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Old Dominion University

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2011

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Articles 1 - 30 of 107

Full-Text Articles in Physical Sciences and Mathematics

Production And Fate Of Transparent Exopolymer Particles In The Ocean, Oliver Wurl, Lisa Miller, Svein Vagle Dec 2011

Production And Fate Of Transparent Exopolymer Particles In The Ocean, Oliver Wurl, Lisa Miller, Svein Vagle

OES Faculty Publications

The production and fate of transparent exopolymer particles (TEP) have been investigated in various oceanic regions (tropical, temperate, and polar), from the sea surface microlayer (SML) to the deep ocean. Accumulation of TEP within the mixed layer was observed even in the absence of phytoplankton blooms, indicating abiotic processes are important in TEP production. The abiotic TEP aggregation rates measured in the tropical and temperate North Pacific and the Arctic Ocean averaged between 8 and 12 μmol C L-1 d-1. Depth profiles from under sea ice in the Arctic revealed the highest TEP concentrations, potentially released by …

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Use Of Optimal Control Models To Predict Treatment Time For Managing Tick-Borne Disease, Holly D. Gaff, Elsa Schaefer, Suzanne Lenhart Sep 2011

Use Of Optimal Control Models To Predict Treatment Time For Managing Tick-Borne Disease, Holly D. Gaff, Elsa Schaefer, Suzanne Lenhart

Biological Sciences Faculty Publications

Tick-borne diseases have been on the rise recently, and correspondingly, there is an increased interest in implementing control measures to decrease the risk. Optimal control provides an ideal tool to identify the best method for reducing risk while accounting for the associated costs. Using a previously published model, a variety of frameworks are assessed to identify the key factors influencing mitigation strategies. The level and duration of tick-reducing efforts are key metrics for understanding the successful reduction in tick-borne disease incidence. The results show that the punctuated nature of the tick's life history plays a critical role in reducing risk …

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Application Of A Gene-Based Population Dynamics Model To The Optimal Egg Size Problem: Why Do Bivalve Planktotrophic Eggs Vary In Size?, Eric N. Powell, Jason Morson, John M. Klinck Aug 2011

Application Of A Gene-Based Population Dynamics Model To The Optimal Egg Size Problem: Why Do Bivalve Planktotrophic Eggs Vary In Size?, Eric N. Powell, Jason Morson, John M. Klinck

CCPO Publications

The presumption is that egg quality influences larval survival and that egg size influences egg quality. Thus, larger eggs should be favored by selection. Counterweighing the tendency for egg size to increase is the number of eggs that can be produced if egg size remains small. We examine how egg size and egg number counterbalance in Crassostrea oysters, resulting in an average egg size near 50 mu m. Simulations imposing a diversity of ranges in larval survivorship-from little advantage for large eggs relative to small eggs to a great advantage-yield some anticipated outcomes in which genotypes generating larger eggs are …

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Variable Helper Effects, Ecological Conditions, And The Evolution Of Cooperative Breeding In The Acorn Woodpecker, Walter D. Koenig, Eric L. Walters, Joseph Haydock Aug 2011

Variable Helper Effects, Ecological Conditions, And The Evolution Of Cooperative Breeding In The Acorn Woodpecker, Walter D. Koenig, Eric L. Walters, Joseph Haydock

Biological Sciences Faculty Publications

The ecological conditions leading to delayed dispersal and helping behavior are generally thought to follow one of two contrasting scenarios: that conditions are stable and predictable, resulting in young being ecologically forced to remain as helpers (extrinsic constraints and the habitat saturation hypothesis), or that conditions are highly variable and unpredictable, leading to the need for helpers to raise young, at least when conditions are poor (intrinsic constraints and the hard life hypothesis). We investigated how variability in ecological conditions influences the degree to which helpers augment breeder fitness in the cooperatively breeding acorn woodpecker (Melanerpes formicivorus), a …

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Iron Limitation Of A Springtime Bacterial And Phytoplankton Community In The Ross Sea: Implications For Vitamin B12 Nutrition, Erin M. Bertrand, Mak A. Saito, Peter A. Lee, Robert B. Dunbar, Peter N. Sedwick, Giacomo R. Ditullio Aug 2011

Iron Limitation Of A Springtime Bacterial And Phytoplankton Community In The Ross Sea: Implications For Vitamin B12 Nutrition, Erin M. Bertrand, Mak A. Saito, Peter A. Lee, Robert B. Dunbar, Peter N. Sedwick, Giacomo R. Ditullio

OES Faculty Publications

The Ross Sea is home to some of the largest phytoplankton blooms in the Southern Ocean. Primary production in this system has previously been shown to be iron limited in the summer and periodically iron and vitamin B-12 colimited. In this study, we examined trace metal limitation of biological activity in the Ross Sea in the austral spring and considered possible implications for vitamin B-12 nutrition. Bottle incubation experiments demonstrated that iron limited phytoplankton growth in the austral spring while B-12, cobalt, and zinc did not. This is the first demonstration of iron limitation in a Phaeocystis antarctica-dominated, early …

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Stability Analysis And Application Of A Mathematical Cholera Model, Shu Liao, Jim Wang Jul 2011

Stability Analysis And Application Of A Mathematical Cholera Model, Shu Liao, Jim Wang

Mathematics & Statistics Faculty Publications

In this paper, we conduct a dynamical analysis of the deterministic cholera model proposed in [9]. We study the stability of both the disease-free and endemic equilibria so as to explore the complex epidemic and endemic dynamics of the disease. We demonstrate a real-world application of this model by investigating the recent cholera outbreak in Zimbabwe. Meanwhile, we present numerical simulation results to verify the analytical predictions.

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Preliminary Analysis Of An Agent-Based Model For A Tick-Borne Disease, Holly Gaff Apr 2011

Preliminary Analysis Of An Agent-Based Model For A Tick-Borne Disease, Holly Gaff

Biological Sciences Faculty Publications

Ticks have a unique life history including a distinct set of life stages and a single blood meal per life stage. This makes tick-host interactions more complex from a mathematical perspective. In addition, any model of these interactions must involve a significant degree of stochasticity on the individual tick level. In an attempt to quantify these relationships, I have developed an individual-based model of the interactions between ticks and their hosts as well as the transmission of tick-borne disease between the two populations. The results from this model are compared with those from previously published differential equation based population models. …

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A Novel Pulsed Corona Discharge Reactor Based On Surface Streamers For No Conversion From N2-O2 Mixture Gases, M. A. Malik, Karl H. Schoenbach Mar 2011

A Novel Pulsed Corona Discharge Reactor Based On Surface Streamers For No Conversion From N2-O2 Mixture Gases, M. A. Malik, Karl H. Schoenbach

Bioelectrics Publications

A novel pulsed corona discharge reactor is described which utilizes surface-plasma along insulating surfaces. The electrodes are comprised of a stainless steel wire anode of 150 µm diameter stretched along the surface of a glass sheet and two parallel aluminum strips as cathodes. An eight-stage Marx bank, which provides 60 ns, 40-45 kV monopolar pulses, was used to produce the surface streamers in nitrogen-oxygen mixtures at atmospheric pressure. With increasing oxygen content, the energy efficiency for NO2 and O3 synthesis was found to increase. The energy efficiency is almost the same for the surface-plasma and volume-plasma. However, the surface-plasma was …

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Analysis Of Interband, Intraband, And Plasmon Polariton Transitions In Silver Nanoparticle Films Via In Situ Real-Time Spectroscopic Ellipsometry, S. A. Little, R. W. Collins, S. Marsillac Mar 2011

Analysis Of Interband, Intraband, And Plasmon Polariton Transitions In Silver Nanoparticle Films Via In Situ Real-Time Spectroscopic Ellipsometry, S. A. Little, R. W. Collins, S. Marsillac

Electrical & Computer Engineering Faculty Publications

The dielectric function of Ag nanoparticle films, deduced from an analysis of in situ real-time spectroscopic ellipsometry (RTSE) measurements, is found to evolve with time during deposition in close consistency with the film structure, deduced in the same RTSE analysis. In the nucleation regime, the intraband dielectric function component is absent and plasmon polariton behavior dominates. Only at nuclei contact, does the intraband amplitude appear, increasing above zero. Both intraband and plasmon amplitudes coexist during surface smoothening associated with coalescence. The intraband relaxation time increases rapidly after surface smoothening is complete, also in consistency with the thin film structural evolution.

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The Us Southern Ocean Global Ocean Ecosystems Dynamics Program, Eileen E. Hofmann, John M. Klinck, Dan P. Costa, Kendra L. Daly, Joseph J. Torres Jan 2011

The Us Southern Ocean Global Ocean Ecosystems Dynamics Program, Eileen E. Hofmann, John M. Klinck, Dan P. Costa, Kendra L. Daly, Joseph J. Torres

CCPO Publications

The article presents information on the U.S. Southern Ocean Global Ocean Ecosystem Dynamics program (US SO GLOBEC). It was aimed at understanding the environmental and biological factors that contribute to enhanced Antarctic krill growth, reproduction, recruitment and survivorship, as well as the interactions between Antarctic krill and its predators and competitors. The highlights of US SO GLOBEC research are also discussed.

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Detection Of The 2010 Chilean Tsunami Using Satellite Altimetry, B. D. Hamlington, R. R. Leben, O. A. Godin, J. F. Legeais, E. Gica, V. V. Titov Jan 2011

Detection Of The 2010 Chilean Tsunami Using Satellite Altimetry, B. D. Hamlington, R. R. Leben, O. A. Godin, J. F. Legeais, E. Gica, V. V. Titov

CCPO Publications

Tsunamis are difficult to detect and measure in the open ocean because the wave amplitude is much smaller than it is closer to shore. An effective early warning system, however, must be able to observe an impending tsunami threat far away from the shore in order to provide the necessary lead-time for coastal inhabitants to find safety. Given the expansiveness of the ocean, sensors capable of detecting the tsunami must also have very broad areal coverage. The 2004 Sumatra-Andaman tsunami was definitively detected in the open ocean from both sea surface height and sea surface roughness measurements provided by satellite …

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Executable Architecture Research At Old Dominion University, Andreas Tolk, Johnny J. Garcia, Edwin A. Shuman Jan 2011

Executable Architecture Research At Old Dominion University, Andreas Tolk, Johnny J. Garcia, Edwin A. Shuman

Computational Modeling & Simulation Engineering Faculty Publications

Executable Architectures allow the evaluation of system architectures not only regarding their static, but also their dynamic behavior. However, the systems engineering community do not agree on a common formal specification of executable architectures. To close this gap and identify necessary elements of an executable architecture, a modeling language, and a modeling formalism is topic of ongoing PhD research. In addition, systems are generally defined and applied in an operational context to provide capabilities and enable missions. To maximize the benefits of executable architectures, a second PhD effort introduces the idea of creating an executable context in addition to the …

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Do We Need M&S Science?, Jose J. Padilla, Saikou Y. Diallo, Andreas Tolk Jan 2011

Do We Need M&S Science?, Jose J. Padilla, Saikou Y. Diallo, Andreas Tolk

VMASC Publications

No abstract provided.

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Editorial-The 2nd International Workshop On Modeling The Ocean (Iwmo-2010), Tal Ezer, Lie-Yauw Oey, Huijie Xue, Xiao Hua Wang Jan 2011

Editorial-The 2nd International Workshop On Modeling The Ocean (Iwmo-2010), Tal Ezer, Lie-Yauw Oey, Huijie Xue, Xiao Hua Wang

CCPO Publications

The formation of the International Workshop on Modeling the Ocean (IWMO) in 2009 has been motivated by the rapid growth in ocean modeling research around the world. In particular, the spread of ocean modeling research in Asia during recent years and the establishment of many international collaborative modeling projects led to the first meeting, IWMO-2009, which was held in Taipei, Taiwan, 23–26 February 2009 (see the two special issues resulted from this meeting: Oey et al. 2010a, b). The second meeting (IWMO-2010; http://www.ccpo.odu.edu/∼tezer/ IWMO_2010/) was hosted by the Center for Coastal Physical Oceanography at Old Dominion University in Norfolk, VA, …

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Florida Straits Deglacial Temperature And Salinity Change: Implications For Tropical Hydrologic Cycle Variability During The Younger Dryas, Matthew W. Schmidt, Jean Lynch-Stieglitz Jan 2011

Florida Straits Deglacial Temperature And Salinity Change: Implications For Tropical Hydrologic Cycle Variability During The Younger Dryas, Matthew W. Schmidt, Jean Lynch-Stieglitz

OES Faculty Publications

The prevailing paradigm of abrupt climate change holds that rapid shifts associated with the most extreme climate swings of the last glacial cycle were forced by changes in the strength and northward extension of Atlantic Meridional Overturning Circulation (AMOC), resulting in an abrupt reorganization of atmospheric circulation patterns with global teleconnections. To determine the timing of tropical Atlantic atmospheric circulation changes over the past 21 ka BP, we reconstruct high resolution sea surface temperature and δ18OSW (a proxy for surface salinity) records based on Mg/Ca ratios and oxygen isotope measurements in the planktonic foraminifera Globigerinoides ruber from …

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The Influence Of Pressure Relaxation On The Structure Of An Axial Vortex, Robert L. Ash, Irfan Zardadkhan, Allan J. Zuckerwar Jan 2011

The Influence Of Pressure Relaxation On The Structure Of An Axial Vortex, Robert L. Ash, Irfan Zardadkhan, Allan J. Zuckerwar

Mechanical & Aerospace Engineering Faculty Publications

Governing equations including the effects of pressure relaxation have been utilized to study an incompressible, steady-state viscous axial vortex with specified far-field circulation. When sound generation is attributed to a velocity gradient tensor-pressure gradient product, the modified conservation of momentum equations that result yield an exact solution for a steady, incompressible axial vortex. The vortex velocity profile has been shown to closely approximate experimental vortex measurements in air and water over a wide range of circulation-based Reynolds numbers. The influence of temperature and humidity on the pressure relaxation coefficient in air has been examined using theoretical and empirical approaches, and …

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A Cell Electrofusion Microfluidic Device Integrated With 3d Thin-Film Microelectrode Arrays, Ning Hu, Jun Yang, Shizhi Qian, Sang W. Joo, Xiaolin Zheng Jan 2011

A Cell Electrofusion Microfluidic Device Integrated With 3d Thin-Film Microelectrode Arrays, Ning Hu, Jun Yang, Shizhi Qian, Sang W. Joo, Xiaolin Zheng

Mechanical & Aerospace Engineering Faculty Publications

A microfluidic device integrated with 3D thin film microelectrode arrays wrapped around serpentine-shaped microchannel walls has been designed, fabricated and tested for cell electrofusion. Each microelectrode array has 1015 discrete microelectrodes patterned on each side wall, and the adjacent microelectrodes are separated by coplanar dielectric channel wall. The device was tested to electrofuse K562 cells under a relatively low voltage. Under an AC electric field applied between the pair of the microelectrode arrays, cells are paired at the edge of each discrete microelectrode due to the induced positive dielectrophoresis. Subsequently, electric pulse signals are sequentially applied between the microelectrode arrays …

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Computational Network Analysis Of The Anatomical And Genetic Organizations In The Mouse Brain, Shuiwang Ji Jan 2011

Computational Network Analysis Of The Anatomical And Genetic Organizations In The Mouse Brain, Shuiwang Ji

Computer Science Faculty Publications

Motivation: The mammalian central nervous system (CNS) generates high-level behavior and cognitive functions. Elucidating the anatomical and genetic organizations in the CNS is a key step toward understanding the functional brain circuitry. The CNS contains an enormous number of cell types, each with unique gene expression patterns. Therefore, it is of central importance to capture the spatial expression patterns in the brain. Currently, genome-wide atlas of spatial expression patterns in the mouse brain has been made available, and the data are in the form of aligned 3D data arrays. The sheer volume and complexity of these data pose significant challenges …

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Vehicular Ad Hoc Networks, Syed R. Rizvi, Stephan Olariu, Christina M. Oinotti, Shaharuddin Salleh, Mona E. Rizvi, Zainab Zaidi Jan 2011

Vehicular Ad Hoc Networks, Syed R. Rizvi, Stephan Olariu, Christina M. Oinotti, Shaharuddin Salleh, Mona E. Rizvi, Zainab Zaidi

Computer Science Faculty Publications

(First paragraph) Vehicular ad hoc networks (VANETs) have recently been proposed as one of the promising ad hoc networking techniques that can provide both drivers and passengers with a safe and enjoyable driving experience. VANETs can be used for many applications with vehicle-to-vehicle (V2V) and vehicle-to-infrastructure (V2I) communications. In the United States, motor vehicle traffic crashes are the leading cause of death for all motorists between two and thirty-four years of age. In 2009, the National Highway Traffic Safety Administration (NHTSA) reported that 33,808 people were killed in motor vehicle traffic crashes. The US Department of Transportation (US-DOT) estimates that …

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From Isotropic To Anisotropic Side Chain Representations: Comparison Of Three Models For Residue Contact Estimation, Weitao Sun, Jing He Jan 2011

From Isotropic To Anisotropic Side Chain Representations: Comparison Of Three Models For Residue Contact Estimation, Weitao Sun, Jing He

Computer Science Faculty Publications

The criterion to determine residue contact is a fundamental problem in deriving knowledge-based mean-force potential energy calculations for protein structures. A frequently used criterion is to require the side chain center-to-center distance or the C-alpha-to-C-alpha atom distance to be within a pre-determined cutoff distance. However, the spatially anisotropic nature of the side chain determines that it is challenging to identify the contact pairs. This study compares three side chain contact models: the Atom Distance criteria (ADC) model, the Isotropic Sphere Side chain (ISS) model and the Anisotropic Ellipsoid Side chain (AES) model using 424 high resolution protein structures in the …

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User Experiments Of A Social, Faceted Multimedia Classification System, Liuliu Fu, Kurt Maly, Elizabeth Rasnick, Harris Wu, Mohammad Zubair Jan 2011

User Experiments Of A Social, Faceted Multimedia Classification System, Liuliu Fu, Kurt Maly, Elizabeth Rasnick, Harris Wu, Mohammad Zubair

Computer Science Faculty Publications

Internet document sharing systems such as Flickr store billions of user-contributed images. Many collections on the Web contain large numbers of multimedia objects such as images. While such systems are designed to encourage user contributions and sharing, they are not well-organized collections on any given subject and are not easy to browse for specific subject matters. We have built a system that systematically organizes a large multimedia collection into an evolving faceted classification. This paper discusses the evaluation of such a system through a number of usage studies in a university setting.

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Towards An Integrated Multiscale Simulation Of Turbulent Clouds On Petascale Computers, Lian-Ping Wang, Orlando Ayala, Hossein Parishani, Wojciech W. Grabowski, Andrzej A. Wyszogrodzki, Zbigniew Piotrowski, Guang R. Gao, Chandra Kambhamettu, Xiaoming Li, Louis Rossi Jan 2011

Towards An Integrated Multiscale Simulation Of Turbulent Clouds On Petascale Computers, Lian-Ping Wang, Orlando Ayala, Hossein Parishani, Wojciech W. Grabowski, Andrzej A. Wyszogrodzki, Zbigniew Piotrowski, Guang R. Gao, Chandra Kambhamettu, Xiaoming Li, Louis Rossi

Engineering Technology Faculty Publications

The development of precipitating warm clouds is affected by several effects of small-scale air turbulence including enhancement of droplet-droplet collision rate by turbulence, entrainment and mixing at the cloud edges, and coupling of mechanical and thermal energies at various scales. Large-scale computation is a viable research tool for quantifying these multiscale processes. Specifically, top-down large-eddy simulations (LES) of shallow convective clouds typically resolve scales of turbulent energy-containing eddies while the effects of turbulent cascade toward viscous dissipation are parameterized. Bottom-up hybrid direct numerical simulations (HDNS) of cloud microphysical processes resolve fully the dissipation-range flow scales but only partially the inertial …

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Meridional Shifts In The Marine Itcz And The Tropical Hydrologic Cycle Over The Last Three Glacial Cycles, Matthew W. Schmidt, Howard J. Spero Jan 2011

Meridional Shifts In The Marine Itcz And The Tropical Hydrologic Cycle Over The Last Three Glacial Cycles, Matthew W. Schmidt, Howard J. Spero

OES Faculty Publications

Paleoproxy studies show a strong correlation between tropical climate and high-latitude temperature variability recorded in the Greenland ice cores over the last glacial cycle. In particular, abrupt cooling events in the Greenland Ice Sheet Project II δ18O ice record appear synchronous with a southward migration of the Intertropical Convergence Zone (ITCZ) in the Atlantic, a weakening of the Indian and East Asian monsoon systems, and a strengthening of the South American monsoon system. Because this high-to-low-latitude climate teleconnection significantly alters the tropical hydrologic cycle around the globe, it plays a critical role in regulating global climate on glacial-interglacial …

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Lithospheric Control On The Spatial Pattern Of Azores Hotspot Seafloor Anomalies: Constraints From A Model Of Plume-Triple Junction Interaction, Jennifer E. Georgen Jan 2011

Lithospheric Control On The Spatial Pattern Of Azores Hotspot Seafloor Anomalies: Constraints From A Model Of Plume-Triple Junction Interaction, Jennifer E. Georgen

OES Faculty Publications

The Azores hotspot is located near a plate boundary triple junction (TJ) consisting of the Terceira Rift (TER) and two branches of the Mid-Atlantic Ridge (MAR). The seafloor expression of the Azores hotspot has a complex spatial pattern. Latitudinal anomalies in seafloor depth and other data along the MAR extend farther to the south of the inferred location of the mantle heterogeneity than to the north. Longitudinal anomalies span a greater distance to the east of the MAR (along the TER) than to the west. A finite element model is used to investigate how the divergence of three plates away …

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A Mini-Electrodialysis System For Desalting Small Volume Saline Samples For Fourier Transform Ion Cyclotron Resonance Mass Spectrometry, Hongmei Chen, Aron Stubbins, Patrick G. Hatcher Jan 2011

A Mini-Electrodialysis System For Desalting Small Volume Saline Samples For Fourier Transform Ion Cyclotron Resonance Mass Spectrometry, Hongmei Chen, Aron Stubbins, Patrick G. Hatcher

Chemistry & Biochemistry Faculty Publications

An affordable, commercially available mini-electrodialysis (mini-ED) system has been evaluated for the efficient desalting of small volume samples of seawater before analysis by electrospray Fourier transform ion cyclotron resonance mass spectrometry (ESI FT-ICR MS). Mini-ED FT-ICR mass spectra were compared with spectra for samples that were treated by C18 solid phase extraction, a commonly used method for rapid sample preparation for this type of analysis. In this comparison, it is clear that mini-ED provides more representative molecular information, compared with C18 isolation, and recovers the overwhelming majority of peaks from salt-free samples, indicating that it adequately represents the …

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Fourier Transform Mass Spectrometry For The Molecular Level Characterization Of Natural Organic Matter: Instrument Capabilities, Applications, And Limitations, Rachel L. Sleighter, Patrick G. Hatcher, Goran Nikolić (Ed.) Jan 2011

Fourier Transform Mass Spectrometry For The Molecular Level Characterization Of Natural Organic Matter: Instrument Capabilities, Applications, And Limitations, Rachel L. Sleighter, Patrick G. Hatcher, Goran Nikolić (Ed.)

Chemistry & Biochemistry Faculty Publications

No abstract provided.

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Reconstructing Sea Level Using Cyclostationary Empirical Orthogonal Functions, B. D. Hamlington, R. R. Leben, R. S. Nerem, W. Han, K.-Y. Kim Jan 2011

Reconstructing Sea Level Using Cyclostationary Empirical Orthogonal Functions, B. D. Hamlington, R. R. Leben, R. S. Nerem, W. Han, K.-Y. Kim

CCPO Publications

Cyclostationary empirical orthogonal functions, derived from satellite altimetry, are combined with historical sea level measurements from tide gauges to reconstruct sea level fields from 1950 through 2009. Previous sea level reconstructions have utilized empirical orthogonal functions as basis functions, but by using cyclostationary empirical orthogonal functions and by addressing other aspects of the reconstruction procedure, an alternative sea level reconstruction can be computed. The procedure introduced here is capable of capturing the annual cycle and El Nio-Southern Oscillation (ENSO) signals back to 1950, with correlations between the reconstructed ENSO signal and common ENSO indices found to be over 0.9. The …

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Analysis Of Biological Features Associated With Meiotic Recombination Hot And Cold Spots In Saccharomyces Cerevisiae, Loren Hansen, Nak-Kyeong Kim, Leonardo Mariño-Ramírez, David Landsman Jan 2011

Analysis Of Biological Features Associated With Meiotic Recombination Hot And Cold Spots In Saccharomyces Cerevisiae, Loren Hansen, Nak-Kyeong Kim, Leonardo Mariño-Ramírez, David Landsman

Mathematics & Statistics Faculty Publications

Meiotic recombination is not distributed uniformly throughout the genome. There are regions of high and low recombination rates called hot and cold spots, respectively. The recombination rate parallels the frequency of DNA double-strand breaks (DSBs) that initiate meiotic recombination. The aim is to identify biological features associated with DSB frequency. We constructed vectors representing various chromatin and sequence-based features for 1179 DSB hot spots and 1028 DSB cold spots. Using a feature selection approach, we have identified five features that distinguish hot from cold spots in Saccharomyces cerevisiae with high accuracy, namely the histone marks H3K4me3, H3K14ac, H3K36me3, and H3K79me3; …

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Behavior Constrains The Dispersal Of Long-Lived Spiny Lobster Larvae, Mark J. Butler Iv, Claire B. Paris, Jason S. Goldstein, Hirokazu Matsuda, Robert K. Cowen Jan 2011

Behavior Constrains The Dispersal Of Long-Lived Spiny Lobster Larvae, Mark J. Butler Iv, Claire B. Paris, Jason S. Goldstein, Hirokazu Matsuda, Robert K. Cowen

Biological Sciences Faculty Publications

Behavior such as ontogenetic vertical migration (OVM) limits the transport of marine larvae with short pelagic larval durations (PLDs), but its effect on the supposed long-distance dispersal of larvae with long PLDs is unknown. We conducted laboratory tests of ontogenetic change in larval phototaxis and examined size-specific patterns of larval distribution in the plankton to characterize OVM in the Caribbean spiny lobster Panulirus argus during its long (6 mo) PLD. We then used a coupled biophysical model to explore the consequences of OVM and hydrodynamics on larval P. argus dispersal in the Caribbean Sea. Larvae reared in the laboratory were …

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Unitary-Quantum-Lattice Algorithm For Two-Dimensional Quantum Turbulence, Bo Zhang, George Vahala, Linda L. Vahala, Min Soe Jan 2011

Unitary-Quantum-Lattice Algorithm For Two-Dimensional Quantum Turbulence, Bo Zhang, George Vahala, Linda L. Vahala, Min Soe

Electrical & Computer Engineering Faculty Publications

Quantum vortex structures and energy cascades are examined for two-dimensional quantum turbulence (2D QT) at zero temperature. A special unitary evolution algorithm, the quantum lattice algorithm, is employed to simulate the Bose-Einstein condensate governed by the Gross-Pitaevskii (GP) equation. A parameter regime is uncovered in which, as in 3D QT, there is a short Poincare recurrence time. It is demonstrated that such short recurrence times are destroyed by stronger nonlinear interaction. The similar loss of Poincare recurrence is also seen in the 3D GP equation. Various initial conditions are considered in an attempt to discern if 2D QT exhibits inverse …

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