Physical Sciences and Mathematics Commons^™

Joint Analysis For Multiple Traits, Zhenchuan Wang

Dissertations, Master's Theses and Master's Reports

This dissertation includes three papers with each distributed in one chapter.

In chapter 1, we proposed an Adaptive Weighting Reverse Regression (AWRR) method to test association between multiple traits and rare variants in a genomic region. AWRR is robust to the directions of effects of causal variants and is also robust to the directions of association of traits. Using extensive simulation studies, we compared the performance of AWRR with canonical correlation analysis (CCA), Single-TOW, and the Weighted Sum Reverse Regression (WSRR). Our results showed that, in all of the simulation scenarios, AWRR is consistently more powerful than CCA. In most …

Statistical Methods For Analyzing Multivariate Phenotypes And Detecting Rare Variant Associations, Huanhuan Zhu

Dissertations, Master's Theses and Master's Reports

This dissertation includes four papers with each distributed in one chapter.

In chapter 1, I compared the performance of eight multivariate phenotype association tests. The motivation to conduct this power comparison paper is as follows. For nearly 15 years, genome-wide association studies (GWAS) have been widely used to identify genetic variants associated with human diseases and traits. GWAS typically investigate genetic variants for a predefined phenotype, thus fail to identify weak but important effects. In recent years, many multivariate association tests have been developed. However, there is a lack of comprehensive summary of such kinds of approaches. To fill this …

High Accuracy Methods And Regularization Techniques For Fluid Flows And Fluid-Fluid Interaction, Mustafa Aggul

Dissertations, Master's Theses and Master's Reports

This dissertation contains several approaches to resolve irregularity issues of CFD problems, including a decoupling of non-linearly coupled fluid-fluid interaction, due to high Reynolds number. New models present not only regularize the linear systems but also produce high accurate solutions both in space and time. To achieve this goal, methods solve a computationally attractive artificial viscosity approximation of the target problem, and then utilize a correction approach to make it high order accurate. This way, they all allow the usage of legacy code | a frequent requirement in the simulation of fluid flows in complex geometries. In addition, they all …

Analyzing The Life-Cycle Of Unstable Slopes Using Applied Remote Sensing Within An Asset Management Framework, El Hachemi Y. Bouali

Dissertations, Master's Theses and Master's Reports

An asset management framework provides a methodology for monitoring and maintaining assets, which include anthropogenic infrastructure (e.g., dams, embankments, and retaining structures) and natural geological features (e.g., soil and rock slopes). It is imperative that these assets operate efficiently, effectively, safely, and at a high standard since many assets are located along transportation corridors (highways, railways, and waterways) and can cause severe damage if compromised. Assets built on or around regions prone to natural hazards are at an increased risk of deterioration and failure. The objective of this study is to utilize remote sensing techniques such as InSAR, LiDAR, and …

Probing Quantum Transport In Three-Terminal Nanojunctions, Meghnath Jaishi

Dissertations, Master's Theses and Master's Reports

One-dimensional (1D) nanoscale systems—structures with the lateral dimensions ranging from 1 nm to 100 nm — have received significant research interest due to their unique structure-guided properties that promise functionalities far more superior than their bulk counterparts. The quantum confinement effect in 1D nanostructures provides us with a very powerful tool to tune their electrical, magnetic, optical and thermal properties and opens the gateway for their multifunctional usages in next-generation electronics. In particular, carbon nanotubes and semiconductor nanowires are found to offer tremendous opportunities to form the junction devices with controlled electronic and optoelectronic properties crucial to predictable device functions. …

Intelligent And Secure Underwater Acoustic Communication Networks, Chaofeng Wang

Dissertations, Master's Theses and Master's Reports

Underwater acoustic (UWA) communication networks are promising techniques for medium- to long-range wireless information transfer in aquatic applications. The harsh and dynamic water environment poses grand challenges to the design of UWA networks. This dissertation leverages the advances in machine learning and signal processing to develop intelligent and secure UWA communication networks. Three research topics are studied: 1) reinforcement learning (RL)-based adaptive transmission in UWA channels; 2) reinforcement learning-based adaptive trajectory planning for autonomous underwater vehicles (AUVs) in under-ice environments; 3) signal alignment to secure underwater coordinated multipoint (CoMP) transmissions.

First, a RL-based algorithm is developed for adaptive transmission in …

Investigating Midair Virtual Keyboard Input Using A Head Mounted Display, Jiban Krishna Adhikary

Dissertations, Master's Theses and Master's Reports

Until recently text entry in virtual reality has been limited to using hand-held controllers. These techniques of text entry are feasible only for entering short texts like usernames and passwords. But recent improvements in virtual reality devices have paved the way to varied interactions in virtual environment and many of these tasks include annotation, text messaging, etc. These tasks require an effective way of text entry in virtual reality. We present an interactive midair text entry system in virtual reality which allows users to use their one or both hands as the means of entering text. Our system also allows …

Morphology And Mixing State Of Soot And Tar Balls: Implications For Optical Properties And Climate, Janarjan Bhandari

Dissertations, Master's Theses and Master's Reports

Soot particles form during incomplete combustion of carbonaceous materials. These particles strongly absorb light and directly affect Earth’s climate by warming our atmosphere. When freshly emitted, soot particles have a fractal-like morphology consisting of aggregates of carbon spherules. During atmospheric processing, soot aggregates interact with other materials present in our atmosphere (i.e., other aerosol or condensable vapors) and these interactions can result in the formation of coated, mixed or compacted soot particles with different morphologies. Any process that alters the morphology (shape, size and internal structure) and mixing state of soot also affects its optical properties, which in turn affect …

Novel Faraday Rotation Effects Observed In Ultra-Thin Iron Garnet Films, Brandon Blasiola

Dissertations, Master's Theses and Master's Reports

Recent work performed by A. Chakravarty and M. Levy showed experimentally a dramatic increase in the specific Faraday Rotation (FR) of the iron garnet Bi_0.8Lu_0.2Gd₂Fe₅O₁₂. A theoretical model, based purely on classical electrodynamics, attempting to explain this behavior was developed by colleagues in Russia that not only confirmed the asymptotic increase in the specific FR at sub-50nm film thicknesses but also suggested that the specific FR should exhibit significant fluctuations at sub-500 nm film thicknesses. The original data points were widespread with steps of 50 nm or more between data …

Algorithms For Reconstruction Of Gene Regulatory Networks From High -Throughput Gene Expression Data, Wenping Deng

Dissertations, Master's Theses and Master's Reports

Understanding gene interactions in complex living systems is one of the central tasks in system biology. With the availability of microarray and RNA-Seq technologies, a multitude of gene expression datasets has been generated towards novel biological knowledge discovery through statistical analysis and reconstruction of gene regulatory networks (GRN). Reconstruction of GRNs can reveal the interrelationships among genes and identify the hierarchies of genes and hubs in networks. The new algorithms I developed in this dissertation are specifically focused on the reconstruction of GRNs with increased accuracy from microarray and RNA-Seq high-throughput gene expression data sets.

The first algorithm (Chapter 2) …

Investigation Of Microphysical Properties Of Laboratory And Atmospheric Clouds Using Digital In-Line Holography, Neel Desai

Dissertations, Master's Theses and Master's Reports

In this study, we attempt to perform in-cloud measurements, both in the laboratory using the Michigan Tech $\Pi$-chamber and in the atmosphere via the CSET field campaign. Atmospheric turbulence is believed to play a critical role in the growth, development and dissipation of clouds and it is important to study its effect in order to better understand and predict cloud properties such as albedo and lifetime. We use digital in-line holography to measure the effect of turbulence on cloud microphysical properties such as variations in droplet number concentration and droplet or ice particle size. In the first half, we study …

Implementing Write Compression In Flash Memory Using Zeckendorf Two-Round Rewriting Codes, Vincent T. Druschke

Dissertations, Master's Theses and Master's Reports

Flash memory has become increasingly popular as the underlying storage technology for high-performance nonvolatile storage devices. However, while flash offers several benefits over alternative storage media, a number of limitations still exist within the current technology. One such limitation is that programming (altering a bit from its default value) and erasing (returning a bit to its default value) are asymmetric operations in flash memory devices: a flash memory can be programmed arbitrarily, but can only be erased in relatively large batches of storage bits called blocks, with block sizes ranging from 512K up to several megabytes. This creates a situation …

Application Of Seismic Radial Anisotropy For Near-Surface Fractures Identification, Jer-Yu Jeng

Dissertations, Master's Theses and Master's Reports

Fractures significantly control the groundwater flow and solute transport in geological settings of low-permeable rocks. Fractures also affect seismic wave propagation. For instance, they can create a directional dependence of seismic velocity with respect to their orientations, known as seismic anisotropy. Seismic radial anisotropy as used here is the difference between the velocity of a vertically polarized S-wave (SV) and one polarized horizontally (SH). In this thesis, seismic radial anisotropy was used to evaluate its usefulness for correlating with near-surface fractures. The seismic radial anisotropy models were obtained at two sites from dispersion analyses of the Rayleigh waves, with vertical …

Generalizable Modeling Of Charge Transport In Single Electron Transistor Devices: Application To Thermal Sensitivity In Semiconducting Island Systems, Paniz Khanmohammadi Hazaveh

Dissertations, Master's Theses and Master's Reports

Electronic devices, especially MOSFETs, have been dimensionally scaled down to enhance operation of integrated circuits, addressing challenges such as current leakage, fluctuation of intrinsic semiconductor properties, and power dissipation. Reaching dimensions below 20 nm, there are fundamental limitations that are difficult to overcome, driving alternative device paradigms to be sought utilizing the quantum mechanical behavior of electrons. Single electron transistor (SET) devices are examples of a new generation of low-power transistors designed to transport information via single electron tunneling through one or more islands separated by tunnel junctions. Experimentally explored SET devices have shown that there are advantages to using …