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Articles 31 - 47 of 47
Full-Text Articles in Physical Sciences and Mathematics
Gas-Phase Proton Affinities Of Proline- And Pipecolic Acid-Containing Dipeptides, Trinh Ton
Gas-Phase Proton Affinities Of Proline- And Pipecolic Acid-Containing Dipeptides, Trinh Ton
Dissertations, Theses, and Masters Projects
Mass spectrometry (MS) is one of the most used techniques in proteomics because it allows for both high-throughput and quantitative analyses. Bottom-up MS-based proteomics involves breaking down proteins into smaller chains of amino acids called peptides, ionizing and fragmenting the peptides, and identifying the fragments using sequencing databases. These databases depend on the random fragmentation at the backbone peptide bond of the peptides, as predicted by the mobile proton model. Research has shown that peptides containing proline or pipecolic acid have selective fragmentations that could lead to incorrect identification in the sequencing algorithms. These selective cleavages are called “the proline …
Efficient Parallelization Of Irregular Applications On Gpu Architectures, Qihan Wang
Efficient Parallelization Of Irregular Applications On Gpu Architectures, Qihan Wang
Dissertations, Theses, and Masters Projects
With the enlarging computation capacity of general Graphics Processing Units (GPUs), leveraging GPUs to accelerate parallel applications has become a critical topic in academia and industry. However, a wide range of irregular applications with a computation-/memory-intensive nature cannot easily achieve high GPU utilization. The challenges mainly involve the following aspects: first, data dependence leads to a coarse-grained kernel; second, heavy GPU memory usage may cause frequent memory evictions and extra overhead of I/O; third, specific computation patterns produce memory redundancies; last, workload balance and data reusability conjunctly benefit the overall performance, but there may exist a dynamic trade-off between them. …
Exploring Pah Partitioning In Oysters Using Immunological Techniques, Kristen Madison Prossner
Exploring Pah Partitioning In Oysters Using Immunological Techniques, Kristen Madison Prossner
Dissertations, Theses, and Masters Projects
Anthropogenic activities such as oil spills are major sources of polycyclic aromatic hydrocarbon (PAH) pollution in the environment. Bivalves such as C. virginica can accumulate high levels of PAHs in tissue due to a limited metabolic capacity for these compounds. Accordingly, bivalves have served as key biomonitoring species for contaminants and exposure to PAH through seafood consumption can also be an important risk to human health due to the toxic and carcinogenic potential of these compounds. For evaluating bivalve PAH levels, conventional analyses are limited due to extensive time and expense and unreliability. This work demonstrates the application of immunological …
Identifying Factors Controlling Dinophysis Spp. Feeding, Growth, And Toxin Production Through Field And Lab Studies, Vanessa R. Strohm
Identifying Factors Controlling Dinophysis Spp. Feeding, Growth, And Toxin Production Through Field And Lab Studies, Vanessa R. Strohm
Dissertations, Theses, and Masters Projects
Harmful algal blooms (HABs) and their associated phycotoxins pose a threat to both human and shellfish health around the world. Dinophysis spp., a causative organism of diarrhetic shellfish poisoning (DSP) in humans, and its two toxin classes: dinophysistoxins (DTXs) and pectenotoxins (PTXs), have been documented throughout the year in the Chesapeake Bay. While DTX concentrations currently remain below regulatory limits in regional seafood products, further research is needed to understand environmental drivers, both biotic and abiotic, that may be impacting Dinophysis spp. feeding on prey, growth, and toxin production. To characterize populations of Dinophysis in situ, an Imaging FlowCytobot (IFCB) …
Chesapeake Bay Carbonate Cycle: Past, Present, And Future, Fei Da
Chesapeake Bay Carbonate Cycle: Past, Present, And Future, Fei Da
Dissertations, Theses, and Masters Projects
Multiple natural and anthropogenic drivers are expanding the variability of the estuarine carbonate system (CO2 system). These changes in the CO2 system are threatening the health of ecologically and economically important bivalve species. This dissertation investigates the Chesapeake Bay CO2 system by using numerical models and historical water quality data, focusing on the past three decades, the contemporary period, and the late 2060s. In Chapter 2, sensitivity experiments are conducted with a 3-D Chesapeake Bay hydrodynamic-biogeochemical model and reveal that the magnitude of decadal trends in the CO2 system over the past 30 years is much greater than that observed …
Impacts And Uncertainties Of Climate Change On The Chesapeake Bay, Kyle E. Hinson
Impacts And Uncertainties Of Climate Change On The Chesapeake Bay, Kyle E. Hinson
Dissertations, Theses, and Masters Projects
Climate change impacts in the Chesapeake Bay will limit the efficacy of nutrient reduction efforts and decrease dissolved oxygen, but uncertainties associated with the magnitude of these effects remain. An understanding of underlying mechanisms that have driven recent warming trends will narrow uncertainties for future pathways of temperature change. Additionally, future simulations of climate impacts in the estuary are dependent on multiple different sources of uncertainty, many of which have not yet been fully evaluated. This dissertation used a three- dimensional coupled hydrodynamic-biogeochemical model to investigate recent warming trends as well as underlying uncertainties likely to influence regional projections of …
Climate Impacts On Spatiotemporal Habitat Usage Of Mid-Atlantic Fishes, Adena Jade Schonfeld
Climate Impacts On Spatiotemporal Habitat Usage Of Mid-Atlantic Fishes, Adena Jade Schonfeld
Dissertations, Theses, and Masters Projects
Climate change has altered marine environments, most notably by increasing water temperatures and reducing dissolved oxygen concentrations. These persistent changes have impacted the phenology and spatiotemporal habitat usage of mobile species, often through distributional shifts poleward or to deeper water. Climate-driven distributional shifts have been documented for numerous species inhabiting the Atlantic Ocean along the US East Coast, a region disproportionately affected by climate change. Adjacent estuaries are experiencing similar alterations to their physical environments and biotic community composition. Many estuarine species are seasonal residents and changes to environmental conditions within an estuary can result in altered usage and residence …
Intelligent Software Tooling For Improving Software Development, Nathan Allen Cooper
Intelligent Software Tooling For Improving Software Development, Nathan Allen Cooper
Dissertations, Theses, and Masters Projects
Software has eaten the world with many of the necessities and quality of life services people use requiring software. Therefore, tools that improve the software development experience can have a significant impact on the world such as generating code and test cases, detecting bugs, question and answering, etc. The success of Deep Learning (DL) over the past decade has shown huge advancements in automation across many domains, including Software Development processes. One of the main reasons behind this success is the availability of large datasets such as open-source code available through GitHub or image datasets of mobile Graphical User Interfaces …
Program Analysis For Software Engineers And Students, Jialiang Tan
Program Analysis For Software Engineers And Students, Jialiang Tan
Dissertations, Theses, and Masters Projects
Software inefficiencies are inevitable in computer systems. At the code level, software packages have become increasingly complex, they are comprised of a large amount of source code, sophisticated control and data flow, and growing levels of abstraction. This complexity often introduces inefficiencies across software stacks, leading to performance degradation. At the resource level, the evolution of hardware outpaces the performance optimization of software, leading to resource wastage and energy dissipation in emerging architecture. To better understand program behaviors, software developers take advantage of performance profiling tools. Existing profiling techniques, whether fine-grained profilers or coarse-grained profilers focus on identifying hotspots, which …
From Field To Shore: Policy Improvements To Better Protect Ecosystem And Human Health From Poultry Wastes In Virginia, Rachael A. King
From Field To Shore: Policy Improvements To Better Protect Ecosystem And Human Health From Poultry Wastes In Virginia, Rachael A. King
Dissertations, Theses, and Masters Projects
Commercial poultry production is a large industry with economic importance in Virginia. However, mismanagement of manures and wastes generated from the poultry industry can be a serious threat to ecosystem and human health. Primarily, there is a concern about nutrient pollution related to runoff and infiltration of poultry wastes. High nutrient loading can cause groundwater contamination, eutrophication, and harmful algal blooms (HABs). Additional concerns include metals, antibiotics, and pesticides that can be found in poultry wastes. To determine existing threats to ecosystem and human health from the poultry industry, Virginia policies regulating the industry are reviewed and their strengths and …
Exploring Software Licensing Issues Faced By Legal Practitioners, Nathan James Wintersgill
Exploring Software Licensing Issues Faced By Legal Practitioners, Nathan James Wintersgill
Dissertations, Theses, and Masters Projects
Most modern software products incorporate open source components, which requires compliance with each component’s licenses. As noncompliance can lead to significant repercussions, organizations often seek advice from legal practitioners to maintain license compliance, address licensing issues, and manage the risks of noncompliance. While legal practitioners play a critical role in the process, little is known in the software engineering community about their experiences within the open source license compliance ecosystem. To fill this knowledge gap, a joint team of software engineering and legal researchers designed and conducted a survey with 30 legal practitioners and related occupations and then held 16 …
Tracing Atlantic Sea Scallops Using Radio Frequency Identification (Rfid) Technology, Will Shoup
Tracing Atlantic Sea Scallops Using Radio Frequency Identification (Rfid) Technology, Will Shoup
Dissertations, Theses, and Masters Projects
Traceable seafood can be linked back to its origin and method of catch. Improving the traceability of marine organisms involves establishing a transparent Chain of Custody (CoC) by collecting data at checkpoints throughout the supply chain, from ship to shore to store. This report explores the feasibility of integrating Radio Frequency Identification (RFID) technology into the United States Atlantic sea scallop (Placopecten magellanicus) fishery in order to improve traceability. This report serves as a forward-looking evaluation of RFID technology that is intended to inform interested stakeholders of its functionality and capabilities. It is not intended to serve as a management …
A Reevaluation Of Why Crypto-Detectors Fail: A Systematic Revaluation Of Cryptographic Misuse Detection Techniques, Scott Marsden
A Reevaluation Of Why Crypto-Detectors Fail: A Systematic Revaluation Of Cryptographic Misuse Detection Techniques, Scott Marsden
Dissertations, Theses, and Masters Projects
The correct use of cryptography is central to ensuring data security in modern software systems. Hence, several academic and commercial static analysis tools have been developed for detecting and mitigating crypto-API misuse. While developers are optimistically adopting these crypto-API misuse detectors (or crypto-detectors) in their software development cycles, this momentum must be accompanied by a rigorous understanding of their effectiveness at finding crypto-API misuse in practice. The original paper presents the MASC framework, which enables a systematic and data-driven evaluation of crypto-detectors using mutation testing. MASC was grounded in a comprehensive view of the problem space by developing a data-driven …
Characterizing Molecular Environments In Acrylic Paint Via Single-Sided Nmr, Lyndi Kiple
Characterizing Molecular Environments In Acrylic Paint Via Single-Sided Nmr, Lyndi Kiple
Dissertations, Theses, and Masters Projects
Acrylic paint is a modern artistic material made of colored pigment and polymeric binder. Acrylic binder requires fundamental study at the molecular level to understand its physical properties for purposes of art conservation and general polymer chemistry. The research presented in this thesis uses single-sided nuclear magnetic resonance (NMR) as a non-invasive and non-destructive way to measure relaxation and self-diffusion, which provide insight to molecular mobility and physical properties of proton-containing samples. Specifically, this study relies on T2 relaxation to gain insight to regions within acrylic paint with different molecular mobilities. In both dry and wet paint, relaxometry data revealed …
Emerging Red Sore Disease Of American Eel (Anguilla Rostrata) In Chesapeake Bay: Etiology, Epidemiology, And Impacts In Aquaculture And The Wild, Amanpreet Kaur Kohli
Emerging Red Sore Disease Of American Eel (Anguilla Rostrata) In Chesapeake Bay: Etiology, Epidemiology, And Impacts In Aquaculture And The Wild, Amanpreet Kaur Kohli
Dissertations, Theses, and Masters Projects
Emerging infectious diseases in aquatic systems, both in aquaculture and in the wild, are a global concern. Many have proposed an uptick in marine diseases as a result of environmental changes including a warming climate, habitat modifications, trade and transfer of wildlife and aquaculture products, pollution, overharvesting of resources, and other anthropogenic impacts. These perturbations can disturb the delicate host-pathogen relationships and result in new diseases or exacerbate the existing diseases in a population. Diseases can lead to several direct and indirect effects in the ecosystem such as population declines and extinctions, and thereby a change in population dynamics, as …
Biotic And Abiotic Factors Associated With Temporal And Spatial Variability Of Constitutive Mixotroph Abundance And Proportion, Marcella Dobbertin Da Costa
Biotic And Abiotic Factors Associated With Temporal And Spatial Variability Of Constitutive Mixotroph Abundance And Proportion, Marcella Dobbertin Da Costa
Dissertations, Theses, and Masters Projects
Mixotrophic protists, which combine the use of photosynthesis and prey ingestion to obtain nutrients for growth, comprise a substantial portion of the plankton community. However, there is a major gap in our understanding of how mixotroph prevalence varies spatially and temporally and under what conditions they dominate. I utilized a recently developed molecular technique to experimentally identify active mixotrophs (taxa identified to be grazing when samples were collected) and combined this with microscopy data to estimate active mixotroph abundance and proportion at two locations in a temperate estuary over a year. Active mixotroph abundance was compared to potential mixotroph (taxa …
Domain-Specific Optimization For Machine Learning System, Yu Chen
Domain-Specific Optimization For Machine Learning System, Yu Chen
Dissertations, Theses, and Masters Projects
The machine learning (ML) system has been an indispensable part of the ML ecosystem in recent years. The rapid growth of ML brings new system challenges such as the need of handling more large-scale data and computation, the requirements for higher execution performance, and lower resource usage, stimulating the demand for improving ML system. General-purpose system optimization is widely used but brings limited benefits because ML applications vary in execution behaviors based on their algorithms, input data, and configurations. It's difficult to perform comprehensive ML system optimizations without application specific information. Therefore, domain-specific optimization, a method that optimizes particular types …