Physical Sciences and Mathematics Commons^™

Force Chains As The Link Between Particle And Bulk Friction Angles In Granular Material, Adam M. Booth, Ryan Hurley, Michael P. Lamb, José E. Andrade

Geology Faculty Publications and Presentations

From sediment transport in rivers to landslides, predictions of granular motion rely on a Mohr-Coulomb failure criterion parameterized by a friction angle. Measured friction angles are generally large for single grains, smaller for large numbers of grains, and no theory exists for intermediate numbers of grains. We propose that a continuum of friction angles exists between single-grain and bulk friction angles due to grain-to-grain force chains. Physical experiments, probabilistic modeling, and discrete element modeling demonstrate that friction angles decrease by up to 15° as the number of potentially mobile grains increases from 1 to ~20. Decreased stability occurs as longer …

Optimizing Data Movement In Hybrid Analytic Systems, Patrick Michael Leyshock

Dissertations and Theses

Hybrid systems for analyzing big data integrate an analytic tool and a dedicated data-management platform, storing data and operating on the data at both components. While hybrid systems have benefits over alternative architectures, in order to be effective, data movement between the two hybrid components must be minimized. Extant hybrid systems either fail to address performance problems stemming from inter-component data movement, or else require the user to explicitly reason about and manage data movement. My work presents the design, implementation, and evaluation of a hybrid analytic system for array-structured data that automatically minimizes data movement between the hybrid components. …

Synthesis Of Irreversible Incompletely Specified Multi-Output Functions To Reversible Eosops Circuits With Pse Gates, Robert Adrian Fiszer

Dissertations and Theses

As quantum computers edge closer to viability, it becomes necessary to create logic synthesis and minimization algorithms that take into account the particular aspects of quantum computers that differentiate them from classical computers. Since quantum computers can be functionally described as reversible computers with superposition and entanglement, both advances in reversible synthesis and increased utilization of superposition and entanglement in quantum algorithms will increase the power of quantum computing.

One necessary component of any practical quantum computer is the computation of irreversible functions. However, very little work has been done on algorithms that synthesize and minimize irreversible functions into a …

The Nax Language: Unifying Functional Programming And Logical Reasoning In A Language Based On Mendler-Style Recursion Schemes And Term-Indexed Types, Ki Yung Ahn

Dissertations and Theses

Two major applications of lambda calculi in computer science are functional programming languages and mechanized reasoning systems (or, proof assistants). According to the Curry--Howard correspondence, it is possible, in principle, to design a unified language based on a typed lambda calculus for both logical reasoning and programming. However, the different requirements of programming languages and reasoning systems make it difficult to design such a unified language that provides both. Programming languages usually extend lambda calculi with programming-friendly features (e.g., recursive datatypes, general recursion) for supporting the flexibility to model various computations, while sacrificing logical consistency. Logical reasoning systems usually extend …

The Geology And Petrology Of Enigmatic Rhyolites At Graveyard And Gordon Buttes, Mount Hood Quadrangle, Oregon, Elizabeth G. Westby

Dissertations and Theses

Rhyolite lava flows are found at two dome complexes at Graveyard Butte and Gordon Butte, Mount Hood Quadrangle, Oregon. At Graveyard Butte, the White River has cut a winding canyon 150 m deep, exposing at its base, a 40-meter-thick outcrop of flow-banded rhyolite (73 wt.% SiO₂, 3.67±0.01 Ma) that laterally extends along the canyon wall for about 1 km. Stratigraphically above the flow-banded rhyolite is locally-erupted iron-rich andesites (lava flows, agglutinate and other pyroclastic rocks as well as clastic debris), a rhyolitic ash-flow tuff (74 wt.% SiO₂), and the 2.77±0.36 Ma tholeiitic basalt lava flows of …

Applications Of Remote Sensing To The Study Of Estuarine Physics: Suspended Sediment Dynamics In The Columbia River Estuary, Austin Scott Hudson

Dissertations and Theses

Estuarine circulation and its associated transport processes drive the environmental integrity of many near-shore habitats (the coastal ocean, rivers, estuaries and emergent wetlands). A thorough understanding and consideration of this circulation is, therefore, vital in the proper management of these habitats. The aim of this study is to bring together theory and new satellite observations in the Columbia River Estuary to increase our understanding of estuarine circulation and transport. Surface reflectance measurements gathered by the Moderate Imaging Spectroradiometer (MODIS) are first compared to in situ observations to develop an empirical model for remotely derived surface turbidity. Results indicate that MODIS …

New 4-Aminoquinoline Compounds To Reverse Drug Resistance In P. Falciparum Malaria, And A Survey Of Early European Antimalarial Treatments, Katherine May Liebman

Dissertations and Theses

Intermittent fevers caused by Plasmodium parasites have been known for millennia, and have caused untold human suffering. Today, millions of people are afflicted by malaria each year, and hundreds of thousands die. Historically, the most successful synthetic antimalarial drug was chloroquine, as it was safe, inexpensive, and highly efficacious. However, plasmodial resistance to chloroquine now greatly limits its utility. Previously in our laboratories it has been shown that attachment of a "reversal agent moiety" to the side chain of chloroquine can result in the restoration of activity against chloroquine-resistant strains of P. falciparum malaria. In the first part of the …

Strontium, Lead, And Oxygen Isotopic Signatures Of Mid-Miocene Silicic Volcanism In Eastern Oregon, Emily Nancy Hess

Dissertations and Theses

Widespread, mid-Miocene rhyolite volcanism of eastern Oregon that are coeval or slightly postdate flood basalts of the Columbia River Basalt Province allows for mapping crustal domains using radiogenic and stable isotopes. Rhyolites are thought to be derived in large part by partial melting of the crust and thus yield direct information on the composition of the crust. Silicic volcanism is expressed in the form of numerous domes and tuffs exposed over a wide area (~300 km in N-S dimension and ~200 km in E-W dimension) west of the presumed craton boundary, which runs parallel but mostly east of the Oregon-Idaho …

Chemical And Petrographic Survey Of Large, Igneous-Textured Inclusions In Ordinary Chondrites, Katherine Armstrong

Dissertations and Theses

Our inventory of material from the early solar system includes large, igneous-textured inclusions in O chondrites, whose origin and relationship to their host meteorite is unclear. These inclusions occur in approximately 4% of O chondrites, and are mineralogically, petrographically, and chemically diverse. Petrographic and chemical data from 29 inclusions from 23 host meteorites were collected with optical light and scanning electron microscopy, allowing for the determination of major phase modal abundance and major element bulk chemistry. No correlation between any inclusion property and host meteorite type were found, but some trends were observed. Nine of the inclusions show strong evidence, …

Ensemble Prediction And Data Assimilation For Operational Hydrology, Dong-Jun Seo, Yuqiong Liu, Hamid Moradkhani, Albrecht Weerts

Civil and Environmental Engineering Faculty Publications and Presentations

This special section in the Journal of Hydrology will discuss the need for advancing hydrologic ensemble prediction and DA.

Earthquake And Tsunami Forecasts: Relation Of Slow Slip Events To Subsequent Earthquake Rupture, Timothy H. Dixon, Yan Jiang, Rocco Malservisi, Robert Mccaffrey, Nicholas Voss, Marino Protti, Victor Gonzalez

Geology Faculty Publications and Presentations

The 5 September 2012 Mw 7.6 earthquake on the Costa Rica subduction plate boundary followed a 62-y interseismic period. High-precision GPS recorded numerous slow slip events (SSEs) in the decade leading up to the earthquake, both up-dip and down-dip of seismic rupture. Deeper SSEs were larger than shallower ones and, if characteristic of the interseismic period, release most locking down-dip of the earthquake, limiting down-dip rupture and earthquake magnitude. Shallower SSEs were smaller, accounting for some but not all interseismic locking. One SSE occurred several months before the earthquake, but changes in Mohr–Coulomb failure stress were probably too small to …

Charge On Luminous Bodies Resembling Natural Ball Lightning Produced Via Electrical Arcs Through Lump Silicon, Christina L. Porter, Galen P. Miley, David J. Griffiths, Erik J. Sánchez

Physics Faculty Publications and Presentations

A phenomenon resembling natural ball lightning can be produced via electrical arcing through silicon. We use lump silicon instead of silicon wafers to achieve higher production rates and larger, longer-lived luminous balls than previously reported. The luminous balls consist of a silicon core surrounded by a porous network of loosely bound silicon dioxide nanoparticles. We find that the balls carry a small net charge on the order of 10−12 C and propose that the nanoparticles are electrostatically bound to the core due to this charge.

2014 Aquatic Weed Surveys In Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, And Estacada Lake, Rich Miller, Mark D. Sytsma, Jeffrey Thomas Brittain

Center for Lakes and Reservoirs Publications and Presentations

The Clackamas River Hydroelectric Project No. 2195 (Project) is located on the Oak Grove Fork of the Clackamas River and the mainstem of the Clackamas River in Clackamas County, Oregon. Reservoirs included in the Project include Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, and Estacada Lake. The operator of the Project, Portland General Electric (PGE), was issued a license on December 21, 2010 by the Federal Energy Regulatory Commission (FERC) for continued operations and maintenance. The Final Environmental Impact Statement (FEIS) for the license noted that regular surveys for invasive aquatic weed species would be conducted as part …

Selective Indicators For Optical Determination Of Disease Biomarkers, Lovemore Hakuna

Dissertations and Theses

The most abundant biological thiols, homocysteine (Hcy), cysteine (Cys) and glutathione (GSH) have been the subject of intense research due to their association with a wide range of diseases. They play a key role in maintaining the redox status of biological systems. Selective detection methods for these thiols are challenging due to their similar structures and properties. Current commercially available detection methods use separations, fragile and expensive enzymatic or immunogenic materials and complex instrumentation. This has led to a global effort towards developing simple and inexpensive optical probes and indicators selective for specific biological thiols.

Highly selective chemical probes and …

Hydrogeology Of Pumice-Hosted Fens In The Winema-Fremont National Forest, Oregon, Usa, Michael L. Cummings, Jonathan Michael Weatherford, Leslie A. Mowbray

Geology Faculty Publications and Presentations

Subaerial fallout from the Holocene eruption of Mount Mazama in the Oregon Cascade Range was deposited upon relatively low permeability volcanic and volcaniclastic bedrock and regolith. In the Walker Rim study area, erosion by ephemeral streams shortly after the eruption disrupted the lateral continuity of the 270 to 300 cm-thick pumice deposit. Co-evolution of the surface- and ground-water systems in a low-relief, low-slope landscape allowed diffuse groundwater discharge from the banks of the evolving stream system. Accumulation of organic material from groundwater dependent ecosystems at these sites of discharge allowed peat deposits to form on gently sloping erosion surfaces cut …

Spring Thaw Ionic Pulses Boost Nutrient Availability And Microbial Growth In Entombed Antarctic Dry Valley Cryoconite Holes, Jon Telling, Alexandre M. Anesio, Martyn Tranter, Andrew G. Fountain, Thomas H. Nylen, Jon Hawkings, Virendra B. Singh, Preeti Kaur, Michaela Musilova, Jemma L. Wadham

Geology Faculty Publications and Presentations

The seasonal melting of ice entombed cryoconite holes on McMurdo Dry Valley glaciers provides oases for life in the harsh environmental conditions of the polar desert where surface air temperatures only occasionally exceed 0°C during the Austral summer. Here we follow temporal changes in cryoconite hole biogeochemistry on Canada Glacier from fully frozen conditions through the initial stages of spring thaw toward fully melted holes. The cryoconite holes had a mean isolation age from the glacial drainage system of 3.4 years, with an increasing mass of aqueous nutrients (dissolved organic carbon, total nitrogen, total phosphorus) with longer isolation age. During …

Extended Necessary Condition For Local Operations And Classical Communication: Tight Bound For All Measurements, Scott M. Cohen

Physics Faculty Publications and Presentations

We give a necessary condition that a separable measurement can be implemented by local quantum operations and classical communication (LOCC) in any finite number of rounds of communication, generalizing and strengthening a result obtained previously. That earlier result involved a bound that is tight when the number of measurement operators defining the measurement is relatively small. The present results generalize that bound to one that is tight for any finite number of measurement operators, and we also provide an extension which holds when that number is infinite. We apply these results to the famous example on a 3 × 3 …

Damage And Alteration Of Mangroves Inhabited By A Marine Wood-Borer, Timothy Mathias Davidson, Catherine E. De Rivera, Hwey-Lian Hsieh

Environmental Science and Management Faculty Publications and Presentations

Animals can exert a strong influence on the structure and function of foundation species such as mangroves. Because mangroves live at the interface of land and sea, both terrestrial and marine species affect them, including numerous herbivores and boring species. These organisms can affect the fecundity, performance, and morphology of mangroves. In a mangrove stand in southwestern Taiwan, we discovered that mangroves were extensively damaged by woodboring isopods Sphaeroma terebrans. We examined the relationships between burrowing damage from S. terebrans and metrics of mangrove fecundity, performance, and morphology. Individuals of Rhizophora stylosa that were more burrowed by isopods had significantly …

Empirical Demonstration Of Environmental Sensing In Catalytic Rna: Evolution Of Interpretive Behavior At The Origins Of Life, Niles Lehman, Tess Bernhard, Brian C. Larson, Andrew J.N. Robinson, Christopher C.B. Southgate

Chemistry Faculty Publications and Presentations

Background: The origins of life on the Earth required chemical entities to interact with their environments in ways that could respond to natural selection. The concept of interpretation, where biotic entities use signs in their environment as proxy for the existence of other items of selective value in their environment, has been proposed on theoretical grounds to be relevant to the origins and early evolution of life. However this concept has not been demonstrated empirically.

Results: Here, we present data that certain catalytic RNA sequences have properties that would enable interpretation of divalent cation levels in their environment. …

The Distribution And Reproductive Success Of The Western Snowy Plover Along The Oregon Coast - 2014, David J. Lauten, Kathleen J. Castelein, J. Daniel Farrar, Adam A. Kotaich, Eleanor P. Gaines

Institute for Natural Resources Publications

We monitored the distribution, abundance and productivity of the federally threatened Western Snowy Plover (Charadrius nivosus nivosus) along the Oregon coast from 1 April – 15 September 2014. From north to south, we surveyed and monitored plover activity at Sutton Beach, Siltcoos River estuary, the Dunes Overlook, North and South Tahkenitch Creek, Tenmile Creek, Coos Bay North Spit, Bandon Snowy Plover Management Area, New River HRA and adjacent lands, and Floras Lake. Our objectives in 2014 were to: 1) estimate the size of the adult Snowy Plover population along the Oregon coast, 2) locate plover nests, 3) determine …

Human Whole-Blood (1)H2o Longitudinal Relaxation With Normal And High-Relaxivity Contrast Reagents: Influence Of Trans-Cell-Membrane Water Exchange, Gregory J. Wilson, Mark Woods, Charles S. Springer Jr., Sarah Bastawrous, Puneet Bhargava, Jeffrey H. Maki

Chemistry Faculty Publications and Presentations

PURPOSE: Accurate characterization of contrast reagent (CR) longitudinal relaxivity in whole blood is required to predict arterial signal intensity in contrast-enhanced MR angiography (CE-MRA). This study measured the longitudinal relaxation rate constants (R₁ ) over a concentration range for non-protein-binding and protein-binding CRs in ex vivo whole blood and plasma at 1.5 and 3.0 Tesla (T) under physiologic arterial conditions.

METHODS: Relaxivities of gadoteridol, gadobutrol, gadobenate, and gadofosveset were measured for [CR] from 0 to 18 mM [mmol(CR)/L(blood)]: the latter being the upper limit of what may be expected in CE-MRA.

RESULTS: In plasma, the ¹H2 O R …

Confined Mesoscopic Fluid-Like Films Analyzed With Frequency Modulation And Acoustic Detection, Rodolfo Fernandez Rodriguez

Dissertations and Theses

Complete understanding of the physics underlying the changes in viscoelasticity, relaxation time, and phase transitions that mesoscopic fluid-like systems undergo at solid-liquid interfaces or under confinement remains one of the major challenges in condensed matter physics. Moreover, studies of confined mesoscopic fluid films are relevant to technological areas like adhesion, wetting processes and nanotribology.

This thesis addresses the interaction between two sliding solids interfaces separated by a nanometer sized gap, with emphasis on the role of the mesoscopic fluid film trapped between them. For this purpose we integrated two acoustic techniques, recently introduced by our group, into a sub-nanometer precision …

Modulation Of The Cardiac Calcium Release Channel By Homocysteine Thiolactone, Laura Jean Owen

Dissertations and Theses

Elevated levels in blood serum (≥10μmol/L) of the amino acid homocysteine is strongly correlated with the incidence of heart failure (HF). We present evidence that the cyclic thioester, homocysteine thiolactone (HTL), a metabolic product of homocysteine, irreversibly modifies proteins that regulate the contractile process in cardiac muscle. Two proteins found in the sarcoplasmic reticulum (SR), the Ca²⁺ pump (SERCA2), and the ryanodine receptor (RyR2), are responsible for controlling the cytosolic Ca²⁺ concentration and hence the contractile state of the heart. While both improper Ca²⁺ handling and elevated homocysteine levels have been considered bio-markers in HF, a direct …

Characterization And Modeling Of Nonlinear Dark Current In Digital Imagers, Justin Charles Dunlap

Dissertations and Theses

Dark current is an unwanted source of noise in images produced by digital imagers, the de facto standard of imaging. The two most common types of digital imager architectures, Charged-Coupled Devices (CCDs) and Complementary Metal-Oxide-Semiconductor (CMOS), are both prone to this noise source. To accurately reflect the information from light signals this noise must be removed. This practice is especially vital for scientific purposes such as in astronomical observations.

Presented in this dissertation are characterizations of dark current sources that present complications to the traditional methods of correction. In particular, it is observed that pixels in both CCDs and CMOS …

Mimicking Metabolism Of A Reversed Chloroquine Antimalarial, Kelsie Lynn Kendrick

Dissertations and Theses

The aim of this study was to elucidate the oxidation products of a candidate antimalarial drug, PL69, using a porphyrin system and to determine the accuracy of the oxidation products produced, as compared to what is expected in metabolism. PL69 is a reversed chloroquine (RCQ) that is active against chloroquine resistant malaria. Porphyrin oxidation systems have been shown to mimic in vitro enzymatic metabolism reactions. PL69 and its known metabolite, PL16, were incubated with the porphyrin system, and then the oxidation products were collected and separated by HPLC. The oxidation products were characterized by NMR and mass spectrometry and compared …

Physical, Chemical And Biological Assessment Of Yoncalla Log Ponds, Rich Miller, Mark D. Sytsma, Angela L. Strecker

Center for Lakes and Reservoirs Publications and Presentations

The Yoncalla Log Ponds are a series of four ponds located in within the city limits of the town in Yoncalla in northern Douglas County, Oregon. The ponds were created in stages between the late 1930s and the 1950s and used for log storage through the 1970s (North Douglas Betterment 2014). North Douglas Betterment purchased the land surrounding the ponds and contracted with the Center for Lakes and Reservoirs at Portland State University to assess the current morphometry, vegetation and water quality status of the ponds and provide recommendations for management of the aquatic vegetation. The scope of this document …

Efficacy Of Plastic Mesh Tubes In Reducing Herbivory Damage By The Invasive Nutria (Myocastor Coypus) In An Urban Restoration Site, Trevor R. Sheffels, Mark D. Sytsma, Jacoby Carter, Jimmy D. Taylor

Environmental Science and Management Faculty Publications and Presentations

The restoration of stream corridors is becoming an increasingly important component of urban landscape planning, and the high cost of these projects necessitates the need to understand and address potential ecological obstacles to project success. The nutria (Myocastor coypus) is an invasive, semi-aquatic rodent native to South America that causes detrimental ecological impacts in riparian and wetland habitats throughout its introduced range, and techniques are needed to reduce nutria herbivory damage to urban stream restoration projects. We assessed the efficacy of standard Vexar® plastic mesh tubes in reducing nutria herbivory damage to newly established woody plants. The study was conducted …

Reducing The Effects Of Shot Noise Using Nanoparticles, Moshood K. Morakinyo, Shankar B. Rananavare

Chemistry Faculty Publications and Presentations

We present a hybrid nano-lithographic approach to minimizes the effects of line edge roughness and shot noise in nano-hole patterning by reflowing photoresist polymers around the nanoparticles deposited using self-assembly and simple etch chemistries. The method extends the transistor contact holes patterning limits to below 20 nm.

Nonsmooth Algorithms And Nesterov's Smoothing Technique For Generalized Fermat-Torricelli Problems, Nguyen Mau Nam, Nguyen Thai An, R. Blake Rector, Jie Sun

Mathematics and Statistics Faculty Publications and Presentations

We present algorithms for solving a number of new models of facility location which generalize the classical Fermat--Torricelli problem. Our first approach involves using Nesterov's smoothing technique and the minimization majorization principle to build smooth approximations that are convenient for applying smooth optimization schemes. Another approach uses subgradient-type algorithms to cope directly with the nondifferentiability of the cost functions. Convergence results of the algorithms are proved and numerical tests are presented to show the effectiveness of the proposed algorithms.

Bicyclists' Uptake Of Traffic-Related Air Pollution: Effects Of The Urban Transportation System, Alexander Y. Bigazzi

Dissertations and Theses

While bicyclists and other active travelers obtain health benefits from increased physical activity, they also risk uptake of traffic-related air pollution. But pollution uptake by urban bicyclists is not well understood due to a lack of direct measurements and insufficient analysis of the determinants of exposure and ventilation (breathing). This knowledge gap impedes pollution-conscious transportation planning, design, and health impact assessment.

The research presented in this dissertation generates new connections between transportation system characteristics and pollution uptake by bicyclists. The primary research questions are: 1) how do urban bicyclists' intake and uptake of air pollution vary with roadway and travel …