Biomedical Engineering and Bioengineering Commons^™

Effect Of Hypoxia On Spontaneous Neural Activity In The Cortex Of Neonate Mouse Pups, Krithikka Ravi Ms

Dissertations and Theses

Hypoxia caused by inadequate oxygenation has profound effects on the normal functioning of the brain in mammals. Acute or chronic hypoxic insults occur in the brain depending on the duration of hypoxic exposure. Hypoxia is known to occur in the human womb and exerts adverse effects on the developing fetus. Most of the ongoing research on hypoxia is performed on rodent brain slice taken from various brain regions using intracellular recording. Extensive work has been carried out to understand the effects of chronic hypoxia on the developing nervous system, specifically during intrauterine development. However, effects of acute hypoxia occurring perinatally, …

Collective Behavior Of Drosophila Melanogaster Neural Progenitor And Imaginal Disc Cells Within Controlled Microenvironments, Caroline D. Pena

Dissertations and Theses

Regenerative therapies for the damaged visual system have introduced stem-derived cells to recapitulate developmental processes and initiate functional regeneration in different components of the eye. The developing visual system in Drosophila Melanogaster offers a model in which to analyze the associated processes in retinogenesis. The optic nerve is critical to vision and is developmentally preceded in Drosophila by a structure called the Optic Stalk (OS). Collective migration of neural and retinal progenitor cells (RPCs) from the developing brain lobes (DBL) to the Imaginal Disc (ID), through the OS, is a fundamental part of regenerative strategies in retina. Developmental signals governing …

A Microfluidic Tissue Array (Μfta) For Personalized Medicine Using Tumor Biopsies, A.H. R. Ahmed

Dissertations and Theses

Cancer is recognized as a complex disease with both genetic and epigenetic drivers that can vary from one individual to another. While very early research into cancer treated it as a clonal malfunction that could originate from as small as a single deregulated cell, the disease itself manifests itself with several more complexities beyond tumorigenic cells only. The tumor microenvironment itself – from the extracellular matrix to stromal cells - cooperate with tumor cells in a symbiotic manner towards metastatic progression. Clinical studies have provided more information regarding the degree of individualization possible, such that patients with similar genetic makeup …

Infection Control In Total Knee Replacement Prosthesis Using Nitric Oxide Releasing Biomaterials, Ashley Widing

Master's Theses

Replacing a weight-bearing joint is accompanied by long procedures, even longer recovery times, and intensive monitoring. This burden increases after infection; a complication requiring revision surgeries and therefore extensive additional recovery time. Infection can present itself at any time during the process, making it hard to predict. Currently, a two-part revision surgery is completed by removing all infected tissue and implanting an antibiotic spacer. The spacer fills the joint gap and is removed prior to the revision total knee replacement. A revision total knee replacement follows the same procedure as the initial surgery. Not only is this detrimental to patient …

Adenovirus Co-Opts Neutrophilic Inflammation In Order To Enhance Entry Into Epithelial Cells, James Matthew Readler

Browse all Theses and Dissertations

Human adenoviruses (AdV) are double-stranded DNA viruses that can cause a range of diseases. While AdV respiratory infections are often mild and self-limited, severe manifestations such as fulminant pneumonia and acute respiratory distress syndrome (ARDS) are not uncommon. In order to identify potential modalities to treat AdV infections and potentially enhance the effectiveness of AdV vector delivery, a thorough mechanistic understanding of how AdV enters host cells is needed. Previous studies have revealed polarized epithelia, one of the primary targets for AdV respiratory infections, are highly resistant to AdV entry from the apical (luminal) surface. However, upon exposure to interleukin …

Quantification Of Optical Parameters Using Frequency Domain Functional Near-Infrared Spectroscopy (Fd-Fnirs), Christopher W. Davies

Browse all Theses and Dissertations

Near infrared spectroscopy (NIRS) is a non-invasive technique that uses near-infrared light and hemoglobin as the contrast to characterize tissue optical properties, namely optical absorption [����] and scattering [����′ ]. Through this characterization, it is possible to obtain information about the tissue’s oxygenated (HbO) and deoxygenated (Hb) hemoglobin concentrations and oxygen saturation which are important physiological markers for diagnosis and intervention monitoring. Many commercial devices use a continuous wave approach (CW-fNIRS), a technique that simply relies on intensity changes from a constant power laser to determine only relative changes in oxygenation. This is a significant limitation for clinical settings where …

Rescue Of Als Protein Fus Toxicity By Taf, Elliott Hayden

Browse all Theses and Dissertations

Amyotrophic Lateral Scleroses (ALS) is a neurodegenerative disease characterized by the degeneration of upper and lower motor neurons in the brain and spinal cord leading to progressive paralysis and ultimately death within 5 years of symptom onset. Only two drugs are approved by the Food and Drug Administration (FDA) for treating ALS that slow the disease progression by about 3 months. Mutations in the gene Fused in Sarcoma (FUS) cause inherited forms of ALS. FUS is a nuclear, multifunctional RNA-binding protein (RBP) involved in multiple RNA metabolic pathways. Mutations in FUS cause mislocalization of the protein from the nucleus to …

Use Of Magnetic Resonance Image Registration To Estimate Displacement In The Human Earcanal Due To The Insertion Of In-Ear Devices, Simon Benacchio, Olivier Doutres, Arthur Varoquaux, Éric Wagnac, Arnaud Le Troter, Virginie Callot, Franck Sgard

Études primaires

In-ear devices are used in a wide range of applications for which the device's usability and/or efficiency is strongly related to comfort aspects that are influenced by the mechanical interaction between the device and the walls of the earcanal. Although the displacement of the earcanal walls due to the insertion of the device is an important characteristic of this interaction, existing studies on this subject are very limited. This paper proposes a method to estimate this displacement in vivo using a registration technique on magnetic resonance images. The amplitude, the location and the direction of the earcanal wall displacement are …

Attitudes Toward Failure In Capstone Design Projects, Jay R. Goldberg

Biomedical Engineering Faculty Research and Publications

While working in industry during the 1980s and 1990s, project failures were to be avoided at all costs. For engineers in the medical device industry, these failures could be in the form of: 1) an idea for a new product or feature that eventually failed due to technical infeasibility, regulatory hurdles, lack of market interest, or difficulty in manufacturing; 2) a prototype that did not function as required; or 3) an animal or human clinical study that yielded poor results. They typically resulted in significant project delays, wasted time and money, and lost revenues, and often led to lower raises, …

Textured Contact Lens Based Iris Presentation Attack In Uncontrolled Environment, Daksha Yadav

Graduate Theses, Dissertations, and Problem Reports (ETD)

The widespread use of smartphones has spurred the research in mobile iris devices. Due to their convenience, these mobile devices are also utilized in unconstrained outdoor conditions. At the same time, iris recognition in the visible spectrum has developed into an active area of research. These scenarios have necessitated the development of reliable iris recognition algorithms for such an uncontrolled environment. Additionally, iris presentation attacks such as textured contact lens pose a major challenge to current iris recognition systems.

Motivated by these factors, in this thesis, a detailed analysis of the effect of textured contact lenses on iris recognition in …

Estimating The Spectrum In Computed Tomography Via Kullback–Leibler Divergence Constrained Optimization, Wooseok Ha, Emil Y. Sidky, Rina Foygel Barber, Taly Gilat Schmidt, Xiaochuan Pan

Biomedical Engineering Faculty Research and Publications

Purpose

We study the problem of spectrum estimation from transmission data of a known phantom. The goal is to reconstruct an x‐ray spectrum that can accurately model the x‐ray transmission curves and reflects a realistic shape of the typical energy spectra of the CT system.

Methods

Spectrum estimation is posed as an optimization problem with x‐ray spectrum as unknown variables, and a Kullback–Leibler (KL)‐divergence constraint is employed to incorporate prior knowledge of the spectrum and enhance numerical stability of the estimation process. The formulated constrained optimization problem is convex and can be solved efficiently by use of the exponentiated‐gradient (EG) …

Biom 4110/6110: The Science Of Medicine (Syllabus), Bradford D. Pendley

Biomedical Engineering Syllabi Archive

Course Description: Integration of fundamental principles from physics, chemistry, biology and mathematics, and applications of these principles to solve problems in medicine.

End-To-End Learning Via A Convolutional Neural Network For Cancer Cell Line Classification, Darlington A. Akogo, Xavier-Lewis Palmer

Electrical & Computer Engineering Faculty Publications

Purpose: Computer vision for automated analysis of cells and tissues usually include extracting features from images before analyzing such features via various machine learning and machine vision algorithms. The purpose of this work is to explore and demonstrate the ability of a Convolutional Neural Network (CNN) to classify cells pictured via brightfield microscopy without the need of any feature extraction, using a minimum of images, improving work-flows that involve cancer cell identification.

Design/methodology/approach: The methodology involved a quantitative measure of the performance of a Convolutional Neural Network in distinguishing between two cancer lines. In their approach, they trained, validated and …

Towards The Rational Design And Application Of Polymers For Gene Therapy: Internalization And Intracellular Fate, Landon Alexander Mott

Theses and Dissertations--Chemical and Materials Engineering

Gene therapy is an approach for the treatment of acquired cancers, infectious disease, degenerative disease, and inherited genetic indications. Developments in the fields of immunotherapies and CRISPR/Cas9 genome editing are revitalizing the efforts to move gene therapy to the forefront of modern medicine. However, slow progress and poor clinical outcomes have plagued the field due to regulatory and safety concerns associated with the flagship delivery vector, the recombinant virus. Immunogenicity and poor transduction in certain cell types severely limits the utility of viruses as a delivery agent of nucleic acids. As a result, significant efforts are being made to develop …

Cell Surface Coatings For Mammalian Cell-Based Therapeutic Delivery, Pei-Jung Wu

Theses and Dissertations--Chemical and Materials Engineering

The cell plasma membrane is an interactive interface playing an important role in regulating cell-to-cell, cell-to-tissue contact, and cell-to-environment responses. This environment-responsive phospholipid layer consisting of multiple dynamically balanced macromolecules, such as membrane proteins, carbohydrate and lipids, is regarded as a promising platform for various surface engineering strategies. Through different chemical modification routes, we are able to incorporate various artificial materials into the cell surface for biomedical applications in small molecule and cellular therapeutics.

In this dissertation, we establish two different cell coating techniques for applications of cell-mediated drug delivery and the localization of cell-based therapies to specific tissues. The …

Nanostructured Materials For Food Applications: Spectroscopy, Microscopy And Physical Properties, Shubham Sharma, Swana Jaiswal, Brendan Duffy, Amit Jaiswal

Articles

Nanotechnology deals with the matter of atomic or molecular scale. Other factors that define the character of a nanoparticle are its physical and chemical properties, such as surface area, surface charge, hydrophobicity of the surface, the thermal stability of the nanoparticle, and its antimicrobial activity. A nanoparticle is usually characterized by using microscopic and spectroscopic techniques. Microscopic techniques are used to characterize the size, shape, and location of the nanoparticle by producing an image of the individual nanoparticle. Several techniques, such as scanning electron microscopy (SEM), transmission electron microscopy/high resolution transmission electron microscopy (TEM/HRTEM), atomic force microscopy (AFM) and scanning …

Expression, Purification, And Characterization Of Recombinant Basic Fibroblast Growth Factor In Pichia Pastoris, Henry Hieu Minh Le

University of the Pacific Theses and Dissertations

Wounds in the mouth, occurring after oral surgery, take time to heal. No ointment can be added to help with the healing process because mouth saliva will constantly wash it away. In order to combat this problem, we propose engineering a normal flora microbe to grow at the site of injury and secrete a recombinant growth factor to promote healing of the damaged tissue. Our goal is to have the yeast Pichia pastoris produce human basic fibroblast growth factor (bFGF), which aids in cellular proliferation. P. pastoris is a good choice for this application because not only is it considered …

Spatiotemporal Modeling And Model Restructuration Approaches In Studies Of Intracellular Signalling Pathways, Md Shahinuzzaman

Doctoral Dissertations

"The main focus of the research is to understand the complex phenomena of cell transduction pathways and cell biology in a single cell. Mathematical modeling and experimental evaluation are widely used approaches for this kind of research. Firstly, A multiscale framework for protein-protein interaction has been established using Brownian dynamics algorithm. Sit specific feature, steric collision, diffusion, co-localization and complex formation with time and space has been included in this spatial modeling framework. By implementation of the time adaptive feature in this framework, the computation time reduces in an order of magnitude compared with traditional modeling framework. This multiscale Brownian …

Applications Of Machine Learning In Nuclear Imaging And Radiation Detection, Shaikat Mahmood Galib

Doctoral Dissertations

"The main focus of this work is to use machine learning and data mining techniques to address some challenging problems that arise from nuclear data. Specifically, two problem areas are discussed: nuclear imaging and radiation detection. The techniques to approach these problems are primarily based on a variant of Artificial Neural Network (ANN) called Convolutional Neural Network (CNN), which is one of the most popular forms of 'deep learning' technique.

The first problem is about interpreting and analyzing 3D medical radiation images automatically. A method is developed to identify and quantify deformable image registration (DIR) errors from lung CT scans …

Design And Evaluation Of A Non-Contact Bed-Mounted Sensing Device For Automated In-Home Detection Of Obstructive Sleep Apnea: A Pilot Study, Clara Mosquera-Lopez, Joseph Leitschuh, John Condon, Chad C. Hagen, Uma Rajhbeharrysingh, Cody Hanks, Peter Jacobs

Electrical and Computer Engineering Faculty Publications and Presentations

We conducted a pilot study to evaluate the accuracy of a custom built non-contact pressure-sensitive device in diagnosing obstructive sleep apnea (OSA) severity as an alternative to in-laboratory polysomnography (PSG) and a Type 3 in-home sleep apnea test (HSAT). Fourteen patients completed PSG sleep studies for one night with simultaneous recording from our load-cell-based sensing device in the bed. Subjects subsequently installed pressure sensors in their bed at home and recorded signals for up to four nights. Machine learning models were optimized to classify sleep apnea severity using a standardized American Academy of Sleep Medicine (AASM) scoring of the gold …