Digital Commons Network^™

A General Framework For Statistical Performance Comparison Of Evolutionary Computation Algorithms, David Shilane, Jarno Martikainen, Sandrine Dudoit, Seppo Ovaska

U.C. Berkeley Division of Biostatistics Working Paper Series

This paper proposes a statistical methodology for comparing the performance of evolutionary computation algorithms. A two-fold sampling scheme for collecting performance data is introduced, and these data are analyzed using bootstrap-based multiple hypothesis testing procedures. The proposed method is sufficiently flexible to allow the researcher to choose how performance is measured, does not rely upon distributional assumptions, and can be extended to analyze many other randomized numeric optimization routines. As a result, this approach offers a convenient, flexible, and reliable technique for comparing algorithms in a wide variety of applications.

Minutes, Arts & Sciences Academic Affairs Committee Meeting, Thursday, March 16, 2006, Arts & Sciences Academic Affairs Committee

Academic Affairs Committee Minutes

No abstract provided.

A Multi-Site Analysis Of Random Error In Tower-Based Measurements Of Carbon And Energy Fluxes, Andrew D. Richardson, David Y. Hollinger, George C. Burba, Kenneth J. Davis, Lawrence B. Flanagan, Gabriel G. Katul, J. William Munger, Daniel M. Ricciuto, Paul C. Stoy, Andrew E. Suyker, Shashi Verma, Steven C. Wofsy

School of Natural Resources: Faculty Publications

Measured surface-atmosphere fluxes of energy (sensible heat, H, and latent heat, LE) and CO₂ (FCO₂) represent the ‘‘true’’ flux plus or minus potential random and systematic measurement errors. Here, we use data from seven sites in the AmeriFlux network, including five forested sites (two of which include “tall tower” instrumentation), one grassland site, and one agricultural site, to conduct a cross-site analysis of random flux error. Quantification of this uncertainty is a prerequisite to model-data synthesis (data assimilation) and for defining confidence intervals on annual sums of net ecosystem exchange or making statistically valid comparisons between …

The Statesman, V. 49, I. 40, Stony Brook University

Stony Brook Statesman-Sucolian

v. 49, i. 40

The Setonian, March 16, 2006, Seton Hall University

2006

No abstract provided.

Soil Stable Carbon Isoptope Analysis Of Landscape Features At Aguateca, Guatemala, David R. Wright

Theses and Dissertations

The ancient Maya of the Classic period (1700-1050 B.P.) relied on maize agriculture to support their populations. The agricultural systems they employed to produce that maize varied in form and degree of intensity, with more productive forms of agriculture needed in the Late Classic period (1350-1050 B.P.) to sustain the peaking population. It is likely that the ancient systems of production agriculture contributed to environmental degradation that in turn contributed to the pressures that culminated in the collapse of the civilization. In this study, stable carbon isotope ratios contained in the soil organic matter were used to further investigate ancient …

The Pan American (2006-03-16), Claudette Gonzalez

UTPA Archives - The Pan American Newspaper

55th Year, No. 22

No Variation And Low Synonymous Substitution Rates In Coral Mtdna Despite High Nuclear Variation, Michael E. Hellberg

Faculty Publications

Background: The mitochondrial DNA (mtDNA) of most animals evolves more rapidly than nuclear DNA, and often shows higher levels of intraspecific polymorphism and population subdivision. The mtDNA of anthozoans (corals, sea fans, and their kin), by contrast, appears to evolve slowly. Slow mtDNA evolution has been reported for several anthozoans, however this slow pace has been difficult to put in phylogenetic context without parallel surveys of nuclear variation or calibrated rates of synonymous substitution that could permit quantitative rate comparisons across taxa. Here, I survey variation in the coding region of a mitochondrial gene from a coral species (Balanophyllia elegans) …

Constitutional Tipping Points: Civil Rights, Social Change, And Fact-Based Adjudication, Suzanne B. Goldberg

Rutgers Law School (Newark) Faculty Papers

Judicial opinions typically rely on facts about a social group to justify or reject limitations on group members' rights, especially when traditional views about the status or capacity of group members are in contest. Yet the fact based approach to decision making obscures the normative judgments that actually determine whether restrictions on individual rights are reasonable. This article offers an account of how and why courts intervene in social conflicts by focusing on facts rather than declaring norms. In part, it argues that this approach preserves judicial flexibility to retain traditional justifications for restricting group members' rights in some settings …

Immigration, The American West, And The Twentieth Century: German From Russia, Omaha Indian, And Vietnamese-Urban Villagers In Lincoln, Nebraska, Kurt Kinbacher

Department of History: Dissertations, Theses, and Student Research

The North American West is a culturally and geographically diverse region that has long been a beacon for successive waves of human immigration and migration. A case in point, the population of Lincoln, Nebraska -- a capital city on the eastern cusp of the Great Plains -- was augmented during the twentieth century by significant influxes of Germans from Russia, Omaha Indians, and Vietnamese. Arriving in clusters beginning in 1876, 1941, and 1975 respectively, these newcomers were generally set in motion by dismal economic, social, or political situations in their sending nations. Seeking better lives, they entered a mainstream milieu …

The Eagleville Times,Volume 4, Issue 5, Debbie Ryan

Eagleville Times

No abstract provided.

The Role Of Pax3 In Neuronal Differentiation Of The Ophthalmic (Opv) Trigeminal Placode And Neural Tube During Chicken Embryonic Development, James R. Bradshaw

Theses and Dissertations

Pax3 has been used as a valuable marker in research aimed at understanding tissue interactions involved in trigeminal ophthalmic (opV) placode development. While Pax3 expression coincides with opV neuron specification, the function of Pax3 in these cells has not previously been investigated. Splotch mutant mice (which lack Pax3) have a reduced trigeminal ganglion; however it is not clear whether this reduction is due to neural crest or placode cells. We have used electroporation in the chick model system to block or ectopically express Pax3 at key times in opV placode development. Using several markers of placode cell differentiation, we have …

The Bg News March 16, 2006, Bowling Green State University

BG News (Student Newspaper)

The BGSU campus student newspaper. March 16, 2006. Volume 96-Issue 116.

Membrane-Based Protein Preconcentration Microfluidic Devices, Yi Li

Theses and Dissertations

Interest in microchip capillary electrophoresis (CE) is growing due to the rapid analysis times provided and small sample input requirements. However, higher-concentration samples are typically needed because of the small (~pL) detection volumes in these devices. I have made membrane-based protein preconcentration systems in capillary and microchip designs to increase the detectability of low-concentration biological samples. A photopolymerized ion-permeable membrane interfaced with a microchannel in poly(methyl methacrylate) (PMMA) formed the preconcentrator. When a voltage was applied between the sample reservoir and the ionically conductive membrane in a capillary-based system, R-phycoerythrin was concentrated more than 1,000 fold, as determined by laser-induced …

The Colby Echo (2006-03-16), Colby College

The Colby Echo

Published by the students of Colby College since 1877, The Colby Echo is the weekly, editorially independent student-run newspaper of Colby College in Waterville, Maine. Published monthly, 1877-1886; semi-monthly, 1886-1897; and weekly, during the academic year, 1898-present.

Association Between Tobacco Use And Body Mass Index In Urban Indian Population: Implications For Public Health In India, Mangesh S. Pednekar, Prakash C. Gupta, Heema C. Shukla, James R. Hébert

Faculty Publications

Background: Body mass index [BMI, weight (kg)/height (m2)], a measure of relative weight, is a good overall indicator of nutritional status and predictor of overall health. As in many developing countries, the high prevalence of very low BMIs in India represents an important public health risk. Tobacco, smoked in the form of cigarettes or bidis (handmade by rolling a dried rectangular piece of temburni leaf with 0.15–0.25 g of tobacco) or chewed, is another important determinant of health. Tobacco use also may exert a strong influence on BMI.

Methods: The relationship between very low BMI (< 18.5 kg/m2) and tobacco use was examined using data from a representative cross-sectional survey of 99,598 adults (40,071 men and 59,527 women) carried out in the city of Mumbai (formerly known as Bombay) in western India. Participants were men and women aged ≥ 35 years who were residents of the main city of Mumbai.

Results: …

Lanthorn, Vol. 40, No. 49, March 16, 2006, Grand Valley State University

Volume 40, July 14, 2005 - June 15, 2006

Lanthorn is Grand Valley State's student newspaper, published from 1968 to the present.

Baseball Press Releases March-May 2006, Wofford College. Sports Information Office

Sports Press Releases

No abstract provided.

The Two-Sample Problem For Failure Rates Depending On A Continuous Mark: An Application To Vaccine Efficacy, Peter B. Gilbert, Ian W. Mckeague, Yanqing Sun

UW Biostatistics Working Paper Series

The efficacy of an HIV vaccine to prevent infection is likely to depend on the genetic variation of the exposing virus. This paper addresses the problem of using data on the HIV sequences that infect vaccine efficacy trial participants to 1) test for vaccine efficacy more powerfully than procedures that ignore the sequence data; and 2) evaluate the dependence of vaccine efficacy on the divergence of infecting HIV strains from the HIV strain that is contained in the vaccine. Because hundreds of amino acid sites in each HIV genome are sequenced, it is natural to treat the divergence (defined in …

Genome Scanning Methods For Comparing Sequences Between Groups, With Application To Hiv Vaccine Trials, Peter B. Gilbert, Chunyuan Wu, David V. Jobes

UW Biostatistics Working Paper Series

Consider a placebo-controlled preventive HIV vaccine efficacy trial. An HIV amino acid sequence is measured from each volunteer who acquires HIV, and these sequences are aligned together with the reference HIV sequence represented in the vaccine. We develop genome scanning methods to identify HIV positions at which the amino acids in sequences from infected vaccine recipients tend to be more divergent from the corresponding reference amino acid than the amino acids in sequences from infected placebo recipients. We consider five two-sample test statistics, based on Euclidean, Mahalanobis, and Kullback-Leibler divergence measures. Weights are incorporated to reflect biological information contained in …

Mgrid: A Load-Balanced Distributed Computing Environment For The Remote Execution Of The User-Defined Matlab Code, Yuliya V. Karpievitch, Jonas S. Almeida

MUSC Faculty Journal Articles

Background: Matlab, a powerful and productive language that allows for rapid prototyping, modeling and simulation, is widely used in computational biology. Modeling and simulation of large biological systems often require more computational resources then are available on a single computer. Existing distributed computing environments like the Distributed Computing Toolbox, MatlabMPI, Matlab*G and others allow for the remote (and possibly parallel) execution of Matlab commands with varying support for features like an easy-to-use application programming interface, load-balanced utilization of resources, extensibility over the wide area network, and minimal system administration skill requirements. However, all of these environments require some level of …

Animal Health Matters, David H. Zeman

Animal Health MATTERS Newsletter

Head/Director's Message [Page] 1- Quality System Laundry Diagnostic News [Page] 1- Submission of Rabies Specimens: SDSU ADRDL [Page] 2- Equine Herpesvirus Infections – More widespread or more recognized [Page] 4- Calving Date Variation in Beef Cows: An Illustration [Page] 5- Natural Organic Beef [Page] 7- Natural Beef in the Feedlot: Risk and Return to Feeder Calf Premiums [Page] 8- Calendar of Events

Physics Alumni Newsletter Spring 2006, Terry Goforth

Physics Alumni Newsletter

Physics Alumni Newsletter

The Physics Alumni Newsletter is produced by the SWOSU Physics Department.

Our Engineering Physics students are recruited in fields such as electronics, aerospace, mechanical engineering, petroleum engineering and software engineering. Graduates also have careers in meteorology, architecture, education and more.

2006-03-15 Unm News Minute, University Of New Mexico Communication And Marketing Department

UNM News Minute 2006

No abstract provided.

Light Therapy For Seasonal Affective Disorder With Blue Narrow-Band Light-Emitting Diodes (Leds), Gena Glickman, Brenda Byrne, Carissa Pineda, Walter W. Hauck, George C. Brainard

Marcus Institute of Integrative Health Faculty Papers

Background: While light has proven an effective treatment for Seasonal Affective Disorder (SAD), an optimal wavelength combination has not been determined. Short wavelength light (blue) has demonstrated potency as a stimulus for acute melatonin suppression and circadian phase shifting.

Methods: This study tested the efficacy of short wavelength light therapy for SAD. Blue light emitting diode (LED) units produced 468 nm light at 607 µW/cm2 (27 nm half-peak bandwidth); dim red LED units provided 654 nm at 34 µW/cm2 (21 nm half-peak bandwidth). Patients with major depression with a seasonal pattern, a score of ≥20 on the Structured …

The Dogma Of The 30 Meter Riparian Buffer: The Case Of The Boreal Toad (Bufo Boreas Boreas), Michael C. Goates

Theses and Dissertations

We tested the adequacy of standard 30 m riparian buffers for semi-aquatic vertebrate species, using the boreal toad (Bufo boreas boreas) as an example. We monitored toad populations in south-central Utah using radio telemetry during the summers of 2003 and 2004. We found 30 m buffers inadequate for protecting boreal toads and suggest this is likely true for other species as well. Managers must consider several factors when constructing buffers: (1) Buffer requirements may vary by time of year. While we located toads most often in wet habitats, toads commonly utilized upland habitats in late summer, occasionally at distances greater …

Racial Disparity And Socioeconomic Status In Association With Survival In Older Men With Local/Regional Stage Prostate Cancer: Findings From A Large Community-Based Cohort, Xianglin L. Du, Shenying Fang, Ann L. Coker, Corinne Aragaki, Janice N. Cormier, Yan Xing, Beverly J. Gor, Wenyaw Chan

CRVAW Faculty Journal Articles

BACKGROUND

Few studies have examined the outcomes for Hispanic men with prostate carcinoma and incorporated socioeconomic factors in association with race/ethnicity in affecting survival, adjusting for factors on cancer stage, grade, comorbidity, and treatment.

METHODS

We studied a population-based cohort of 61,228 men diagnosed with local or regional stage prostate carcinoma at age 65 years or older between 1992 and 1999 in the 11 SEER (Surveillance, Epidemiology, and End Results) areas, identified from the SEER-Medicare linked data with up to 11 years of followup.

RESULTS

Low socioeconomic status was significantly associated with decreasing survival in all men with prostate carcinoma. …

Ke Alakai, Vol. 74, No. 09 (2006-03-15), Brigham Young University Hawaii

Ke Alaka'i

No abstract provided.

Identification And Characterization Of Fep15, A New Selenocysteine-Containing Member Of The Sep15 Protein Family, Sergey V. Novoselov, Deame Hua, A. V. Lobanov, Vadim N. Gladyshev

Vadim Gladyshev Publications

Sec (selenocysteine) is a rare amino acid in proteins. It is co-translationally inserted into proteins at UGA codons with the help of SECIS (Sec insertion sequence) elements. A full set of selenoproteins within a genome, known as the selenoproteome, is highly variable in different organisms. However, most of the known eukaryotic selenoproteins are represented in the mammalian selenoproteome. In addition, many of these selenoproteins have cysteine orthologues. Here, we describe a new selenoprotein, designated Fep15, which is distantly related to members of the 15 kDa selenoprotein (Sep15) family. Fep15 is absent in mammals, can be detected only in fi sh …

Lysine Residues In N-Terminal And C-Terminal Regions Of Human Histone H2a Are Targets For Biotinylation By Biotinidase, Yap Ching Chew, Gabreale Camporeale, Nagarama Kothapalli, Gautam Sarath, Janos Zempleni

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

In eukaryotic cell nuclei, DNA associates with the core histones H2A, H2B, H3 and H4 to form nucleosomal core particles. DNA binding to histones is regulated by posttranslational modifications of N-terminal tails (e.g., acetylation and methylation of histones). These modifications play important roles in the epigenetic control of chromatin structure. Recently, evidence that biotinidase and holocarboxylase synthetase (HCS) catalyze the covalent binding of biotin to histones has been provided. The primary aim of this study was to identify biotinylation sites in histone H2A and its variant H2AX. Secondary aims were to determine whether acetylation and methylation of histone H2A affect …