one leg, users find that such crutches present a physically demanding, uncomfortable, and inconvenient means of getting around. To combat these issues, we propose a hands-free crutch that will attach only to the injured leg, increasing maneuverability while preserving natural walking mechanics. Within the last decade, other hands-free crutch solutionshave proven to increase user satisfaction by reducing fatigue, increasing safety and efficiency by allowing users to perform additional …

Development Of Rule-Based Recognition Systems For Continuous Monitorization Of Pulse Oximetry, Brian Delehanty

Senior Theses

Pulse Oximeters provide a convenient, non-invasive method to quickly gather information about a patient's pulse rate (PR) and arterial blood oxygen saturation (SpO₂). Many pulse oximeters lack alert systems that notify caregivers if a patient's readings go outside the healthy range, and pulse oximeters that have these mechanisms are significantly more expensive. This project set out to write a program using LabVIEW that collects pulse oximeter data via Bluetooth and generates an alert when readings persist in the abnormal range for more than fifteen seconds. Due to privacy laws that allow pulse oximeter manufacturers to not disclose the …

Osteon Mimetic Scaffolding, Janay Clytus

Senior Theses

The purpose of this research is to provide an alternative to naturally derived bone grafts. There is a gap in the supply of donors and the demand of bone tissue. Artificial scaffold creation can work as an implant and decrease the shortage of bone grafts and increase the range of injuries that can be repaired. Current research focuses on optimizing mechanical properties such as porosity, improving vascularization using cells, and generating osteoconductivity. For osteodifferentiation, mesenchymal stem cells (MSCs) can differentiate into mesodermal lineages such as chondrocytes, osteoblasts, adipocytes, and tenocytes by supplementing cultures with lineage-specific soluble factors (Marchetti). Co-culturing ECFCs …

Origins Of Scale Invariance In Vocalization Sequences And Speech, Fatemeh Khatami, Markus Wöhr, Heather L. Read, Monty A. Escabí

All Faculty Articles - School of Engineering and Computer Science

To communicate effectively animals need to detect temporal vocalization cues that vary over several orders of magnitude in their amplitude and frequency content. This large range of temporal cues is evident in the power-law scale-invariant relationship between the power of temporal fluctuations in sounds and the sound modulation frequency (f). Though various forms of scale invariance have been described for natural sounds, the origins and implications of scale invariant phenomenon remain unknown. Using animal vocalization sequences, including continuous human speech, and a stochastic model of temporal amplitude fluctuations we demonstrate that temporal acoustic edges are the primary acoustic cue accounting …

Failure Analysis Of Philos Plate Construct Used For Pantalar Arthrodesis Paper Ii-Screws And Fem Simulations, Farah Hamandi, Richard T. Laughlin, Tarun Goswami

Biomedical, Industrial & Human Factors Engineering Faculty Publications

A fractured stainless steel 3.5 mm proximal humerus internal locking system (PHILOS) plate and screws were investigated in this paper. This plate was used for ankle arthrodesis of a 68-year-old female with a right ankle deformity. Both the plate and screws were considered in this investigation. Optical and scanning electron microscopes (SEM) were used to document fracture surface characteristics, such as extensive scratching, plastic deformation, rubbed surfaces, discoloration, and pitting, along with cleavage, secondary cracking, deposits of debris, striations, and dimples. Indications of these features show that the plate failed by corrosion fatigue, however, overloading separated the screw(s) in two …

Ring And Peg Simulation For Minimally Invasive Surgical Robot, Evan Brown

Department of Mechanical and Materials Engineering: Dissertations, Theses, and Student Research

Surgical procedures utilizing minimally invasive laparoscopic techniques have shown less complications, better cosmetic results, and less time in the hospital than conventional surgery. These advantages are partially offset by inherent difficulties of the procedures which include an inverted control scheme, instrument clashing, and loss of triangulation. Surgical robots have been designed to overcome the limitations, the Da Vinci being the most widely used. A dexterous in vivo, two-armed robot, designed to enter an insufflated abdomen with a limited insertion profile and expand to perform a variety of operations, has been created as a less expensive, versatile alternative to the Da …

Neural Mechanisms Of Transcranial Magnetic Stimulation In The Treatment Of Tinnitus, Andrea S. Lowe

USF Tampa Graduate Theses and Dissertations

Millions of people suffer from tinnitus, a disorder for which there is currently no effective treatment or cure. My dissertation work provides insight into the neural correlates of this pervasive hearing disorder and examines how a newly emerging therapy, transcranial magnetic stimulation (TMS), affects the central auditory system in the generation of the tinnitus percept. This work has a multifold focus of: i) developing and modeling the function of a miniature magnetic coil that can be used for TMS in rodents, ii) establishing a reliable mouse model of tinnitus that can be used for assessing TMS treatment-induced changes, iii) measuring …

Optimization Of Microfluidic Chip Fabrication Via Femtosecond Laser Ablation, Kenneth Aycock

Senior Theses

Microfluidic devices have become staple tools in biomedical research and have a promising future as low cost, point-of-care (POC) diagnostic devices. Despite the advancements in microfluidic device technology, the manipulation and fabrication of these systems can be tedious and expensive. Repeatable techniques in which computer-aided designs are translated into microfluidic systems in a matter of minutes are highly desirable both for researchers and manufacturers. Laser ablation of tape substrates has shown promise in producing cost-effective, rapidly manipulable devices, but the work done thus far has utilized continuous wave lasers that perform suboptimally due to the relatively short wavelengths used and …

Integration Of A Sensory Driven Model For Hand Grasp Function In 3d Printed Prostheses, Austin T. Hetherington

Senior Theses

My Honors Thesis was completed through the Biomedical Engineering senior design project I worked on. Our project took a mechanically operated 3D printed prosthetic hand and automated the process by which it makes a grasp. The purpose of this project was to provide an affordable, automatic prosthetic hand to those either capable and incapable of wrist flexion. The current 3D printed prosthetic models require users to bend their wrist to initiate a simple grasp. However, our design took an alternative approach by using an EMG sensor placed on the ventral side of the forearm to record muscle activity, which, upon …

Immersive Visualization In Biomedical Computational Fluid Dynamics And Didactic Teaching And Learning, John Thomas Venn

Master's Theses (2009 -)

Virtual reality (VR) can stimulate active learning, critical thinking, decision making and improved performance. It requires a medium to show virtual content, which is called a virtual environment (VE). The MARquette Visualization Lab (MARVL) is an example of a VE. Robust processes and workflows that allow for the creation of content for use within MARVL further increases the userbase for this valuable resource. A workflow was created to display biomedical computational fluid dynamics (CFD) and complementary data in a wide range of VE’s. This allows a researcher to study the simulation in its natural three-dimensional (3D) morphology. In addition, it …

Investigation Of The Effects Of Prosthetic Knee Condition On Novice Transfemoral Amputee Runners, Natalie Nelson

Master's Theses (2009 -)

Some unilateral transfemoral amputees (TFAs) run in a prosthesis with an articulating prosthetic knee, others choose to run without a knee (prosthetic socket and foot are linked via a straight, non-articulating pylon) to increase stability. Research regarding unilateral TFA running with an unlocked versus locked prosthetic knee (approximately equivalent to the no-knee condition) with respect to energy cost and temporal metrics is limited; no studies have investigated the impact of knee condition on kinematic metrics. The purpose of this study was to investigate whether the prosthetic knee of a running-specific prosthesis (RSP) should be unlocked or locked for unilateral TFAs …

Materials Design With Polylactic Acid-Polyethylene Glycol Blends Using 3d Printing And For Medical Applications., Jeremiah R. Bauer

Electronic Theses and Dissertations

This thesis is an examination of two material systems derived from polylactic acid (PLA) and polyethylene glycol (PEG). PLA is a polymer commonly sourced from renewable sources such as starches and sugars. It is a relatively strong, biodegradable polymer, making it ideal for use in the body. Even though it has a relative high strength, PLA is also brittle leading to the use of plasticizers to increase flexibility. One such plasticizer is PEG, which is a material that can exist at room temperature as either a thin liquid, or a hard waxy solid depending on the molecular weight. The first …

Design And Development Of A Multifunctional Surgical Device For Ground And Space-Based Surgical Applications., Brooke Elaine Barrow

Electronic Theses and Dissertations

With the possibility of longer ventures into space, NASA will face many new medical challenges. The ability to surgically treat trauma and other disorders in reduced gravity requires reliable wound access, containment, and visualization. In collaboration with Carnegie Mellon University, the University of Louisville is currently developing the AISS (Aqueous Immersion Surgical System) to increase efficiency and control of the operative field in space-based surgeries. Reliable wound access and containment is achieved by placing a transparent wound-isolation dome securely over the wound-site and pressurizing it with a saline solution. Leak-free trocars provide access ports for various surgical instruments. This system …

Tumor-Targeted Double Emulsions For Ultrasound-Triggered Delivery Of Molecular Therapeutics., Connor S Centner

Electronic Theses and Dissertations

Cancer is the second leading cause of death in the United States, with 1.74 million new cancer cases diagnosed and 610,000 cancer deaths expected in 2018 alone. Current treatments often result in negative systemic effects and ineffective treatment of the tumor. Drug delivery vehicles have been developed for more effective local delivery methods, but many drug delivery vehicles lack spatial and temporal control. Targeted double emulsions are a new class of drug delivery vehicles which present a promising option for a high payload and controlled delivery. The purpose of our project was to develop and characterize an aptamer-chelated double emulsion …

Unsupervised Parkinson’S Disease Assessment, Alexander S. Adranly, Senbao Lu, Yousef Zoumot

Interdisciplinary Design Senior Theses

Parkinson’s Disease (PD) is a progressive neurological disease that affects 6.2 million people worldwide. The most popular clinical method to measure PD tremor severity is a standardized test called the Unified Parkinson’s Disease Rating Scale (UPDRS), which is performed subjectively by a medical professional. Due to infrequent checkups and human error introduced into the process, treatment is not optimally adjusted for PD patients. According to a recent review there are two devices recommended to objectively quantify PD symptom severity. Both devices record a patient’s tremors using inertial measurement units (IMUs). One is not currently available for over the counter purchases, …