Biomedical Engineering and Bioengineering Commons^™

Cancer Biomarker Detection In Human Plasma By Integrating Surface Acoustic Wave And Metal-Enhanced Fluorescence, Yuqi Huang

USF Tampa Graduate Theses and Dissertations

This thesis includes data and discussion about the technique of metal-enhanced fluorescence (MEF) to lower the detection limit of carcinoembryonic antigen (CEA). The detection limit goes down to 100pg/mL level when using MEF substrate made by rapid thermally annealed silver film covered by silica, which has great promise in diagnosing certain types of cancer that uses CEA as detection biomarker, such as pancreatic cancer and colon cancer. To further address the issue of background noises from non-specifically bound proteins (NSB) in complex media, such as plasma, serum, urine and blood, MEF is integrated with surface acoustic wave (SAW) streaming in …

Reading Robot, Gillian Watts, Andrew Myers, Sabrinna Tan, Taylor Klein, Omeed Djassemi

General Engineering

Presently, there is an insufficient availability of human experts to assist students in reading competency and comprehension. Our team’s goal was to create an improved socially assistive robot for use by therapists, teachers, and parents to help children and adults develop reading skills while they do not have access to specialists. HAPI is a socially assistive robot that we created with the goal of helping students practice their reading comprehension skills. HAPI enables a student to improve their reading skills without an educator present, while enabling educators to review the student's performance remotely. Design constraints included: physical size, weight, duration …

Scanless Optical Coherence Tomography For High-Speed 3d Biomedical Microscopy, Yahui Wang

Dissertations

Optical coherence tomography (OCT) is a high-resolution cross-sectional imaging modality that has found applications in a wide range of biomedical fields, such as ophthalmology diagnosis, interventional cardiology, surgical guidance, and oncology. OCT can be used to image dynamic scenes, in quantitative blood flow sensing and visualization, dynamic optical coherence elastography, and large-scale neural recording. However, the spatiotemporal resolution of OCT for dynamic imaging is limited by the approach it takes to scan the three-dimensional (3-D) space. In a typical OCT system, the incident light is focused to a point at the sample. The OCT system uses mechanical scanners (galvanometers or …

Identification Of Neurobiological Mechanisms Associated With Attention Deficits In Adults Post Traumatic Brain Injury, Ziyan Wu

Dissertations

Traumatic Brain Injury (TBI) is one of the major public health concerns with approximately 70 million new cases occurring worldwide per year. It is often caused by a forceful bump, blow, or jolt to the head, resulting in brain tissue damage and normal brain functions disruption. All grades of TBI, ranging from mild to severe, can cause wide-ranging and long-term effects on affected individuals, resulting in physical impairments, and neurocognitive consequences that permanently affect their abilities to perform daily activities. Attention deficits are the most common persisting neurocognitive consequences following TBI, which significantly contribute to poor academic and social functioning, …

Parametric Nasopharyngeal Swab For Sampling Covid-19 And Other Respiratory Viruses: Open Source Design, Sla 3-D Printing And Uv Curing System, Nicole Gallup, Adam Pringle, Shane Oberloier, Nagendra Gautam Tanikella, Joshua M. Pearce

Michigan Tech Publications, Part 1

Access to nasopharyngeal swabs for sampling remain a bottleneck in some regions for COVID19 testing. This study develops a distributed manufacturing solution using only an open source manufacturing tool chain consisting of two types of open source 3-D printing and batch UV curing, and provides a parametric fully free design of a nasopharyngeal swab. The swab was designed using parametric OpenSCAD in two components (a head with engineered break point and various handles), which has several advantages: i) minimizing print time on relatively slow SLA printers, ii) enabling the use of smaller print volume open source SLA printers, iii) reducing …

Control And Locomotion Of Inertially And Magnetically Actuated Multi-Scale Robotic Systems, Ehab Al Khatib

Mechanical Engineering Research Theses and Dissertations

In this research, two actuation systems were introduced, inertial and magnetic actuation. In the inertial actuation, the robot used the transfer of momentum to navigate, and this momentum could be generated by spinning masses and wheels. Recent studies in our System Laboratory proved that a wide range of inertially actuated locomotion systems could be generated. This can be achieved by using a family tree approach, starting from a very simple system, and progressively evolving it to more complex ones. The motion diversity of these robots inspired us to extend their locomotion from a macro scale to millimeter and micro scales. …

Heel Down And Toe-Off Time Measured With Ultrasonic Doppler System And Force Plate Sensor, Sabin Timsina

Honors Theses

Collie Box is a medical device that measures the gait parameters of the person walk- ing in front of it. This device uses the Ultrasonic Doppler system to extract the heel-contact and toe-off times of a person walking within the range of 2-10 meters. These times are used to determine the leg’s swing phase and double stance times. The ultrasonic transducer of 10mm diameter is driven at 40kHz. At the time of the heel-contact and toe-off, foot velocity is zero while the torso part of the human body is still in motion. The wide directivity of 10mm diameter ultrasonic transducer …

Ml-Medic: A Preliminary Study Of An Interactive Visual Analysis Tool Facilitating Clinical Applications Of Machine Learning For Precision Medicine, Laura Stevens, David Kao, Jennifer Hall, Carsten Görg, Kaitlyn Abdo, Erik Linstead

Engineering Faculty Articles and Research

Accessible interactive tools that integrate machine learning methods with clinical research and reduce the programming experience required are needed to move science forward. Here, we present Machine Learning for Medical Exploration and Data-Inspired Care (ML-MEDIC), a point-and-click, interactive tool with a visual interface for facilitating machine learning and statistical analyses in clinical research. We deployed ML-MEDIC in the American Heart Association (AHA) Precision Medicine Platform to provide secure internet access and facilitate collaboration. ML-MEDIC’s efficacy for facilitating the adoption of machine learning was evaluated through two case studies in collaboration with clinical domain experts. A domain expert review was also …

Development Of Fully Balanced Ssfp And Computer Vision Applications For Mri-Assisted Radiosurgery (Mars), Jeremiah Sanders

Dissertations and Theses (Open Access)

Prostate cancer is the second most common cancer in men and the second-leading cause of cancer death in men. Brachytherapy is a highly effective treatment option for prostate cancer, and is the most cost-effective initial treatment among all other therapeutic options for low to intermediate risk patients of prostate cancer. In low-dose-rate (LDR) brachytherapy, verifying the location of the radioactive seeds within the prostate and in relation to critical normal structures after seed implantation is essential to ensuring positive treatment outcomes.

One current gap in knowledge is how to simultaneously image the prostate, surrounding anatomy, and radioactive seeds within the …

3-D Silk Fibroin Porous Particles Created By The Ouzo Effect For Biomedical Applications, Ashley Nicole Lamb

UNLV Theses, Dissertations, Professional Papers, and Capstones

Due to its high biocompatibility and biodegradability, silk fibroin – produced from

Bombyx mori (B. mori) cocoons – has been at the forefront of research for many

biomedical application formats: hydrogels, films, microspheres, and porous

sponges/scaffolding, to name a few. For drug delivery, in particular, porous particles are

desirable for their large surface area, uniform and tunable pore structure, and high

porosity. This thesis focuses on the fabrication of porous particles from silk fibroin by the

very interesting Ouzo effect. The Ouzo effect, so named because of the Greek

beverage ouzo, describes the phenomenon of an ethanol + anethole oil …

3d Parametric Hand To Improve Prosthetic Hand Functionality, Maria C. Gerardi

UNLV Theses, Dissertations, Professional Papers, and Capstones

The use of prosthetics can significantly enhance an individual’s standard of living, not only offering functional advantages but psychological advantages as well. Unfortunately for children with upper limb reduction, options are limited and rejection rates are high due to a multitude of reasons including discomfort and poor functionality. This study proposes a new parametric 3D design model (Parametric Hand) with an adjustable thumb that can be easily manipulated to the uniqueness of an individual. The Parametric Hand was evaluated, both qualitatively and quantitatively, against the Flexy-Hand 2, a commonly used prosthetic hand. The results showed insignificant differences in all testing …

Ece Senior Design Project - Cost-Effective Diy Electrometer, Benjamin Hahn

Honors Theses

An electrometer is a critical electrophysiology instrument used to generate minuscule currents for intracellular stimulation of biological neurons. An electrometer also enables simultaneous measurement of the neuron membrane voltage response. This device is necessary to perform accurate stimulation of neurons. However, the cost of commercial electrometers, around $5000, is prohibitive to many researchers, particularly at the high-school or introductory college level. A recent Western Michigan University graduate student, Lucas Essenburg, designed a basic electrometer for $210. His thesis proved that quality electrometers can be constructed for a fraction of the price of commercial-grade equipment.

This project focused on the improvement …

Developing A Skin Phantom For The Testing Of Biowearables, Tawni Henderson, Ju Young Lee, Matthew Placide, Kiran Sutaria

Interdisciplinary Design Senior Theses

There is a demonstrated need in the biowearables industry for a benchtop model that can accurately emulate the perspiration mechanism and corresponding impedance vs. frequency spectra of skin. This model, or skin phantom, could increase the efficiency and accuracy of early-stage testing of biowearables, as well as minimize animal, human, and cadaver testing.

The objective of this project is to develop a skin phantom that can emulate the perspiration mechanism and impedance spectrum behavior of human skin for the testing of biowearables in the 2,000 - 20,000 Hz range. We also endeavored to create computer-simulated models to aid in the …

Deep Cellular Recurrent Neural Architecture For Efficient Multidimensional Time-Series Data Processing, Lasitha S. Vidyaratne

Electrical & Computer Engineering Theses & Dissertations

Efficient processing of time series data is a fundamental yet challenging problem in pattern recognition. Though recent developments in machine learning and deep learning have enabled remarkable improvements in processing large scale datasets in many application domains, most are designed and regulated to handle inputs that are static in time. Many real-world data, such as in biomedical, surveillance and security, financial, manufacturing and engineering applications, are rarely static in time, and demand models able to recognize patterns in both space and time. Current machine learning (ML) and deep learning (DL) models adapted for time series processing tend to grow in …

Development Of A Monolithic Implantable Neural Interface From Cubic Silicon Carbide And Evaluation Of Its Mri Compatibility, Mohammad Beygi

USF Tampa Graduate Theses and Dissertations

One of the main issues with micron-sized intracortical neural interfaces (INIs) is their long-term reliability, with one major factor stemming from device material failure caused by the heterogeneous integration of multiple materials used to realize the implant. Single crystalline cubic silicon carbide (3C-SiC) is a semiconductor material that has been long recognized for its mechanical robustness and chemical inertness. It has the benefit of demonstrated biocompatibility, which makes it a promising candidate for chronically-stable, implantable INIs. In the first section of this dissertation, the fabrication and initial electrochemical characterization of a monolithic, Michigan-style 3C-SiC microelectrode array (MEA) probe is reported. …

Design Of An Affordable Rotating Drum Electrospinner For Classroom Education, Peder Solberg

The Journal of Undergraduate Research

Electrospinning is a technology used to generate small fibers down to nano-scale size. This method of fiber creation has been around for many years. However, in recent years electrospinning has found increased applications, especially in the area of tissue engineering due to its ability to create fibers with properties similar to the extracellular matrix in tissue. An electrospinning platform can illustrate concepts of engineering, electro-mechanical system design, manufacturing, and biomedical applications in one single package. Hence, it provides an excellent opportunity to integrate into secondary (middle and high school) and post-secondary (undergraduate) technology education.

Furthermore, just as integration of 3D …

Pulsed Electrical Field Ablation Modulation, Camille Lousie Dozois, Jason Tyler Arias, Courtnee Lin Madsen

Biomedical Engineering

This document comprises the steps taken by the senior project team to create a Proof-of-Concept Review for a Variable Pulsed Electric Field Ablation Catheter. First, the team did a significant amount of background research on related literature to better understand the current status of the project topic. After sufficient background information was obtained, project objectives and deliverables were finalized. Once customer requirements and the indications for use were completed, engineering specifications for the product and project were documented. All key customer requirements and engineering specs were related to the variable pulse functionality, maneuverability, as well as overall dimensioning of the …

A Robust Lpc Filtering Method For Time-Resolved Morphology Of Eeg Activity Analysis, Jin Xu, Mark Davis, Ruairí De Fréin

Conference Papers

This paper introduces a new time-resolved spectral analysis method based on Linear Prediction Coding (LPC) method that is particularly suited to the study of the dynamics of EEG (Electroencephalogram) activity. The spectral dynamic of EEG signals can be challenging to analyse as they contain multiple frequency components and are often heavily corrupted by noise. Furthermore, the temporal and spectral resolution that can be achieved is limited by the Heisenberg-Gabor uncertainty principle [1]. The method described here is based on a z-plane analysis of the poles of the LPC which allows us to identify and estimate the frequency of the dominant …

Load-Balancing Rendezvous Approach For Mobility-Enabled Adaptive Energy-Efficient Data Collection In Wsns, Jian Zhang, Jian Tang, Zhonghui Wang, Feng Wang, Gang Yu

Faculty and Student Publications

Copyright © 2020 KSII The tradeoff between energy conservation and traffic balancing is a dilemma problem in Wireless Sensor Networks (WSNs). By analyzing the intrinsic relationship between cluster properties and long distance transmission energy consumption, we characterize three node sets of the cluster as a theoretical foundation to enhance high performance of WSNs, and propose optimal solutions by introducing rendezvous and Mobile Elements (MEs) to optimize energy consumption for prolonging the lifetime of WSNs. First, we exploit an approximate method based on the transmission distance from the different node to an ME to select suboptimal Rendezvous Point (RP) on the …

Revisiting Lightweight Encryption For Iot Applications: Error Performance And Throughput In Wireless Fading Channels With And Without Coding, Yazid M. Khattabi, Mustafa M. Matalgah, Mohammed M. Olama

Faculty and Student Publications

© 2013 IEEE. Employing heavy conventional encryption algorithms in communications suffers from added overhead and processing time delay; and in wireless communications, in particular, suffers from severe performance deterioration (avalanche effect) due to fading. Consequently, a tremendous reduction in data throughput and increase in complexity and time delay may occur especially when information traverse resource-limited devices as in Internet-of-Things (IoT) applications. To overcome these drawbacks, efficient lightweight encryption algorithms have been recently proposed in literature. One of those, that is of particular interest, requires using conventional encryption only for the first block of data in a given frame being transmitted. …

Cooperative Relay Selection For Load Balancing With Mobility In Hierarchical Wsns: A Multi-Armed Bandit Approach, Jian Zhang, Jian Tang, Feng Wang

Faculty and Student Publications

© 2013 IEEE. Energy efficiency is the major concern in hierarchical wireless sensor networks(WSNs), where the major energy consumption originates from radios for communication. Due to notable energy expenditure of long-range transmission for cluster members and data aggregation for Cluster Head (CH), saving and balancing energy consumption is a tricky challenge in WSNs. In this paper, we design a CH selection mechanism with a mobile sink (MS) while proposing relay selection algorithms with multi-user multi-armed bandit (UM-MAB) to solve the problem of energy efficiency. According to the definition of node density and residual energy, we propose a conception referred to …

Timcc: On Data Freshness In Privacy-Preserving Incentive Mechanism Design For Continuous Crowdsensing Using Reverse Auction, Xiaoqiang Ma, Weiwei Deng, Feng Wang, Menglan Hu, Fei Chen, Mohammad Mehedi Hassan

Faculty and Student Publications

© 2013 IEEE. As an emerging paradigm that leverages the wisdom and efforts of the crowd, mobile crowdsensing has shown its great potential to collect distributed data. The crowd may incur such costs and risks as energy consumption, memory consumption, and privacy leakage when performing various tasks, so they may not be willing to participate in crowdsensing tasks unless they are well-paid. Hence, a proper privacy-preserving incentive mechanism is of great significance to motivate users to join, which has attracted a lot of research efforts. Most of the existing works regard tasks as one-shot tasks, which may not work very …

Pwd-3dnet: A Deep Learning-Based Fully-Automated Segmentation Of Multiple Structures On Temporal Bone Ct Scans, Western University, London Health Science Centre

Electrical and Computer Engineering Publications

The temporal bone is a part of the lateral skull surface that contains organs responsible for hearing and balance. Mastering surgery of the temporal bone is challenging because of this complex and microscopic three-dimensional anatomy. Segmentation of intra-temporal anatomy based on computed tomography (CT) images is necessary for applications such as surgical training and rehearsal, amongst others. However, temporal bone segmentation is challenging due to the similar intensities and complicated anatomical relationships among crit- ical structures, undetectable small structures on standard clinical CT, and the amount of time required for manual segmentation. This paper describes a single multi-class deep learning-based …

Electrochemical Detection Of Reactive Oxygen Species Via A Platinum Microelectrode Array, Victor M. Carriere Jr.

Master's Theses

Oxidative stress, an excess of endogenous or exogenous reactive oxygen species (ROS) in the body, is closely aligned with inflammatory responses. ROS such as hydrogen peroxide, superoxide, and radical hydroxyl ion serve essential functions in fighting infection, but chronic elevation of these species irreversibly damages cellular components. Given the central role of inflammation in a variety of diseases, including Alzheimer’s Disease, atherosclerosis, and rheumatoid arthritis, a low-cost, extracellular, non-invasive assay of ROS is needed.

This work reports the use of a platinum microelectrode array (Pt MEA)-based ceramic probe to detect time- and concentration-dependent variations in hydrogen peroxide (H2O2) production by …

Titanium Nitride Nanotube Electrodes Used In Neural Signal Recording Application And Neurotransmitter Detection, Gui Chen

Wayne State University Dissertations

Electrode probes are devices widely used for stimulating and recording neural cell signals in the neuroscience field, which can convert the ion potential generated by electrochemical activities into an electronic potential that can be measured by the external instrument systems. A stable neural interface that effectively communicates with the nervous system via electrode is much important for the robust recording and the long-term monitoring of the activity of the neural signals. These probes are designed to minimize tissue damage for superior signal quality. Each probe’s mechanical, geometric, and electrical characteristics are precise and highly reproducible for consistent, high-quality results. There …

Opendrop Software Development, Jiajun Guan

Electrical Engineering

To be able to transfer and mix solutions more efficiently and accurately during biology experiments, the Electrical Engineering department at Cal Poly University is planning to purchase or engineer the OpenDrop device. The OpenDrop device uses electro-wetting technology to control the movement of small droplets of water on a planar electrode array to transport and mix different solutions. This device is an open-source project and could be purchased online through the GaudiLab. The basic code of the system could be found in GitHub. With this code as a reference, the goal of this senior project is to develop the firmware, …

Electrochemical Detection Of Neurotransmitters, Saikat Banerjee, Stephanie Mccracken, Md Faruk Hossain, Gymama Slaughter

Bioelectrics Publications

Neurotransmitters are important chemical messengers in the nervous system that play a crucial role in physiological and physical health. Abnormal levels of neurotransmitters have been correlated with physical, psychotic, and neurodegenerative diseases such as Alzheimer's, Parkinson's, dementia, addiction, depression, and schizophrenia. Although multiple neurotechnological approaches have been reported in the literature, the detection and monitoring of neurotransmitters in the brain remains a challenge and continues to garner significant attention. Neurotechnology that provides high-throughput, as well as fast and specific quantification of target analytes in the brain, without negatively impacting the implanted region is highly desired for the monitoring of the …

Mems Biosensor For Water-Immersed Application, Kun-Lin Lee

Dissertations and Theses

Although many air-based sensing mechanisms exist, not all of them can be applied in the water-based environment. In order to obtain a cell-based biosensor, the sensing method needs to be reliable and repeatable in a liquid environment. Therefore, this study is focused on transforming existing air-based sensors to water-immersed applications. This study includes two types of sensors.

First, commercial quartz resonators are used to investigate live-cell activity in water-based toxic solutions. I perform toxicity tests using quartz crystal microbalance (QCM). The QCM used in the study has a resonant frequency of 10 MHz and consists of an AT-cut quartz crystal …

On-Demand Electrically Induced Decomposition Of Thin-Film Nitrocellulose Membranes For Wearable Or Implantable Biosensor Systems, Benjamin M. Horstmann

Theses and Dissertations

Implantable or subcutaneous biosensors used for continuous health monitoring have a limited functional lifetime requiring frequent replacement and therefore may be highly discomforting to the patient and become costly. One possible solution to this problem is use of biosensor arrays where each individual reserve sensor can be activated on-demand when the previous one becomes inoperative due to biofouling or enzyme degradation. Each reserve biosensor in the array is housed in an individual Polydimethylsiloxane (PDMS) well and is protected from exposure to bodily fluids such as interstitial fluid ( ISF) by a thin-film nitrocellulose membrane. Controlled activation is achieved by decomposing …

Developing Machine Learning Algorithms For Behavior Recognition From Deep Brain Signals, Hosein Golshan Mojdehi

Electronic Theses and Dissertations

Parkinson’s disease (PD) is a neurodegenerative condition and movement disorder that appears with symptoms such as tremor, rigidity of muscles and slowness of movements. Deep brain stimulation (DBS) is an FDA-approved surgical therapy for essential tremor and PD. Despite the fact that DBS substantially alleviates the motor signs of PD, it can cause cognitive side effects and speech malfunction mainly due to the lack of adaptivity and optimality of the stimulation signal to the patients’ current state. A behavior-adapted closed-loop DBS system may reduce the side effects and power consumption by adjusting the stimulation parameters to patients’ need.

Behavior recognition …