Physical Sciences and Mathematics Commons^™

Mixed Mechanisms Of Multi-Site Phosphorylation, Suha Jayyousi Dajani

Graduate Research Theses & Dissertations

Multi-site phosphorylation is an important mechanism in cell biology that regulates protein function and activity. It also plays a critical role in a wide variety of cellular processes that control intra-cellular signaling. Studies on mono- and dual-site phosphorylation have been conducted theoretically and experimentally by researchers. However, there is little research on triple-site and multi-site mixed mechanism phosphorylation.

The aim of this research is to study and identify the number of positive steady states (multistationarity) in a mathematical model of a triple-site mixed mechanism, processive and distributive, phosphorylation network. This research is accomplished by means of ordinary differential equations, Jacobian …

Conventions, Definitions, Identities, And Other Useful Formulae, Robert A. Mcnees Iv

Physics: Faculty Publications and Other Works

As the name suggests, these notes contain a summary of important conventions, definitions, identities, and various formulas that I often refer to. They may prove useful for researchers working in General Relativity, Supergravity, String Theory, Cosmology, and related areas.

Railroad Condition Monitoring Using Distributed Acoustic Sensing And Deep Learning Techniques, Md Arifur Rahman

Electronic Theses and Dissertations

Proper condition monitoring has been a major issue among railroad administrations since it might cause catastrophic dilemmas that lead to fatalities or damage to the infrastructure. Although various aspects of train safety have been conducted by scholars, in-motion monitoring detection of defect occurrence, cause, and severity is still a big concern. Hence extensive studies are still required to enhance the accuracy of inspection methods for railroad condition monitoring (CM). Distributed acoustic sensing (DAS) has been recognized as a promising method because of its sensing capabilities over long distances and for massive structures. As DAS produces large datasets, algorithms for precise …

Accounting For Variability Due To Resampling Using Bootstrapping, Dipendra Phuyal

Electronic Theses and Dissertations

Bradley Efron (1979) introduced bootrapping. Typically a researcher is interested in studying a process which generates individuals. The collection of individuals the process has(actual) or could have (conceptual) generated is the population. The collection of conceptual members of the population is an uncountable collection. Hence, the population is anuncountable collection of individuals. The collection of individuals the process has generated (actual individuals) is representative of what the process can generate and will bereferred to as the representative sample. The size of this sample is a nonnegative integervalued random variable N which may be a constant random variable such as in …

Classification In Supervised Statistical Learning With The New Weighted Newton-Raphson Method, Toma Debnath

Electronic Theses and Dissertations

In this thesis, the Weighted Newton-Raphson Method (WNRM), an innovative optimization technique, is introduced in statistical supervised learning for categorization and applied to a diabetes predictive model, to find maximum likelihood estimates. The iterative optimization method solves nonlinear systems of equations with singular Jacobian matrices and is a modification of the ordinary Newton-Raphson algorithm. The quadratic convergence of the WNRM, and high efficiency for optimizing nonlinear likelihood functions, whenever singularity in the Jacobians occur allow for an easy inclusion to classical categorization and generalized linear models such as the Logistic Regression model in supervised learning. The WNRM is thoroughly investigated …

Should The Future Of Ais Conferences Be Hybrid?, Traci Carte, Matthew Nelson, Monica J. Garfield, Athanasia Pouloudi, Mani R. Subramani, Guillermo Rodríguez-Abitia, Souren Paul

Faculty Publications - Information Technology

Academic conferences provide a needed opportunity for academic community members to come together and share ideas. COVID-19 forced AIS to host conferences remotely for two years. From that experience, we learned a few things about virtualizing our conference activities including the potential for virtual conferences to widen participation and membership. In this paper, we reflect on that learning through a lens informed by reviewing published work on conference hybridization. We also make recommendations for how future conference chairs can think about AIS conferences. Changing how our conferences are delivered is risky, but simply returning to the old normal is also …

Using A Degree-Based Network Model To Understand And Control Traffic Jams In The Atlanta Metropolitan Area, Ian Salamone-Lent, Theresa Washington, Asma Azizi

The Kennesaw Journal of Undergraduate Research

Traffic congestion is an enduring problem for major metropolitan areas, such as Atlanta, GA. Our goal is to understand the nature of traffic congestion patterns in the highway system of Cobb County in Atlanta, GA. We created a road network representative of the Cobb County highway system and then superimposed a degree-based SIR model to simulate traffic congestion on that network. The model’s parameters, propagation and dissipation rates, were estimated using empirical traffic data, which are vehicles’ speed time series and speed limit of each road in the network. We then conducted a local sensitivity analysis of the model’s key …

Numerical Investigation And Statistical Analysis Of The Flow Patterns Behind Square Cylinders Arranged In A Staggered Configuration Utilizing The Lattice Boltzmann Method, M. Abid, N. Yasin, M. Saqlain, S. Ul-Islam, S. Ahmad

Mathematics & Statistics Faculty Publications

Flow past bluff bodies like square cylinders is important in engineering applications, but flow patterns behind staggered cylinder arrangements remain poorly understood. Existing studies have focused on tandem or side-by-side configurations, while offset orientations have received less attention. The aim of this paper is to numerically investigate flow dynamics and force characteristics behind two offset square cylinders using the single relaxation time lattice Boltzmann method. The effects of changing both the Reynolds number (Re = 1-150) and gap spacing ratio (g* = 0.5-5) between the cylinders are analyzed. Instantaneous vorticity contours, time histories of drag and lift coefficients, power spectra …

Scalar-On-Function Regression: Estimation And Inference Under Complex Survey Designs, Ekaterina Smirnova, Erjia Ciu, Lucia Tabacu, Andrew Leroux

Mathematics & Statistics Faculty Publications

Increasingly, large, nationally representative health and behavioral surveys conducted under a multistage stratified sampling scheme collect high dimensional data with correlation structured along some domain (eg, wearable sensor data measured continuously and correlated over time, imaging data with spatiotemporal correlation) with the goal of associating these data with health outcomes. Analysis of this sort requires novel methodologic work at the intersection of survey statistics and functional data analysis. Here, we address this crucial gap in the literature by proposing an estimation and inferential framework for generalizable scalar-on-function regression models for data collected under a complex survey design. We propose to: …

Two-Center And Path Interference In Dissociative Capture In P+ H2 Collisions, S. Bastola, M. Dhital, B. Lamichhane, A. Silvus, R. Lomsadze, A. Hasan, A. Igarashi, Michael Schulz

Physics Faculty Research & Creative Works

We have measured and calculated fully differential cross sections (FDCS) for dissociative capture in 75-keV p+H2 collisions. FDCS were analyzed in the kinetic energy release (KER) ranges 0 to 2.1 eV and 4 to 7 eV for two different molecular orientations. In the latter range, dissociation is dominated by electronic excitation to the 2pπu state. Here, we observed two-center interference for an orientation in the plane perpendicular to the initial beam axis and parallel to the transverse momentum transfer. The interference pattern is afflicted with a constant phase shift of π. In the range KER=0 to 2.1 eV, dissociation is …

Efficient Privacy-Preserving Spatial Data Query In Cloud Computing, Yinbin Miao, Yutao Yang, Xinghua Li, Linfeng Wei, Zhiquan Liu, Robert H. Deng

Research Collection School Of Computing and Information Systems

With the rapid development of geographic location technology and the explosive growth of data, a large amount of spatial data is outsourced to the cloud server for reducing the local high storage and computing burdens, but at the same time causes security issues. Thus, extensive privacy-preserving spatial data query schemes have been proposed. Most of the existing schemes use Asymmetric Scalar-Product-Preserving Encryption (ASPE) to encrypt data, but ASPE has proven to be insecure against known plaintext attack. And the existing schemes require users to provide more information about query range and thus generate a large amount of ciphertexts, which causes …

Knowledge Commons Past, Present, And Future, Michael J. Madison

Articles

The project now known as Governing Knowledge Commons, or GKC, was launched more than 15 years ago on the intuition that skepticism of intellectual property law and information exclusivity was grounded in anecdote and ideology rather than in empiricism. Structured, systematic, empirical research on mechanisms of knowledge sharing was needed. GKC aimed to help scholars produce it. Over multiple books, case studies, and other work, the scope of GKC has expanded considerably, from innovation to governance; from invention and creativity to data, privacy, and markets; and from social dilemmas focused on things to governance strategies directed to communities and collectives. …

Applications Of Independent And Identically Distributed (Iid) Random Processes In Polarimetry And Climatology, Dan Kestner

Dissertations, Master's Theses and Master's Reports

The unifying theme of this thesis is the characterization of “perfect randomness,” i.e., independent and identically distributed (IID) stochastic processes as these are applied in physical science. Two specific and mathematically distinct applications are chosen: (i) Radar and optical polarimetry; (ii) Analysis of time series in meteorology. In (i), IID process of a special kind, namely, with a distribution defined by symmetry, is used to link its multivariate Gaussian density to uniformity on the Poincaré sphere. This “statistical ellipsometry” approach is then used to relate polarimetric mismatches or imbalances to ellipsometric variables and suitably chosen cross-correlation measures. In (ii), recently …

Anomaly Mapping Of Heavy And Light Rare Earth Elements In Central Upper Peninsula Of Michigan Using Geostatistics And Fractal Analysis, Sunday Joseph

Dissertations, Master's Theses and Master's Reports

Rare earth elements (REEs) have gained significant global importance due to their critical role in supporting the transition towards reduced carbon emissions through industrial applications. REEs serve as essential raw materials for various critical components in modern infrastructure, defense systems, and technological advancements. Geochemical and geophysical data are pivotal in assessing the potential of REEs. Geochemical data provide direct insights into the elemental composition of rocks and soils, offering valuable information on the potential presence and dispersion of REEs. However, the complex geological processes that influence the distribution of REEs often exhibit intricate spatial patterns that may not be fully …

Understanding The Controls Of Seasonal Stream Temperature And Hydrological Monitoring Of Forested Watersheds In The Western Upper Peninsula Of Michigan, Eli A. Paulen

Dissertations, Master's Theses and Master's Reports

Accurately predicting stream temperature is vital to protect the environment and its most sensitive aquatic species. Tools for forecasting stream temperature rely on in situ data that affect thermal response of natural water systems. Stream and meteorological data were analyzed from the western Upper Peninsula of Michigan for the 2016-2023 water years to determine which factors affected stream temperatures. Through the application of multivariable linear regression models, our analysis identified air temperature as the primary determinant of stream temperature. However, the air-stream temperature relationship varied significantly over temporal scales, improving with increasing in time averaging. The air-stream temperature relationship was …

Establishing A Two-Color Fluorescence Probe Assay For The Simultaneous Screening Of Glut5 And Glut2 Fructose Transporters In Live Cells, Oluwanifesimi Mary Afolabi

Dissertations, Master's Theses and Master's Reports

The mammalian facilitative glucose transporter (GLUT) family comprises 14 members that mediate the transport of hexoses across cell membranes. GLUT5 is the only member specific to fructose, and together with GLUT2, which transports fructose in addition to glucose, they make up the primary fructose transporters in humans. This study introduces a novel two-color fluorescence assay designed to simultaneously monitor the activity of GLUT5 and GLUT2 in live cells. 2,5-anhydro-D-mannitol (2,5-AM) a GLUT5 targeting compound has facilitated the development of various fructose-mimicking probes with a wide range of properties, such as radioactive imaging, fluorescent, photoactive, and drug delivery capabilities. Effective and …

Spectrum And Quench-Induced Dynamics Of Spin-Orbit-Coupled Quantum Droplets, Sonali Gangwar, Rajamanickam Ravisankar, S. (Simeon) I. Mistakidis, Paulsamy Muruganandam, Pankaj Kumar Mishra

Physics Faculty Research & Creative Works

We investigate the ground state and dynamics of one-dimensional spin-orbit coupled (SOC) quantum droplets within the extended Gross-Pitaevskii approach. As the SOC wave number increases, stripe droplet patterns emerge, with a flat-top background, for larger particle numbers. The surface energy decays following a power-law with respect to the interactions. At small SOC wave numbers, a transition from Gaussian to flat-top droplets occurs for either a larger number of atoms or reduced intercomponent attraction. The excitation spectrum shows that droplets for relatively small SOC wave numbers are stable, otherwise stripe droplets feature instabilities as a function of the particle number or …

Shannon Point Marine Center Research Intern, Ben (Benjamin Gregory) Molenhouse

College of the Environment Internship Reports

One of my first goals was to implement the skills I have gained at university and apply them to real world scenarios. I wanted to learn about the intricacies of Zostera marina (eelgrass) populations in Puget Sound as well as the critical factors that seagrasses play within the Salish Sea. I particularly wanted to research how local conditions effect phenotypes of eelgrass populations. Lastly, I set a goal to use the opportunity to conduct research to help further my knowledge of the effects that climate change has on eelgrass populations in marine ecosystems.

King County Department Of Natural Resources Esci Intern, Grace Landaverde

College of the Environment Internship Reports

My job as an environmental science intern at King County Department of Natural Resources and Parks was to develop and complete an independent research project that will both help King County’s Science and Technical Support Section and my development as a beginning toxicologist. During my internship, I worked with three mentors whose job was to guide and assist interns in choosing and completing their independent research projects. So far in my internship, I have learned how to find and refine a research question, submit a research proposal, professionally work with my mentors and fellow interns to develop and complete the …

Nwac Snow School Intern, Zoe Marion Kass

College of the Environment Internship Reports

Mt. Baker Snow School is a cooperative program between Mt. Baker Ski Area, the Northwest Avalanche Center, Western Washington University, and the U.S. Forest Service (Mt. Baker Ski Area Inc). The aim of the program is to provide a hands-on educational experience for middle school students to learn about snow science. Snow School is primarily run by volunteer instructors, along with a few professional lead instructors from NWAC and WWU, the education coordinator Devon Schoos, the onsite coordinator Pat Kennedy and the Mt. Baker Ski Area representative Rachel Grasso. As an intern with Mt. Baker Snow School, I worked as …

City Of Bellingham Restoration Intern, Josiah Giuseppe Cennamo-Rose

College of the Environment Internship Reports

Over the course of this internship, September - June, my team and I have facilitated volunteer work parties where everyone involved removed thousands of pounds of invasive plants from parks all over the city of Bellingham. Plants such as Himalayan Blackberry, Tansy ragwort, Bindweed, Creeping Thistle, Common Tansy, Mullein, Knockweed, Scotch Broom, Clematis (Old Man's Beard), and many more. We have planted hundreds if not thousands of native plants ranging from trees like Douglas firs and Western Red Cedars to small and medium shrubs like Oregon Grape and Ocean Spray.

Skagit Fisheries Enhancement Group Intern, Michaela M. Provancha

College of the Environment Internship Reports

During the Fall 2023 quarter, my internship focused mostly on the Salmon in the Classroom program, where elementary grade students learn about salmon and their life cycle before raising their own Coho eggs and releasing them as fry. This program runs over the course of most of the school year and ends in March with salmon release field trips. This program, more than anything, strives to create positive outdoor memories for the students that hopefully stay with them as they continue to grow older. Another main goal of this program is to introduce the idea of salmon and their life …

Western Washington University Palladium Nanoparticles, Brett M. Nunley

College of the Environment Internship Reports

Throughout my three quarters of chemistry research for my environmental science internship, I gained a significant amount of experience with not only the process of scientific research, but also technical skills such as operating various analytical instrumentation. When I started in spring quarter 2023, I began shadowing Riley McGraw as I was going to be taking over his project once he graduated after that quarter. Each member of the lab had their own reaction that was catalyzed by palladium and would form nanoparticles as the reaction progressed (Figure 1).

Wwu Mapping Accessibility Project Intern, Elilzabeth A. Bridge

College of the Environment Internship Reports

The overarching goal of the Mapping Accessibility Project (MAP) is to create new ways for people with disabilities to interact with Western Washington University’s campus, and to improve areas where accessibility is lacking. This project is headed by Dr. Francisco Laso and began Fall Quarter of 2023 with three undergraduate interns (including myself), and a consultant from the Spatial Analysis Institute: Stu Rekasse.

New Method For Computing The Euclidean Condition Number With Rim-C, Cody Mccarthy

Dissertations, Master's Theses and Master's Reports

The condition number, being critical to solving linear systems, has many impor-
tant applications. Specifically for robust control analysis, the Euclidean norm has
widespread use over the 1-norm and ∞-norm such as determining a control system’s
stability to uncertainty [1]. Much work has been done with estimating the Euclidean
condition number, but current algorithms for computing said condition number, with
large matrices, tend to run slow as well as requiring a large amount of computa-
tional resources. This report seeks to provide a more time efficient algorithm that
utilizes MATLAB’s eigs, svds, and normest commands as well as the recently …

A Virtual Time Driven Simulator For Devs Models, Ronald R. Stempien

Dissertations, Master's Theses and Master's Reports

When simulating a system that includes some software component, simulation authors are faced with the problem of how to appropriately model the software within the simulation. While many formal methods for modeling software exist, in some contexts these may not be appropriate or viable for a given simulation. Instead, simulation authors may model a computer within the simulation, and run the software in question “as is” on the modeled machine. In this work, we introduce a theoretical framework to allow for the use of hardware virtualization technologies as a hardware accelerator for CPU models in Discrete Event System Specification (DEVS) …

Novel Analytical Approaches For The Study Of Energy And Nutrient Flow In Streams, Michelle Catherine Kelly

Dissertations, Master's Theses and Master's Reports

This dissertation applied novel modeling, experimental and statistical approaches to overcome the challenges of measuring and analyzing energy and nutrient cycling in streams through 3 studies: (1) determining the predictors of respiration and denitrification in streams across the United States, (2) simultaneous estimation of denitrification and nitrogen (N) fixation rates, and (3) the impact of C lability metrics on the interpretation of C degradation in DOM incubation experiments. In the first study, I used predictive modeling approaches to show that respiration and denitrification were positively correlated across the landscape but were predicted by factors at different spatial scales. Denitrification rates …

Response Of Open Volcanic Systems To Static Stress Changes, Aimee Zimmerman

Dissertations, Master's Theses and Master's Reports

Large earthquakes of magnitude 7.0 or greater can alter volcanic emissions and even trigger eruptions at nearby volcanoes. The stress changes imparted by large earthquakes can cause otherwise stable conditions within the magmatic system to be disturbed, potentially inducing volcanic activity. The extent of the triggering potential is still unknown due to insufficient understanding of the mechanisms involved. We model static stress changes for 174 earthquake-volcano pairs from 2000-2023 at volcanoes within 500 km, computing changes in both the normal stress perpendicular to the direction of horizontal maximum stress and dilatational strain. We then use thermal satellite data to measure …

Dynamic Memory Management For Key-Value Store, Yuchen Wang

Dissertations, Master's Theses and Master's Reports

To minimize the latency of accessing back-end servers, modern web services often use in-memory key-value (k-v) stores at the front end to cache frequently accessed objects. Due to the limited memory capacity, these stores must be configured with a fixed amount of memory. Consequently, cache replacement is required when the footprint of the accessed objects exceeds the cache size.

This thesis presents a comprehensive exploration of advanced dynamic memory management techniques for k-v stores. The first study conducts a detailed analysis of K-LRU, a random sampling-based replacement policy, proposing a dynamic K configuration scheme to exploit the potential miss ratio …

Lessons Learned From Laboratory Study And Field Application Of Re-Crosslinkable Preformed Particle Gels Rppg For Conformance Control In Mature Oilfields With Conduits/Fractures/Fracture-Like Channels, Baojun Bai, Thomas P. Schuman, David Smith, Tao Song

Geosciences and Geological and Petroleum Engineering Faculty Research & Creative Works

This Paper Surveys the Role of Re-Crosslink able Preformed Particle Gels (RPPG) in Addressing Conformance Challenges within Mature Oilfields. Despite Widespread Preformed Particle Gel (PPG) Application in 15,000+ Wells, their Limitations in Sealing Fractures and Conduits Prevalent in Mature Reservoirs Have Driven the Development of RPPG Formulations. Synthesized in Various Sizes from Micrometer to Millimeter Levels, These Environmentally Friendly RPPGs Are Tailored for Diverse Reservoir Conditions. Findings Showcase the Successful Laboratory-Scale Creation and Upscaling of RPPG Products, Offering Adaptability to Temperatures from 20 to 175°C, Customizable Sizes, Swelling Ratios (5 to 40 Times), and Re-Crosslinking Times Spanning Minutes to Days. …