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Articles 2071 - 2100 of 2906

Full-Text Articles in Physical Sciences and Mathematics

Garnetites Of The Cardigan Pluton - Evidence For Restite And Implications For Source Rock Compositions., Teresa K. Pett Nov 2006

Garnetites Of The Cardigan Pluton - Evidence For Restite And Implications For Source Rock Compositions., Teresa K. Pett

Theses and Dissertations

The Cardigan pluton, located in the southern half of New Hampshire, is a strongly peraluminous, S-type granite which is granodioritic in composition. It is inferred to have been emplaced rapidly, thrust up along west-verging nappes during the Acadian orogeny. Distinctive pods, consisting of 50 to 70 percent modal garnet, are found throughout the pluton in assemblages of garnet + sillimanite + biotite + plagioclase + quartz. These garnetite rocks present an intriguing case for restite. Textural features of the garnetite rocks, such as fibrolitic sillimanite mats and flat, unzoned major and trace-element garnet grain profiles, provide evidence for biotite dehydration …

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Capillary Electrophoresis Of Proteins With Selective On-Line Affinity Monoliths, Jenny Marcela Armenta Blanco Nov 2006

Capillary Electrophoresis Of Proteins With Selective On-Line Affinity Monoliths, Jenny Marcela Armenta Blanco

Theses and Dissertations

The analysis of proteins in biological fluids by capillary electrophoresis (CE) is of interest in clinical chemistry. However, due to low analyte concentrations and poor concentration limits of detection (CLOD), protein analysis by this technique is frequently challenging. Coupling preconcentration techniques with CE greatly improves the CLOD. An on-line preconcentration-CE method that can selectively preconcentrate any protein for which an antibody is available would be very useful for the analysis of low abundance proteins and would establish CE as a major tool in biomarker discovery. To accomplish this, an on-line protein G monolithic preconcentrator CE system for enrichment and separation …

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Eliminating Redundant And Less-Informative Rss News Articles Based On Word Similarity And A Fuzzy Equivalence Relation, Ian Garcia, Yiu-Kai D. Ng Nov 2006

Eliminating Redundant And Less-Informative Rss News Articles Based On Word Similarity And A Fuzzy Equivalence Relation, Ian Garcia, Yiu-Kai D. Ng

Faculty Publications

The Internet has marked this era as the information age. There is no precedent in the amazing amount of information, especially network news, that can be accessed by Internet users these days. As a result, the problem of seeking information in online news articles is not the lack of them but being overwhelmed by them. This brings huge challenges in processing online news feeds, e.g., how to determine which news article is important, how to determine the quality of each news article, and how to filter irrelevant and redundant information. In this paper, we propose a method for filtering redundant …

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On-Line Electronic Document Collaboration And Annotation, Trev R. Harmon Nov 2006

On-Line Electronic Document Collaboration And Annotation, Trev R. Harmon

Theses and Dissertations

The Internet provides a powerful medium for communication and collaboration. The ability one has to connect and interact with web-based tools from anywhere in the world makes the Internet ideal for such tasks. However, the lack of native tools can be a hindrance when deploying collaborative initiatives, as many current projects require specialized software in order to operate. This thesis demonstrates, with the comparably recent advances in browser technology and Document Object Model (DOM) implementation, a web-based collaborative annotation system can be developed that can be accessed by a user through a standards-compliant web browser. Such a system, demonstrated to …

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Digital Receipts: A System To Detect The Compromise Of Digital Certificates, Nathaniel Allen Seeley Nov 2006

Digital Receipts: A System To Detect The Compromise Of Digital Certificates, Nathaniel Allen Seeley

Theses and Dissertations

The ease of copying digital materials creates difficulty in detecting the theft of digital certificates. Uneducated users frequently fail to protect their digital certificate keys by not encrypting them, storing them in insecure places, and using them unwisely. In addition, there is no way to prove that protocols involving certificates are completely secure. This thesis introduces a system to ameliorate these problems by detecting the compromise of digital certificates. It leverages dual logging messages sent via side channels to a trusted third party. This third party correlates these messages and automatically detects when an imposter presents a certificate based on …

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Learning In Short-Time Horizons With Measurable Costs, Patrick Bowen Mullen Nov 2006

Learning In Short-Time Horizons With Measurable Costs, Patrick Bowen Mullen

Theses and Dissertations

Dynamic pricing is a difficult problem for machine learning. The environment is noisy, dynamic and has a measurable cost associated with exploration that necessitates that learning be done in short-time horizons. These short-time horizons force the learning algorithms to make pricing decisions based on scarce data. In this work, various machine learning algorithms are compared in the context of dynamic pricing. These algorithms include the Kalman filter, artificial neural networks, particle swarm optimization and genetic algorithms. The majority of these algorithms have been modified to handle the pricing problem. The results show that these adaptations allow the learning algorithms to …

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Biochemical Investigations Of Macular Degeneration: The Significance Of Protein Oxidation Including Novel Methods For Its Study, Sarah Warburton Nov 2006

Biochemical Investigations Of Macular Degeneration: The Significance Of Protein Oxidation Including Novel Methods For Its Study, Sarah Warburton

Theses and Dissertations

The retinal pigment epithelium (RPE) is a monolayer of cells located directly behind the photoreceptor cells in the retina. These cells are involved in a variety of functions that support the visual process in the eye, namely 1) they form a blood-retina barrier which separates the neural retina from the choroid's blood supply, 2) the apical processes of RPE cells diurnally phagocytose the outer segments of photoreceptor cells, and 3) they participate in the renewal of the photopigment 11-cis retinal. Age-related macular degneration (AMD) is the leading cause of blindness in people over the age of 50 years in North …

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Characterization Of Cucurbituril Complex Ions In The Gas Phase Using Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry, Haizhen Zhang Nov 2006

Characterization Of Cucurbituril Complex Ions In The Gas Phase Using Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry, Haizhen Zhang

Theses and Dissertations

Host-guest interactions have been well studied in the new century to obtain fundamental insights into supramolecular chemistry. Most of the pioneering works have been done using techniques such as NMR, X-ray crystallography, IR spectroscopy and so on. However, none of these techniques is universal for the investigation of all types of supramolecules, and usually they have one or more limiting factors such as relatively large sample consumption, matrix effects from solvents, etc. Electrospray mass spectrometry has been widely used to investigate host-guest interactions in the gas phase. A particular advantage of gas phase host-guest research is that the experimental results …

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An Improved Distance Heuristic Function For Directed Software Model Checking, Eric G. Mercer, Neha Rungta Nov 2006

An Improved Distance Heuristic Function For Directed Software Model Checking, Eric G. Mercer, Neha Rungta

Faculty Publications

State exploration in directed software model checking is guided using a heuristic function to move states near errors to the front of the search queue. Distance heuristic functions rank states based on the number of transitions needed to move the current program state into an error location. Lack of calling context information causes the heuristic function to underestimate the true distance to the error; however, inlining functions at call sites in the control flow graph to capture calling context leads to an exponential growth in the computation. This paper presents a new algorithm that implicitly inlines functions at call sites …

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Ordering Tendencies In The Binary Alloys Of Rh, Pd, Ir, And Pt: Density Functional Calculations, Gus L. W. Hart, Brian Kolb, Stefan Müller, David B. Botts Oct 2006

Ordering Tendencies In The Binary Alloys Of Rh, Pd, Ir, And Pt: Density Functional Calculations, Gus L. W. Hart, Brian Kolb, Stefan Müller, David B. Botts

Faculty Publications

The binary alloys of Rh, Pd, Ir, and Pt are important because of their high catalytic potential. We report in this paper that the Rh1-xIrx and Rh1-xPtx systems, long thought to phase separate at low temperatures, actually exhibit miscibility over the entire concentration and temperature range. We find low critical ordering temperatures, indicating that long-range order is unlikely to be observed experimentally. These results are compared with previous theoretical predications for the other binary alloys of Rh, Pd, Ir, and Pt and with calculations performed here on the Pt1-xIrx and Pd1-xIrx systems. We discuss these results and investigate the mechanisms …

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A Logistic Regression Analysis Of Utah Colleges Exit Poll Response Rates Using Sas Software, Clint W. Stevenson Oct 2006

A Logistic Regression Analysis Of Utah Colleges Exit Poll Response Rates Using Sas Software, Clint W. Stevenson

Theses and Dissertations

In this study I examine voter response at an interview level using a dataset of 7562 voter contacts (including responses and nonresponses) in the 2004 Utah Colleges Exit Poll. In 2004, 4908 of the 7562 voters approached responded to the exit poll for an overall response rate of 65 percent. Logistic regression is used to estimate factors that contribute to a success or failure of each interview attempt. This logistic regression model uses interviewer characteristics, voter characteristics (both respondents and nonrespondents), and exogenous factors as independent variables. Voter characteristics such as race, gender, and age are strongly associated with response. …

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Periodic Boundary Condition Induced Breakdown Of The Equipartition Principle And Other Kinetic Effects Of Finite Sample Size In Classical Hard-Sphere Molecular Dynamics Simulation, Randall B. Shirts, Scott R. Burt, Aaron M. Johnson Oct 2006

Periodic Boundary Condition Induced Breakdown Of The Equipartition Principle And Other Kinetic Effects Of Finite Sample Size In Classical Hard-Sphere Molecular Dynamics Simulation, Randall B. Shirts, Scott R. Burt, Aaron M. Johnson

Faculty Publications

We examine consequences of the non-Boltzmann nature of probability distributions for one-particle kinetic energy, momentum, and velocity for finite systems of classical hard spheres with constant total energy and nonidentical masses. By comparing two cases, reflecting walls (NVE or microcanonical ensemble) and periodic boundaries (NVEPG or molecular dynamics ensemble), we describe three consequences of the center-of-mass constraint in periodic boundary conditions: the equipartition theorem no longer holds for unequal masses, the ratio of the average relative velocity to the average velocity is increased by a factor of [N/(N–1)]^1/2, and the ratio of average collision energy to average kinetic energy is …

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Microfabrication And Evaluation Of Planar Thin-Film Microfluidic Devices, Bridget Ann Peeni Oct 2006

Microfabrication And Evaluation Of Planar Thin-Film Microfluidic Devices, Bridget Ann Peeni

Theses and Dissertations

Over the past 15 years, research in the field of microfluidics has rapidly gained popularity. By seeking to miniaturize and automate separation-based analysis, microfluidic research seeks to improve current methods through decreased cost, analysis time, and sources of contamination. My work has focused on developing a novel fabrication method, based on standard microfabrication techniques, to create thin-film microfluidic devices. This microfabrication format makes it possible to generate devices that provide high efficiencies, enable mass fabrication, and provide a platform capable of integrating the microfluidic and electronic components necessary for a micro-total analysis system (μ-TAS). Device fabrication combines the processes of …

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Effects Of Gap Open And Gap Extension Penalties, Hyrum Carroll, Mark J. Clement, Perry Ridge, Quinn O. Snell Oct 2006

Effects Of Gap Open And Gap Extension Penalties, Hyrum Carroll, Mark J. Clement, Perry Ridge, Quinn O. Snell

Faculty Publications

Fundamental to multiple sequence alignment algorithms is modeling insertions and deletions (gaps). The most prevalent model is to use gap open and gap extension penalties. While gap open and gap extension penalties are well understood conceptually, their effects on multiple sequence alignment, and consequently on phylogeny scores are not as well understood. We use exhaustive phylogeny searching to explore the effects of varying the gap open and gap extension penalties for three nuclear ribosomal data sets. Particular attention is given to optimal phylogeny scores for 200 alignments of a range of gap open and gap extension penalties and their respective …

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Pharmacogenomics: Analyzing Snps In The Cyp2d6 Gene Using Amino Acid Properties, Wesley A. Beckstead, Mark J. Clement, Mark Ebbert, David Mcclellan, Timothy O'Connor Oct 2006

Pharmacogenomics: Analyzing Snps In The Cyp2d6 Gene Using Amino Acid Properties, Wesley A. Beckstead, Mark J. Clement, Mark Ebbert, David Mcclellan, Timothy O'Connor

Faculty Publications

Each year people suffer from complications of adverse drug reactions, but with pharmacogenomics there is hope to prevent thousands of these people from suffering or dying needlessly. The CYP2D6 gene is responsible for metabolizing a large portion of these drugs. Because of the gene’s importance, various approaches have been taken to analyze CYP2D6 and single nucleotide polymorphisms (SNPs) throughout its sequence. This study introduces a novel method to analyze the effects of SNPs on encoded protein complexes by focusing on the biochemical properties of each nonsynonymous substitution using the program TreeSAAP. We apply this technique to SNPs found in the …

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Large Grain Size Stochastic Optimization Alignment, Hyrum Carroll, Mark J. Clement, Perry Ridge, Dan Sneddon, Quinn O. Snell Oct 2006

Large Grain Size Stochastic Optimization Alignment, Hyrum Carroll, Mark J. Clement, Perry Ridge, Dan Sneddon, Quinn O. Snell

Faculty Publications

DNA sequence alignment is a critical step in identifying homology between organisms. The most widely used alignment program, ClustalW, is known to suffer from the local minima problem, where suboptimal guide trees produce incorrect gap insertions. The optimization alignment approach, has been shown to be effective in combining alignment and phylogenetic search in order to avoid the problems associated with poor guide trees. The optimization alignment algorithm operates at a small grain size, aligning each tree found, wasting time producing multiple sequence alignments for suboptimal trees. This research develops and analyzes a large grain size algorithm for optimization alignment that …

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Studies On Cyclooxygenase-1, Its Structure And Splice Variants, And Modulation Of Cyclooxygenase-2 By Inducible Nitric Oxide Synthase And Novel Phytochemicals., Yibing Xu Sep 2006

Studies On Cyclooxygenase-1, Its Structure And Splice Variants, And Modulation Of Cyclooxygenase-2 By Inducible Nitric Oxide Synthase And Novel Phytochemicals., Yibing Xu

Theses and Dissertations

Cyclooxygenases (COXs) are of important therapeutic value as they are the target site of aspirin-like drugs. Here I report nine new COX-1 splice variants in chapter 1, which I characterized with regard to heme-binding and other properties. Inducible NO synthase (iNOS) and cyclooxygenase-2 (COX-2) are co-inducible in many tissues following mitogenic and proinflammatory stimulation. In chapter 2, I investigate the physical and enzymatic properties of human COX-2 and iNOS and demonstrate that, despite reports to the contrary by another laboratory, they do not interact. The only reported COX-1 splice variant to exhibit cyclooxygenase activity has been isolated from …

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Detection Of A Landslide Glide Plane Using Seismic Reflection Methods: Investigation At Little Valley Landslide In Draper, Utah, Brady E. Tingey Sep 2006

Detection Of A Landslide Glide Plane Using Seismic Reflection Methods: Investigation At Little Valley Landslide In Draper, Utah, Brady E. Tingey

Theses and Dissertations

An integration of geological and geophysical techniques has been used to characterize the internal structure of the Little Valley Landslide in Draper, Utah, USA. The Little Valley Landslide is a pre-historic landslide as old as 13ka B.P. It is found to consist of chaotic and disturbed weathered volcanic units derived from Tertiary age volcanics that comprise a great portion of the Wasatch Range. Geotechnical investigations that were integrated with the geophysical results included excavation of trenches and drilling of boreholes. Geophysical methods, in particular high-resolution seismic data, were used to provide a framework for interpreting the geotechnical observations. High-resolution seismic …

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Improving Error Discovery Using Guided Model Checking, Neha Shyam Rungta Sep 2006

Improving Error Discovery Using Guided Model Checking, Neha Shyam Rungta

Theses and Dissertations

State exploration in directed software model checking is guided using a heuristic function to move states near errors to the front of the search queue. Distance heuristic functions rank states based on the number of transitions needed to move the current program state into an error location. Lack of calling context information causes the heuristic function to underestimate the true distance to the error; however, inlining functions at call sites in the control flow graph to capture calling context leads to exponential growth in the computation. This paper presents a new algorithm that implicitly inlines functions at call sites to …

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Digital Roots Of Human Relations: Enabling Technologies For Family History And Genealogical Research, William A. Barrett Sep 2006

Digital Roots Of Human Relations: Enabling Technologies For Family History And Genealogical Research, William A. Barrett

Faculty Publications

Flowing out of a Computer Science research lab on the third floor of the Talmage Building is a wellspring of enabling technologies for family history and genealogical research. Here, computer science students, working under the direction of Dr. Tom Sederberg and Dr. Bill Barrett are creating software tools to help individuals with their family history research so that people everywhere can seek out their ancestors and perform vital ordinances in their behalf, as desired. These tools include visualization of an entire pedigree on a single (large) sheet of paper, the ability to automatically calculate if and how two or more …

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Fourier Spectroscopy Of Ultrashort Laser Pulses, Scott D. Bergeson, Justin Peatross Sep 2006

Fourier Spectroscopy Of Ultrashort Laser Pulses, Scott D. Bergeson, Justin Peatross

Faculty Publications

We describe a Fourier-transform spectrometer appropriate for use in an undergraduate optics laboratory. The modular design, which uses off-the-shelf equipment, is suitable for determining the spectra of ultrashort pulsed and continuous light sources. The spectrometer does not require equal step sizes for the motion of the mirror. An algorithm interpolates the phase of both a reference and an unknown light beam at equal intervals before performing the Fourier transform. The interferometer scan and the phase and spectral analysis are performed in a few seconds, making the apparatus a useful tool for teaching concepts of temporal coherence and Fourier spectroscopy.

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Detection Of Proteins By Two-Photon Excitation Of Native Fluorescence, Li Li Aug 2006

Detection Of Proteins By Two-Photon Excitation Of Native Fluorescence, Li Li

Theses and Dissertations

Proteins are of primary importance to the structure and function of all living cells. Study of proteins relies on the ability to separate a complex mixture so that individual proteins can be more easily processed by other techniques. Since protein samples often exist at low concentration in a small volume, the trend in chemical analysis is toward micro total analysis systems (µTAS) or lab-on-a-chip devices. Among µTAS separation methods, the relatively new electric field gradient focusing (EFGF) technique has shown potential. It focuses and separates analytes based on their electrophoretic migration in an opposing hydrodynamic flow. The detection principles that …

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Sound Absorption And Sound Power Measurements In Reverberation Chambers Using Energy Density Methods, David B. Nutter Aug 2006

Sound Absorption And Sound Power Measurements In Reverberation Chambers Using Energy Density Methods, David B. Nutter

Theses and Dissertations

Measurements in a reverberation chamber use spatially averaged squared pressure to calculate sound absorption, sound power, and other sound measurements. While a reverberation chamber provides an approximation of a diffuse sound field, variations in the measurements introduce uncertainty in measurement results. Room qualification procedures require a sufficient number of source-receiver locations to obtain suitable measurements. The total acoustic energy density provides greater spatial uniformity than squared pressure, which requires fewer source-receiver positions to produce similar or better accuracy in measurement results. This paper explores the possibility of using energy density in place of squared pressure, using methods outlined in current …

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Feedback Applications In Active Noise Control For Small Axial Cooling Fans, Matthew J. Green Aug 2006

Feedback Applications In Active Noise Control For Small Axial Cooling Fans, Matthew J. Green

Theses and Dissertations

Feedback active noise control (ANC) has been applied as a means of attenuating broadband noise from a small axial cooling fan. Such fans are used to maintain thermal stability inside of computers, projectors, and other office equipment and home appliances. The type of low-level noise radiated from axial cooling fans has been classified as harmful to productivity and human well being. Previous research has successfully implemented feed-forward ANC, targeting specific narrow-band fan noise content related to the blade passage frequency (BPF) of the fan. The reference signal required for a feed-forward algorithm limits its ability to attenuate much of the …

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Mesoscopic Domain Average Engineering Simulations Of Ferroelectric Perovskites Compared With Multidomain Group Theoretical Predictions, Brandon J. Keith, Dorian M. Hatch Aug 2006

Mesoscopic Domain Average Engineering Simulations Of Ferroelectric Perovskites Compared With Multidomain Group Theoretical Predictions, Brandon J. Keith, Dorian M. Hatch

Faculty Publications

Engineered, multidomain ferroelectrics are of current interest for mechatronic and optical applications. Previously [D. M. Hatch et al., J. Appl. Phys. 94, 5220 (2003)], we presented a set of tables/symmetry rules showing all possible domain average engineered multidomain structures arising from [100]-, [110]-, and [111]-ordering ferroelectric transitions from a Pm[overline 3]m perovskite structure. In this work we test those predictions against three-dimensional mesoscopic fast quench simulations under various electric/stress field combinations and find excellent agreement with multidomain group theory. These simulations use a Langevin strain-displacement/polarization evolution strategy and are important to developing processing conditions for materials with precise domain structures.

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Vision-Based Rendering: Using Computational Stereo To Actualize Ibr View Synthesis, Kevin L. Steele Aug 2006

Vision-Based Rendering: Using Computational Stereo To Actualize Ibr View Synthesis, Kevin L. Steele

Theses and Dissertations

Computer graphics imagery (CGI) has enabled many useful applications in training, defense, and entertainment. One such application, CGI simulation, is a real-time system that allows users to navigate through and interact with a virtual rendition of an existing environment. Creating such systems is difficult, but particularly burdensome is the task of designing and constructing the internal representation of the simulation content. Authoring this content on a computer usually requires great expertise and many man-hours of labor. Computational stereo and image-based rendering offer possibilities to automatically create simulation content without user assistance. However, these technologies have largely been limited to creating …

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Understanding Dc-Bias Sputtered Thorium Oxide Thin Films Useful In Euv Optics, William R. Evans, Sarah C. Barton, Michael Clemens, David D. Allred Aug 2006

Understanding Dc-Bias Sputtered Thorium Oxide Thin Films Useful In Euv Optics, William R. Evans, Sarah C. Barton, Michael Clemens, David D. Allred

Faculty Publications

We use spectroscopic ellipsometry to determine the optical constants of seven thin-film ThO2 samples deposited by radio-frequency sputtering, thickness ranging between 24 and 578 nm, for the spectral range of 1.2 to 6.5. We used a hollow-cathode light source and vacuum monochromator to measure constants at 10.2 eV. None of the deposition parameters studied including DC-bias voltages successfully increased the n of (that is, densify) thoria films. The value of n at 3.0 eV is 1.86 ± 0.04. We find compelling evidence to conclude that the direct bad gap is at ~5.9 eV, clarifying the results of others, some of …

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Sources Of Variability In A Proteomic Experiment, Scott Daniel Crawford Aug 2006

Sources Of Variability In A Proteomic Experiment, Scott Daniel Crawford

Theses and Dissertations

The study of proteomics holds the hope for detecting serious diseases earlier than is currently possible by analyzing blood samples in a mass spectrometer. Unfortunately, the statistics involved in comparing a control group to a diseased group are not trivial, and these difficulties have led others to incorrect decisions in the past. This paper considers a nested design that was used to quantify and identify the sources of variation in the mass spectrometer at BYU, so that correct conclusions can be drawn from blood samples analyzed in proteomics. Algorithms were developed which detect, align, correct, and cluster the peaks in …

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Ferritin: Mechanistic Studies And Electron Transfer Properties, Bo Zhang Aug 2006

Ferritin: Mechanistic Studies And Electron Transfer Properties, Bo Zhang

Theses and Dissertations

Ferritins are ubiquitous iron storage proteins in living systems. Although much is known about the iron deposition process in ferritin and a mechanism has been developed, several important issues still remain unknown. One lingering question is the less than stoichiometric quantities of hydrogen peroxide detected in previous studies on animal ferritins. Extensive experimental data on identifying the species in competition for peroxide equivalents point to a surprising conclusion that H2O2 generated in the ferroxidase reaction is consumed by amine buffers that are commonly employed in in vitro ferritin studies, while non-nitrogen containing buffers, such as acetate, phosphate, and carbonate, do …

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Structure-Activity Studies Of Glycosphingolipids As Antigens Of Natural Killer T Cells, Randal Donald Goff Jul 2006

Structure-Activity Studies Of Glycosphingolipids As Antigens Of Natural Killer T Cells, Randal Donald Goff

Theses and Dissertations

Glycosphingolipids (GSLs), composed of a polar saccharide head and a lipophilic ceramide tail, are ubiquitous components of the plasma membrane of eukaryotic cells. They serve in many regulatory capacities and have antigenic properties towards natural killer T (NKT) cells of the innate immune system. Critical to the recognition of glycosylceramides by NKT cells are antigen presenting cells (APC), such as dendritic cells, which are responsible for binding, processing, and delivery of ligands to these lymphocytes. This event is mediated by CD1d, a major histocompatibility complex-like protein expressed on the surface of APCs, which binds GSL antigens by the ceramide moiety …

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