Engineering Commons^™

Validation Of Cfd Simulations For Hypersonic Flow Over A Yawed Cone, Julian Cecil

McKelvey School of Engineering Graduate Student Theses & Dissertations

This study aims to numerically simulate the wind tunnel results for hypersonic flow over a circular cone of semi-apex angle of 10 degrees yawed from 0° to 20° using the commercial computational fluid dynamics software ANSYS Fluent. The ANSYS workbench is used to create the 10° semi-apex circular cone with a shock aligned structured mesh of 3.05 million cells surrounding the cone. Simulation boundary conditions for pressure and temperature in the far field correspond to Tracy’s wind tunnel experiment at Cal Tech. The six simulations cases are conducted for yaw angles of 0, 8, 12, 16, 20 and 24 degrees. …

Finite Element Optimization Of A Mechanical Device For Connecting Dissimilar Materials, Eric Yoon

McKelvey School of Engineering Graduate Student Theses & Dissertations

No abstract provided.

Allocating Interventions Based On Counterfactual Predictions: A Case Study On Homelessness Services, Amanda R. Kube

McKelvey School of Engineering Graduate Student Theses & Dissertations

Modern statistical and machine learning methods are increasingly capable of modeling individual or personalized treatment effects by predicting counterfactual outcomes. These counterfactual predictions could be used to allocate different interventions across populations based on individual characteristics. In many domains, like social services, the availability of possible interventions can be severely resource limited. This thesis considers possible improvements to the allocation of such services in the context of homelessness service provision in a major metropolitan area. Using data from the homeless system, I show potential for substantial predicted benefits in terms of reducing the number of families who experience repeat episodes …

Early-Stage Design Space Exploration Tool For Neural Network Inference Accelerators, Liu Ke

McKelvey School of Engineering Graduate Student Theses & Dissertations

No abstract provided.

Computation Of Achievable Rate In Pattern Recognition System, Yu Liu

McKelvey School of Engineering Graduate Student Theses & Dissertations

Pattern recognition is widely used in many areas. When analyzing a pattern recognition system, one of the main problem to be considered is, how many bits do I need to express the raw source data and memory data to ensure that the result of the pattern recognition be reliable. The data stored in the system as well as the data received by the system must be compressed by some rate to summary the raw data. The fundamental bound for this lies in the computation of the achievable rate of pattern recognition. Before now, we have the definition and some approaches …

Development Of Scalable Simulator For Spiking Neural Network, Jae Sang Ha

McKelvey School of Engineering Graduate Student Theses & Dissertations

A neural network simulator for Spiking Neural Network (SNN) is a useful research tool to model brain functions with a computer. With this tool, different parameters can be explored easily compared to using a real brain. For several decades, researchers have developed many software packages and simulators to accelerate research in computational neuroscience. However, despite their advantages, different neural simulators possess different limitations, such as flexibility of choosing different neuron models and scalability of simulators for large numbers of neurons. This paper demonstrates an efficient and scalable spiking neural simulator that is based on growth transform neurons and runs on …

Numerical Simulation Of A High Strain Rate Biaxial Compression Apparatus, Michael Lagieski

McKelvey School of Engineering Graduate Student Theses & Dissertations

Few experimental methods today are capable of exploring the strength of materials at high strain rates (10⁵ s^-1). Those that are capable, such as the Split Hopkinson Bar, Taylor Anvil and Plate Impact suffer from instability and are generally limited to one dimensional wave propagation. Of particular interest is material response under biaxial compression, similar to that seen in inertial confinement fusion. Laser fusion fuel pellets typically undergo large strain rates as well as plastic deformation and non-linear behavior. This work briefly outlines an experimental procedure designed to replicate these large strain rates under biaxial compression using …

The Role Of Obesity And Dietary Fatty Acid Content In Regulating Humeral Bone And Cartilage Homeostasis, Lauren Votava

McKelvey School of Engineering Graduate Student Theses & Dissertations

Objective: The goal of this study was to investigate the effects of different dietary fatty acids in the context of diet-induced obesity on bone and cartilage in the humerus. It is known that obesity increases the severity of injury-induced osteoarthritis in the knee, however it is not fully understood what pathological changes have occurred due to diet alone¹. Additionally, while it is known that shoulder osteoarthritis has a link to obesity, the alterations in this joint are incompletely described.

Methods: In order to examine diet-induced changes in both bone and cartilage, this research utilized mice that had been …

Measuring 3d Molecular Orientation And Rotational Mobility Using A Tri-Spot Point Spread Function, Oumeng Zhang, Tianben Ding, Jin Lu, Hesam Mazidi, Matthew D. Lew

Electrical & Systems Engineering Publications and Presentations

We present a method to measure the molecular orientation and rotational mobility of single-molecule emitters by designing and implementing a Tri-spot point spread function. It can measure all degrees of freedom related to molecular orientation and rotational mobility. Its design is optimized by maximizing the theoretical limit of its measurement precision. We evaluate the precision and accuracy of the Tri-spot PSF by measuring the orientation and effective rotational mobility of single fluorescent molecules embedded in a polymer matrix.

A Robust Statistical Estimation (Rose) Algorithm Jointly Recovers The 3d Location And Intensity Of Single Molecules Accurately And Precisely, Hesam Mazidi, Arye Nehorai, Matthew D. Lew

Electrical & Systems Engineering Publications and Presentations

In single-molecule (SM) super-resolution microscopy, the complexity of a biological structure, high molecular density, and a low signal-to-background ratio (SBR) may lead to imaging artifacts without a robust localization algorithm. Moreover, engineered point spread functions (PSFs) for 3D imaging pose difficulties due to their intricate features. We develop a Robust Statistical Estimation algorithm, called RoSE, that enables joint estimation of the 3D location and photon counts of SMs accurately and precisely using various PSFs under conditions of high molecular density and low SBR.

Tortuosity Calculations, Blood Flow Simulations, And Mechanical Testing Of Mouse Aortae, Shawn Pavey, Jessica Wagenseil

Undergraduate Research Symposium Posters

Aortic aneurysms can lead to wall rupture or dissection, which are both deadly occurrences. The risk of developing problematic aneurysms increases with age, making them a growing concern in the USA’s aging population. Thoracic Aortic Aneurysm (TAA) treatment is highly effective if the TAA is diagnosed in time, however current surgical guidelines catch less than half of fatal TAA cases. Tortuosity (related to vessel length divided by the straight distance between two points of interest) has been proposed as a supplement to diameter based diagnosis of severity of TAA progression. This study aimed to confirm the validity of that proposal …

Ls301 Fluorescence-Guided Photodynamic Therapy Of Brain Cancer Using Ppix Photosensitizer, Haini Zhang

McKelvey School of Engineering Graduate Student Theses & Dissertations

Incomplete brain tumor removal always causes neurologic deficit, disease recurrence and high mortality. Protoporphyrin IX (PpIX) accumulated in glioma cells with exogenous 5-aminolevulinic acid (5-ALA) serves as contrast agent for fluorescence-guided surgery and as well as acts as a photosensitizer for photodynamic therapy (PDT). However, the accurate tumor delineation using PpIX is limited by autofluorescence and superficial penetration depth. LS301 is a tumor-targeted near-infrared (NIR) contrast agent developed in our lab which allows deeper tumor imaging and avoids autofluorescence. My project aims to investigate whether LS301 can improve PpIX mediated PDT and tumor removal surgery. We have demonstrated co-localization of …

Application Of Pca To Cardiac Optical Mapping, Louis Woodhams

McKelvey School of Engineering Graduate Student Theses & Dissertations

Structural remodeling of the heart due to pathologies such as hypertension and myocardial infarction leads to the appearance of myofibroblasts, a phenotype largely absent in physiologic myocardium. While myofibroblasts are responsible for wound healing and structural repair of damaged myocardium, they are thought to have deleterious effects on electrical and mechanical properties of the heart. Understanding these effects is critical to developing effective treatments, and has motivated the development of a series of in vitro engineered heart tissues and cardiomyocyte-myofibroblast co-cultures whose mechanical and electrophysiological function can be deduced from video analysis. Electrophysiological properties are evident from changes in intensity …

Locating Unmanned Aerial Vehicles (Uavs), Ali Ghubaish

McKelvey School of Engineering Graduate Student Theses & Dissertations

Despite the popularity and usefulness of Unmanned Aerial Vehicles (UAVs) or drones, they are not allowed to fly in some areas without prior permission from the Federal Aviation Administration (FAA). However, many incidents of UAVs breaching such restrictions have been reported. A UAV location system can help the law enforcement to be alerted and can prevent UAVs breaching any restricted area without permission. This master thesis proposes a UAV location system where each UAV has a unique identification tag. The method consists of two stages: distance and location estimation. We compared distance estimation using three different methods: Time of Arrival …

Identification Of Prognostic Cancer Biomarkers Through The Application Of Rna-Seq Technologies And Bioinformatics, Nathan Wong

McKelvey School of Engineering Graduate Student Theses & Dissertations

MicroRNAs (miRNAs) are short single-stranded RNAs that function as the guide sequence of the post-transcriptional regulatory process known as the RNA-induced silencing complex (RISC), which targets mRNA sequences for degradation through complementary binding to the guide miRNA. Changes in miRNA expression have been reported as correlated with numerous biological processes, including embryonic development, cellular differentiation, and disease manifestation. In the latter case, dysregulation has been observed in response to infection by human papillomavirus (HPV), which has also been established as both oncogenic in cervical cancers and oropharyngeal cancers and favorable for overall patient survival after tumor formation. The identification of …

Multi-Scale Studies To Develop A Holistic Understanding Of Solid Fuel Combustion At Residential Scale, Sameer Patel

McKelvey School of Engineering Graduate Student Theses & Dissertations

Nearly 3 billion people rely on solid fuels for their cooking and heating needs, classifying them as “energy poor”. This poverty can be attributed to several factors, including a lack of resources (fuel), inefficient infrastructure (production and distribution), limited purchasing power (poverty), and ill-devised policies. Solid fuels, such as biomass, coal, and dung cakes, are burned in inefficient cookstoves. They generate products of incomplete combustion (PIC), such as CO, particulate matter (PM), and CH4, causing household air pollution (HAP) whose adverse impacts on both health and the environment have been well established.

HAP causes diseases such as chronic obstructive pulmonary …

Functional Bio-Nano Hybrids Through A Precise Control Of Interfacial Interactions At The Nanoscale, Sirimuvva Tadepalli

McKelvey School of Engineering Graduate Student Theses & Dissertations

During the course of evolution, proteins have evolved to perform exquisite functions including structural support, signal transduction, actuation, sensing, catalysis, trafficking, gating, light-harvesting, charge transfer, molecular recognition, self-assembly, self-organization, or combinations of two or more of these functions. A precise control and manipulation of the structure and function of proteins is conceivable with the advent of nanotechnology, which has facilitated the integration of nanomaterials with functional biomolecules to realize bio-nano hybrids with synergistically enhanced functionalities.

At the genesis of bionanotechnology, a paucity in the fundamental understanding of the bio-nano interfaces is a grave impediment to the progress of the field. …

The Inter-Laminar Shearing Effect On Wrinkle Development In Composite Forming Processes, David Sundquist

McKelvey School of Engineering Graduate Student Theses & Dissertations

Composite materials are becoming prevalent in aerospace industries as the uniqueness of the composite structure allows the composite to be tailored specifically for individual applications. Many fabrication techniques produce defects in composite parts such as wrinkles, fiber waviness, fiber misalignment, and porosity. The driving mechanisms behind these defects occurring during forming processes are not fully understood and, thus, characterization formation of these defects in a uncured state is beneficial to optimize composite processing. This work primarily investigated the influence of how uncured pre-impregnated carbon ply properties affect the wrinkling behavior of a composite laminates. Several factors affecting composite ply forming …

Development Of In Vitro Drug Screening Platforms Using Human Induced Pluripotent Stem Cell-Derived Cardiovascular Cells, Yosuke Kurokawa

McKelvey School of Engineering Graduate Student Theses & Dissertations

Drug-induced cardiotoxicity is a critical challenge in the development of new drugs. Since the advent of human pluripotent stem cell-derived cardiomyocytes (CMs), researchers have explored ways to utilize these cells for in vitro preclinical drug screening applications. One area of interest is microphysiological systems (i.e. organ-on-a-chip), which aims to create more complex in vitro models of human organ systems, thus improving drug response predictions. In this dissertation, we investigated novel analysis methods and model platforms for detecting drug-induced cardiotoxicity using human induced pluripotent stem cell (iPSC)-derived cardiovascular cells.

First, we utilized human iPSC-derived CMs (iPS-CMs) to establish optical methods of …

Extrinsic And Intrinsic Control Of Integrative Processes In Neural Systems, Anirban Nandi

McKelvey School of Engineering Graduate Student Theses & Dissertations

At the simplest dynamical level, neurons can be understood as integrators. That is, neurons accumulate excitation from afferent neurons until, eventually, a threshold is reached and they produce a spike. Here, we consider the control of integrative processes in neural circuits in two contexts. First, we consider the problem of extrinsic neurocontrol, or modulating the spiking activity of neural circuits using stimulation, as is desired in a wide range of neural engineering applications. From a control-theoretic standpoint, such a problem presents several interesting nuances, including discontinuity in the dynamics due to the spiking process, and the technological limitations associated with …

System Characterizations And Optimized Reconstruction Methods For Novel X-Ray Imaging, Huifeng Guan

McKelvey School of Engineering Graduate Student Theses & Dissertations

In the past decade there have been many new emerging X-ray based imaging technologies developed for different diagnostic purposes or imaging tasks. However, there exist one or more specific problems that prevent them from being effectively or efficiently employed. In this dissertation, four different novel X-ray based imaging technologies are discussed, including propagation-based phase-contrast (PB-XPC) tomosynthesis, differential X-ray phase-contrast tomography (D-XPCT), projection-based dual-energy computed radiography (DECR), and tetrahedron beam computed tomography (TBCT). System characteristics are analyzed or optimized reconstruction methods are proposed for these imaging modalities. In the first part, we investigated the unique properties of propagation-based phase-contrast imaging technique …

System Optimization And Iterative Image Reconstruction In Photoacoustic Computed Tomography For Breast Imaging, Yang Lou

McKelvey School of Engineering Graduate Student Theses & Dissertations

Photoacoustic computed tomography(PACT), also known as optoacoustic tomography (OAT), is an emerging imaging technique that has developed rapidly in recent years. The combination of the high optical contrast and the high acoustic resolution of this hybrid imaging technique makes it a promising candidate for human breast imaging, where conventional imaging techniques including X-ray mammography, B-mode ultrasound, and MRI suffer from low contrast, low specificity for certain breast types, and additional risks related to ionizing radiation. Though significant works have been done to push the frontier of PACT breast imaging, it is still challenging to successfully build a PACT breast imaging …

Image Reconstruction Of The Speed Of Sound And Initial Pressure Distributions In Ultrasound Computed Tomography And Photoacoustic Computed Tomography, Thomas Paul Matthews

McKelvey School of Engineering Graduate Student Theses & Dissertations

Ultrasound computed tomography (USCT) and photoacoustic computed tomography (PACT) are two emerging imaging modalities that have a wide range of potential applications from pre-clinical small animal imaging to cancer screening in human subjects. USCT is typically employed to measure acoustic contrasts, including the speed of sound (SOS) distribution, while PACT typically measures optical contrasts or some related quantity such as the initial pressure distribution. Their complementary contrasts and similar implementations make USCT and PACT a natural fit for a hybrid imaging system. Still, much work remains to realize this promise. First, USCT image reconstruction methods based on the acoustic wave …

Reconstruction Algorithms For Novel Joint Imaging Techniques In Pet, Homayoon Ranjbar

McKelvey School of Engineering Graduate Student Theses & Dissertations

Positron emission tomography (PET) is an important functional in vivo imaging modality with many clinical applications. Its enormously wide range of applications has made both research and industry combine it with other imaging modalities such as X-ray computed tomography (CT) or magnetic resonance imaging (MRI). The general purpose of this work is to study two cases in PET where the goal is to perform image reconstruction jointly on two data types.

The first case is the Beta-Gamma image reconstruction. Positron emitting isotopes, such as ¹¹C, ¹³N, and ¹⁸F, can be used to label molecules, and tracers, such …

Binding Affinity And Specificity Of Sh2 Domain Interactions In Receptor Tyrosine Kinase Signaling Networks, Tom Ronan

McKelvey School of Engineering Graduate Student Theses & Dissertations

Receptor tyrosine kinase (RTK) signaling mechanisms play a central role in intracellular signaling and control development of multicellular organisms, cell growth, cell migration, and programmed cell death. Dysregulation of these signaling mechanisms results in defects of development and diseases such as cancer. Control of this network relies on the specificity and selectivity of Src Homology 2 (SH2) domain interactions with phosphorylated target peptides. In this work, we review and identify the limitations of current quantitative understanding of SH2 domain interactions, and identify severe limitations in accuracy and availability of SH2 domain interaction data. We propose a framework to address some …

Characterization Of Structural Dynamics Of The Human Head Using Magnetic Resonance Elastography, Andrew Arun Badachhape

McKelvey School of Engineering Graduate Student Theses & Dissertations

In traumatic brain injury (TBI), the skull-brain interface, composed of three meningeal layers: the dura mater, arachnoid mater, and pia mater, along with cerebrospinal fluid (CSF) between the layers, plays a vital role in transmitting motion from the skull to brain tissue. Magnetic resonance elastography (MRE) is a noninvasive imaging modality capable of providing in vivo estimates of tissue motion and material properties. The objective of this work is to augment human and phantom MRE studies to better characterize the mechanical contributions of the skull-brain interface to improve the parameterization and validation of computational models of TBI. Three specific aims …

Abiotic- And Biotic-Formation Of Manganese Oxides And Their Fate In Environmental Systems, Haesung Jung

McKelvey School of Engineering Graduate Student Theses & Dissertations

Manganese (hydr)oxide (Mn (hydr)oxide) minerals are ubiquitous in aquatic and terrestrial environments. These minerals have high surface areas and are highly sorptive and redox active. From decades of accumulated knowledge about natural redox cycling, we have found that Mn (hydr)oxides play critical roles as electron donors and acceptors in elemental geochemical cycling and biological metabolisms in nature. Thus, Mn (hydr)oxides have garnered increasing interest to understand natural systems. Considering the variety of redox reactions with Mn (hydr)oxides in nature, it is also expected that there should be diverse pathways to form Mn (hydr)oxides through abiotic and biotic processes. Previous studies …

Two-Component Hydrogel As Biomimetic Vitreous Substitutes, Sruthi Santhanam

McKelvey School of Engineering Graduate Student Theses & Dissertations

The vitreous humor of the eye is a biological hydrogel principally composed of fibrillary collagen interspersed with semi-flexible polyelectrolyte, hyaluronic acid (HA). Certain pathological conditions necessitate its removal and replacement. Current vitreous substitutes, such as silicone oils and perfluorocarbons, are hydrophobic, do not resemble the properties of the vitreous, and have known complications. An ideal vitreous substitute should have properties of the natural vitreous, perform its functions, and be biocompatible in the eye. Inspired by the structure and composition of the natural vitreous, we used bio-mimicry to develop an injectable two-component hydrogel. The hydrogel is composed of a fibrillary gellan, …

Characterizing Anisotropy In Fibrous Soft Materials By Mr Elastography Of Slow And Fast Shear Waves, John Larson Schmidt

McKelvey School of Engineering Graduate Student Theses & Dissertations

The general objective of this work was to develop experimental methods based on magnetic resonance elastography (MRE) to characterize fibrous soft materials. Mathematical models of tissue biomechanics capable of predicting injury, such as traumatic brain injury (TBI), are of great interest and potential. However, the accuracy of predictions from such models depends on accuracy of the underlying material parameters. This dissertation describes work toward three aims. First, experimental methods were designed to characterize fibrous materials based on a transversely isotropic material model. Second, these methods are applied to characterize the anisotropic properties of white matter brain tissue ex vivo. Third, …

Comparison Of The Bi-Directional Performance Of Micro-Channel Sieve And Thin-Film Time Peripheral Nerve Interfaces, Robert Coker

McKelvey School of Engineering Graduate Student Theses & Dissertations

Sophisticated motorized prosthetic limbs contain multiple degrees of freedom of motion as well as embedded pressure and angle transducers to provide sensory feedback in amputees. Although several central neural recording and stimulation modalities exist for both controlling these motions and providing sensory feedback from a prosthetic limb, directly interfacing the peripheral nerves which originally innervated the limb has many advantages. A difficulty with this bi-directional approach is that electrically stimulating axons to provide haptic feedback creates stimulation artifacts at neighboring recording sites within the nerve that are several orders of magnitude larger than the electroneurogram used for control. In this …