Engineering Commons^™

Inferring Gene Regulatory Networks From Expression Data Using Ensemble Methods, Janusz Slawek

Theses and Dissertations

High-throughput technologies for measuring gene expression made inferring of the genome-wide Gene Regulatory Networks an active field of research. Reverse-engineering of systems of transcriptional regulations became an important challenge in molecular and computational biology. Because such systems model dependencies between genes, they are important in understanding of cell behavior, and can potentially turn observed expression data into the new biological knowledge and practical applications. In this dissertation we introduce a set of algorithms, which infer networks of transcriptional regulations from variety of expression profiles with superior accuracy compared to the state-of-the-art techniques. The proposed methods make use of ensembles of …

Dynamic Task-Allocation For Unmanned Aircraft Systems, Tim Bakker

Theses and Dissertations

This dissertation addresses improvements to a consensus based task allocation algorithms for improving the Quality of Service in multi-task and multi-agent environments. Research in the past has led to many centralized task allocation algorithms where a central computation unit is calculating the global optimum task allocation solution. The centralized algorithms are plagued by creating a single point of failure and the bandwidth needed for creating consistent and accurate situational awareness off all agents. This work will extend upon a widely researched decentralized task assignment algorithm based on the consensus principle. Although many extensions have led to improvements of the original …

Nanowire Zinc Oxide Mosfet Pressure Sensor, William Clavijo

Theses and Dissertations

Fabrication and characterization of a new kind of pressure sensor using self-assembly Zinc Oxide (ZnO) nanowires on top of the gate of a Metal-Oxide-Semiconductor Field-Effect Transistor (MOSFET) is presented. Self-assembly ZnO nanowires were fabricated with a diameter of 80 nm and 800 nm height (80:8 aspect ratio) on top of the gate of the MOSFET. The sensor showed a 110% response in the drain current due to pressure, even with the expected piezoresistive response of the silicon device removed from the measurement. The pressure sensor was fabricated through low temperature bottom up ultrahigh aspect ratio ZnO nanowire growth using anodic …

Synthesis And Characterization Of Clickable Dendrimer Hydrogels For Ocular Drug Delivery, Jingfei Tian

Theses and Dissertations

Topical medication is a standard treatment for glaucoma. However, frequent dosing makes the therapy inconvenient and patient unfriendly. There is a great need to develop new topical formulations that provide long lasting noninvasive drug release. In this thesis, novel clickable dendrimer hydrogels for anti-glaucoma drug delivery were synthesized and characterized. Polyamidoamine (PAMAM) dendrimers have been widely applied for drug delivery. The physical characteristics they possess include monodispersity, water solubility, encapsulation ability, and a large number of surface groups. Polycationic PAMAM dendrimer G3 was surface modified with alkyne-PEG5-acid and then reacted with polyethylene glycol bisazide (PEG-BA, 1100 gmol-1) through click chemistry …

Design Of A Small Form-Factor Flight Control System, Garrett Ward

Theses and Dissertations

This work outlines a design for a small form-factor flight control system designed to fly in a wide variety of airframes. The system was designed with future expansion in mind while providing a complete, all-in-one solution to meet present needs. This system as presented meets most needs while remaining relatively low cost. It has a completely integrated IMU solution as well as on- board GPS. It is capable of basic waypoint navigation. This solution was testing using software and hardware-in-the-loop simulation which proved its functionality.

Lung Alveolar And Tissue Analysis Under Mechanical Ventilation, Trenicka Rolle

Theses and Dissertations

Mechanical ventilation has been a major therapy used by physicians in support of surgery as well as for treating patients with reduced lung function. Despite its many positive outcomes and ability to maintain life, in many cases, it has also led to increased injury of the lungs, further exacerbating the diseased state. Numerous studies have investigated the effects of long term ventilation with respect to lungs, however, the connection between the global deformation of the whole organ and the strains reaching the alveolar walls remains unclear. The walls of lung alveoli also called the alveolar septum are characterized as a …

Mammary Epithelial Cells Cultured Onto Non-Woven Nanofiber Electrospun Silk-Based Biomaterials To Engineer Breast Tissue Models, Yas Maghdouri-White

Theses and Dissertations

Breast cancer is one of the most common types of cancer affecting women in the world today. To better understand breast cancer initiation and progression modeling biological tissue under physiological conditions is essential. Indeed, breast cancer involves complex interactions between mammary epithelial cells and the stroma, both extracellular matrix (ECM) and cells including adipocytes (fat tissue) and fibroblasts (connective tissue). Therefore, the engineering of in vitro three-dimensional (3D) systems of breast tissues allows a deeper understanding of the complex cell-cell and cell-ECM interactions involved during breast tissue development and cancer initiation and progression. Furthermore, such 3D systems may provide a …

Tuning And Optimization Of Silk Fibroin Gels For Biomedical Applications, Michael Marin

Theses and Dissertations

Biocompatible and biodegradable porous materials based on silk fibroin (SF), a natural protein derived from the Bombyx mori silkworm, are being extensively investigated for use in biomedical applications including mammalian cell bioprocessing, tissue engineering, and drug delivery applications. In this work, low-pressure, gaseous CO2 is used as an acidifying agent to fabricate SF hydrogels. This low-pressure CO2 acidification method is compared to an acidification method using high-pressure CO2 to demonstrate the effect of CO2 mass transfer and pressure on SF sol-gel kinetics. The effect of SF molecular weight on the sol-gel kinetics is determined using the low-pressure CO2 method. The …

High-Performance Doped Strontium Iodide Crystal Growth Using A Modified Bridgman Method, Emmanuel Rowe

Theses and Dissertations

The importance of gamma-ray spectroscopy – the science of determining the distribution of energy in a gamma field – can rarely be overstated. High performance scintillators for gamma-ray spectroscopy in Nuclear Nonproliferation applications and homeland security require excellent energy resolution to distinguish neighboring element and isotope lines while minimizing the time and exposure to do so. Semiconductor detectors operate by converting incident photons directly into electrical pulses, but often have problems of high costs due to constituent segregation and surface states as is the case for Cadmium Zinc Telluride. The ideal scintillator material for gamma spectrometer will therefore requires high …

The Effect Of Simultaneous, Irrelevant Auditory And Visual Stimuli On A Forced-Attention Dichotic Listening Test, Keri Davis

Theses and Dissertations

Many of the studies examining cognitive control during selective attention across different sensory modalities conflict. This study was designed to study the effect of an irrelevant visual stimulus and an auditory distraction of backward speech on a forced attention dichotic listening test. I predicted that the visual stimulus and backward speech would not have a significant effect on the ear advantage. The results showed that all subjects were able to force their attention to the ear regardless of the visual or auditory distracters. In addition, I found that an irrelevant visual stimulus affects auditory attention more so in the left …

Fabrication Of Micropatterns For The Spatial Control Of Cell Propagation And Differentiation, Mahmoud Moustafa

Theses and Dissertations

Challenges in the development of successful cell therapies involve engineering and control of cues to regulate the balance between differentiation and self-renewal. However, the complexity of architecture and function make this an intriguing problem in the context of forming functional connections. Here we present the design and fabrication of microstructured scaffolds that present a biomimetic framework along which neural cell lines can organize into oriented constructs. Specifically, we show microfabricated non-linear architectures that promote cellular fate related to propagation of human neuroblastoma cells and directed differentiation towards neurons. By mimicking biological networks that allow for spreading of the cells instead …

Electron – Phonon Interaction In Multiple Channel Gan Based Hfets: Heat Management Optimization, Romualdo A. Ferreyra

Theses and Dissertations

New power applications for managing increasingly higher power levels require that more heat be removed from the power transistor channel. Conventional treatments for heat dissipation do not take into account the conversion of excess electron energy into longitudinal optical (LO) phonons, whose associated heat is stored in the channel unless such LO phonons decay into longitudinal acoustic (LA) phonons via a Ridley path. A two dimensional electron gas (2DEG) density of ~5×10¹²cm^-2 in the channel results in a strong plasmon–LO phonon coupling (resonance) and a minimum LO phonon lifetime is experimentally observed, implying fast heat removal from …

Toward Polymer Coating With Easy Ice Release, Chenyu Wang

Theses and Dissertations

Minimizing adhesion of ice has been the subject of extensive studies for applications such aircraft wings, wind turbine blades spacecraft, power transmission wires, while a growing interest concerns coatings for aerospace applications. The work described here describes progress for coatings and ice release test method development over the last few years. Major achievements include: (1) New Rigid Adherent-Resistant Elastomers (RARE), (2) A new Epoxied Cylinder (EC) adhesion test, (3) Validation of an ice release test, and (4) Study of ice adhesion strength on coating thickness for a PDMS elastomer. Rigid Adhesion-Resistance Elastomers (RARE) are comprised of 3F 1 terminated with …

Experimental Development Of Advanced Air Filtration Media Based On Electrospun Polymer Fibers, Negar Ghochaghi

Theses and Dissertations

Electrospinning is a process by which polymer fibers can be produced using an electrostatically driven fluid jet. Electrospun fibers can be produced at the micro- or nano-scale and are, therefore, very promising for air filtration applications. However, because electrospun fibers are electrically charged, it is difficult to control the morphology of filtration media. Fiber size, alignment and uniformity are very important factors that affect filter performance. The focus of this project is to understand the relationship between filter morphology and performance and to develop new methods to create filtration media with optimum morphology.

This study is divided into three focus …

A Low Cost Implementation Of Autonomous Takeoff And Landing For A Fixed Wing Uav, Thomas Carnes

Theses and Dissertations

The take-off and landing of an Unmanned Aerial Vehicle (UAV) is often the most critical and accident prone portion of its mission. This potential hazard coupled with the time and resources necessary to train a remote UAV pilot makes it desirable to have autonomous take-off and landing capabilities for UAVs. However, a robust, reliable, and accurate autonomous takeoff and landing capability for fixed-wing aircraft is not an available feature in many low-cost UAV flight control systems. This thesis describes the design of an autonomous take-off and landing algorithm implemented on an existing low-cost flight control system for a small fixed …

Android-Based Smartphone Application Simulation And Systematic Design To Reduce Medication Administration Error In Prehospital Emergency Care., Natalie Vazquez

Theses and Dissertations

Since 1999 when the report To Err is Human: Building a Safer Health System was released, medical errors have come into focus (Kohn, 2000). In an effort to reduce medication administration errors in prehospital emergency care, an android-based smartphone application simulation was created. The app has components including QR barcode scanning, text to speech for medication cross-checking, weight-based medication dose calculations, and time stamped medication data wirelessly transferring to a database in real-time. Color standard identification was implemented, aiding to a designed systematic process for patient treatment to reduce medication errors. Direct observation was performed of emergency patient calls with …

Computational Study Of Protein-Protein Interactions In Misfolded States, Oscar Bastidas

Theses and Dissertations

Protein-protein interactions (PPI’s) play important roles in biological systems. In particular, intra-protein interactions help create and maintain correctly folded protein states and mutations that result in misfolded states may be associated with significant changes in PPI behavior. Six unrelated protein systems with known structure files, each consisting of a wild-type and mutant strain, were studied using the computational algorithm OpenContact©. OpenContact© is a simple tool that can be used to rapidly identify or map interactions “hot-spots” in a protein and was, consequently, used in this study as a starting point to examine the potential or possible role of PPI’s on …

Applications Of 4-State Nanomagnetic Logic Using Multiferroic Nanomagnets Possessing Biaxial Magnetocrystalline Anisotropy And Experiments On 2-State Multiferroic Nanomagnetic Logic, Noel D'Souza

Theses and Dissertations

Nanomagnetic logic, incorporating logic bits in the magnetization orientations of single-domain nanomagnets, has garnered attention as an alternative to transistor-based logic due to its non-volatility and unprecedented energy-efficiency. The energy efficiency of this scheme is determined by the method used to flip the magnetization orientations of the nanomagnets in response to one or more inputs and produce the desired output. Unfortunately, the large dissipative losses that occur when nanomagnets are switched with a magnetic field or spin-transfer-torque inhibit the promised energy-efficiency. Another technique offering superior energy efficiency, “straintronics”, involves the application of a voltage to a piezoelectric layer to generate …

Novel 3d Head And Neck Cancer Model To Evaluate Chemotherapeutic Efficacy, Kelly Morgan

Theses and Dissertations

HNSCC accounts for 7 percent of all new cancer occurrences. Despite currently available treatments, there continues to be a high mortality and recurrence rate in HNSCC. Well over 50 percent of all cancer patients receive chemotherapy as a standard treatment. However, only 5 percent of these cases have been shown to help with treatment of the disease. Formerly, two options were available for drug testing: in vivo animal models, and in vitro two-dimensional models. While in vivo models remain the most representative, their use is burdened by high costs, time constraints, and ethical concerns. 2D models are simple to use …

Development Of A Compact, Low-Cost Wireless Device For Biopotential Acquisition, Graham Kelly

Theses and Dissertations

A low-cost circuit board design is presented, which in one embodiment is smaller than a credit card, for biopotential (EMG, ECG, or EEG) data acquisition, with a focus on EEG for brain-computer interface applications. The device combines signal conditioning, low-noise and high-resolution analog-to-digital conversion of biopotentials, user motion detection via accelerometer and gyroscope, user-programmable digital pre-processing, and data transmission via Bluetooth communications. The full development of the device to date is presented, spanning three embodiments. The device is presented both as a functional data acquisition system and as a template for further development based on its publicly-available schematics and computer-aided …

Novel Technologies For The Detection And Mitigation Of Drowsy Driving, Samuel Lawoyin

Theses and Dissertations

In the human control of motor vehicles, there are situations regularly encountered wherein the vehicle operator becomes drowsy and fatigued due to the influence of long work days, long driving hours, or low amounts of sleep. Although various methods are currently proposed to detect drowsiness in the operator, they are either obtrusive, expensive, or otherwise impractical. The method of drowsy driving detection through the collection of Steering Wheel Movement (SWM) signals has become an important measure as it lends itself to accurate, effective, and cost-effective drowsiness detection. In this dissertation, novel technologies for drowsiness detection using Inertial Measurement Units (IMUs) …

Cfd Assessment Of Respiratory Drug Delivery Efficiency In Adults And Improvements Using Controlled Condensational Growth, Ross L. Walenga

Theses and Dissertations

Pharmaceutical aerosols provide a number of advantages for treating respiratory diseases that include targeting high doses directly to the lungs and reducing exposure of other organs to the medication, which improve effectiveness and minimize side effects. However, difficulties associated with aerosolized drug delivery to the lungs include drug losses in delivery devices and in the extrathoracic region of human upper airways. Intersubject variability of extrathoracic and thoracic drug deposition is a key issue as well and should be minimized. Improvements to respiratory drug delivery efficiency have been recently proposed by Dr. P. Worth Longest and Dr. Michael Hindle through the …

Optical Characterization Of Ingan Heterostructures For Blue Light Emitters And Vertical Cavity Lasers: Efficiency And Recombination Dynamics, Serdal Okur

Theses and Dissertations

OPTICAL CHARACTERIZATION OF INGAN HETEROSTRUCTURES FOR BLUE LIGHT EMITTERS AND VERTICAL CAVITY LASERS: EFFICIENCY AND RECOMBINATION DYNAMICS

By Serdal Okur, Ph.D.

A thesis submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at Virginia Commonwealth University.

Virginia Commonwealth University, 2014.

Major Director: Ümit Özgür, Associate Professor, Electrical and Computer Engineering

This thesis explores radiative efficiencies and recombination dynamics in InGaN-based heterostructures and their applications as active regions in blue light emitters and particularly vertical cavities. The investigations focus on understanding the mechanism of efficiency loss at high injection as well as developing designs to mitigate …

Tissue Engineering Scaffold Fabrication And Processing Techniques To Improve Cellular Infiltration, Casey Grey

Theses and Dissertations

Electrospinning is a technique used to generate scaffolds composed of nano- to micron-sized fibers for use in tissue engineering. This technology possesses several key weaknesses that prevent it from adoption into the clinical treatment regime. One major weakness is the lack of porosity exhibited in most electrospun scaffolds, preventing cellular infiltration and thus hosts tissue integration. Another weakness seen in the field is the inability to physically cut electrospun scaffolds in the frontal plane for subsequent microscopic analysis (current electrospun scaffold analysis is limited to sectioning in the cross-sectional plane). Given this it becomes extremely difficult to associate spatial scaffold …

A Practical Tool For The Determination Of Surface Stresses In Railroad Bearings With Different Contact Geometries And Load Conditions Using Finite Element Analysis, Michael A. Mason

Theses and Dissertations

The connection between contact geometry and fatigue in tapered roller bearings utilized in the railroad environment is still of interest. Roller bearings for railroad applications are typically precision ground with crowned contact geometries to prevent edge loading of components. This normally results in completely elastic Hertzian contact stresses under standard railcar loads. However, under extreme load conditions, detrimental edge loading has been known to occur. It is proposed to develop a tool, using finite element analysis, that can be utilized to optimize complex raceway crown geometries for severe applications.

A successful implementation of this tool is presented and validated using …

Design And Validation Of A Computational Model For Study Of Scapholunate Joint Kinematics, Edward J. Tremols

Theses and Dissertations

As computational power has increased, computational modeling has become a very promising tool to model the biomechanics of complex joint systems. Musculoskeletal computational models have become more complex when compared to original iterations which utilized a number of simplifications. This thesis utilized a three-dimensional computational model of the wrist joint structure to investigate scapholunate kinematics. The model accurately represented the bony anatomy of the wrist and hand and represented soft tissue structures such as ligaments, tendons, and other surrounding tissues. Creation of the model was done using commercially available computer-aided design and medical image processing software, and utilized the rigid …

Optimal Design Of Geothermal Power Plants, Joshua Clarke

Theses and Dissertations

The optimal design of geothermal power plants across the entire spectrum of meaningful geothermal brine temperatures and climates is investigated, while accounting for vital real-world constraints that are typically ignored in the existing literature. The constrained design space of both double-flash and binary geothermal power plants is visualized, and it is seen that inclusion of real-world constraints is vital to determining the optimal feasible design of a geothermal power plant. The effect of varying condenser temperature on optimum plant performance and optimal design specifications is analyzed. It is shown that condenser temperature has a significant effect on optimal plant design …

Assembly And Mechanical Characterization Of Suspended Boron Nitride Nanotubes, Rachel Waxman

Theses and Dissertations

This study details the dielectrophoretic assembly and mechanical characterization of boron nitride nanotubes on silicon chips with gold electrodes. The chips were fabricated from 4in round silicon wafers with a 100nm-thick low stress silicon nitride insulating layer on the top and bottom. The electrodes were patterned using photo- and electron-beam lithography and dry etching, and the wafers were cut into 4 x 6mm chips. The boron nitride nanotubes studied were obtained from NIA and were synthesized via a unique pressurized vapor/condensor method, which produced long, small-diameter BNNTs without the use of a catalyst. These nanotubes were studied due to their …

Joining And Hermetic Sealing Of Silicon Carbide Using Iron, Chromium, And Aluminum Alloys, Andrew Morgan

Theses and Dissertations

Silicon Carbide (SiC) is increasingly gaining attention as a potential fuel cladding material, on account of its favorable thermo-mechanical and neutronic properties. The major limitations of such a cladding is currently associated with joining and hermetic sealing. The work presented here investigated the use of Al, Cr and Fe metals and a specialized alloy (FeCrAl) to achieve hermetic sealing of SiC tubes as well as a joining technology of SiC. Major part of solving this issue requires addressing joining of ceramic and metallic components, which are largely dissimilar in both thermal and mechanical properties. Preliminary experiments to bond SiC with …

Dispatch, Delivery, And Location Logistics For The Aeromedical Evacuation Of Time-Sensitive Military Casualties Under Uncertainty, Benjamin Grannan

Theses and Dissertations

Effective aeromedical evacuation of casualties is one of the most important problems in military medical systems because high-priority casualties will not survive without timely medical care. The decision making process for aeromedical evacuation consists of the following components: (1) identifying which aeromedical evacuation asset (see figure 1) to dispatch to the casualty, (2) locating aeromedical evacuation assets strategically in anticipation of incoming demand, and (3) deciding which medical treatment facility to transport the casualty. These decisions are further complicated because prioritization of casualties is based on severity of injury while aeromedical evacuation assets and medical treatment facilities operate with varying …