Physical Sciences and Mathematics Commons^™

Use Of Artificial Enclosures To Determine The Survival Of Rana Pipiens Larvae In Upper Midwestern Agricultural Ponds, Joshua M. Kapfer, Mark B. Sandheinrich, Melinda G. Knutson

Journal of the Iowa Academy of Science: JIAS

Amphibians in the upper Midwest use agricultural ponds for breeding. Unfortunately, the risks (both direct and indirect) associated with using these ponds are poorly understood in both amphibian adults and larvae. In order to quantify these risks, we performed a comparison of larval survival rates between agricultural and natural ponds in southeastern Minnesota during the spring and summer of 2001. During this time, larval survival was observed in Rana pipiens tadpoles raised through metamorphosis in enclosures placed in agricultural and natural ponds. In addition, we measured the levels of nutrients commonly linked with agricultural ponds (i.e., ammonia, total phosphorous, and …

Knowledge Modeling And Its Application In Life Sciences: A Tale Of Two Ontologies, Satya S. Sahoo, Christopher Thomas, Amit P. Sheth, William S. York, Samir Tartir

Kno.e.sis Publications

High throughput glycoproteomics, similar to genomics and proteomics, involves extremely large volumes of distributed, heterogeneous data as a basis for identification and quantification of a structurally diverse collection of biomolecules. The ability to share, compare, query for and most critically correlate datasets using the native biological relationships are some of the challenges being faced by glycobiology researchers. As a solution for these challenges, we are building a semantic structure, using a suite of ontologies, which supports management of data and information at each step of the experimental lifecycle. This framework will enable researchers to leverage the large scale of glycoproteomics …

Raves, Clubs And Ecstasy: The Impact Of Peer Pressure, Baojun Song, Melissa Castillo-Garsow, Karen R. Ríos-Soto, Marcin Mejran, Leilani Henso, Carlos Castillo-Chavez

Department of Applied Mathematics and Statistics Faculty Scholarship and Creative Works

Ecstasy has gained popularity among young adults who frequent raves and nightclubs. The Drug Enforcement Administration reported a 500 percent increase in the use of ecstasy between 1993 and 1998. The number of ecstasy users kept growing until 2002, years after a national public education initiative against ecstasy use was launched. In this study, a system of differential equations is used to model the peer-driven dynamics of ecstasy use. It is found that backward bifurcations describe situations when sufficient peer pressure can cause an epidemic of ecstasy use. Furthermore, factors that have the greatest influence on ecstasy use as predicted …

The Curl Of A Vector Field: Beyond The Formula, Kimberly Jordan Burch, Youngna Choi

Department of Applied Mathematics and Statistics Faculty Scholarship and Creative Works

It has been widely acknowledged that there is some discrepancy in the teaching of vector calculus in mathematics courses and other applied fields. The curl of a vector field is one topic many students can calculate without understanding its significance. In this paper, we explain the origin of the curl after presenting the standard mathematical formulas. We investigate when and why a vector field yields an in-spot spin, also known as curl, and develop intuition to predict the sign of the curl of a vector field without calculating it. As an application of the curl, Stokes' theorem and its physical …

Seasonal And Spatial Patterns Of Metals At A Restored Copper Mine Site. I. Stream Copper And Zinc, Dustin G. Bambic, Charles N. Alpers, Peter G. Green, Eileen Fanelli, Wendy K. Silk

United States Geological Survey: Staff Publications

Seasonal and spatial variations in metal concentrations and pH were found in a stream at a restored copper mine site located near a massive sulfide deposit in the Foothill copper-zinc belt of the Sierra Nevada, California. At the mouth of the stream, copper concentrations increased and pH decreased with increased streamflow after the onset of winter rain and, unexpectedly, reached extreme values 1 or 2 months after peaks in the seasonal hydrographs. In contrast, aqueous zinc and sulfate concentrations were highest during low-flow periods. Spatial variation was assessed in 400 m of reach encompassing an acidic, metal-laden seep. At this …

Taxonomic Considerations In Listing Subspecies Under The U.S. Endangered Species Act, Susan M. Haig, Erik A. Beever, Steven M. Chambers, Hope M. Draheim, Bruce D. Dugger, Susie M. Dunham, Elise Elliott-Smith, Joseph B. Fontaine, Dylan C. Kesler, Brian J. Knaus, Iara F. Lopes, Pete Loschl, Thomas D. Mullins, Lisa M. Sheffield

United States Geological Survey: Staff Publications

The U.S. Endangered Species Act (ESA) allows listing of subspecies and other groupings below the rank of species. This provides the U.S. Fish and Wildlife Service and the National Marine Fisheries Service with a means to target the most critical unit in need of conservation. Although roughly one-quarter of listed taxa are subspecies, these management agencies are hindered by uncertainties about taxonomic standards during listing or delisting activities. In a review of taxonomic publications and societies, we found few subspecies lists and none that stated standardized criteria for determining subspecific taxa. Lack of criteria is attributed to a centuries-old debate …

By The Numbers, J. Michael Scott, Dale D. Goble, Leona K. Svancara, Anna Pidgorna

United States Geological Survey: Staff Publications

The current endangered species list has its administrative beginnings in 1964 when the Department of the Interior's Committee on Rare and Endangered Wildlife Species published a preliminary list of 62 species at risk of extinction (Goble, forthcoming). Following the enactment of the Endangered Species Preservation Act of 1966 (ESPA), the secretary of the interior in 1967 published the first official list of 78 "native fish and wildlife threatened with extinction" (ESPA sec. l(c); U.S. Department of the Interior 1967; Wilcove and McMillan, this volume). By the time the Endangered Species Act (ESA) was adopted in 1973, there were 392 species …

Breeding Biology And Success Of A Reintroduced Population Of The Critically Endangered Puaiohi (Myadestes Palmeri), Erik J. Tweed, Jeffrey T. Foster, Bethany L. Woodworth, William B. Monahan, Jherime L. Kellerman, Alan Lieberman

United States Geological Survey: Staff Publications

The ultimate success of reintroduction programs for endangered species depends on the ability of reintroduced animals to breed in the wild. We studied the nesting success and breeding biology of a reintroduced population of Puaiohi (Myadestes palmeri) on the island of Kaua‛i, Hawaii. Thirty-four captive-bred Puaiohi were released into the Alaka‛i Swamp in 1999–2001 and monitored using radiotelemetry. Ten females and two males paired with wild and other released birds, including one polygynous trio. From March to September, 31 nests were built. Mean clutch size was 2.0 eggs, daily nest survival was 0.97 ± 0.01 (mean ± SE) …

Design And Evaluation Of A Blast Ungapped Extension Accelerator, Master's Thesis, Joseph M. Lancaster

All Computer Science and Engineering Research

The amount of biosequence data being produced each year is growing exponentially. Extracting useful information from this massive amount of data is becoming an increasingly difficult task. This thesis focuses on accelerating the most widely-used software tool for analyzing genomic data, BLAST. This thesis presents Mercury BLAST, a novel method for accelerating searches through massive DNA databases. Mercury BLAST takes a streaming approach to the BLAST computation by offloading the performance-critical sections onto reconfigurable hardware. This hardware is then used in combination with the processor of the host system to deliver BLAST results in a fraction of the time of …

Automatic Application-Specific Customization Of Softcore Processor Microarchitecture, Masters Thesis, May 2006, Shobana Padmanabhan

All Computer Science and Engineering Research

Applications for constrained embedded systems are subject to strict runtime and resource utilization bounds. With soft core processors, application developers can customize the processor for their application, constrained by available hardware resources but aimed at high application performance. The more reconfigurable the processor is, the more options the application developers will have for customization and hence increased potential for improving application performance. However, such customization entails developing in-depth familiarity with all the parameters, in order to configure them effectively. This is typically infeasible, given the tight time-to-market pressure on the developers. Alternatively, developers could explore all possible configurations, but being …

Distributed Utilization Control For Real-Time Clusters With Load Balancing, Yong Fu, Hongan Wang, Chenyang Lu, Ramu S. Chandra

All Computer Science and Engineering Research

Recent years have seen rapid growth of online services that rely on large-scale server clusters to handle high volume of requests. Such clusters must adaptively control the CPU utilizations of many processors in order to maintain desired soft real-time performance and prevent system overload in face of unpredictable workloads. This paper presents DUC-LB, a novel distributed utilization control algorithm for cluster-based soft real-time applications. Compared to earlier works on utilization control, a distinguishing feature of DUC-LB is its capability to handle system dynamics caused by load balancing, which is a common and essential component of most clusters today. Simulation results …

A Theory Of Load Adjustments And Its Implications For Congestion Control, Sergey Gorinsky, Manfred Georg, Maxim Podlesny, Christoph Jechlitschek

All Computer Science and Engineering Research

Multiplicative Increase (MI), Additive Increase (AI), and Multiplicative Decrease (MD) are linear adjustments used extensively in networking. However, their properties are not fully understood. We analyze responsiveness (time for the total load to reach the target load), smoothness (maximal size of the total load oscillations after reaching the target load), fairing speed (speed of convergence to equal individual loads) and scalabilities of MAIMD algorithms, which generalize AIMD algorithms via optional inclusion of MI. We prove that an MAIMD can provide faster asymptotic fairing than a less smooth AIMD. Furthermore, we discover that loads under a specific MAIMD converge from any …

Design Issues Of Reserved Delivery Subnetworks, Doctoral Dissertation, May 2006, Ruibiao Qiu

All Computer Science and Engineering Research

The lack of per-flow bandwidth reservation in today's Internet limits the quality of service that an information service provider can provide. This dissertation introduces the reserved delivery subnetwork (RDS), a mechanism that provides consistent quality of service by implementing aggregate bandwidth reservation. A number of design and deployment issues of RDSs are studied. First, the configuration problem of a single-server RDS is formulated as a minimum concave cost network flow problem, which properly reflects the economy of bandwidth aggregation, but is also an NP-hard problem. To make the RDS configuration problem tractable, an efficient approximation heuristic, largest demands first (LDF), …

Manifold Learning For Natural Image Sets, Doctoral Dissertation August 2006, Richard Souvenir

All Computer Science and Engineering Research

The field of manifold learning provides powerful tools for parameterizing high-dimensional data points with a small number of parameters when this data lies on or near some manifold. Images can be thought of as points in some high-dimensional image space where each coordinate represents the intensity value of a single pixel. These manifold learning techniques have been successfully applied to simple image sets, such as handwriting data and a statue in a tightly controlled environment. However, they fail in the case of natural image sets, even those that only vary due to a single degree of freedom, such as a …

Geology Of Cat Island, Bahamas: A Field Trip Guide, John E. Mylroie, H. Allen Curran, Deborah Freile, James L. Carew, Neil E. Sealey, Vincent J. Voegeli

Geosciences: Faculty Publications

See other Smith authored Field Trip Guides of Gerace Research Centre.

Assessing Vulnerability Of Coasts To Climate Change: A Review Of Approaches And Their Application To The Australian Coast, P. A. Abuodha, C. D. Woodroffe

Faculty of Science - Papers (Archive)

This paper reviews approaches to assessing vulnerability of coasts to climate change and gives details of one of the approaches, coastal vulnerability index (CVI). The CVI ranks the following in terms of their physical contribution to sea-level rise-related coastal change: dune height, barrier type, beach type, relative sea-level change, shoreline erosion and accretion, mean tidal range and mean wave height. These variables are seen to be more useful to the Australian coast. The ranking for each input variable were combined and an index value calculated for selected beaches on the Illawarra and Batemans Bay coasts. The results are presented here.

Stafford County, Virginia Shoreline Situation Report Methods And Guidelines (2006), Marcia Berman, Harry Berquist, Sharon Dewing, Carl Hershner, Karinna Nunez, Karen Reay, Tamia Rudnicky, David Weiss

Reports

No abstract provided.

Binary Decision Diagrams And Crisp Possibilistic Reconstructability Analysis, Martin Zwick, Alan Mishchenko

Systems Science Faculty Publications and Presentations

The paper discusses the application of Binary Decision Diagrams (BDDs) in the reconstructability analysis of crisp possibilistic systems. In particular, we show how BDDs can be used to represent set-theoretic relations and implement the three basic operations of reconstructability analysis.

Living Shorelines, Center For Coastal Resources Management, Virginia Institute Of Marine Science

Reports

Rivers & Coast is a periodic publication of the Center for Coastal Resources Management, Virginia Institute of Marine Science. The goal of Rivers & Coast is to keep readers well informed of current scientific understanding behind key environmental issues related to watershed rivers and coastal ecosystems of the Chesapeake Bay.

The Crest, Winter 2006, Virginia Institute Of Marine Science

Reports

Table of Contents:

• Governor proposes $2.9 M for VIMS Construction begins on new buildings
• VIMS collaborates to restore Lynnhaven
• A tale of two breakwaters
• Seagrass die-back troubles researchers VIMS' role in tidal-wetlands permitting
• VIMS' ghostbusters study effects of lost fishing gear
• Virginia Clean Marina program tops 60 members
• VIMS premieres new ocean observatories course
• VIMS student marches with the penguins
• Fabrizio team wins NOAA Bronze Medal Award
• VIMS students win awards
• AFS recognizes Hoffman
• Former Professor Frank Fang dies
• VIMS sees the light
• CBNERR dedicates new lab

University Of Texas At Tyler Catalog, 2006 - 2008, University Of Texas At Tyler

Catalogs

No abstract provided.

Fluorescent Analysis Of Translesion Dna Synthesis By Using A Novel, Non-Natural Nucleotide Analogue, Irene Lee, Anthony J. Berdis

Chemistry Faculty Publications

The replication of damaged DNA is a promutagenic process that can lead to disease development. This report evaluates the dynamics of nucleotide incorporation opposite an abasic site, a commonly formed DNA lesion, by using two fluorescent nucleotide analogues, 2-aminopurine deoxyribose triphosphate (2-APTP) and 5-phenylindole deoxyribose triphosphate (5-PhITP). In both cases, the kinetics of incorporation were compared by using a 32 P-radiolabel extension assay versus a fluorescence-quenching assay. Although 2-APTP is efficiently incorporated opposite a templating nucleobase (thymine), the kinetics for incorporation opposite an abasic site are significantly slower. The lower catalytic efficiency hinders its use as a probe to study …

Introduction To "The Endangered Species Act At Thirty, Volume 1", J. Michael Scott, Dale D. Goble, Frank W. Davis

United States Geological Survey: Staff Publications

This book examines one legislative effoft to resolve the dilemma, the Endangered Speeies Aet of 1973 (ESA 1973). The ESA was an idealistic and perhaps naive attempt to preserve humanity by preserving other species in the ecological support system that makes life possible. In the words of the House report accompanying the bill:

A certain humility, and a sense of urgency seem indicated .... One might analogize the case to one in which one copy of all the books ever printed were gathered together in one huge building. The position in which we find ourselves today is that of custodians …

Reply To The Discussion By F. Lagroix And S.K. Banerjee Of “Geochemical Evidence For The Origin Of Late Quaternary Loess In Central Alaska”, Daniel R. Muhs, James R. Budahn

United States Geological Survey: Staff Publications

We thank F. Lagroix and S.K. Banerjee (2006) for their Muhs and Budahn 1895 interest in our recent paper and welcome this opportunity to clarify our thoughts on the issues they raise. ...

The loess deposits of central Alaska contain a long and detailed record of sedimentation and soil formation. However, we are convinced that this history is a complex one and, therefore, we again thank Lagroix and Banerjee (2006) for the opportunity to articulate some additional thoughts on the geologic record here. We applaud the use of new methods, such as those of Lagroix and Banerjee (2002, 2004), in …

Electronic Structure And Vibrational Spectra Of C2b10-Based Clusters And Films, Kyungwha Park, Mark R. Pederson, L. L. Boyer, Wai-Ning Mei, Renat F. Sabirianov, Xiao Cheng Zeng, Satya Silendra Bulusu, Seamus Curran, James Dewald, Ellen E. Day, Shireen Adenwalla, Manuel Diaz, Luis G. Rosa, Peter Dowben

Physics Faculty Publications

The electronic structure, total energy, and vibrational properties of C₂B₁₀H₁₂ (carborane)molecules and C₂B₁₀ clusters formed when the hydrogen atoms are removed from carborane molecules are studied using density functional methods and a semiempirical model. Computed vibrational spectra for carborane molecules are shown to be in close agreement with previously published measured spectra taken on carborane solids. Semiconducting boron carbide films are prepared by removing hydrogen from the three polytypes of C₂B₁₀H₁₂ deposited on various surfaces. Results from x-ray and Raman scattering measurements on these films are reported. …

Algorithms For Discovering Communities In Complex Networks, Hemant Balakrishnan

Electronic Theses and Dissertations

It has been observed that real-world random networks like the WWW, Internet, social networks, citation networks, etc., organize themselves into closely-knit groups that are locally dense and globally sparse. These closely-knit groups are termed communities. Nodes within a community are similar in some aspect. For example in a WWW network, communities might consist of web pages that share similar contents. Mining these communities facilitates better understanding of their evolution and topology, and is of great theoretical and commercial significance. Community related research has focused on two main problems: community discovery and community identification. Community discovery is the problem of extracting …

Collaboration Enforcement In Mobile Ad Hoc Networks, Ning Jiang

Electronic Theses and Dissertations

Mobile Ad hoc NETworks (MANETs) have attracted great research interest in recent years. Among many issues, lack of motivation for participating nodes to collaborate forms a major obstacle to the adoption of MANETs. Many contemporary collaboration enforcement techniques employ reputation mechanisms for nodes to avoid and penalize malicious participants. Reputation information is propagated among participants and updated based on complicated trust relationships to thwart false accusation of benign nodes. The aforementioned strategy suffers from low scalability and is likely to be exploited by adversaries. To address these problems, we first propose a finite state model. With this technique, no reputation …

Bluetooth Assassin: A Location-Based Game For Mobile Devices, Miao Wang, Brian Mac Namee

Conference papers

This short paper will describe Bluetooth Assassin, a location-based game developed for mobile devices.

Image-Based Nanocrystallography With Online Database Support, Peter Moeck, Ján Zahornadsky, Boris Dusek

Physics Faculty Publications and Presentations

The crystallographic phase and morphology of many materials change with the crystal size so that new needs arise to determine the crystallography of nanocrystals. Direct space high-resolution phase-contrast transmission electron microscopy (HRTEM) and atomic resolution scanning TEM (STEM) when combined with tools for image-based nanocrystallography in two (2D) and three (3D) dimensions possess the capacity to meet these needs. After a concise discussion of lattice-fringe visibility spheres and maps, this paper discusses lattice-fringe fingerprinting in 2D and tilt protocol applications. On-line database developments at Portland State University (PSU) that support image-based nanocrystallography are also mentioned.

Lattice Fringe Fingerprinting In Two Dimensions With Database Support, Peter Moeck, B. Seipel, R. Bjorge, P. Fraundorf

Physics Faculty Publications and Presentations

A brief introduction to lattice fringe fingerprinting in two dimensions (2D) with database support is given. The method is employed for the identification of the crystal phase of a small ensemble of nanocrystals. The enhanced viability of this method in aberration-corrected transmission electron microscopes (TEMs) and scanning TEMs (STEMs) is also illustrated.