Engineering Commons^™

A Trans-Dimensional View Of Drug Resistance Evolution In Multiple Myeloma Patients, Timothy Jacobson

USF Tampa Graduate Theses and Dissertations

Multiple Myeloma (MM) is a treatable, yet incurable, malignancy of bone marrowplasma cells. This cancer affects many patients and many succumb to relapse of tumor burden despite a large number of available chemotherapeutic agents developed for therapy. This is because MM tumors are heterogeneous and receive protection from therapeutic agents by the microenvironment and other mechanisms including homologous MM-MM aggregation. Therefore, therapy failure and frequent patient relapse is due to the evolution of drug resistance, not a lack of available drugs. To analyze and understand this problem, the evolution of drug resistance has been explored and presented herein. We seek …

The Use Of Microfluidics And Dielectrophoresis For Separation, Concentration, And Identification Of Bacteria, Cynthia Hanson, Michael Sieverts, Karen Tew, Annelise Dykes, Michaela Salisbury, Elizabeth Vargis

Biological Engineering Faculty Publications

Traditional bacterial identification methods take one to two days to complete, relying on large bacteria colonies for visual identification. In order to decrease this analysis time in a cost-effective manner, a method to sort and concentrate bacteria based on the bacteria's characteristics itself is needed. One example of such a method is dielectrophoresis, which has been used by researchers to separate bacteria from sample debris and sort bacteria according to species. This work presents variations in which dielectrophoresis can be performed and their associated drawbacks and benefits specifically to bacterial identification. In addition, a potential microfluidic design will be discussed.

Regulatory Effect Of Elastin Based Biomaterial On Cellular Behavior And Its Application On Wound Repair And Regeneration, Yuan Yuan

USF Tampa Graduate Theses and Dissertations

Elastin-like peptides (ELPs) are stimulus-responsive protein-based polymers which are attractive material for biomedical research due to their biocompatibility and unique properties. The physical properties of ELPs are dependent on the chain length and the chosen amino acid at the guest residue position. This imparts unlimited flexibility in designing ELP based biomaterials with the desired physical properties.

We have shown that in addition to their physical properties, ELPs have biological activities that are conducive to tissue regeneration. Specifically, we found that ELPs induce fibroblast proliferation via cell surface heparan sulfate proteoglycans (HSPG). Furthermore, our data suggests that ELP based materials with …

Impact Of Elastin Incorporation Into Electrochemically Aligned Collagen Fibers On Mechanical Properties And Smooth Muscle Cell Phenotype, Thuy-Uyen Nguyen, Chris A. Bashur, Vipuil Kishore

Biomedical Engineering and Sciences Faculty Publications

Application of tissue-engineered vascular grafts (TEVGs) for the replacement of small-diameter arteries is limited due to thrombosis and intimal hyperplasia. Previous studies have attempted to address the limitations of TEVGs by developing scaffolds that mimic the composition (collagen and elastin) of native arteries to better match the mechanical properties of the graft with the native tissue. However, most existing scaffolds do not recapitulate the aligned topography of the collagen fibers found in native vessels. In the current study, based on the principles of isoelectric focusing, two different types of elastin (soluble and insoluble) were incorporated into highly oriented electrochemically aligned …

Analysis And Processing Of Human Electroretinogram, Abdulrahman Mohammad Alaql

USF Tampa Graduate Theses and Dissertations

Electroretinagram (ERG) is the recording of electrical activity of retinal cells elicited by light stimulation, which has been widely used to help diagnose different types of retinal dysfunctions. The ERG response signal is a short non-stationary signal that contains overlapping components. Different Digital Signal Processing (DSP) techniques are investigated using MATLAB to study the time-frequency responses of the ERG signal such as Short Time Fourier Transform (STFT), Continuous Wavelet Transform (CWT) and Discrete Wavelet Transform (DWT). The Photopic ERG signal was processed and analyzed in this thesis and the results of each technique have been investigated in detail. The Photopic …

Selective Enhancement Of Macropinocytosis For The Treatment Of Non-Small Cell Lung Cancer, Raul Iglesias

USF Tampa Graduate Theses and Dissertations

Over the past few years, researchers have focused their attention on the development of targeted cancer therapies to minimize the side effects associated with non-targeted treatments such as chemotherapy. Specifically, these approaches have focused on blocking growth factor receptors (GFR) that are overexpressed in cancer cells. In this thesis, we also focus on targeting overexpressed GFR; however, instead of blocking the GFR, our novel approach aims at using them to selectively enhance the endocytotic process of macropinocytosis to deliver peptides that either disrupts the mitochondria or inhibits glycolysis.

Herein, we show the selective enhancement of macropinocytosis by the fusion protein …

Controlled Microfluidics To Examine Growth-Factor Induced Migration Of Neural Progenitors In The Drosophila Visual System, Cade Beck, Tanya Singh, Angela Farooqi, Tadmiri Venkatesh, Maribel Vazquez

Publications and Research

BACKGROUND:

The developing visual system in Drosophila melanogaster provides an excellent model with which to examine the effects of changing microenvironments on neural cell migration via microfluidics, because the combined experimental system enables direct genetic manipulation, in vivo observation, and in vitro imaging of cells, post-embryo. Exogenous signaling from ligands such as fibroblast growth factor (FGF) is well-known to control glia differentiation, cell migration, and axonal wrapping central to vision.

NEW METHOD:

The current study employs a microfluidic device to examine how controlled concentration gradient fields of FGF are able to regulate the migration of vision-critical glia cells with and …

Alterations In Cortical Sensorimotor Connectivity Following Complete Cervical Spinal Cord Injury: A Prospective Resting-State Fmri Study, Akinwunmi Oni-Orisan, Mayank Kaushal, Wenjun Li, Jack Leschke, B. Douglas Ward, Aditya Vedantam, Benjamin Kalinosky, Matthew D. Budde, Brian D. Schmit, Shi-Jiang Li, Viashnavi Muqeet, Shekar N. Kurpad

Biomedical Engineering Faculty Research and Publications

Functional magnetic resonance imaging (fMRI) studies have demonstrated alterations during task-induced brain activation in spinal cord injury (SCI) patients. The interruption to structural integrity of the spinal cord and the resultant disrupted flow of bidirectional communication between the brain and the spinal cord might contribute to the observed dynamic reorganization (neural plasticity). However, the effect of SCI on brain resting-state connectivity patterns remains unclear. We undertook a prospective resting-state fMRI (rs-fMRI) study to explore changes to cortical activation patterns following SCI. With institutional review board approval, rs-fMRI data was obtained in eleven patients with complete cervical SCI (>2 years …

Dimensionality Reduction Based Optimization Algorithm For Sparse 3-D Image Reconstruction In Diffuse Optical Tomography, Tanmoy Bhowmik, Hanli Liu, Zhou Ye, Soontorn Oraintara

Bioengineering Faculty Publications - Archive

No abstract provided.

Predicted Molecular Signaling Guiding Photoreceptor Cell Migration Following Transplantation Into Damaged Retina, Uchenna John Unachukwu, Alice Warren, Ze Li, Shawn Mishra, Jing Zhou, Moira Sauane, Hyungsik Lim, Maribel Vazquez, Stephen Redenti

Publications and Research

To replace photoreceptors lost to disease or trauma and restore vision, laboratories around the world are investigating photoreceptor replacement strategies using subretinal transplantation of photoreceptor precursor cells (PPCs) and retinal progenitor cells (RPCs). Significant obstacles to advancement of photoreceptor cell-replacement include low migration rates of transplanted cells into host retina and an absence of data describing chemotactic signaling guiding migration of transplanted cells in the damaged retinal microenvironment. To elucidate chemotactic signaling guiding transplanted cell migration, bioinformatics modeling of PPC transplantation into light-damaged retina was performed. The bioinformatics modeling analyzed whole-genome expression data and matched PPC chemotactic cell-surface receptors to …

Genesis And Growth Of Extracellular Vesicle-Derived Microcalcification In Atherosclerotic Plaques, Joshua D. Hutcheson, Claudia Goettsch, Sergio Bertazzo, Natalia Maldonado, Jessica L. Ruiz, Wilson Goh, Katsumi Yabusaki, Tyler Faits, Carlijn Bouten, Gregory Franck, Thibaut Quillard, Peter Libby, Masanori Aikawa, Sheldon Weinbaum, Elena Aikawa

Publications and Research

Clinical evidence links arterial calcification and cardiovascular risk. Finite-element modelling of the stress distribution within atherosclerotic plaques has suggested that subcellular microcalcifications in the fibrous cap may promote material failure of the plaque, but that large calcifications can stabilize it. Yet the physicochemical mechanisms underlying such mineral formation and growth in atheromata remain unknown. Here, by using three-dimensional collagen hydrogels that mimic structural features of the atherosclerotic fibrous cap, and high-resolution microscopic and spectroscopic analyses of both the hydrogels and of calcified human plaques, we demonstrate that calcific mineral formation and maturation results from a series of events involving the …

Instrumented Lumbar Corpectomy And Spinal Reconstruction Comparing Rhbmp-2/Compression-Resistant Matrix, Rhbmp-2/Absorbable Collagen Sponge/Ceramic Granules Mixture, And Autograft In Two Different Devices: A Study In Sheep, Jeffrey M. Toth, David G. Schwartz, Jean-Piere Mobasser, Joseph Williams

Biomedical Engineering Faculty Research and Publications

Study Design. Fusion success with rhBMP-2 and autograft in titanium or PEEK corpectomy devices was evaluated in a sheep lumbar corpectomy model. The 6 treatment groups included titanium mesh or PEEK corpectomy devices filled with rhBMP-2 on a compression-resistant matrix (CRM) carrier; rhBMP-2 in a morselized absorbable collagen sponge (ACS) carrier combined with resorbable ceramic granules; and autograft.

Objective. The aim of this study was to determine fusion rates associated with 2 different preparations of rhBMP-2 as well as autograft in an instrumented ovine lumbar corpectomy model 6 months postoperatively.

Summary of Background Data. Vertebral reconstruction with corpectomy devices requires …

Design And Validation Of A Fall Detection Application For Ios, Connor Lewis Mosley

Master's Theses

Despite significant preventative efforts, falls continue to be a major source of morbidity and mortality among the elderly. Additionally, the fear of falling can be a major obstacle to independent living for otherwise self-sufficient individuals. This fear is significantly heightened in individuals who have sustained a fall and often results in self-imposed restrictions on mobility and exercise, causing weakening in these individuals and further exacerbating the danger. Much time has been spent developing alert systems in an attempt to mitigate these problems. Unfortunately these systems typically involve dedicated monitoring centers and therefore often come with substantial upfront and recurring costs. …

Foot Strike Patterns And Body Alignment Effects On Muscle Activity During Running., Nicole Knapp

Electronic Theses and Dissertations

The mechanics of the running stride was altered around the 1970s when shoes were released with an elevated heel (McDougall 2009). At this point in time a heel strike running style became increasingly common and has remained the popular pattern when running in traditional shoes. In fact, the exact same person has been seen to alter their stride when running in a traditional shoe where they heel strike verses barefoot where they take on a forefoot strike (Lieberman 2010).

When an individual heel strikes, the ground reaction force is greater and contains an initial peak which is void in a …

Design And Analysis Of A Lift Assist Walker, Deep P. Shah

Master's Theses

Walkers provided stability to the elderly but cannot assist a person from sitting to standing. The objective of this project is to present the design and analysis of a lift assist walker. This report discusses the design and analysis of a collapsible lift assist walker capable of lifting a patient up to 250 lbs. from seated to standing in under 10 seconds. The designed walker utilized a two stage scissor mechanism with a gas spring assisted embedded linear actuator.

Fluid Flow Characterization In Rapid Prototyped Common Iliac Artery Aneurysm Molds, Daniel Cole Greinke

Master's Theses

The goal of this project was to determine whether i) fused deposition modeling could be employed to manufacture molds for vascular constructs, ii) whether vascular constructs could be created from these molds, and iii) to verify practical equivalence between observed fluid velocities. Dye tracking was to be employed to characterize fluid velocity profiles through the in vitro vascular constructs, including a half-vessel model and a full vessel model of an iliac artery aneurysm. A PDMS half-vessel construct was manufactured, and the movement of dye through the construct was tracked by a cellphone camera. Thresholds were applied to each video in …

Faculty Intellectual Property In Capstone Design Projects, Jay R. Goldberg

Biomedical Engineering Faculty Research and Publications

Reports on the Capstone Design challenge, focusing on design challenges for the participants. By focusing on the design process and allowing students to gain hands-on experience in design, they help prepare students for careers in engineering. In many capstone design courses, students design a product or device to solve a problem and build and test a prototype to verify and validate the design. Student teams are often advised by some combination of industry sponsors, clinical advisors, and/or faculty advisors. Faculty advisors serve as technical advisors to the teams and provide guidance to keep them on track. They are not members …

Elastin Like Polypeptides As Drug Delivery Vehicles In Regenerative Medicine Applications, Alex Leonard

USF Tampa Graduate Theses and Dissertations

Elastin like polypeptides (ELPs) are a class of naturally derived biomaterials that are non-immunogenic, genetically encodable, and biocompatible making them ideal for a variety of biomedical applications, ranging from drug delivery to tissue engineering. Also, ELPs undergo temperature-mediated inverse phase transitioning, which allows them to be purified in a relatively simple manner from bacterial expression hosts. Being able to genetically encode ELPs allows for the incorporation of bioactive peptides and functionalization of ELPs. This work utilizes ELPs for regenerative medicine and drug delivery.

The goal of the first study was to synthesize a biologically active epidermal growth factor-ELP (EGF-ELP) fusion …

Mri Signal Intensity Differentiation Of Brainstem Encephalitis Induced By Enterovirus 71: A Classification Approach For Acute And Convalescence Stages, Hongwu Zeng, Wenxian Huang, Feiqiu Wen, Yonker Wang, Yungen Gan, Weibin Zeng, Ranran Chen, Yanxia He, Zaiyi Liu, Changhong Liang, Kelvin K. L. Wong

Radiology Faculty Publications

Background: The objective of this study is to assess standardized histograms of signal intensities of T1 signal and T2 signal on sagittal view without enhancement during (1) acute stage, and (2) convalescence stage of pediatric patients with Enterovirus 71 related brainstem encephalitis (BE), and with respect to (3) healthy normal.

Methods: Our subjects were hospitalized between March 2010 and October 2012, and underwent pre- and post-contrast MRI studies. The research question to be answered is whether the comparison of the MRI image intensity histograms and relevant statistical quantification can add new knowledge to the diagnosis of BE patients. So, both …

Usu Biological Engineer Patents Method To Make Natural Blue Dye | College Of Engineering, Usu College Of Engineering

College of Engineering News

Feb. 22, 2016 – A Utah State University researcher has taken a big step toward making a safer, more natural dye that can be used in the food, textile, cosmetic and other industries.

Dr. Jixun Zhan, an associate professor of biological engineering at USU, has secured a patent for an innovative method to produce the deep blue dye known as indigoidine. The tint was originally synthesized from a bacterial strain found inRhode Island and offered a promising alternative to the synthetic dyes used to color jeans, leather, food and paper.

Segway: A Simple Framework For Unsupervised Sleep Segmentation In Experimental Eeg Recordings, Farid Yaghouby, Sridhar Sunderam

Biomedical Engineering Faculty Publications

Sleep analysis in animal models typically involves recording an electroencephalogram (EEG) and electromyogram (EMG) and scoring vigilance state in brief epochs of data as Wake, REM (rapid eye movement sleep) or NREM (non-REM) either manually or using a computer algorithm. Computerized methods usually estimate features from each epoch like the spectral power associated with distinctive cortical rhythms and dissect the feature space into regions associated with different states by applying thresholds, or by using supervised/unsupervised statistical classifiers; but there are some factors to consider when using them:

• Most classifiers require scored sample data, elaborate heuristics or computational steps not easily …

Ryan Summers Seminar Presentation | Biological Engineering, Usu College Of Engineering

College of Engineering News

Upcoming Seminar:

"Production of High-Value Methylxanthines by Metabolically Engineering E. coli."

ENGR 406

Friday: 2/19/16

12:00 - 1:00 PM

Presented by BE Alumni of the Year 2016, Dr. Ryan Summers.

Quantitative Analysis Of Retrieved Glenoid Liners, Katelyn Childs, Lynn Crosby, Tarun Goswami

Biomedical, Industrial & Human Factors Engineering Faculty Publications

Revision of orthopedic surgeries is often expensive and involves higher risk from complications. Since most total joint replacement devices use a polyethylene bearing, which serves as a weak link, the assessment of damage to the liner due to in vivo exposure is very important. The failures often are due to excessive polyethylene wear. The glenoid liners are complex and hemispherical in shape and present challenges while assessing the damage. Therefore, the study on the analysis of glenoid liners retrieved from revision surgery may lend insight into common wear patterns and improve future product designs. The purpose of this pilot study …

Equilibrium Testing Of Rat Tail Tendon: An Analysis Of The Viscoelastic Properties Of Collagen Under Different Strain Points, Joshua C. Witt

Graduate Theses - Biology & Biomedical Engineering

Instantaneous tensile testing and stress-relaxation testing are forms of mechanical testing used to determine the elastic and viscoelastic properties of biological tissue. Equilibrium testing is a form of testing that combines both of these testing approaches at different strain points to determine the elastic properties of a material and also assess their viscoelastic properties in the same test. This testing method is commonly used on highly viscoelastic materials such as cartilage but has never been fully described in dense collagenous materials such as tendon or ligament. This analysis utilizes different strain points selected to capture the classic non-linear behavior of …

Long-Term Velaglucerase Alfa Treatment In Children With Gaucher Disease Type 1 Naïve To Enzyme Replacement Therapy Or Previously Treated With Imiglucerase, Laurie Smith, William Rhead, Joel Charrow, Suma P. Shankar, Ashish Bavdekar, Nicola Longo, Rebecca Mardach, Paul Harmatz, Thomas N. Hangartner, Hak-Myung Lee, Eric Crombez, Gregory M. Pastores

Biomedical, Industrial & Human Factors Engineering Faculty Publications

Background

Gaucher Disease type 1 (GD1) often manifests in childhood. Early treatment with enzyme replacement therapy (ERT) may prevent disease complications. We report the assessment of velaglucerase alfa ERT in pediatric GD1 patients who participated in a long-term extension study (HGT-GCB-044, ClinicalTrials.gov Identifier NCT00635427).

Methods

Safety and efficacy were evaluated in pediatric patients receiving velaglucerase alfa 30–60 U/kg by intravenous infusion every other week. In addition to key hematological and visceral efficacy assessments, exploratory assessments conducted specifically in pediatric patients included evaluation of height, bone age, bone marrow burden, and Tanner stage of puberty.

Results

The study included 24 …

Introduction To Biomedical Engineering, Maribel Vazquez

Open Educational Resources

An overview of the field of biomedical engineering designed to acquaint the students with its interdisciplinary nature; research areas presented by the biomedical engineering faculty.

Supervised Learning-Based Explicit Nonlinear Model Predictive Control And Unknown Input Estimation In Biomedical Systems, Ankush Chakrabarty

Open Access Dissertations

Application of nonlinear control theory to biomedical systems involves tackling some unique and challenging problems. The mathematical models that describe biomedical systems are typically large and nonlinear. In addition, biological systems exhibit dynamics which are not reflected in the model (so-called 'un-modeled dynamics') and hard constraints on the states and control actions, which exacerbate the difficulties in designing model-based controllers or observers.

This thesis investigates the design of scalable fast explicit nonlinear model predictive controllers (ENMPCs). The design involves (i) the estimation of a feasible region using Lyapunov stability methods and support vector machines; and (ii) within the estimated feasible …

Effect Of Temporal Onset Of Mechanical Loading On Tendon To Bone Healing, Determined With A Novel In-Vivo Device, Mark E. Stasiak

Dissertations, Theses, and Capstone Projects

Background: Exposure to tensile loading has been shown to maintain tendon/ligament homeostasis, with the tensile modulus of the tissue increasing in response to greater loading frequency, and even decreasing in the absence of load. However after injury or surgical repair the effect of tensile load is controversial, with many studies implicating mechanical loading with impaired healing. It is currently unknown when the tensile loading imparted during rehabilitation exercise, can be safely reintroduced after surgical tendon repair or ligament reconstruction, and at what time point it can most benefit the remodeling process. To investigate the effect of tensile loading protocols on …

Effects Of Intraframe Distortion On Measures Of Cone Mosaic Geometry From Adaptive Optics Scanning Light Ophthalmoscopy, Robert F. Cooper, Yusufu N. Sulai, Adam M. Dubis, Toco Y.P. Chui, Richard B. Rosen, Michel Michaelides, Alfredo Dubra, Joseph Carroll

Biomedical Engineering Faculty Research and Publications

Purpose: To characterize the effects of intraframe distortion due to involuntary eye motion on measures of cone mosaic geometry derived from adaptive optics scanning light ophthalmoscope (AOSLO) images.

Methods: We acquired AOSLO image sequences from 20 subjects at 1.0, 2.0, and 5.08 temporal from fixation. An expert grader manually selected 10 minimally distorted reference frames from each 150-frame sequence for subsequent registration. Cone mosaic geometry was measured in all registered images (n ¼ 600) using multiple metrics, and the repeatability of these metrics was used to assess the impact of the distortions from each reference frame. In nine additional subjects, …

Characterization Of Silica-Based And Borate-Based, Titanium-Containing Bioactive Glasses For Coating Metallic Implants, Omar Rodriguez, Declan J. Curran, Marcello Papini, Lana M. Placek, Anthony W. Wren, Emil H. Schemitsch, Paul Zalzal, Mark R. Towler

Chemical and Biochemical Engineering Faculty Research & Creative Works

Bioactive glasses have found applications in diverse fields, including orthopedics and dentistry, where they have been utilized for the fixation of bone and teeth and as scaffolds for drug delivery. The present work outlines the characterization of two novel titanium-containing glass series, one silica-based and one borate-based. For the silica-based series, titanium is added at the expense of silicon dioxide whereas for the borate-based series, it is added at the expense of boron oxide as confirmed by Energy Dispersive Spectroscopy. Amorphous structures are obtained for silica-based glass at 15 mol% TiO₂ and for borate-based glasses at 0 mol% and …