Science.gov

Sample records for additional neighboring population

  1. Homozygosity and patch structure in plant populations as a result of nearest-neighbor pollination

    PubMed Central

    Turner, Monte E.; Stephens, J. Claiborne; Anderson, Wyatt W.

    1982-01-01

    The population genetic consequences of nearest-neighbor pollination in an outcrossing plant species were investigated through computer simulations. The genetic system consisted of two alleles at a single locus in a self-incompatible plant that mates by random pollen transfer from a neighboring individual. Beginning with a random distribution of genotypes, restricted pollen and seed dispersal were applied each generation to 10,000 individuals spaced uniformly on a square grid. This restricted gene flow caused inbreeding, a rapid increase in homozygosity, and striking microgeographic differentiation of the populations. Patches of homozygotes bordered by heterozygotes formed quickly and persisted for many generations. Thus, high levels of inbreeding, homozygosity, and patchiness in the spatial distribution of genotypes are expected in plant populations with breeding systems based on nearest-neighbor pollination, and such observations require no explanation by natural selection or other deterministic forces. Images PMID:16593140

  2. Re(de)fining the Orthographic Neighborhood: The Role of Addition and Deletion Neighbors in Lexical Decision and Reading

    ERIC Educational Resources Information Center

    Davis, Colin J.; Perea, Manuel; Acha, Joana

    2009-01-01

    The influence of addition and deletion neighbors on visual word identification was investigated in four experiments. Experiments 1 and 2 used Spanish stimuli. In Experiment 1, lexical decision latencies were slower and less accurate for words and nonwords with higher-frequency deletion neighbors (e.g., "jugar" in "juzgar"), relative to control…

  3. Re(de)fining the orthographic neighborhood: the role of addition and deletion neighbors in lexical decision and reading.

    PubMed

    Davis, Colin J; Perea, Manuel; Acha, Joana

    2009-10-01

    The influence of addition and deletion neighbors on visual word identification was investigated in four experiments. Experiments 1 and 2 used Spanish stimuli. In Experiment 1, lexical decision latencies were slower and less accurate for words and nonwords with higher-frequency deletion neighbors (e.g., jugar in juzgar), relative to control stimuli. Experiment 2 showed a similar interference effect for words and nonwords with higher-frequency addition neighbors (e.g., conejo, which has the addition neighbor consejo), relative to control stimuli. Experiment 3 replicated this addition neighbor interference effect in a lexical decision experiment with English stimuli. Across all three experiments, interference effects were always evident for addition/deletion neighbors with word-outer overlap, usually present for those with word-initial overlap, but never present for those with word-final overlap. Experiment 4 replicated the addition/deletion neighbor inhibitory effects in a Spanish sentence reading task in which the participants' eye movements were monitored. These findings suggest that conventional orthographic neighborhood metrics should be redefined. In addition to its methodological implications, this conclusion has significant theoretical implications for input coding schemes and the mechanisms underlying word recognition. PMID:19803656

  4. Signaling among neighboring plants and the development of size inequalities in plant populations.

    PubMed Central

    Ballaré, C L; Scopel, A L; Jordan, E T; Vierstra, R D

    1994-01-01

    Transgenic tobacco plants that express an oat phytochrome gene (phyA) under control of the cauliflower mosaic virus (CaMV) 35S promoter and display altered photophysiology were used to test the role of light as a vehicle of information in dominance relationships between neighboring plants. Compared with the isogenic wild type, phyA-overexpressing plants showed dramatically reduced morphological responsivity to changes in the red/far red ratio of the incident light and to the proximity of neighboring plants in spacing experiments. In transgenic canopies an increase in stand density caused the small plants of the population to be rapidly suppressed by their neighbors. In wild-type canopies, plants responded to increased density with large morphological changes, and there appeared to be an inverse relationship between the magnitude of this morphological response and the ranking of the individual plant in the population size hierarchy. In these wild-type populations, size inequality increased only moderately with density within the time frame of the experiments. Our results suggest that, in crowded stands, the ability of individual plants to acquire information about their light environment via phytochrome plays a central role in driving architectural changes that, at the population level, delay the development of size differences between neighbors. PMID:7937843

  5. Signaling among neighboring plants and the development of size inequalities in plant populations

    SciTech Connect

    Ballare, C.L. |; Scopel, A.L. |; Jordan, E.T.; Vierstra, R.D.

    1994-10-11

    Transgenic tobacco plants that express an oat phytochrome gene (phyA) under control of the cauliflower mosaic virus (CaMV) 35S promoter and display altered photophysiology were used to test the role of light as a vehicle of information in dominance relationships between neighboring plants. Compared with the isogenic wild type, phyA-overexpressing plants showed dramatically reduced morphological responsivity to changes in the red/far red ratio of the incident light and to the proximity of neighboring plants in spacing experiments. In transgenic canopies an increase in stand density caused the small plants of the population to be rapidly suppressed by their neighbors. In wild-type canopies, plants responded to increased density with large morphological changes, and there appeared to be an inverse relationship between the magnitude of this morphological response and the ranking of the individual plant in the population size hierarchy. In these wild-type populations, size inequality increased only moderately with density within the time frame of the experiments. The results suggest that, in crowded stands, the ability of individual plants to acquire information about their light environment via phytochrome plays a central role in driving architectural changes that, at the population level, delay the development of size differences between neighbors.

  6. Analysis of forensically used autosomal short tandem repeat markers in Polish and neighboring populations.

    PubMed

    Soltyszewski, Ireneusz; Plocienniczak, Andrzej; Fabricius, Hans Ake; Kornienko, Igor; Vodolazhsky, Dmitrij; Parson, Walther; Hradil, Roman; Schmitter, Hermann; Ivanov, Pavel; Kuzniar, Piotr; Malyarchuk, Boris A; Grzybowski, Tomasz; Woźniak, Marcin; Henke, Jurgen; Henke, Lotte; Olkhovets, Sergiv; Voitenko, Vladimir; Lagus, Vita; Ficek, Andrej; Minárik, Gabriel; de Knijff, Peter; Rebała, Krzysztof; Wysocka, Joanna; Kapińska, Ewa; Cybulska, Lidia; Mikulich, Alexei I; Tsybovsky, Iosif S; Szczerkowska, Zofia; Krajewski, Paweł; Ploski, Rafał

    2008-06-01

    The purpose of this study was to evaluate the homogeneity of Polish populations with respect to STRs chosen as core markers of the Polish Forensic National DNA Intelligence Database, and to provide reference allele frequencies and to explore the genetic interrelationship between Poland and neighboring countries. The allele frequency distribution of 10 STRs included in the SGMplus kit was analyzed among 2176 unrelated individuals from 6 regional Polish populations and among 4321 individuals from Germany (three samples), Austria, The Netherlands, Sweden, Czech Republic, Slovakia, Belarus, Ukraine and the Russian Federation (six samples). The statistical approach consisted of AMOVA, calculation of pairwise Rst values and analysis by multidimensional scaling. We found homogeneity of present day Poland and consistent differences between Polish and German populations which contrasted with relative similarities between Russian and German populations. These discrepancies between genetic and geographic distances were confirmed by analysis of an independent data set on Y chromosome STRs. Migrations of Goths, Viking influences, German settlements in the region of Volga river and/or forced population resettlements and other events related to World War II are the historic events which might have caused these finding. PMID:19083822

  7. Effects of precipitation change and neighboring plants on population dynamics of Bromus tectorum.

    PubMed

    Prevéy, Janet S; Seastedt, Timothy R

    2015-11-01

    Shifting precipitation patterns resulting from global climate change will influence the success of invasive plant species. In the Front Range of Colorado, Bromus tectorum (cheatgrass) and other non-native winter annuals have invaded grassland communities and are becoming more abundant. As the global climate warms, more precipitation may fall as rain rather than snow in winter, and an increase in winter rain could benefit early-growing winter annuals, such as B. tectorum, to the detriment of native species. In this study we measured the effects of simulated changes in seasonal precipitation and presence of other plant species on population growth of B. tectorum in a grassland ecosystem near Boulder, Colorado, USA. We also performed elasticity analyses to identify life transitions that were most sensitive to precipitation differences. In both study years, population growth rates were highest for B. tectorum growing in treatments receiving supplemental winter precipitation and lowest for those receiving the summer drought treatment. Survival of seedlings to flowering and seed production contributed most to population growth in all treatments. Biomass of neighboring native plants was positively correlated with reduced population growth rates of B. tectorum. However, exotic plant biomass had no effect on population growth rates. This study demonstrates how interacting effects of climate change and presence of native plants can influence the population growth of an invasive species. Overall, our results suggest that B. tectorum will become more invasive in grasslands if the seasonality of precipitation shifts towards wetter winters and allows B. tectorum to grow when competition from native species is low. PMID:26227366

  8. From Local Adaptation to Ecological Speciation in Copepod Populations from Neighboring Lakes

    PubMed Central

    Barrera-Moreno, Omar Alfredo; Ciros-Pérez, Jorge; Ortega-Mayagoitia, Elizabeth; Alcántara-Rodríguez, José Arturo; Piedra-Ibarra, Elías

    2015-01-01

    Continental copepods have been derived from several independent invasive events from the sea, but the subsequent evolutionary processes that account for the current diversity in lacustrine environments are virtually unknown. Salinity is highly variable among lakes and constitutes a source of divergent selection driving potential reproductive isolation. We studied four populations of the calanoid copepod Leptodiaptomus cf. sicilis inhabiting four neighboring lakes with a common history (since the Late Pleistocene) located in the Oriental Basin, Mexico; one lake is shallow and varies in salinity periodically (1.4–10 g L-1), while three are deep and permanent, with constant salinity (0.5, 1.1 and 6.5 g L-1, respectively). We hypothesized that (1) these populations belong to a different species than L. sicilis sensu stricto and (2) are experiencing ecologically based divergence due to salinity differences. We assessed morphological and molecular (mtDNA) COI variation, as well as fitness differences and tests of reproductive isolation. Although relationships of the Mexican populations with L. sicilis s.s. could not be elucidated, we identified a clear pattern of divergent selection driven by salinity conditions. The four populations can still be considered a single biological species (sexual recognition and hybridization are still possible in laboratory conditions), but they have diverged into at least three different phenotypes: two locally adapted, specialized in the lakes of constant salinity (saline vs. freshwater), and an intermediate generalist phenotype inhabiting the temporary lake with fluctuating salinity. The specialized phenotypes are poorly suited as migrants, so prezygotic isolation due to immigrant inviability is highly probable. This implication was supported by molecular evidence that showed restricted gene flow, persistence of founder events, and a pattern of allopatric fragmentation. This study showed how ecologically based divergent selection may

  9. From local adaptation to ecological speciation in copepod populations from neighboring lakes.

    PubMed

    Barrera-Moreno, Omar Alfredo; Ciros-Pérez, Jorge; Ortega-Mayagoitia, Elizabeth; Alcántara-Rodríguez, José Arturo; Piedra-Ibarra, Elías

    2015-01-01

    Continental copepods have been derived from several independent invasive events from the sea, but the subsequent evolutionary processes that account for the current diversity in lacustrine environments are virtually unknown. Salinity is highly variable among lakes and constitutes a source of divergent selection driving potential reproductive isolation. We studied four populations of the calanoid copepod Leptodiaptomus cf. sicilis inhabiting four neighboring lakes with a common history (since the Late Pleistocene) located in the Oriental Basin, Mexico; one lake is shallow and varies in salinity periodically (1.4-10 g L(-1)), while three are deep and permanent, with constant salinity (0.5, 1.1 and 6.5 g L(-1), respectively). We hypothesized that (1) these populations belong to a different species than L. sicilis sensu stricto and (2) are experiencing ecologically based divergence due to salinity differences. We assessed morphological and molecular (mtDNA) COI variation, as well as fitness differences and tests of reproductive isolation. Although relationships of the Mexican populations with L. sicilis s.s. could not be elucidated, we identified a clear pattern of divergent selection driven by salinity conditions. The four populations can still be considered a single biological species (sexual recognition and hybridization are still possible in laboratory conditions), but they have diverged into at least three different phenotypes: two locally adapted, specialized in the lakes of constant salinity (saline vs. freshwater), and an intermediate generalist phenotype inhabiting the temporary lake with fluctuating salinity. The specialized phenotypes are poorly suited as migrants, so prezygotic isolation due to immigrant inviability is highly probable. This implication was supported by molecular evidence that showed restricted gene flow, persistence of founder events, and a pattern of allopatric fragmentation. This study showed how ecologically based divergent selection may

  10. Paternity analysis reveals significant isolation and near neighbor pollen dispersal in small Cariniana legalis Mart. Kuntze populations in the Brazilian Atlantic Forest.

    PubMed

    Tambarussi, Evandro V; Boshier, David; Vencovsky, Roland; Freitas, Miguel L M; Sebbenn, Alexandre M

    2015-12-01

    Throughout the world, large trees are increasingly rare. Cariniana legalis is the tallest tree species of the Brazilian Atlantic Forest, reaching up to 60 m in height. Due to extensive deforestation of the Atlantic Forest, remnant C. legalis populations are small and spatially isolated, requiring the development of strategies for their conservation. For in situ and ex situ genetic conservation to be effective, it is important to understand the levels and patterns of spatial genetic structure (SGS), and gene flow. We investigated SGS and pollen flow in three small, physically isolated C. legalis stands using microsatellite loci. We measured, mapped, and sampled all C. legalis trees in the three stands: 65 trees from Ibicatu population, 22 trees from MGI, and 4 trees from MGII. We also collected and genotyped 600 seeds from Ibicatu, 250 seeds from MGI, and 200 seeds from MGII. Significant SGS was detected in Ibicatu up to 150 m, but substantial levels of external pollen flow were also detected in Ibicatu (8%), although not in MGI (0.4%) or MGII (0%). Selfing was highest in MGII (18%), the smallest group of trees, compared to MGI (6.4%) and Ibicatu (6%). In MGI and MGII, there was a strong pattern of mating among near-neighbors. Seed collection strategies for breeding, in situ and ex situ conservation and ecological restoration, must ensure collection from seed trees located at distances greater than 350 m and from several forest fragments. PMID:27069608

  11. 52 additional reference population samples for the 55 AISNP panel.

    PubMed

    Pakstis, Andrew J; Haigh, Eva; Cherni, Lotfi; ElGaaied, Amel Ben Ammar; Barton, Alison; Evsanaa, Baigalmaa; Togtokh, Ariunaa; Brissenden, Jane; Roscoe, Janet; Bulbul, Ozlem; Filoglu, Gonul; Gurkan, Cemal; Meiklejohn, Kelly A; Robertson, James M; Li, Cai-Xia; Wei, Yi-Liang; Li, Hui; Soundararajan, Usha; Rajeevan, Haseena; Kidd, Judith R; Kidd, Kenneth K

    2015-11-01

    Ancestry inference for a person using a panel of SNPs depends on the variation of frequencies of those SNPs around the world and the amount of reference data available for calculation/comparison. The Kidd Lab panel of 55 AISNPs has been incorporated in commercial kits by both Life Technologies and Illumina for massively parallel sequencing. Therefore, a larger set of reference populations will be useful for researchers using those kits. We have added reference population allele frequencies for 52 population samples to the 73 previously entered so that there are now allele frequencies publicly available in ALFRED and FROG-kb for a total of 125 population samples. PMID:26355664

  12. Modified natural neighbor interpolant

    NASA Astrophysics Data System (ADS)

    Traversoni, Leonardo

    1992-11-01

    Based on the idea of Natural Neighbor Interpolant presented by Sibson in 1980, this paper shows how combining it with the concept of Covering Spheres, new and more practical algorithms can be made as well as a more complete theory.

  13. Good-Neighbor Policy

    ERIC Educational Resources Information Center

    Drozdowski, Mark J.

    2007-01-01

    In this article, the author draws on his experience as the director of the Fitchburg State College Foundation in Fitchburg, Massachusetts, to make a distinction between being a good neighbor to local non-profit organizations by sharing strategies and information, and creating conflicts of interest when both the college and its neighbor…

  14. Parallel nearest neighbor calculations

    NASA Astrophysics Data System (ADS)

    Trease, Harold

    We are just starting to parallelize the nearest neighbor portion of our free-Lagrange code. Our implementation of the nearest neighbor reconnection algorithm has not been parallelizable (i.e., we just flip one connection at a time). In this paper we consider what sort of nearest neighbor algorithms lend themselves to being parallelized. For example, the construction of the Voronoi mesh can be parallelized, but the construction of the Delaunay mesh (dual to the Voronoi mesh) cannot because of degenerate connections. We will show our most recent attempt to tessellate space with triangles or tetrahedrons with a new nearest neighbor construction algorithm called DAM (Dial-A-Mesh). This method has the characteristics of a parallel algorithm and produces a better tessellation of space than the Delaunay mesh. Parallel processing is becoming an everyday reality for us at Los Alamos. Our current production machines are Cray YMPs with 8 processors that can run independently or combined to work on one job. We are also exploring massive parallelism through the use of two 64K processor Connection Machines (CM2), where all the processors run in lock step mode. The effective application of 3-D computer models requires the use of parallel processing to achieve reasonable "turn around" times for our calculations.

  15. Neighbors United for Health

    ERIC Educational Resources Information Center

    Westhoff, Wayne W.; Corvin, Jaime; Virella, Irmarie

    2009-01-01

    Modeled upon the ecclesiastic community group concept of Latin America to unite and strengthen the bond between the Church and neighborhoods, a community-based organization created Vecinos Unidos por la Salud (Neighbors United for Health) to bring health messages into urban Latino neighborhoods. The model is based on five tenants, and incorporates…

  16. Share with thy neighbors

    NASA Astrophysics Data System (ADS)

    Chandra, Surendar; Yu, Xuwen

    2007-01-01

    Peer to peer (P2P) systems are traditionally designed to scale to a large number of nodes. However, we focus on scenarios where the sharing is effected only among neighbors. Localized sharing is particularly attractive in scenarios where wide area network connectivity is undesirable, expensive or unavailable. On the other hand, local neighbors may not offer the wide variety of objects possible in a much larger system. The goal of this paper is to investigate a P2P system that shares contents with its neighbors. We analyze the sharing behavior of Apple iTunes users in an University setting. iTunes restricts the sharing of audio and video objects to peers within the same LAN sub-network. We show that users are already making a significant amount of content available for local sharing. We show that these systems are not appropriate for applications that require access to a specific object. We argue that mechanisms that allow the user to specify classes of interesting objects are better suited for these systems. Mechanisms such as bloom filters can allow each peer to summarize the contents available in the neighborhood, reducing network search overhead. This research can form the basis for future storage systems that utilize the shared storage available in neighbors and build a probabilistic storage for local consumption.

  17. A new deep, hard X-ray survey of M31: Identifying Black Holes and Neutron Stars in the X-ray Binary Population of our Nearest Neighbor

    NASA Astrophysics Data System (ADS)

    Wik, Daniel R.; Hornschemeier, Ann E.; Yukita, Mihoko; Ptak, Andrew; Lehmer, Bret; Maccarone, Thomas J.; Antoniou, Vallia; Zezas, Andreas; Harrison, Fiona; Stern, Daniel; Venters, Tonia M.; Williams, Benjamin F.; Eracleous, Michael; Plucinsky, Paul P.; Pooley, David A.

    2016-04-01

    X-ray binaries (XRBs) trace old and new stellar populations in galaxies, and thus star formation history and star formation rate. X-ray emission from XRBs may be responsible for significant amounts of heating of the early Intergalactic Medium (IGM) at Cosmic Dawn and may also play a significant role in reionization. Until recently, the hard emission from these populations could only be studied for XRBs in our own galaxy, where it is often difficult to measure accurate distances and thus luminosities. The launch of NuSTAR, the first focusing hard X-ray observatory, has allowed us to resolve the brightest XRBs (down to LX ~ few times 10^38 erg/s) in galaxies like NGC 253, M83, and M82 up to 4 Mpc away. To reach much lower X-ray luminosities that are more typical of XRBs in the Milky Way (Lx <~ 10^37 erg/s), we have observed M31 in 4 NuSTAR fields for more than 1 Ms total exposure, covering younger stellar population in a swath of the disk (within the footprint of the Panchromatic Hubble Andromeda Treasury (PHAT) Survey) and the older populations of the bulge. We detect 120 sources in the 4-25 keV band and over 40 hard band (12-25 keV) accreting black holes and neutron stars, distinguished by their spectral shape in this band. The luminosity function (LF) of the hard band detected sources are compared to Swift/BAT-derived LFs of the Milky Way population, which reveals an excess of luminous sources in M31 when correcting for star formation rate and stellar mass. We also discuss implications for this updated understanding of XRB populations on early-Universe measurements in, e.g., the 7 Ms Chandra Deep Field survey.

  18. Public health concerns for neighbors of large-scale swine production operations.

    PubMed

    Thu, K M

    2002-05-01

    This article provides a review and critical synthesis of research related to public health concerns for neighbors exposed to emissions from large-scale swine production operations. The rapid industrialization of pork production in the 1990s produced a generation of confined animal feeding operations (CAFOs) of a size previously unseen in the U.S. Recent research and results from federally sponsored scientific symposia consistently indicate that neighbors of large-scale swine CAFOs can experience health problems at significantly higher rates than controlled comparison populations. Symptoms experienced by swine CAFO neighbors are generally oriented toward irritation of the respiratory tract and are consistent with the types of symptoms among interior confinement workers thathave been well documented in the occupational health literature. However, additional exposure assessment research is required to elucidate the relationship of reported symptoms among swine CAFO neighbors and CAFO emissions. PMID:12046804

  19. Additives

    NASA Technical Reports Server (NTRS)

    Smalheer, C. V.

    1973-01-01

    The chemistry of lubricant additives is discussed to show what the additives are chemically and what functions they perform in the lubrication of various kinds of equipment. Current theories regarding the mode of action of lubricant additives are presented. The additive groups discussed include the following: (1) detergents and dispersants, (2) corrosion inhibitors, (3) antioxidants, (4) viscosity index improvers, (5) pour point depressants, and (6) antifouling agents.

  20. Good neighbor monitoring

    SciTech Connect

    Schukraft, D.F.

    1995-11-01

    Since 1896, when a Unocal 76 products oil refinery was sited overlooking San Pablo bay, urban sprawl has crept up and neighbors now include housing projects, shopping centers and schools. To ensure that the area is a safe and enjoyable place for all to live and work, Unocal is working with local community groups to monitor air quality. The refinery has recently installed a sophisticated air quality and meterological monitoring system designed to provide an early warning should sulfur compounds or hydrocarbons begin to reach unhealthful levels. Siting of the monitoring station was a joint effort by school administrators from the nearby Hillcrest Elementary School and the Bay Area Air Quality Management District. By strategically locating the station adjacent to the school, emission levels coming from the refinery or other local sources can be effectively monitored. A unique part of this program is how closely Unocal, Hillcrest School and BAAQMD work together. All three groups have access to the data.

  1. Multiplicative and Additive Modulation of Neuronal Tuning with Population Activity Affects Encoded Information.

    PubMed

    Arandia-Romero, Iñigo; Tanabe, Seiji; Drugowitsch, Jan; Kohn, Adam; Moreno-Bote, Rubén

    2016-03-16

    Numerous studies have shown that neuronal responses are modulated by stimulus properties and also by the state of the local network. However, little is known about how activity fluctuations of neuronal populations modulate the sensory tuning of cells and affect their encoded information. We found that fluctuations in ongoing and stimulus-evoked population activity in primate visual cortex modulate the tuning of neurons in a multiplicative and additive manner. While distributed on a continuum, neurons with stronger multiplicative effects tended to have less additive modulation and vice versa. The information encoded by multiplicatively modulated neurons increased with greater population activity, while that of additively modulated neurons decreased. These effects offset each other so that population activity had little effect on total information. Our results thus suggest that intrinsic activity fluctuations may act as a "traffic light" that determines which subset of neurons is most informative. PMID:26924437

  2. A direct anatomical study of additional renal arteries in a Colombian mestizo population.

    PubMed

    Saldarriaga, B; Pérez, A F; Ballesteros, L E

    2008-05-01

    Traditional anatomy describes each kidney as receiving irrigation from a single renal artery. However, current literature reports great variability in renal blood supply, the number of renal arteries mentioned being the most frequently found variation. Such variation has great implications when surgery is indicated, such as in renal transplants, uroradiological procedures, renovascular hypertension, renal trauma and hydronephrosis. This article pretends to determine the frequency of additional renal arteries and their morphological expression in Colombian population in a cross-sectional study. A total of 196 of renal blocks were analysed from autopsies carried out in the Bucaramanga Institute of Forensic Medicine, Colombia; these renal blocks were processed by the injection- corrosion technique. The average age of the people being studied was 33.8 +/- 15.6 years; 85.4% of them were male and the rest female. An additional renal artery was found in 22.3% of the whole population and two additional ones were found in 2.6% of the same sample. The additional renal artery was most frequently found on the left side. The additional artery arose from the aorta's lateral aspect (52.4%); these additional arteries usually entered the renal parenchyma through the hilum. No difference was established according to gender. Nearly a third of the Colombian population presents one additional renal artery and about 3% of the same population presents two additional renal arteries. Most of them reached the kidney through its hilar region. PMID:18521812

  3. Demographic population model for American shad: will access to additional habitat upstream of dams increase population sizes?

    USGS Publications Warehouse

    Harris, Julianne E.; Hightower, Joseph E.

    2012-01-01

    American shad Alosa sapidissima are in decline in their native range, and modeling possible management scenarios could help guide their restoration. We developed a density-dependent, deterministic, stage-based matrix model to predict the population-level results of transporting American shad to suitable spawning habitat upstream of dams on the Roanoke River, North Carolina and Virginia. We used data on sonic-tagged adult American shad and oxytetracycline-marked American shad fry both above and below dams on the Roanoke River with information from other systems to estimate a starting population size and vital rates. We modeled the adult female population over 30 years under plausible scenarios of adult transport, effective fecundity (egg production), and survival of adults (i.e., to return to spawn the next year) and juveniles (from spawned egg to age 1). We also evaluated the potential effects of increased survival for adults and juveniles. The adult female population size in the Roanoke River was estimated to be 5,224. With no transport, the model predicted a slow population increase over the next 30 years. Predicted population increases were highest when survival was improved during the first year of life. Transport was predicted to benefit the population only if high rates of effective fecundity and juvenile survival could be achieved. Currently, transported adults and young are less likely to successfully out-migrate than individuals below the dams, and the estimated adult population size is much smaller than either of two assumed values of carrying capacity for the lower river; therefore, transport is not predicted to help restore the stock under present conditions. Research on survival rates, density-dependent processes, and the impacts of structures to increase out-migration success would improve evaluation of the potential benefits of access to additional spawning habitat for American shad.

  4. Exposure estimate for FD&C colour additives for the US population.

    PubMed

    Doell, Diana L; Folmer, Daniel E; Lee, Hyoung S; Butts, Kyla M; Carberry, Susan E

    2016-05-01

    Dietary exposures to the seven food, drug, and cosmetic (FD&C) colour additives that are approved for general use in food in the United States were estimated for the US population (aged 2 years and older), children (aged 2-5 years) and teenage boys (aged 13-18 years) based on analytical levels of the FD&C colour additives in foods. Approximately 600 foods were chosen for analysis, based on a survey of product labels, for the levels of FD&C colour additives. Dietary exposure was estimated using both 2-day food consumption data from the combined 2007-10 National Health and Nutrition Examination Survey (NHANES) and 10-14-day food consumption data from the 2007-10 NPD Group, Inc. National Eating Trends - Nutrient Intake Database (NPD NET-NID). Dietary exposure was estimated at the mean and 90th percentile using three different exposure scenarios: low exposure, average exposure and high exposure, to account for the range in the amount of each FD&C colour additive for a given food. For all populations and all exposure scenarios, the highest cumulative eaters-only exposures in food were determined for FD&C Red No. 40, FD&C Yellow No. 5 and FD&C Yellow No. 6. In addition, the eaters-only exposure was estimated for individual food categories in order to determine which food categories contributed the most to the exposure for each FD&C colour additive. Breakfast Cereal, Juice Drinks, Soft Drinks, and Frozen Dairy Desserts/Sherbet (also referred to as Ice Cream, Frozen Yogurt, Sherbet (including Bars, Sticks, Sandwiches)) were the major contributing food categories to exposure for multiple FD&C colour additives for all three populations. PMID:27092991

  5. A fast neighbor joining method.

    PubMed

    Li, J F

    2015-01-01

    With the rapid development of sequencing technologies, an increasing number of sequences are available for evolutionary tree reconstruction. Although neighbor joining is regarded as the most popular and fastest evolutionary tree reconstruction method [its time complexity is O(n(3)), where n is the number of sequences], it is not sufficiently fast to infer evolutionary trees containing more than a few hundred sequences. To increase the speed of neighbor joining, we herein propose FastNJ, a fast implementation of neighbor joining, which was motivated by RNJ and FastJoin, two improved versions of conventional neighbor joining. The main difference between FastNJ and conventional neighbor joining is that, in the former, many pairs of nodes selected by the rule used in RNJ are joined in each iteration. In theory, the time complexity of FastNJ can reach O(n(2)) in the best cases. Experimental results show that FastNJ yields a significant increase in speed compared to RNJ and conventional neighbor joining with a minimal loss of accuracy. PMID:26345805

  6. Our Chaotic Neighbor

    NASA Technical Reports Server (NTRS)

    2006-01-01

    [figure removed for brevity, see original site] Poster Version Large Magellanic Cloud

    This vibrant image from NASA's Spitzer Space Telescope shows the Large Magellanic Cloud, a satellite galaxy to our own Milky Way galaxy.

    The infrared image, a mosaic of more than 100,000 individual tiles, offers astronomers a unique chance to study the lifecycle of stars and dust in a single galaxy. Nearly one million objects are revealed for the first time in this Spitzer view, which represents about a 1,000-fold improvement in sensitivity over previous space-based missions. Most of the new objects are dusty stars of various ages populating the Large Magellanic Cloud; the rest are thought to be background galaxies.

    The blue color in the picture, seen most prominently in the central bar, represents starlight from older stars. The chaotic, bright regions outside this bar are filled with hot, massive stars buried in thick blankets of dust. The red clouds contain cooler interstellar gas and molecular-sized dust grains illuminated by ambient starlight.

    The Large Magellanic Cloud, located 160,000 light-years from Earth, is one of a handful of dwarf galaxies that orbit our own Milky Way. It is approximately one-third as wide as the Milky Way, and, if it could be seen in its entirety, would cover the same amount of sky as a grid of about 480 full moons. About one-third of the whole galaxy can be seen in the Spitzer image.

    This picture is a composite of infrared light captured by Spitzer's infrared array camera. Light with wavelengths of 8 and 5.8 microns is red and orange: 4.5-micron light is green; and 3.6-micron light is blue.

  7. RECONS is Spying on Your Neighbors...

    NASA Astrophysics Data System (ADS)

    Henry, T. J.

    2003-12-01

    Spying on your neighbors can be an revealing experience. We review the 10-year RECONS (Research Consortium on Nearby Stars) effort to take an accurate census of all objects within 10 pc and outside of the Solar System. The result is an accurate cross-sectional study of your neighbors, who tend to be small and red, and lurk unseen in the night. Recent additions to the neighborhood include a few brown dwarfs and extrasolar planets. We will also introduce you to more than a dozen of your newest neighbors, discovered during a large southern sky parallax effort known as CTIOPI (CTIO Parallax Investigation). This work has been carried out on the CTIO 0.9m and 1.5m telescopes since 1999 under the auspices of the NOAO Surveys Program, and since February 2003 as a part of the SMARTS Consortium. Only by watching your neighbors for several years can you really be sure what they're up to, and we'll show you that some of them have hidden partners-in-crime. The first hints of these partners have been revealed via astrometric perturbations found during CTIOPI.

  8. Changes in Bacterial Population of Gastrointestinal Tract of Weaned Pigs Fed with Different Additives

    PubMed Central

    Roca, Mercè; Nofrarías, Miquel; Majó, Natàlia; Pérez de Rozas, Ana María; Castillo, Marisol; Martín-Orúe, Susana María; Espinal, Anna; Pujols, Joan; Badiola, Ignacio

    2014-01-01

    This study aimed to provide novel insights into the gastrointestinal microbial diversity from different gastrointestinal locations in weaning piglets using PCR-restriction fragment length polymorphism (PCR-RFLP). Additionally, the effect of different feed additives was analyzed. Thirty-two piglets were fed with four different diets: a control group and three enriched diets, with avilamycin, sodium butyrate, and a plant extract mixture. Digesta samples were collected from eight different gastrointestinal segments of each animal and the bacterial population was analysed by a PCR-RFLP technique that uses 16S rDNA gene sequences. Bacterial diversity was assessed by calculating the number of bands and the Shannon-Weaver index. Dendrograms were constructed to estimate the similarity of bacterial populations. A higher bacterial diversity was detected in large intestine compared to small intestine. Among diets, the most relevant microbial diversity differences were found between sodium butyrate and plant extract mixture. Proximal jejunum, ileum, and proximal colon were identified as those segments that could be representative of microbial diversity in pig gut. Results indicate that PCR-RFLP technique allowed detecting modifications on the gastrointestinal microbial ecology in pigs fed with different additives, such as increased biodiversity by sodium butyrate in feed. PMID:24575403

  9. Risk assessment of additives through soft drinks and nectars consumption on Portuguese population: a 2010 survey.

    PubMed

    Diogo, Janina S G; Silva, Liliana S O; Pena, Angelina; Lino, Celeste M

    2013-12-01

    This study investigated whether the Portuguese population is at risk of exceeding ADI levels for acesulfame-K, saccharin, aspartame, caffeine, benzoic and sorbic acid through an assessment of dietary intake of additives and specific consumption of four types of beverages, traditional soft drinks and soft drinks based on mineral waters, energetic drinks, and nectars. The highest mean levels of additives were found for caffeine in energetic drinks, 293.5mg/L, for saccharin in traditional soft drinks, 18.4 mg/L, for acesulfame-K and aspartame in nectars, with 88.2 and 97.8 mg/L, respectively, for benzoic acid in traditional soft drinks, 125.7 mg/L, and for sorbic acid in soft drinks based on mineral water, 166.5 mg/L. Traditional soft drinks presented the highest acceptable daily intake percentages (ADIs%) for acesulfame-K, aspartame, benzoic and sorbic acid and similar value for saccharin (0.5%) when compared with soft drinks based on mineral water, 0.7%, 0.08%, 7.3%, and 1.92% versus 0.2%, 0.053%, 0.6%, and 0.28%, respectively. However for saccharin the highest percentage of ADI was obtained for nectars, 0.9%, in comparison with both types of soft drinks, 0.5%. Therefore, it is concluded that the Portuguese population is not at risk of exceeding the established ADIs for the studied additives. PMID:24036138

  10. Who's your neighbor? neighbor identification for agent-based modeling.

    SciTech Connect

    Macal, C. M.; Howe, T. R.; Decision and Information Sciences; Univ. of Chicago

    2006-01-01

    Agent-based modeling and simulation, based on the cellular automata paradigm, is an approach to modeling complex systems comprised of interacting autonomous agents. Open questions in agent-based simulation focus on scale-up issues encountered in simulating large numbers of agents. Specifically, how many agents can be included in a workable agent-based simulation? One of the basic tenets of agent-based modeling and simulation is that agents only interact and exchange locally available information with other agents located in their immediate proximity or neighborhood of the space in which the agents are situated. Generally, an agent's set of neighbors changes rapidly as a simulation proceeds through time and as the agents move through space. Depending on the topology defined for agent interactions, proximity may be defined by spatial distance for continuous space, adjacency for grid cells (as in cellular automata), or by connectivity in social networks. Identifying an agent's neighbors is a particularly time-consuming computational task and can dominate the computational effort in a simulation. Two challenges in agent simulation are (1) efficiently representing an agent's neighborhood and the neighbors in it and (2) efficiently identifying an agent's neighbors at any time in the simulation. These problems are addressed differently for different agent interaction topologies. While efficient approaches have been identified for agent neighborhood representation and neighbor identification for agents on a lattice with general neighborhood configurations, other techniques must be used when agents are able to move freely in space. Techniques for the analysis and representation of spatial data are applicable to the agent neighbor identification problem. This paper extends agent neighborhood simulation techniques from the lattice topology to continuous space, specifically R2. Algorithms based on hierarchical (quad trees) or non-hierarchical data structures (grid cells) are

  11. Simultaneous Estimation of Additive and Mutational Genetic Variance in an Outbred Population of Drosophila serrata.

    PubMed

    McGuigan, Katrina; Aguirre, J David; Blows, Mark W

    2015-11-01

    How new mutations contribute to genetic variation is a key question in biology. Although the evolutionary fate of an allele is largely determined by its heterozygous effect, most estimates of mutational variance and mutational effects derive from highly inbred lines, where new mutations are present in homozygous form. In an attempt to overcome this limitation, middle-class neighborhood (MCN) experiments have been used to assess the fitness effect of new mutations in heterozygous form. However, because MCN populations harbor substantial standing genetic variance, estimates of mutational variance have not typically been available from such experiments. Here we employ a modification of the animal model to analyze data from 22 generations of Drosophila serrata bred in an MCN design. Mutational heritability, measured for eight cuticular hydrocarbons, 10 wing-shape traits, and wing size in this outbred genetic background, ranged from 0.0006 to 0.006 (with one exception), a similar range to that reported from studies employing inbred lines. Simultaneously partitioning the additive and mutational variance in the same outbred population allowed us to quantitatively test the ability of mutation-selection balance models to explain the observed levels of additive and mutational genetic variance. The Gaussian allelic approximation and house-of-cards models, which assume real stabilizing selection on single traits, both overestimated the genetic variance maintained at equilibrium, but the house-of-cards model was a closer fit to the data. This analytical approach has the potential to be broadly applied, expanding our understanding of the dynamics of genetic variance in natural populations. PMID:26384357

  12. Neighboring and Urbanism: Commonality versus Friendship.

    ERIC Educational Resources Information Center

    Silverman, Carol J.

    1986-01-01

    Examines a dimension of neighboring that need not assume friendship as the role model. When the model assumes only a sense of connectedness as defining neighboring, then the residential correlation, shown in many studies between urbanism and neighboring, disappears. Theories of neighboring, study variables, methods, and analysis are discussed.…

  13. Estimated daily intake of benzoic acid through food additives in adult population of South East Serbia.

    PubMed

    Lazarević, Konstansa; Stojanović, Dusica; Rancić, Natasa

    2011-12-01

    The aim of this study is to estimate dietary intake of benzoic acid and its salts through food additives in adult population of South East Serbia. Information on dietary intake among 620 adults (aged 18-65) was collected using a food frequency questionnaire, and 748 food samples were analyzed. The mean estimated intake of benzoic acid -0.32 mg/kg of body weight (bw) per day was below acceptable daily intake (ADI). Dietary exposure to benzoic acid (0.36 mg/kg of bw/day; 7.2% ADI) (consumer only), also did not exceed ADI. The main contributors of benzoic acid to dietary intake were non alcoholic beverages (43.1%), ketchup and tomato products (36.1%), and domestic pickled vegetables (19.4%). The results of this study indicate that dietary exposure to benzoic acid and its salts through food preservatives does not represent a public health risk for the adult population of South East Serbia. PMID:22432399

  14. Additive Genetic Variation in Schizophrenia Risk Is Shared by Populations of African and European Descent

    PubMed Central

    de Candia, Teresa R.; Lee, S. Hong; Yang, Jian; Browning, Brian L.; Gejman, Pablo V.; Levinson, Douglas F.; Mowry, Bryan J.; Hewitt, John K.; Goddard, Michael E.; O’Donovan, Michael C.; Purcell, Shaun M.; Posthuma, Danielle; Visscher, Peter M.; Wray, Naomi R.; Keller, Matthew C.

    2013-01-01

    To investigate the extent to which the proportion of schizophrenia’s additive genetic variation tagged by SNPs is shared by populations of European and African descent, we analyzed the largest combined African descent (AD [n = 2,142]) and European descent (ED [n = 4,990]) schizophrenia case-control genome-wide association study (GWAS) data set available, the Molecular Genetics of Schizophrenia (MGS) data set. We show how a method that uses genomic similarities at measured SNPs to estimate the additive genetic correlation (SNP correlation [SNP-rg]) between traits can be extended to estimate SNP-rg for the same trait between ethnicities. We estimated SNP-rg for schizophrenia between the MGS ED and MGS AD samples to be 0.66 (SE = 0.23), which is significantly different from 0 (p(SNP-rg = 0) = 0.0003), but not 1 (p(SNP-rg = 1) = 0.26). We re-estimated SNP-rg between an independent ED data set (n = 6,665) and the MGS AD sample to be 0.61 (SE = 0.21, p(SNP-rg = 0) = 0.0003, p(SNP-rg = 1) = 0.16). These results suggest that many schizophrenia risk alleles are shared across ethnic groups and predate African-European divergence. PMID:23954163

  15. Privacy Preserving Nearest Neighbor Search

    NASA Astrophysics Data System (ADS)

    Shaneck, Mark; Kim, Yongdae; Kumar, Vipin

    Data mining is frequently obstructed by privacy concerns. In many cases data is distributed, and bringing the data together in one place for analysis is not possible due to privacy laws (e.g. HIPAA) or policies. Privacy preserving data mining techniques have been developed to address this issue by providing mechanisms to mine the data while giving certain privacy guarantees. In this chapter we address the issue of privacy preserving nearest neighbor search, which forms the kernel of many data mining applications. To this end, we present a novel algorithm based on secure multiparty computation primitives to compute the nearest neighbors of records in horizontally distributed data. We show how this algorithm can be used in three important data mining algorithms, namely LOF outlier detection, SNN clustering, and kNN classification. We prove the security of these algorithms under the semi-honest adversarial model, and describe methods that can be used to optimize their performance. Keywords: Privacy Preserving Data Mining, Nearest Neighbor Search, Outlier Detection, Clustering, Classification, Secure Multiparty Computation

  16. Increased Risk of Additional Cancers Among Patients with Gastrointestinal Stromal Tumors: A Population-Based Study

    PubMed Central

    Murphy, James D.; Ma, Grace L.; Baumgartner, Joel M.; Madlensky, Lisa; Burgoyne, Adam M.; Tang, Chih-Min; Martinez, Maria Elena; Sicklick, Jason K.

    2015-01-01

    Purpose Most gastrointestinal stromal tumors (GIST) are considered non-hereditary or sporadic. However, single-institution studies suggest that GIST patients develop additional malignancies with increased frequencies. We hypothesized that we could gain greater insight into possible associations between GIST and other malignancies using a national cancer database inquiry. Methods Patients diagnosed with GIST (2001–2011) in the Surveillance, Epidemiology, and End Results database were included. Standardized prevalence ratios (SPRs) and standardized incidence ratios (SIRs) were used to quantify cancer risks incurred by GIST patients before and after GIST diagnoses, respectively, when compared with the general U.S. population. Results Of 6,112 GIST patients, 1,047 (17.1%) had additional cancers. There were significant increases in overall cancer rates: 44% (SPR=1.44) before diagnosis and 66% (SIR=1.66) after GIST diagnoses. Malignancies with significantly increased occurrence both before/after diagnoses included other sarcomas (SPR=5.24/SIR=4.02), neuroendocrine-carcinoid tumors (SPR=3.56/SIR=4.79), non-Hodgkin’s lymphoma (SPR=1.69/SIR=1.76), and colorectal adenocarcinoma (SPR=1.51/SIR=2.16). Esophageal adenocarcinoma (SPR=12.0), bladder adenocarcinoma (SPR=7.51), melanoma (SPR=1.46), and prostate adenocarcinoma (SPR=1.20) were significantly more common only before GIST. Ovarian carcinoma (SIR=8.72), small intestine adenocarcinoma (SIR=5.89), papillary thyroid cancer (SIR=5.16), renal cell carcinoma (SIR=4.46), hepatobiliary adenocarcinomas (SIR=3.10), gastric adenocarcinoma (SIR=2.70), pancreatic adenocarcinoma (SIR=2.03), uterine adenocarcinoma (SIR=1.96), non-small cell lung cancer (SIR=1.74), and transitional cell carcinoma of the bladder (SIR=1.65) were significantly more common only after GIST. Conclusion This is the first population-based study to characterize the associations and temporal relationships between GIST and other cancers, both by site and

  17. 76 FR 12731 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-03-08

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  18. 76 FR 76973 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-12-09

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  19. 76 FR 52662 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-08-23

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  20. 76 FR 31328 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-05-31

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  1. 75 FR 8699 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-02-25

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  2. 77 FR 32636 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-06-01

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Request for nominations to the Good Neighbor Environmental Board. SUMMARY: The U.S. Environmental...

  3. 77 FR 32636 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-06-01

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  4. 76 FR 73631 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-11-29

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Notice of... meeting of the Good Neighbor Environmental Board (Board). The Board usually meets three times...

  5. Protein Neighbors and Proximity Proteomics*

    PubMed Central

    Rees, Johanna S.; Li, Xue-Wen; Perrett, Sarah; Lilley, Kathryn S.; Jackson, Antony P.

    2015-01-01

    Within cells, proteins can co-assemble into functionally integrated and spatially restricted multicomponent complexes. Often, the affinities between individual proteins are relatively weak, and proteins within such clusters may interact only indirectly with many of their other protein neighbors. This makes proteomic characterization difficult using methods such as immunoprecipitation or cross-linking. Recently, several groups have described the use of enzyme-catalyzed proximity labeling reagents that covalently tag the neighbors of a targeted protein with a small molecule such as fluorescein or biotin. The modified proteins can then be isolated by standard pulldown methods and identified by mass spectrometry. Here we will describe the techniques as well as their similarities and differences. We discuss their applications both to study protein assemblies and to provide a new way for characterizing organelle proteomes. We stress the importance of proteomic quantitation and independent target validation in such experiments. Furthermore, we suggest that there are biophysical and cell-biological principles that dictate the appropriateness of enzyme-catalyzed proximity labeling methods to address particular biological questions of interest. PMID:26355100

  6. Protein Neighbors and Proximity Proteomics.

    PubMed

    Rees, Johanna S; Li, Xue-Wen; Perrett, Sarah; Lilley, Kathryn S; Jackson, Antony P

    2015-11-01

    Within cells, proteins can co-assemble into functionally integrated and spatially restricted multicomponent complexes. Often, the affinities between individual proteins are relatively weak, and proteins within such clusters may interact only indirectly with many of their other protein neighbors. This makes proteomic characterization difficult using methods such as immunoprecipitation or cross-linking. Recently, several groups have described the use of enzyme-catalyzed proximity labeling reagents that covalently tag the neighbors of a targeted protein with a small molecule such as fluorescein or biotin. The modified proteins can then be isolated by standard pulldown methods and identified by mass spectrometry. Here we will describe the techniques as well as their similarities and differences. We discuss their applications both to study protein assemblies and to provide a new way for characterizing organelle proteomes. We stress the importance of proteomic quantitation and independent target validation in such experiments. Furthermore, we suggest that there are biophysical and cell-biological principles that dictate the appropriateness of enzyme-catalyzed proximity labeling methods to address particular biological questions of interest. PMID:26355100

  7. The genetic structure of a tribal population, the Yanomama Indians XI. Gene frequencies for 10 blood groups and the ABH-Le secretor traits in the Yanomama and their neighbors; the uniqueness of the tribe.

    PubMed Central

    Ward, R H; Gershowitz, H; Layrisse, M; Neel, J V

    1975-01-01

    In this paper we present the results of blood group typings for a total of 33 villages distributed among five South American Indian tribes--Yanomama (21 villages), Makiritare (eight villages), Macushi (two villages), Piaroa (one village), and Wapishana (one village). These new results for the Yanomama and Makiritare tribes have been combined with those previously reported to allow a better appreciation of the distribution of allelic frequencies in the tribes. The relationship of the Yanomama to other South American Indian tribes is investigated using data on six polymorphic loci (Rh, MNS, Fy, Jk, Di, Hp). By use of four genetic measures (two of genetic relationship and two of genetic diversity), we demonstrate that the Yanomama are genetically unique among a sample of 20 South American tribes. In addition, the Yanomama show somewhat less genetic diversity for the six loci analyzed than the average South American tribe. Taken together, these results indicate a rather long period of isolation for the population antecedent to the Yanomama--perhaps since the time of entry of man into the South American continent. The pattern of genetic relationships and genetic diversity for the 20 tribes is consistent with the hypothesis that evolution in South America proceeded by a process of fission-fusion leading to isolation of subpopulations with subsequent genetic differentiation as a consequence of population isolation. The uniqueness of the Yanomama appears to stem entirely from such a process, there being no evidence of any selective differential for the loci analyzed. PMID:50736

  8. OCR enhancement through neighbor embedding and fast approximate nearest neighbors

    NASA Astrophysics Data System (ADS)

    Smith, D. C.

    2012-10-01

    Generic optical character recognition (OCR) engines often perform very poorly in transcribing scanned low resolution (LR) text documents. To improve OCR performance, we apply the Neighbor Embedding (NE) single-image super-resolution (SISR) technique to LR scanned text documents to obtain high resolution (HR) versions, which we subsequently process with OCR. For comparison, we repeat this procedure using bicubic interpolation (BI). We demonstrate that mean-square errors (MSE) in NE HR estimates do not increase substantially when NE is trained in one Latin font style and tested in another, provided both styles belong to the same font category (serif or sans serif). This is very important in practice, since for each font size, the number of training sets required for each category may be reduced from dozens to just one. We also incorporate randomized k-d trees into our NE implementation to perform approximate nearest neighbor search, and obtain a 1000x speed up of our original NE implementation, with negligible MSE degradation. This acceleration also made it practical to combine all of our size-specific NE Latin models into a single Universal Latin Model (ULM). The ULM eliminates the need to determine the unknown font category and size of an input LR text document and match it to an appropriate model, a very challenging task, since the dpi (pixels per inch) of the input LR image is generally unknown. Our experiments show that OCR character error rates (CER) were over 90% when we applied the Tesseract OCR engine to LR text documents (scanned at 75 dpi and 100 dpi) in the 6-10 pt range. By contrast, using k-d trees and the ULM, CER after NE preprocessing averaged less than 7% at 3x (100 dpi LR scanning) and 4x (75 dpi LR scanning) magnification, over an order of magnitude improvement. Moreover, CER after NE preprocessing was more that 6 times lower on average than after BI preprocessing.

  9. 76 FR 7845 - Good Neighbor Environmental Board

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-02-11

    ... AGENCY Good Neighbor Environmental Board AGENCY: Environmental Protection Agency (EPA). ACTION: Request for Nominations to the Good Neighbor Environmental Board. SUMMARY: The U.S. Environmental Protection... appointment to its Good Neighbor Environmental Board. Vacancies are anticipated to be filled by May...

  10. Dynamics of Litter Decomposition, Microbiota Populations, and Nutrient Movement Following Nitrogen and Phosphorus Additions to a Deciduous Forest Stand

    SciTech Connect

    Kelly, J.M.

    2002-10-29

    The objective of this study was quantification of the dynamics of litter decomposition, microbiota populations, and nutrient movement in response to nitrogen and phosphorus additions to a deciduous forest stand. Nitrogen (urea) was applied at rates of 0, 550, and 1100 kg/ha in combination with phosphorus (concentrated superphosphate) at rates of 0, 275, and 550 kg/ha. Total loss of organic material from white oak, red maple, and black gum litter bags over a 16-month period was 34, 35, and 45%, respectively. Phosphorus treatment retarded weight loss from litter bags of all species. Weight loss for the 0-, 275-, and 55-kg/ha levels of phosphorus averaged 23, 20, and 19% for white oak; 26, 25, and 25% for red maple; 29, 27 and 26% for black gum. Weight losses were increased by a small amount (1 to 2%) or not at all by nitrogen treatment. The NP interfaction weight loss means were intermediate to the main treatment means. The increase in decomposition associated with nitrogen was offset by the decrease associated with phosphorus. Litter and soil bacterial populations were significantly increased by nitrogen additions, while litter and soil fungi did not respond to nitrogen. Soil fungal populations were increased by phosphorus addition, while litter bacterial populations were reduced. Litter fungi and soil bacteria did not respond to phosphorus. Combined additions of nitrogen and phosphorus increased bacterial populations, though not as much as nitrogen alone. There was a good correlation (r = 0.70) between bacterial population and litter weight loss.

  11. Distribution of OCA2∗481Thr and OCA2∗615Arg, associated with hypopigmentation, in several additional populations.

    PubMed

    Yuasa, Isao; Harihara, Shinji; Jin, Feng; Nishimukai, Hiroaki; Fujihara, Junko; Fukumori, Yasuo; Takeshita, Haruo; Umetsu, Kazuo; Saitou, Naruya

    2011-07-01

    Two mutants, OCA2∗481Thr (c.1441G>A, p.Ala481Thr) and OCA2∗615Arg (c.1844A>G, p.His615Arg), in the OCA2 (oculocutaneous albinism type II) gene are associated with hypopigmentation in East Asians. Here, these two alleles were studied to assess the frequencies in five different populations. In addition, the allele frequency of OCA2∗615Arg was investigated in seven populations. Among a total of 24 global populations investigated, Oroqens in Heihe showed the highest frequency for OCA2∗481Thr (0.519), and among 26 populations, Han Chinese in Changsha showed the highest frequency for OCA2∗615Arg (0.673). This study confirmed that these two East Asian-specific alleles are characteristic of northern and central-southern East Asian populations. PMID:21565543

  12. Influence of neighboring reactive particles on diffusion-limited reactions

    NASA Astrophysics Data System (ADS)

    Eun, Changsun; Kekenes-Huskey, Peter M.; McCammon, J. Andrew

    2013-07-01

    Competition between reactive species is commonplace in typical chemical reactions. Specifically the primary reaction between a substrate and its target enzyme may be altered when interactions with secondary species in the system are substantial. We explore this competition phenomenon for diffusion-limited reactions in the presence of neighboring particles through numerical solution of the diffusion equation. As a general model for globular proteins and small molecules, we consider spherical representations of the reactants and neighboring particles; these neighbors vary in local density, size, distribution, and relative distance from the primary target reaction, as well as their surface reactivity. Modulations of these model variables permit inquiry into the influence of excluded volume and competition on the primary reaction due to the presence of neighboring particles. We find that the surface reactivity effect is long-ranged and a strong determinant of reaction kinetics, whereas the excluded volume effect is relatively short-ranged and less influential in comparison. As a consequence, the effect of the excluded volume is only modestly dependent on the neighbor distribution and is approximately additive; this additivity permits a linear approximation to the many-body effect on the reaction kinetics. In contrast, the surface reactivity effect is non-additive, and thus it may require higher-order approximations to describe the reaction kinetics. Our model study has broad implications in the general understanding of competition and local crowding on diffusion-limited chemical reactions.

  13. MCPN, Octree Neighbor Finding During Tree Model Construction Using Parental Neighboring Rule

    NASA Astrophysics Data System (ADS)

    Namdari, Mohammad Hasan; Hejazi, Seyed Reza; Palhang, Maziar

    2015-09-01

    A new method for octree neighbor finding is proposed, named during Model Construction using Parental Neighboring rule (MCPN). Our proposed method finds and stores all neighbors of all leaf nodes during tree model construction, unlike majority of previous neighbor finding methods in which constructed tree model is the input of neighbor finding algorithm. Considering Parental Neighboring Rule (PNR), neighbor finding during tree model construction causes no increase in its time complexity class. The proposed method finds all neighbors of a node in 26 possible directions regardless of their size. Experimental results show that both in quadtrees and octrees, MCPN's needed time to find and store all neighbors of all leaf nodes plus tree model construction time, relative to tree model construction time alone, converges to one as the level of tree increases. Also MCPN outclasses the latest constant time neighbor finding method for quadtrees proposed by Aizawa and Tanaka.

  14. Hybrid k -Nearest Neighbor Classifier.

    PubMed

    Yu, Zhiwen; Chen, Hantao; Liuxs, Jiming; You, Jane; Leung, Hareton; Han, Guoqiang

    2016-06-01

    Conventional k -nearest neighbor (KNN) classification approaches have several limitations when dealing with some problems caused by the special datasets, such as the sparse problem, the imbalance problem, and the noise problem. In this paper, we first perform a brief survey on the recent progress of the KNN classification approaches. Then, the hybrid KNN (HBKNN) classification approach, which takes into account the local and global information of the query sample, is designed to address the problems raised from the special datasets. In the following, the random subspace ensemble framework based on HBKNN (RS-HBKNN) classifier is proposed to perform classification on the datasets with noisy attributes in the high-dimensional space. Finally, the nonparametric tests are proposed to be adopted to compare the proposed method with other classification approaches over multiple datasets. The experiments on the real-world datasets from the Knowledge Extraction based on Evolutionary Learning dataset repository demonstrate that RS-HBKNN works well on real datasets, and outperforms most of the state-of-the-art classification approaches. PMID:26126291

  15. Effect of water and nitrogen additions on free-living nitrogen fixer populations in desert grass root zones.

    PubMed Central

    Herman, R P; Provencio, K R; Torrez, R J; Seager, G M

    1993-01-01

    In this study we measured changes in population levels of free-living N2-fixing bacteria in the root zones of potted Bouteloua eriopoda and Sporobolus flexuosus plants as well as the photosynthetic indices of the plants in response to added nitrogen, added water, and added water plus nitrogen treatments. In addition, N2 fixer population changes in response to added carbon source and nitrogen were measured in plant-free soil columns. There were significant increases in the numbers of N2 fixers associated with both plant species in the water and the water plus nitrogen treatments. Both treatments increased the photosynthetic index, suggesting that plant exudates were driving N2 fixer population changes. Population increases were greatest in the water plus nitrogen treatments, indicating that added nitrogen was synergistic with added water and suggesting that nitrogen addition spared bacteria the metabolic cost of N2 fixation, allowing greater reproduction. Plant-free column studies demonstrated a synergistic carbon-nitrogen effect when carbon levels were limiting (low malate addition) but not when carbon was abundant (high malate), further supporting this hypothesis. The results of this study indicate the presence of N2 fixer populations which interact with plants and which may play a role in the nitrogen balance of desert grasslands. PMID:8215373

  16. POPULATION DYNAMICS OF COTTON RATS ACROSS A LANDSCAPE MANIPULATED BY NITROGEN ADDITIONS AND ENCLOSURE FENCING

    EPA Science Inventory

    Nitrogen additions in grasslands have produced qualitative and quantitative changes in vegetation resulting in an increase in biomass and decrease in plant species diversity. As with plants, we theorize that animal communities will decrease in species richness and become dominat...

  17. Learning novel phonological neighbors: Syntactic category matters.

    PubMed

    Dautriche, Isabelle; Swingley, Daniel; Christophe, Anne

    2015-10-01

    Novel words (like tog) that sound like well-known words (dog) are hard for toddlers to learn, even though children can hear the difference between them (Swingley & Aslin, 2002, 2007). One possibility is that phonological competition alone is the problem. Another is that a broader set of probabilistic considerations is responsible: toddlers may resist considering tog as a novel object label because its neighbor dog is also an object. In three experiments, French 18-month-olds were taught novel words whose word forms were phonologically similar to familiar nouns (noun-neighbors), to familiar verbs (verb-neighbors) or to nothing (no-neighbors). Toddlers successfully learned the no-neighbors and verb-neighbors but failed to learn the noun-neighbors, although both novel neighbors had a familiar phonological neighbor in the toddlers' lexicon. We conclude that when creating a novel lexical entry, toddlers' evaluation of similarity in the lexicon is multidimensional, incorporating both phonological and semantic or syntactic features. PMID:26114905

  18. View of the south elevation of the bunkhouse and neighboring ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    View of the south elevation of the bunkhouse and neighboring buildings, looking to the east, In the background, from left to right in the photo, are the office, an agricultural shed, a small ranch hand's house (under the tree), and additional agricultural sheds. - Sespe Ranch, Bunkhouse, 2896 Telegraph Road, Fillmore, Ventura County, CA

  19. Good Neighbors: Shared Challenges and Solutions Toward Increasing Value at Academic Medical Centers and Universities.

    PubMed

    Clancy, Gerard P

    2015-12-01

    Academic medical centers (AMCs) and universities are experiencing increasing pressure to enhance the value they offer at the same time that they are facing challenges related to outcomes, controlling costs, new competition, and government mandates. Yet, rarely do the leaders of these academic neighbors work cooperatively to enhance value. In this Perspective the author, a former university regional campus president with duties in an AMC as an academic physician, shares his insights into the shared challenges these academic neighbors face in improving the value of their services in complex environments. He describes the successes some AMCs have had in generating revenues from new clinical programs that reduce the overall cost of care for larger populations. He also describes how several universities have taken a comprehensive approach to reduce overhead and administrative costs. The author identifies six themes related to successful value improvement efforts and provides examples of successful strategies used by AMCs and their university neighbors to improve the overall value of their programs. He concludes by encouraging leaders of AMCs and universities to share information about their successes in value improvements with each other, to seek additional joint value enhancement efforts, and to market their value improvements to the public. PMID:26266460

  20. Microsatellite variation and genetic structure of brook trout (Salvelinus fontinalis) populations in Labrador and neighboring Atlantic Canada: evidence for ongoing gene flow and dual routes of post-Wisconsinan colonization

    PubMed Central

    Pilgrim, Brettney L; Perry, Robert C; Keefe, Donald G; Perry, Elizabeth A; Dawn Marshall, H

    2012-01-01

    In conservation genetics and management, it is important to understand the contribution of historical and contemporary processes to geographic patterns of genetic structure in order to characterize and preserve diversity. As part of a 10-year monitoring program by the Government of Newfoundland and Labrador, Canada, we measured the population genetic structure of the world's most northern native populations of brook trout (Salvelinus fontinalis) in Labrador to gather baseline data to facilitate monitoring of future impacts of the recently opened Trans-Labrador Highway. Six-locus microsatellite profiles were obtained from 1130 fish representing 32 populations from six local regions. Genetic diversity in brook trout populations in Labrador (average HE= 0.620) is within the spectrum of variability found in other brook trout across their northeastern range, with limited ongoing gene flow occurring between populations (average pairwise FST= 0.139). Evidence for some contribution of historical processes shaping genetic structure was inferred from an isolation-by-distance analysis, while dual routes of post-Wisconsinan recolonization were indicated by STRUCTURE analysis: K= 2 was the most likely number of genetic groups, revealing a separation between northern and west-central Labrador from all remaining populations. Our results represent the first data from the nuclear genome of brook trout in Labrador and emphasize the usefulness of microsatellite data for revealing the extent to which genetic structure is shaped by both historical and contemporary processes. PMID:22837834

  1. Genome-Centric Analysis of Microbial Populations Enriched by Hydraulic Fracture Fluid Additives in a Coal Bed Methane Production Well.

    PubMed

    Robbins, Steven J; Evans, Paul N; Parks, Donovan H; Golding, Suzanne D; Tyson, Gene W

    2016-01-01

    Coal bed methane (CBM) is generated primarily through the microbial degradation of coal. Despite a limited understanding of the microorganisms responsible for this process, there is significant interest in developing methods to stimulate additional methane production from CBM wells. Physical techniques including hydraulic fracture stimulation are commonly applied to CBM wells, however the effects of specific additives contained in hydraulic fracture fluids on native CBM microbial communities are poorly understood. Here, metagenomic sequencing was applied to the formation waters of a hydraulically fractured and several non-fractured CBM production wells to determine the effect of this stimulation technique on the in-situ microbial community. The hydraulically fractured well was dominated by two microbial populations belonging to the class Phycisphaerae (within phylum Planctomycetes) and candidate phylum Aminicenantes. Populations from these phyla were absent or present at extremely low abundance in non-fractured CBM wells. Detailed metabolic reconstruction of near-complete genomes from these populations showed that their high relative abundance in the hydraulically fractured CBM well could be explained by the introduction of additional carbon sources, electron acceptors, and biocides contained in the hydraulic fracture fluid. PMID:27375557

  2. Genome-Centric Analysis of Microbial Populations Enriched by Hydraulic Fracture Fluid Additives in a Coal Bed Methane Production Well

    PubMed Central

    Robbins, Steven J.; Evans, Paul N.; Parks, Donovan H.; Golding, Suzanne D.; Tyson, Gene W.

    2016-01-01

    Coal bed methane (CBM) is generated primarily through the microbial degradation of coal. Despite a limited understanding of the microorganisms responsible for this process, there is significant interest in developing methods to stimulate additional methane production from CBM wells. Physical techniques including hydraulic fracture stimulation are commonly applied to CBM wells, however the effects of specific additives contained in hydraulic fracture fluids on native CBM microbial communities are poorly understood. Here, metagenomic sequencing was applied to the formation waters of a hydraulically fractured and several non-fractured CBM production wells to determine the effect of this stimulation technique on the in-situ microbial community. The hydraulically fractured well was dominated by two microbial populations belonging to the class Phycisphaerae (within phylum Planctomycetes) and candidate phylum Aminicenantes. Populations from these phyla were absent or present at extremely low abundance in non-fractured CBM wells. Detailed metabolic reconstruction of near-complete genomes from these populations showed that their high relative abundance in the hydraulically fractured CBM well could be explained by the introduction of additional carbon sources, electron acceptors, and biocides contained in the hydraulic fracture fluid. PMID:27375557

  3. Neurobehavioral deficits in Persian Gulf veterans: additional evidence from a population-based study.

    PubMed

    Storzbach, D; Rohlman, D S; Anger, W K; Binder, L M; Campbell, K A

    2001-01-01

    ) eliminated neurobehavioral performance differences between the remaining cases and the controls and provided support for the hypothesis that the slow ODTP cases might have been from the unhealthy end of the GW population prior to the war. However, there was no evidence of poor motivation, pre-GW educational differences, or greater association with abnormal psychological function in this group than in other cases or controls. PMID:11161646

  4. Very low levels of direct additive genetic variance in fitness and fitness components in a red squirrel population

    PubMed Central

    McFarlane, S Eryn; Gorrell, Jamieson C; Coltman, David W; Humphries, Murray M; Boutin, Stan; McAdam, Andrew G

    2014-01-01

    A trait must genetically correlate with fitness in order to evolve in response to natural selection, but theory suggests that strong directional selection should erode additive genetic variance in fitness and limit future evolutionary potential. Balancing selection has been proposed as a mechanism that could maintain genetic variance if fitness components trade off with one another and has been invoked to account for empirical observations of higher levels of additive genetic variance in fitness components than would be expected from mutation–selection balance. Here, we used a long-term study of an individually marked population of North American red squirrels (Tamiasciurus hudsonicus) to look for evidence of (1) additive genetic variance in lifetime reproductive success and (2) fitness trade-offs between fitness components, such as male and female fitness or fitness in high- and low-resource environments. “Animal model” analyses of a multigenerational pedigree revealed modest maternal effects on fitness, but very low levels of additive genetic variance in lifetime reproductive success overall as well as fitness measures within each sex and environment. It therefore appears that there are very low levels of direct genetic variance in fitness and fitness components in red squirrels to facilitate contemporary adaptation in this population. PMID:24963372

  5. Approximate nearest neighbors via dictionary learning

    NASA Astrophysics Data System (ADS)

    Cherian, Anoop; Morellas, Vassilios; Papanikolopoulos, Nikolaos

    2011-06-01

    Approximate Nearest Neighbors (ANN) in high dimensional vector spaces is a fundamental, yet challenging problem in many areas of computer science, including computer vision, data mining and robotics. In this work, we investigate this problem from the perspective of compressive sensing, especially the dictionary learning aspect. High dimensional feature vectors are seldom seen to be sparse in the feature domain; examples include, but not limited to Scale Invariant Feature Transform (SIFT) descriptors, Histogram Of Gradients, Shape Contexts, etc. Compressive sensing advocates that if a given vector has a dense support in a feature space, then there should exist an alternative high dimensional subspace where the features are sparse. This idea is leveraged by dictionary learning techniques through learning an overcomplete projection from the feature space so that the vectors are sparse in the new space. The learned dictionary aids in refining the search for the nearest neighbors to a query feature vector into the most likely subspace combination indexed by its non-zero active basis elements. Since the size of the dictionary is generally very large, distinct feature vectors are most likely to have distinct non-zero basis. Utilizing this observation, we propose a novel representation of the feature vectors as tuples of non-zero dictionary indices, which then reduces the ANN search problem into hashing the tuples to an index table; thereby dramatically improving the speed of the search. A drawback of this naive approach is that it is very sensitive to feature perturbations. This can be due to two possibilities: (i) the feature vectors are corrupted by noise, (ii) the true data vectors undergo perturbations themselves. Existing dictionary learning methods address the first possibility. In this work we investigate the second possibility and approach it from a robust optimization perspective. This boils down to the problem of learning a dictionary robust to feature

  6. A New Deep, Hard X-ray Survey of M31: Monitoring Black Hole and Neutron Star Accretion States in the X-ray Binary Population of Our Nearest Neighbor

    NASA Astrophysics Data System (ADS)

    Wik, Daniel R.; Hornschemeier, Ann E.; Yukita, Mihoko; Ptak, Andrew; Lehmer, Bret; Maccarone, Thomas J.; Antoniou, Vallia; Zezas, Andreas; Harrison, Fiona; Stern, Daniel; Venters, Tonia M.; Williams, Benjamin F.; Eracleous, Michael; Plucinsky, Paul P.; Pooley, David A.

    2016-01-01

    X-ray binaries (XRBs) trace old and new stellar populations in galaxies, and thus star formation history and star formation rate. X-ray emission from XRBs may be responsible for significant amounts of heating of the early Intergalactic Medium at Cosmic Dawn and may also play a significant role in reionization. Until recently, the hard emission from these populations could only be studied for XRBs in our own galaxy, where it is often difficult to measure accurate distances and thus luminosities. The launch of NuSTAR, the first focusing hard X-ray observatory, has allowed us to resolve the brightest XRBs (down to LX ~ few times 1038 erg/s) in galaxies like NGC 253, M83, and M82 up to 4 Mpc away. To reach much lower X-ray luminosities that are more typical of XRBs in the Milky Way (LX <~ 1037 erg/s), we have observed M31 in 3 NuSTAR fields, up to 5 visits apiece for more than 1 Ms total exposure, mostly within the footprint of the Panchromatic Hubble Andromeda Treasury (PHAT) Survey. Our monitoring campaign reveals over 40 accreting black holes and neutron stars -- distinguished from each other by their spectral shape in the hard band -- some of which undergo state changes over the month-long timescales captured by our legacy survey to date. We also discuss implications for this updated understanding of XRB populations on early-Universe measurements in, e.g., the 7 Ms Chandra Deep Field survey.

  7. Neighbor intervention: a game-theoretic model.

    PubMed

    Mesterton-Gibbons, Mike; Sherratt, Tom N

    2009-01-21

    It has long been argued that a resident may benefit from helping its neighbor defend a territory against a challenger to avoid renegotiating its boundaries with a new and potentially stronger individual. We quantify this theory by exploring games involving challengers, residents and potential allies. In a simplified discrete game with zero variation of fighting strength, helping neighbors is part of an evolutionarily stable strategy (ESS) only if fighting costs are low relative to those of renegotiation. However, if relative fighting costs are high then an interventional ESS remains possible with finite variation of strength. Under these conditions, neighbors may help residents fight off intruders, but only when the resident does not stand a reliable chance of winning alone. We show that neighbor intervention is more likely with low home advantage to occupying a territory, strengths combining synergistically or low probability that an ally will be usurped, amongst other factors. Our parameterized model readily explains occasional intervention in the Australian fiddler crab, including why the ally tended to be larger than both the assisted neighbor and the intruder. Reciprocity is not necessary for this type of cooperation to persist, but also it is by no means inevitable in territorial species. PMID:18977365

  8. Additive genetic variation for tolerance to estrogen pollution in natural populations of Alpine whitefish (Coregonus sp., Salmonidae)

    PubMed Central

    Brazzola, Gregory; Chèvre, Nathalie; Wedekind, Claus

    2014-01-01

    The evolutionary potential of natural populations to adapt to anthropogenic threats critically depends on whether there exists additive genetic variation for tolerance to the threat. A major problem for water-dwelling organisms is chemical pollution, and among the most common pollutants is 17α-ethinylestradiol (EE2), the synthetic estrogen that is used in oral contraceptives and that can affect fish at various developmental stages, including embryogenesis. We tested whether there is variation in the tolerance to EE2 within Alpine whitefish. We sampled spawners from two species of different lakes, bred them in vitro in a full-factorial design each, and studied growth and mortality of embryos. Exposure to EE2 turned out to be toxic in all concentrations we tested (≥1 ng/L). It reduced embryo viability and slowed down embryogenesis. We found significant additive genetic variation in EE2-induced mortality in both species, that is, genotypes differed in their tolerance to estrogen pollution. We also found maternal effects on embryo development to be influenced by EE2, that is, some maternal sib groups were more susceptible to EE2 than others. In conclusion, the toxic effects of EE2 were strong, but both species demonstrated the kind of additive genetic variation that is necessary for an evolutionary response to this type of pollution. PMID:25553069

  9. Additive genetic variation for tolerance to estrogen pollution in natural populations of Alpine whitefish (Coregonus sp., Salmonidae).

    PubMed

    Brazzola, Gregory; Chèvre, Nathalie; Wedekind, Claus

    2014-11-01

    The evolutionary potential of natural populations to adapt to anthropogenic threats critically depends on whether there exists additive genetic variation for tolerance to the threat. A major problem for water-dwelling organisms is chemical pollution, and among the most common pollutants is 17α-ethinylestradiol (EE2), the synthetic estrogen that is used in oral contraceptives and that can affect fish at various developmental stages, including embryogenesis. We tested whether there is variation in the tolerance to EE2 within Alpine whitefish. We sampled spawners from two species of different lakes, bred them in vitro in a full-factorial design each, and studied growth and mortality of embryos. Exposure to EE2 turned out to be toxic in all concentrations we tested (≥1 ng/L). It reduced embryo viability and slowed down embryogenesis. We found significant additive genetic variation in EE2-induced mortality in both species, that is, genotypes differed in their tolerance to estrogen pollution. We also found maternal effects on embryo development to be influenced by EE2, that is, some maternal sib groups were more susceptible to EE2 than others. In conclusion, the toxic effects of EE2 were strong, but both species demonstrated the kind of additive genetic variation that is necessary for an evolutionary response to this type of pollution. PMID:25553069

  10. Knowing Our Neighbors: Fundamental Properties of Nearby Stars

    NASA Astrophysics Data System (ADS)

    Bartlett, Jennifer L.; Ianna, P. A.; Henry, T. J.; Begam, M. C.; Jao, W.; Subasavage, J. P., Jr.; Nearby Stars, Research Consortium on

    2007-12-01

    Although the stars within 25 pc of the Sun constitute the one stellar sample that we can aspire to know thoroughly, we continue identifying objects closer than 10 pc. We know even less about local substellar populations, especially planets. The Cerro Tololo Inter-American Observatory Parallax Investigation (CTIOPI) is observing 31 late-type, red dwarfs selected for my thesis as part of a larger effort to complete the nearby star census. Preliminary parallaxes substantiate distances less than 25 pc for at least 28 stars. Of these, LP 991-84, LHS 6167, and LP 876-10 may lie within 10 pc. Preliminary proper motions for all but three stars exceed 0.2” yr-1. One recently established neighbor, LP 869-26, also appears to be a new binary. Associated VRI photometry and spectroscopy are in progress as well. Many of these stars are potential targets for astrometric planet searches, such as the Space Interferometry Mission (SIM). In addition to confirming solar neighborhood membership, astrometry can discover brown dwarfs and planets. Time-series analyses of residuals to the UVa Southern Parallax Program (SPP) observations are contributing to frequency and distribution data for nearby substellar objects. In particular, LHS 288 displays an intriguing signal, which might be caused by a very low-mass companion. Twelve other SPP stars demonstrate no significant perturbations. Finally, re-analyzing the Leander McCormick Observatory photographic plates of Barnard's Star failed to detect any planets orbiting it. This study of more than 900 exposures was sensitive to bodies of 2.2 Jupiter masses or more. NSF grants AST 98-20711 and 05-07711, GSU, NASA-SIM, Litton Marine Systems, UVa, Hampden-Sydney College, US Naval Observatory, and the Levinson Fund of the Peninsula Community Foundation supported this research. The ANU Research School of Astronomy & Astrophysics allocated observing time generously. CTIOPI was an NOAO Survey Program and continues as part of the SMARTS Consortium.

  11. The clinic as a good corporate neighbor.

    PubMed

    Sass, Hans-Martin

    2013-02-01

    Clinics today specialize in health repair services similar to car repair shops; procedures and prices are standardized, regulated, and inflexibly uniform. Clinics of the future have to become Health Care Centers in order to be more respected and more effective corporate neighbors in offering outreach services in health education and preventive health care. The traditional concept of care for health is much broader than repair management and includes the promotion of lay health competence and responsibility in healthy social and natural environments. The corporate profile and ethics of the clinic as a good and competitive local neighbor will have to focus on [a] better personalized care, [b] education and services in preventive care, [c] direct or web-based information and advice for general, seasonal, or age related health risks, and on developing and improving trustworthy character traits of the clinic as a corporate person and a good neighbor. PMID:23444251

  12. Did the addition of concomitant chemotherapy to radiotherapy improve outcomes in hypopharyngeal cancer? A population-based study

    PubMed Central

    Hall, S.F.; Griffiths, R.

    2016-01-01

    Background For oncologists and for patients, no site-specific clinical trial evidence has emerged for the use of concurrent chemotherapy with radiotherapy (ccrt) over radiotherapy (rt) alone for cancer of the hypopharynx (hpc) or for other human papilloma virus–negative head-and-neck cancers. Methods This retrospective population-based cohort study using administrative data compared treatments over time (1990–2000 vs. 2000–2010), treatment outcomes, and outcomes over time in 1333 cases of hpc diagnosed in Ontario between January 1990 and December 2010. Results The incidence of hpc is declining; the use of ccrt that began in 2001 is increasing; and the 3-year overall survival for all patients remains poor at 34.6%. No difference in overall survival was observed in a comparison of patients treated in the decade before ccrt and of patients treated in the decade during the uptake of ccrt. Conclusions The addition of ccrt to the armamentarium of treatment options for oncologists treating head-and-neck patients did not improve outcomes for hpc at the population level. PMID:27536177

  13. Evidence for cultural differences between neighboring chimpanzee communities.

    PubMed

    Luncz, Lydia V; Mundry, Roger; Boesch, Christophe

    2012-05-22

    The majority of evidence for cultural behavior in animals has come from comparisons between populations separated by large geographical distances that often inhabit different environments. The difficulty of excluding ecological and genetic variation as potential explanations for observed behaviors has led some researchers to challenge the idea of animal culture. Chimpanzees (Pan troglodytes verus) in the Taï National Park, Côte d'Ivoire, crack Coula edulis nuts using stone and wooden hammers and tree root anvils. In this study, we compare for the first time hammer selection for nut cracking across three neighboring chimpanzee communities that live in the same forest habitat, which reduces the likelihood of ecological variation. Furthermore, the study communities experience frequent dispersal of females at maturity, which eliminates significant genetic variation. We compared key ecological factors, such as hammer availability and nut hardness, between the three neighboring communities and found striking differences in group-specific hammer selection among communities despite similar ecological conditions. Differences were found in the selection of hammer material and hammer size in response to changes in nut resistance over time. Our findings highlight the subtleties of cultural differences in wild chimpanzees and illustrate how cultural knowledge is able to shape behavior, creating differences among neighboring social groups. PMID:22578420

  14. We're Neighbors, Let's Be Friends!

    ERIC Educational Resources Information Center

    Sing, Sandie F.

    1992-01-01

    Asserts that the Pacific Rim nations of Asia are neighbors to California and that teachers should use that concept as an instructional device. Presents six teaching activities that are linked to the California History-Social Science Framework. Includes step-by-step instructions for implementation. (CFR)

  15. An eight-neighbor filter for LARSYS

    NASA Technical Reports Server (NTRS)

    Boston, S.; Giddings, L.

    1976-01-01

    An eight-neighbor filter was developed for the LARSYS program. It is used in cleaning zones and sharpening boundaries during the digitization of hand-painted zone maps, in making computer-based vegetation zones more homogeneous, and in classification of natural images, such as LANDSAT or other multispectral imagery.

  16. Natural neighbors interpolation method for correcting IDW

    NASA Astrophysics Data System (ADS)

    Li, Jia; Li, Jiatian; Zuo, Xiaoqing; Duan, Ping

    2009-10-01

    Digital Elevation Model (DEM) interpolation is one of basic functions for spatial description and spatial analysis in GIS and related spatial information fields. Interpolation can be viewed as a function for estimating the heights of unknown points using a set of proper known data. It is a key problem of DEM. Inverse distance weighting (IDW) interpolation is the most commonly used in DEM. The reference points selected by IDW might not be well distributed in space. This leads to the discontinuity problem of interpolated DEM surface and some artifacts might be generated. In order to solve the problem caused by ill-distribution of the number and position of reference points in searching process, this paper put forward a new surface interpolation model about first-order natural neighbor interpolation. The use of first-order natural neighbor interpolation based on TIN can adapt well to poor data distributions because inserting into a point generates a well-defined set of neighbors. In the fitting process, according to range of influence composed by first-order natural neighbor points and the triangle area as weight base of the known point, a non-linear fitting equation can be constructed. Comparative experiments show that this method has higher precision and more practical application value.

  17. Neighboring optimal guidance theory and computer program

    NASA Technical Reports Server (NTRS)

    Powers, W. F.

    1974-01-01

    Developments of the linear quadratic optimal control problem are discussed. The theory is applicable to the development of neighboring optimal feedback guidance gains, and is useful as a tool for synthesizing feedback control laws. A computer program which requires only the pertinent matrices of the linear quadratic problem is described.

  18. The Neighboring Field of Brief Individual Psychotherapy.

    ERIC Educational Resources Information Center

    Gustafson, Jim

    1987-01-01

    Presents field of brief individual psychotherapy as coherent set of conventions, despite its diverse origins in schools of dynamic, behavioral, interpersonal or cognitive, and strategic psychotherapy. Proposes advantages and drawbacks of shared conventions and discusses how neighboring field could help field of family therapy reduce its errors.…

  19. Type 1 Diabetes in the Spanish Population: additional factors to Class II HLA-DR3 and -DR4

    PubMed Central

    Urcelay, Elena; Santiago, José L; de la Calle, Hermenegildo; Martínez, Alfonso; Méndez, Julián; Ibarra, José M; Maluenda, Carlos; Fernández-Arquero, Miguel; de la Concha, Emilio G

    2005-01-01

    Background The Major Histocompatibility Complex is the main genetic contributor to susceptibility to type 1 diabetes (T1D); genome-wide scans have consistently mapped increased predisposition to this region. The highest disease risk has been associated with HLA-DR3 and HLA-DR4. In particular, the DR3-positive ancestral haplotype 18.2 was reported as highly diabetogenic. We aimed to corroborate whether this haplotype increases the susceptibility conferred by the DQ2-DR3 alleles in a Mediterranean population. We also searched for additional susceptibility factors to the classic DQ2-DR3 and DQ8-DR4. Results Genetic MHC markers were analysed in a case-control study with 302 T1D patients and 529 ethnically matched controls. DR3-TNFa1b5 carrier rate was significantly higher in DR3-positive heterozygous T1D patients than in DR3-positive heterozygous controls (p = 0.0019; odds ratio OR [95% confidence interval CI] = 2.26 [1.3–3.93]). This data was confirmed analysing the allelic frequency, which includes the information corresponding to the DR3-homozygous individuals (p = 0.001; OR = 2.09) and by using the Arlequin software to check the DR3-positive haplotypes (p = 0.004;OR = 1.93). The present results provide strong evidence of a second susceptibility region in the ancestral haplotype 18.2 in the Spanish population. Moreover, we searched for T1D susceptibility factors in addition to the MHC classical ones, within the DR2-DQ6/DR3-DQ2/DR4-DQ8 negative population. Several genetic markers in both MHC class II (DQA1*0101-DQB1*0501 [p = 0.007;OR = 2.81], DQA1*0201-DQB1*0202 [p = 0.03; OR = 2.35]) and III (TNFa2b1 [p = 0.01 OR = 2.74], BAT-2*2 [p = 0.004; OR = 3.19]) were found. These different alleles associated with T1D were not independent and we observed linkage disequilibrium among them leading us to describe two new risk haplotypes (DQA1*0101-DQB1*0501-TNFa2b1 and DQA1*0201-DQB1*0202- BAT-2*2). Finally, we studied a T1D susceptibility/protection marker located in

  20. Knowing our neighbors: Fundamental properties of nearby stars

    NASA Astrophysics Data System (ADS)

    Bartlett, Jennifer Lynn

    The stars within 25 parsecs (pc) of our Sun constitute the one stellar sample that we aspire to know thoroughly, but we still have not even identified all of the stars within 10 pc. We have still less knowledge of the nearby substellar population, especially the planets. The four studies described herein expand our knowledge of the solar neighborhood. First, a re-analysis of the Leander McCormick Observatory photographic plates of Barnard's Star failed to detect any planets orbiting it, and this study would have detected planets with 2.2 Jupiter masses or greater. In addition, its parallax, proper motion, and secular acceleration were measured with results comparable with those from more modern equipment. Second, increased information about nearby planets was sought through time series analyses of astrometric residuals to stars observed by the University of Virginia Southern Parallax Program. Of these, LHS 288 displays an intriguing signal, which might be caused by a very low mass companion. Twelve other stars demonstrate no astrometric perturbations. While astrometry could reveal the presence of unseen companions, distances from trigonometric parallaxes define the solar neighborhood and identify its inhabitants. Preliminary parallaxes for 43 potential nearby stars being observed by the Cerro Tololo Inter-American Observatory Parallax Investigation (CTIOPI) confirmed 28 stars as being within 25 pc, including three stars---LP 991-84, LHS 6167, and LP 876-10---that probably lie within 10 pc. Three more stars lie near the 25-pc boundary and their final parallaxes may qualify them as nearby. One recently established neighbor, LP 869-26, is a potential binary. For many stars in this third sample, preliminary photometry ( V, R, and I bands), spectroscopy, and proper motions are also available. Despite the continuing importance of ground-based parallax measurements, few active programs remain. The final project tested the recently installed infrared camera on the 31-inch

  1. "Inflaming your neighbors": copycat firesetting in adolescents.

    PubMed

    Lambie, Ian; Randell, Isabel; McDowell, Heather

    2014-09-01

    The objective of this article is to consider and discuss existing research and theory concerning copycat problem behaviors and copycat offending and how this may be applicable to populations of firesetting children and adolescents. The primary databases used to search for literature were PsychInfo, Medline, and Eric. Google Scholar was used as an additional Internet search engine. While the primary focus was on literature published since 1990, earlier literature considered to be important was also included. Qualitative and quantitative studies suggest that consumption of violent media affects aggressive behaviors and supports the existence of a copycat effect within some offending populations. Existing literature suggests that processes such as desensitization, observational learning, priming, and alteration of scripts are involved in copycat behaviors and are mediated by individual, environmental, and media factors. While literature concerning firesetters has largely overlooked the possibility of a copycat effect, given their young age, and the often antisocial nature and individual and environmental problems associated with firesetters, they may be a population particularly vulnerable to such an effect. There is a need for consideration of the potential role of the media in copycat behaviors and for care to be taken in the way that the media reports events. PMID:23832794

  2. Nonparametric k -nearest-neighbor entropy estimator

    NASA Astrophysics Data System (ADS)

    Lombardi, Damiano; Pant, Sanjay

    2016-01-01

    A nonparametric k -nearest-neighbor-based entropy estimator is proposed. It improves on the classical Kozachenko-Leonenko estimator by considering nonuniform probability densities in the region of k -nearest neighbors around each sample point. It aims to improve the classical estimators in three situations: first, when the dimensionality of the random variable is large; second, when near-functional relationships leading to high correlation between components of the random variable are present; and third, when the marginal variances of random variable components vary significantly with respect to each other. Heuristics on the error of the proposed and classical estimators are presented. Finally, the proposed estimator is tested for a variety of distributions in successively increasing dimensions and in the presence of a near-functional relationship. Its performance is compared with a classical estimator, and a significant improvement is demonstrated.

  3. Nonparametric k-nearest-neighbor entropy estimator.

    PubMed

    Lombardi, Damiano; Pant, Sanjay

    2016-01-01

    A nonparametric k-nearest-neighbor-based entropy estimator is proposed. It improves on the classical Kozachenko-Leonenko estimator by considering nonuniform probability densities in the region of k-nearest neighbors around each sample point. It aims to improve the classical estimators in three situations: first, when the dimensionality of the random variable is large; second, when near-functional relationships leading to high correlation between components of the random variable are present; and third, when the marginal variances of random variable components vary significantly with respect to each other. Heuristics on the error of the proposed and classical estimators are presented. Finally, the proposed estimator is tested for a variety of distributions in successively increasing dimensions and in the presence of a near-functional relationship. Its performance is compared with a classical estimator, and a significant improvement is demonstrated. PMID:26871193

  4. Nearest Neighbor Algorithms for Pattern Classification

    NASA Technical Reports Server (NTRS)

    Barrios, J. O.

    1972-01-01

    A solution of the discrimination problem is considered by means of the minimum distance classifier, commonly referred to as the nearest neighbor (NN) rule. The NN rule is nonparametric, or distribution free, in the sense that it does not depend on any assumptions about the underlying statistics for its application. The k-NN rule is a procedure that assigns an observation vector z to a category F if most of the k nearby observations x sub i are elements of F. The condensed nearest neighbor (CNN) rule may be used to reduce the size of the training set required categorize The Bayes risk serves merely as a reference-the limit of excellence beyond which it is not possible to go. The NN rule is bounded below by the Bayes risk and above by twice the Bayes risk.

  5. Network geometry inference using common neighbors

    NASA Astrophysics Data System (ADS)

    Papadopoulos, Fragkiskos; Aldecoa, Rodrigo; Krioukov, Dmitri

    2015-08-01

    We introduce and explore a method for inferring hidden geometric coordinates of nodes in complex networks based on the number of common neighbors between the nodes. We compare this approach to the HyperMap method, which is based only on the connections (and disconnections) between the nodes, i.e., on the links that the nodes have (or do not have). We find that for high degree nodes, the common-neighbors approach yields a more accurate inference than the link-based method, unless heuristic periodic adjustments (or "correction steps") are used in the latter. The common-neighbors approach is computationally intensive, requiring O (t4) running time to map a network of t nodes, versus O (t3) in the link-based method. But we also develop a hybrid method with O (t3) running time, which combines the common-neighbors and link-based approaches, and we explore a heuristic that reduces its running time further to O (t2) , without significant reduction in the mapping accuracy. We apply this method to the autonomous systems (ASs) Internet, and we reveal how soft communities of ASs evolve over time in the similarity space. We further demonstrate the method's predictive power by forecasting future links between ASs. Taken altogether, our results advance our understanding of how to efficiently and accurately map real networks to their latent geometric spaces, which is an important necessary step toward understanding the laws that govern the dynamics of nodes in these spaces, and the fine-grained dynamics of network connections.

  6. Network geometry inference using common neighbors.

    PubMed

    Papadopoulos, Fragkiskos; Aldecoa, Rodrigo; Krioukov, Dmitri

    2015-08-01

    We introduce and explore a method for inferring hidden geometric coordinates of nodes in complex networks based on the number of common neighbors between the nodes. We compare this approach to the HyperMap method, which is based only on the connections (and disconnections) between the nodes, i.e., on the links that the nodes have (or do not have). We find that for high degree nodes, the common-neighbors approach yields a more accurate inference than the link-based method, unless heuristic periodic adjustments (or "correction steps") are used in the latter. The common-neighbors approach is computationally intensive, requiring O(t4) running time to map a network of t nodes, versus O(t3) in the link-based method. But we also develop a hybrid method with O(t3) running time, which combines the common-neighbors and link-based approaches, and we explore a heuristic that reduces its running time further to O(t2), without significant reduction in the mapping accuracy. We apply this method to the autonomous systems (ASs) Internet, and we reveal how soft communities of ASs evolve over time in the similarity space. We further demonstrate the method's predictive power by forecasting future links between ASs. Taken altogether, our results advance our understanding of how to efficiently and accurately map real networks to their latent geometric spaces, which is an important necessary step toward understanding the laws that govern the dynamics of nodes in these spaces, and the fine-grained dynamics of network connections. PMID:26382454

  7. A fast method to gather neighbors in vectorized Monte Carlo simulations

    NASA Astrophysics Data System (ADS)

    Vohwinkel, Claus

    1988-11-01

    An algorithm is presented, which gathers neighbors for n-dimensional lattices with periodic boundary conditions. The method used does not need the usual GATHER instructions. With the exception of a few bit-vectors no additional storage is needed. The algorithm can be easily extended to more than nearest neighbor interactions. In a simulation of SU(3) lattice gauge theory on a 2-pipe CDC CYBER 205, using 32-bit arithmetic, the time spent on gathering neighboring links is reduced from 5.7 μs to 1.3 μs per link per update, and an update time of 17 μs per link is obtained.

  8. Neighbor effects of neurons bearing protective transgenes

    PubMed Central

    Lee, Angela L; Campbell, Laura B; Sapolsky, Robert M

    2010-01-01

    Viral vectors bearing protective transgenes can decrease neurotoxicity after varied necrotic insults. A neuron that dies necrotically releases glutamate, calcium and reactive oxygen species, thereby potentially damaging neighboring neurons. This raises the possibility that preventing such neuron death via gene therapy can secondarily protect neighboring neurons that, themselves, do not express a protective transgene. We determined whether such “good neighbor” effects occur, by characterizing neurons that, while uninfected themselves, are in close proximity to a transgene-bearing neuron. We tested two genes whose overexpression protects against excitotoxicity: anti-apoptotic Bcl-2, and a calcium-activated K+ channel, SK2. Using herpes simplex virus type 2-mediated transgene delivery to hippocampal cultures, we observed “good neighbor” effects on neuronal survival following an excitotoxic insult. However, in the absence of insult, “bad neighbor effects” could also occur (i.e., where being in proximity to a neuron constitutively expressing one of those transgenes is deleterious). We also characterized the necessity for cell-cell contact for these effects. These phenomena may have broad implications for the efficacy of gene overexpression strategies in the CNS. PMID:20417625

  9. Population.

    ERIC Educational Resources Information Center

    King, Pat; Landahl, John

    This pamphlet has been prepared in response to a new problem, a rapidly increasing population, and a new need, population education. It is designed to help teachers provide their students with some basic population concepts with stress placed on the elements of decision making. In the first section of the pamphlet, some of the basic concepts of…

  10. Directed Abelian sandpile with multiple downward neighbors.

    PubMed

    Dhar, D; Pruessner, G; Expert, P; Christensen, K; Zachariou, N

    2016-04-01

    We study the directed Abelian sandpile model on a square lattice, with K downward neighbors per site, K>2. The K=3 case is solved exactly, which extends the earlier known solution for the K=2 case. For K>2, the avalanche clusters can have holes and side branches and are thus qualitatively different from the K=2 case where avalanche clusters are compact. However, we find that the critical exponents for K>2 are identical with those for the K=2 case, and the large-scale structure of the avalanches for K>2 tends to the K=2 case. PMID:27176254

  11. Directed Abelian sandpile with multiple downward neighbors

    NASA Astrophysics Data System (ADS)

    Dhar, D.; Pruessner, G.; Expert, P.; Christensen, K.; Zachariou, N.

    2016-04-01

    We study the directed Abelian sandpile model on a square lattice, with K downward neighbors per site, K >2 . The K =3 case is solved exactly, which extends the earlier known solution for the K =2 case. For K >2 , the avalanche clusters can have holes and side branches and are thus qualitatively different from the K =2 case where avalanche clusters are compact. However, we find that the critical exponents for K >2 are identical with those for the K =2 case, and the large-scale structure of the avalanches for K >2 tends to the K =2 case.

  12. Maximum expected accuracy structural neighbors of an RNA secondary structure

    PubMed Central

    2012-01-01

    Background Since RNA molecules regulate genes and control alternative splicing by allostery, it is important to develop algorithms to predict RNA conformational switches. Some tools, such as paRNAss, RNAshapes and RNAbor, can be used to predict potential conformational switches; nevertheless, no existent tool can detect general (i.e., not family specific) entire riboswitches (both aptamer and expression platform) with accuracy. Thus, the development of additional algorithms to detect conformational switches seems important, especially since the difference in free energy between the two metastable secondary structures may be as large as 15-20 kcal/mol. It has recently emerged that RNA secondary structure can be more accurately predicted by computing the maximum expected accuracy (MEA) structure, rather than the minimum free energy (MFE) structure. Results Given an arbitrary RNA secondary structure S0 for an RNA nucleotide sequence a = a1,..., an, we say that another secondary structure S of a is a k-neighbor of S0, if the base pair distance between S0 and S is k. In this paper, we prove that the Boltzmann probability of all k-neighbors of the minimum free energy structure S0 can be approximated with accuracy ε and confidence 1 - p, simultaneously for all 0 ≤ k < K, by a relative frequency count over N sampled structures, provided that N>N(ε,p,K)=Φ-1p2K24ε2, where Φ(z) is the cumulative distribution function (CDF) for the standard normal distribution. We go on to describe the algorithm RNAborMEA, which for an arbitrary initial structure S0 and for all values 0 ≤ k < K, computes the secondary structure MEA(k), having maximum expected accuracy over all k-neighbors of S0. Computation time is O(n3 · K2), and memory requirements are O(n2 · K). We analyze a sample TPP riboswitch, and apply our algorithm to the class of purine riboswitches. Conclusions The approximation of RNAbor by sampling, with rigorous bound on accuracy, together with the computation of

  13. Structural neighboring property for identifying protein-protein binding sites

    PubMed Central

    2015-01-01

    Background The protein-protein interaction plays a key role in the control of many biological functions, such as drug design and functional analysis. Determination of binding sites is widely applied in molecular biology research. Therefore, many efficient methods have been developed for identifying binding sites. In this paper, we calculate structural neighboring property through Voronoi diagram. Using 6,438 complexes, we study local biases of structural neighboring property on interface. Results We propose a novel statistical method to extract interacting residues, and interacting patches can be clustered as predicted interface residues. In addition, structural neighboring property can be adopted to construct a new energy function, for evaluating docking solutions. It includes new statistical property as well as existing energy items. Comparing to existing methods, our approach improves overall Fnat value by at least 3%. On Benchmark v4.0, our method has average Irmsd value of 3.31Å and overall Fnat value of 63%, which improves upon Irmsd of 3.89 Å and Fnat of 49% for ZRANK, and Irmsd of 3.99Å and Fnat of 46% for ClusPro. On the CAPRI targets, our method has average Irmsd value of 3.46 Å and overall Fnat value of 45%, which improves upon Irmsd of 4.18 Å and Fnat of 40% for ZRANK, and Irmsd of 5.12 Å and Fnat of 32% for ClusPro. Conclusions Experiments show that our method achieves better results than some state-of-the-art methods for identifying protein-protein binding sites, with the prediction quality improved in terms of CAPRI evaluation criteria. PMID:26356630

  14. The neurologist as a medical home neighbor.

    PubMed

    Hoch, Daniel B; Homonoff, Mark C; Moawad, Heidi; Cohen, Bruce H; Esper, Gregory J; Becker, Amanda; Busis, Neil A

    2013-04-01

    Recent health policy initiatives designed to improve care coordination have stimulated the resurgence of the patient-centered medical home (PCMH) model. The details of how primary and specialty care are coordinated within the PCMH model are of interest to specialists. A good medical home "neighbor" must adhere to principles that complement the PCMH team-based approach and personal relationship to the patient. One issue for neurologists considering participation in this model is whether they will function as the principal physician for some patients, only in the role of a consultant, or take some new role. It is too early to suggest any one payment method as superior, or establish the appropriate capitation fees for practicing neurologists. Recommendations are provided for neurologists considering participation in a PCMH neighborhood. PMID:23914323

  15. The surprising power of neighborly advice.

    PubMed

    Gilbert, Daniel T; Killingsworth, Matthew A; Eyre, Rebecca N; Wilson, Timothy D

    2009-03-20

    Two experiments revealed that (i) people can more accurately predict their affective reactions to a future event when they know how a neighbor in their social network reacted to the event than when they know about the event itself and (ii) people do not believe this. Undergraduates made more accurate predictions about their affective reactions to a 5-minute speed date (n = 25) and to a peer evaluation (n = 88) when they knew only how another undergraduate had reacted to these events than when they had information about the events themselves. Both participants and independent judges mistakenly believed that predictions based on information about the event would be more accurate than predictions based on information about how another person had reacted to it. PMID:19299622

  16. Raman scattering mediated by neighboring molecules

    NASA Astrophysics Data System (ADS)

    Williams, Mathew D.; Bradshaw, David S.; Andrews, David L.

    2016-05-01

    Raman scattering is most commonly associated with a change in vibrational state within individual molecules, the corresponding frequency shift in the scattered light affording a key way of identifying material structures. In theories where both matter and light are treated quantum mechanically, the fundamental scattering process is represented as the concurrent annihilation of a photon from one radiation mode and creation of another in a different mode. Developing this quantum electrodynamical formulation, the focus of the present work is on the spectroscopic consequences of electrodynamic coupling between neighboring molecules or other kinds of optical center. To encompass these nanoscale interactions, through which the molecular states evolve under the dual influence of the input light and local fields, this work identifies and determines two major mechanisms for each of which different selection rules apply. The constituent optical centers are considered to be chemically different and held in a fixed orientation with respect to each other, either as two components of a larger molecule or a molecular assembly that can undergo free rotation in a fluid medium or as parts of a larger, solid material. The two centers are considered to be separated beyond wavefunction overlap but close enough together to fall within an optical near-field limit, which leads to high inverse power dependences on their local separation. In this investigation, individual centers undergo a Stokes transition, whilst each neighbor of a different species remains in its original electronic and vibrational state. Analogous principles are applicable for the anti-Stokes case. The analysis concludes by considering the experimental consequences of applying this spectroscopic interpretation to fluid media; explicitly, the selection rules and the impact of pressure on the radiant intensity of this process.

  17. Raman scattering mediated by neighboring molecules.

    PubMed

    Williams, Mathew D; Bradshaw, David S; Andrews, David L

    2016-05-01

    Raman scattering is most commonly associated with a change in vibrational state within individual molecules, the corresponding frequency shift in the scattered light affording a key way of identifying material structures. In theories where both matter and light are treated quantum mechanically, the fundamental scattering process is represented as the concurrent annihilation of a photon from one radiation mode and creation of another in a different mode. Developing this quantum electrodynamical formulation, the focus of the present work is on the spectroscopic consequences of electrodynamic coupling between neighboring molecules or other kinds of optical center. To encompass these nanoscale interactions, through which the molecular states evolve under the dual influence of the input light and local fields, this work identifies and determines two major mechanisms for each of which different selection rules apply. The constituent optical centers are considered to be chemically different and held in a fixed orientation with respect to each other, either as two components of a larger molecule or a molecular assembly that can undergo free rotation in a fluid medium or as parts of a larger, solid material. The two centers are considered to be separated beyond wavefunction overlap but close enough together to fall within an optical near-field limit, which leads to high inverse power dependences on their local separation. In this investigation, individual centers undergo a Stokes transition, whilst each neighbor of a different species remains in its original electronic and vibrational state. Analogous principles are applicable for the anti-Stokes case. The analysis concludes by considering the experimental consequences of applying this spectroscopic interpretation to fluid media; explicitly, the selection rules and the impact of pressure on the radiant intensity of this process. PMID:27155637

  18. Demography and Population Projection of Aphis fabae (Hemiptera: Aphididae): with Additional Comments on Life Table Research Criteria.

    PubMed

    Akca, Izzet; Ayvaz, Tamer; Yazici, Eda; Smith, Cecil L; Chi, Hsin

    2015-08-01

    We collected developmental, survival, and reproduction data for Aphis fabae Scopoli (Hemiptera: Aphididae) reared on faba bean, Vicia faba L. 'Sevilla' at four constant temperatures (15, 20, 25, and 30°C), 70% relative humidity, and a photoperiod of 16:8 (L:D) h. The highest intrinsic rate of increase (r = 0.4347 d(-1)) and finite rate (λ = 1.5445 d(-1)) were observed at 25°C. The population projection based on the age-stage, two-sex life table quantitatively revealed the growth potential and stage structure of the aphid. We have included the following suggestions to aid researchers in life table studies: 1) The bootstrap method should be used to estimate the variance and SEs of developmental time, survival rate, fecundity, and population parameters. 2) The required number of bootstraps is dependent on the life table data--the higher the variation among individuals, the higher the number of bootstraps should be. In most cases, we suggest that 100,000 bootstraps should be used to obtain a stable estimate of variance and SEs. 3) Computer projection based on the age-stage, two-sex life table should be used to reveal the stage structure during population growth. 4) We used a simple equation based on the total fecundity, survival rate to adult stage, and first reproductive age to detect possible errors in life table parameters. 5) To assist readers in comprehending results, life table studies should include the cohort size, preadult survival rate, number of emerged female adults, mean fecundity, survival and fecundity curves, and population parameters. PMID:26470285

  19. Additive influence of genetic predisposition and conventional risk factors in the incidence of coronary heart disease: a population-based study in Greece

    Technology Transfer Automated Retrieval System (TEKTRAN)

    An additive genetic risk score (GRS) for coronary heart disease (CHD) has previously been associated with incident CHD in the population-based Greek European Prospective Investigation into Cancer and nutrition (EPIC) cohort. In this study, we explore GRS-‘environment’ joint actions on CHD for severa...

  20. EXPERIMENTAL EPIDEMIOLOGY : II. EFFECT OF THE ADDITION OF HEALTHY MICE TO A POPULATION SUFFERING FROM MOUSE TYPHOID.

    PubMed

    Amoss, H L

    1922-06-30

    1. A kind of mouse village was set up into which was introduced a small number of mice fed on a culture of so called mouse typhoid (Bacillus pestis cavice of the Bacillus paratyphosus B group) bacillus. The spread of the infection so induced to the cages, or "homes," of the other mice was left to accident through the attendant who fed the animals and cleaned the cages. That this means was likely to be sufficient was deduced from the epidemic reported by Lynch. A spot map was kept throughout the experiments which extended from 1919 into 1922. 2. The first effect of the exposure of normal mice to a much smaller number of mice fed on the culture is to set up a sporadic, not an epidemic outbreak of mouse typhoid. This is the regularly recurring incident of the experiment as shown by low mortality and low cage attack rate. Such a sporadic prevalence is self-limited in time. 3. The introduction of fresh, normal mice into a community in which sporadic deaths are occurring leads regularly, not to the further extension of the sporadic deaths, but to an epidemic spread, as shown by high mortality and high cage attack rate. The epidemic begins with deaths among the new mice, but extends to the old mice which succumb later. The spread ceases and the wave subsides before all the mice have succumbed. A state of equilibrium between the infecting bacillus and the surviving mice is reached; no more deaths occur. The epidemic outbreak, therefore, is also self-limited in time. 4. If, now, another new addition of normal mice is brought into the potentially infected community, the events are reenacted; deaths occur among the new, another epidemic wave sweeps through the population, again claiming victims among the previous survivors. Through the replacement of the destroyed mice with fresh, normal mice, epidemic wave after wave is produced, until certain groups of old survivors are entirely wiped out. There seems to be no limit to this process, as there will always be survivors at

  1. A conceptual framework for associational effects: when do neighbors matter and how would we know?

    PubMed

    Underwood, Nora; Inouye, Brian D; Hambäck, Peter A

    2014-03-01

    Interactions between individual consumer and resource organisms can be modified by neighbors, e.g., when herbivory depends on the identity or diversity of neighboring plants. Effects of neighbors on consumer-resource interactions ("associational effects") occur in many systems, including plant-herbivore interactions, predator-prey interactions (mimicry), and plant-pollinator interactions. Unfortunately, we know little about how ecologically or evolutionarily important these effects are because we lack appropriate models and data to determine how neighbor effects on individuals contribute to net interactions at population and community levels. Here we supply a general definition of associational effects, review relevant theory, and suggest strategies for future theoretical and empirical work. We find that mathematical models from a variety of fields suggest that individual-level associational effects will influence population and community dynamics when associational effects create local frequency dependence. However, there is little data on how local frequency dependence in associational effects is generated, or on the form or spatial scale of that frequency dependence. Similarly, existing theory lacks consideration of nonlinear and spatially explicit frequency dependence. We outline an experimental approach for producing data that can be related to models to advance our understanding of how associational effects contribute to population and community processes. PMID:24672901

  2. Changes to the rumen bacterial population of sheep with the addition of 2,4,6-trinitrotoluene to their diet.

    PubMed

    Perumbakkam, Sudeep; Mitchell, Edward A; Craig, A Morrie

    2011-02-01

    Previous work has shown that bacterial isolates from the sheep rumen are capable of detoxifying 2,4,6-trinitrotoluene (TNT) into polar constituents. In this study, the dietary effects of TNT on the sheep rumen microbial community were evaluated using molecular microbiology ecology tools. Rumen samples were collected from sheep fed with and without TNT added to their diet, genomic DNA was extracted, and the 16S rRNA-V3 gene marker was used to quantify changes in the microbial population in the rumen. Control and treatment samples yielded 533 sequences. Phylogenetic analyses were performed to determine the microbial changes between the two conditions. Results indicated the predominant bacterial populations present in the rumen were comprised of the phyla Firmicutes and Bacteroidetes, irrespective of presence/absence of TNT in the diet. Significant differences (P < 0.001) were found between the community structure of the bacteria under TNT (-) and TNT (+) diets. Examination of the TNT (+) diet showed an increase in the clones belonging to family Ruminococcaceae, which have previously been shown to degrade TNT in pure culture experiments. PMID:20607404

  3. Using particle swarms for the development of QSAR models based on K-nearest neighbor and kernel regression.

    PubMed

    Cedeño, Walter; Agrafiotis, Dimitris K

    2003-01-01

    We describe the application of particle swarms for the development of quantitative structure-activity relationship (QSAR) models based on k-nearest neighbor and kernel regression. Particle swarms is a population-based stochastic search method based on the principles of social interaction. Each individual explores the feature space guided by its previous success and that of its neighbors. Success is measured using leave-one-out (LOO) cross validation on the resulting model as determined by k-nearest neighbor kernel regression. The technique is shown to compare favorably to simulated annealing using three classical data sets from the QSAR literature. PMID:13677491

  4. The control of invasive species on private property with neighbor-to-neighbor spillovers

    PubMed Central

    Fenichel, Eli P.; Richards, Timothy J.; Shanafelt, David W.

    2013-01-01

    Invasive pests cross property boundaries. Property managers may have private incentives to control invasive species despite not having sufficient incentive to fully internalize the external costs of their role in spreading the invasion. Each property manager has a right to future use of his own property, but his property may abut others’ properties enabling spread of an invasive species. The incentives for a foresighted property manager to control invasive species have received little attention. We consider the efforts of a foresighted property manager who has rights to future use of a property and has the ability to engage in repeated, discrete control activities. We find that higher rates of dispersal, associated with proximity to neighboring properties, reduce the private incentives for control. Controlling species at one location provides incentives to control at a neighboring location. Control at neighboring locations are strategic complements and coupled with spatial heterogeneity lead to a weaker-link public good problem, in which each property owner is unable to fully appropriate the benefits of his own control activity. Future-use rights and private costs suggest that there is scope for a series of Coase-like exchanges to internalize much of the costs associated with species invasion. Pigouvian taxes on invasive species potentially have qualitatively perverse behavioral effects. A tax with a strong income effect (e.g, failure of effective revenue recycling) can reduce the value of property assets and diminish the incentive to manage insects on one’s own property. PMID:25346573

  5. The control of invasive species on private property with neighbor-to-neighbor spillovers.

    PubMed

    Fenichel, Eli P; Richards, Timothy J; Shanafelt, David W

    2014-10-01

    Invasive pests cross property boundaries. Property managers may have private incentives to control invasive species despite not having sufficient incentive to fully internalize the external costs of their role in spreading the invasion. Each property manager has a right to future use of his own property, but his property may abut others' properties enabling spread of an invasive species. The incentives for a foresighted property manager to control invasive species have received little attention. We consider the efforts of a foresighted property manager who has rights to future use of a property and has the ability to engage in repeated, discrete control activities. We find that higher rates of dispersal, associated with proximity to neighboring properties, reduce the private incentives for control. Controlling species at one location provides incentives to control at a neighboring location. Control at neighboring locations are strategic complements and coupled with spatial heterogeneity lead to a weaker-link public good problem, in which each property owner is unable to fully appropriate the benefits of his own control activity. Future-use rights and private costs suggest that there is scope for a series of Coase-like exchanges to internalize much of the costs associated with species invasion. Pigouvian taxes on invasive species potentially have qualitatively perverse behavioral effects. A tax with a strong income effect (e.g, failure of effective revenue recycling) can reduce the value of property assets and diminish the incentive to manage insects on one's own property. PMID:25346573

  6. Statistical downscaling using K-nearest neighbors

    NASA Astrophysics Data System (ADS)

    Gangopadhyay, Subhrendu; Clark, Martyn; Rajagopalan, Balaji

    2005-02-01

    Statistical downscaling provides a technique for deriving local-scale information of precipitation and temperature from numerical weather prediction model output. The K-nearest neighbor (K-nn) is a new analog-type approach that is used in this paper to downscale the National Centers for Environmental Prediction 1998 medium-range forecast model output. The K-nn algorithm queries days similar to a given feature vector in this archive and using empirical orthogonal function analysis identifies a subset of days (K) similar to the feature day. These K days are then weighted using a bisquare weight function and randomly sampled to generate ensembles. A set of 15 medium-range forecast runs was used, and seven ensemble members were generated from each run. The ensemble of 105 members was then used to select the local-scale precipitation and temperature values in four diverse basins across the contiguous United States. These downscaled precipitation and temperature estimates were subsequently analyzed to test the performance of this downscaling approach. The downscaled ensembles were evaluated in terms of bias, the ranked probability skill score as a measure of forecast skill, spatial covariability between stations, temporal persistence, consistency between variables, and conditional bias and to develop spread-skill relationships. Though this approach does not explicitly model the space-time variability of the weather fields at each individual station, the above statistics were extremely well captured. The K-nn method was also compared with a multiple-linear-regression-based downscaling model.

  7. Competing neighbors: light perception and root function.

    PubMed

    Gundel, Pedro E; Pierik, Ronald; Mommer, Liesje; Ballaré, Carlos L

    2014-09-01

    Plant responses to competition have often been described as passive consequences of reduced resource availability. However, plants have mechanisms to forage for favorable conditions and anticipate competition scenarios. Despite the progresses made in understanding the role of light signaling in modulating plant-plant interactions, little is known about how plants use and integrate information gathered by their photoreceptors aboveground to regulate performance belowground. Given that the phytochrome family of photoreceptors plays a key role in the acquisition of information about the proximity of neighbors and canopy cover, it is tempting to speculate that changes in the red:far-red (R:FR) ratio perceived by aboveground plant parts have important implications shaping plant behavior belowground. Exploring data from published experiments, we assess the neglected role of light signaling in the control of root function. The available evidence indicates that plant exposure to low R:FR ratios affects root growth and morphology, root exudate profiles, and interactions with beneficial soil microorganisms. Although dependent on species identity, signals perceived aboveground are likely to affect root-to-root interactions. Root systems could also be guided to deploy new growth predominantly in open areas by light signals perceived by the shoots. Studying interactions between above- and belowground plant-plant signaling is expected to improve our understanding of the mechanisms of plant competition. PMID:24894371

  8. Hierarchical neighbor effects on mycorrhizal community structure and function.

    PubMed

    Moeller, Holly V; Dickie, Ian A; Peltzer, Duane A; Fukami, Tadashi

    2016-08-01

    Theory predicts that neighboring communities can shape one another's composition and function, for example, through the exchange of member species. However, empirical tests of the directionality and strength of these effects are rare. We determined the effects of neighboring communities on one another through experimental manipulation of a plant-fungal model system. We first established distinct ectomycorrhizal fungal communities on Douglas-fir seedlings that were initially grown in three soil environments. We then transplanted seedlings and mycorrhizal communities in a fully factorial experiment designed to quantify the direction and strength of neighbor effects by focusing on changes in fungal community species composition and implications for seedling growth (a proxy for community function). We found that neighbor effects on the composition and function of adjacent communities follow a dominance hierarchy. Specifically, mycorrhizal communities established from soils collected in Douglas-fir plantations were both the least sensitive to neighbor effects, and exerted the strongest influence on their neighbors by driving convergence in neighbor community composition and increasing neighbor seedling vigor. These results demonstrate that asymmetric neighbor effects mediated by ecological history can determine both community composition and function. PMID:27551393

  9. Response of AM fungi spore population to elevated temperature and nitrogen addition and their influence on the plant community composition and productivity

    PubMed Central

    Zhang, Tao; Yang, Xue; Guo, Rui; Guo, Jixun

    2016-01-01

    To examine the influence of elevated temperature and nitrogen (N) addition on species composition and development of arbuscular mycorrhizal fungi (AMF) and the effect of AMF on plant community structure and aboveground productivity, we conducted a 5-year field experiment in a temperate meadow in northeast China and a subsequent greenhouse experiment. In the field experiment, N addition reduced spore population diversity and richness of AMF and suppressed the spore density and the hyphal length density (HLD). Elevated temperature decreased spore density and diameter and increased the HLD, but did not affect AMF spore population composition. In the greenhouse experiment, AMF altered plant community composition and increased total aboveground biomass in both elevated temperature and N addition treatments; additionally, AMF also increased the relative abundance and aboveground biomass of the grasses Leymus chinensis (Poaceae) and Setaria viridis (Gramineae) and significantly reduced the relative abundance and aboveground biomass of the Suaeda corniculata (Chenopodiaceae). Although elevated temperature and N addition can affect species composition or suppress the development of AMF, AMF are likely to play a vital role in increasing plant diversity and productivity. Notably, AMF might reduce the threat of climate change induced degradation of temperate meadow ecosystems. PMID:27098761

  10. Response of AM fungi spore population to elevated temperature and nitrogen addition and their influence on the plant community composition and productivity.

    PubMed

    Zhang, Tao; Yang, Xue; Guo, Rui; Guo, Jixun

    2016-01-01

    To examine the influence of elevated temperature and nitrogen (N) addition on species composition and development of arbuscular mycorrhizal fungi (AMF) and the effect of AMF on plant community structure and aboveground productivity, we conducted a 5-year field experiment in a temperate meadow in northeast China and a subsequent greenhouse experiment. In the field experiment, N addition reduced spore population diversity and richness of AMF and suppressed the spore density and the hyphal length density (HLD). Elevated temperature decreased spore density and diameter and increased the HLD, but did not affect AMF spore population composition. In the greenhouse experiment, AMF altered plant community composition and increased total aboveground biomass in both elevated temperature and N addition treatments; additionally, AMF also increased the relative abundance and aboveground biomass of the grasses Leymus chinensis (Poaceae) and Setaria viridis (Gramineae) and significantly reduced the relative abundance and aboveground biomass of the Suaeda corniculata (Chenopodiaceae). Although elevated temperature and N addition can affect species composition or suppress the development of AMF, AMF are likely to play a vital role in increasing plant diversity and productivity. Notably, AMF might reduce the threat of climate change induced degradation of temperate meadow ecosystems. PMID:27098761

  11. Tradition over trend: Neighboring chimpanzee communities maintain differences in cultural behavior despite frequent immigration of adult females.

    PubMed

    Luncz, Lydia V; Boesch, Christophe

    2014-07-01

    The notion of animal culture has been well established mainly through research aiming at uncovering differences between populations. In chimpanzees (Pan troglodytes verus), cultural diversity has even been found in neighboring communities, where differences were observed despite frequent immigration of individuals. Female chimpanzees transfer at the onset of sexual maturity at an age, when the behavioral repertoire is fully formed. With immigrating females, behavioral variety enters the group. Little is known about the diversity and the longevity of cultural traits within a community. This study is building on previous findings of differences in hammer selection when nut cracking between neighboring communities despite similar ecological conditions. We now further investigated the diversity and maintenance of cultural traits within one chimpanzee community and were able to show high levels of uniformity in group-specific behavior. Fidelity to the behavior pattern did not vary between dispersing females and philopatric males. Furthermore, group-specific tool selection remained similar over a period of 25 years. Additionally, we present a study case on how one newly immigrant female progressively behaved more similar to her new group, suggesting that the high level of similarity in behavior is actively adopted by group members possibly even when originally expressing the behavior in another form. Taken together, our data support a cultural transmission process in adult chimpanzees, which leads to persisting cultural behavior of one community over time. PMID:24482055

  12. Bayesian spatiotemporal analysis of zero-inflated biological population density data by a delta-normal spatiotemporal additive model.

    PubMed

    Arcuti, Simona; Pollice, Alessio; Ribecco, Nunziata; D'Onghia, Gianfranco

    2016-03-01

    We evaluate the spatiotemporal changes in the density of a particular species of crustacean known as deep-water rose shrimp, Parapenaeus longirostris, based on biological sample data collected during trawl surveys carried out from 1995 to 2006 as part of the international project MEDITS (MEDiterranean International Trawl Surveys). As is the case for many biological variables, density data are continuous and characterized by unusually large amounts of zeros, accompanied by a skewed distribution of the remaining values. Here we analyze the normalized density data by a Bayesian delta-normal semiparametric additive model including the effects of covariates, using penalized regression with low-rank thin-plate splines for nonlinear spatial and temporal effects. Modeling the zero and nonzero values by two joint processes, as we propose in this work, allows to obtain great flexibility and easily handling of complex likelihood functions, avoiding inaccurate statistical inferences due to misclassification of the high proportion of exact zeros in the model. Bayesian model estimation is obtained by Markov chain Monte Carlo simulations, suitably specifying the complex likelihood function of the zero-inflated density data. The study highlights relevant nonlinear spatial and temporal effects and the influence of the annual Mediterranean oscillations index and of the sea surface temperature on the distribution of the deep-water rose shrimp density. PMID:26418888

  13. Brazilian propolis extract used as an additive to decrease methane emissions from the rumen microbial population in vitro.

    PubMed

    Santos, Nadine Woruby; Zeoula, Lucia Maria; Yoshimura, Emerson Henri; Machado, Erica; Macheboeuf, Didier; Cornu, Agnès

    2016-06-01

    Propolis is a product that is rich in phenolic compounds and can be utilized in animal nutrition as a dietary additive. In this study, the effects of a Brazilian green propolis extract on rumen fermentation and gas production were determined. The fate of propolis phenolic compounds in the rumen medium was also investigated. Fermentation was done in 24-h batches over three periods. Inoculates were obtained from cows fed on grassland hay and concentrate. Propolis extract in a hydroalcoholic solution was applied at increasing doses to the substrate (1 to 56 g/kg). The fermentation substrate consisted on a mixture of alfalfa hay, soybean meal, and wheat grain mixture in dry matter. After 24 h of fermentation, seven new compounds were observed in the medium in amounts that correlated to the propolis dose. The dose of propolis extract linearly decreased the pH of the medium and linearly increased propionate production, which reduced the acetate-to-propionate ratio and influenced the total production of short-chain fatty acids. Propolis also linearly reduced methane production and increased the carbon dioxide-to-methane ratio. Ammonia nitrogen levels and in vitro digestibility of organic matter were similar among the treatments. The combination of increased propionate production and decreased methane production suggests better energy utilization from the feed. PMID:27105625

  14. The effects of herbivory on neighbor interactions along a coastal marsh gradient

    USGS Publications Warehouse

    Taylor, K.L.; Grace, J.B.; Marx, B.D.

    1997-01-01

    Many current theories of community function are based on the assumption that disturbances such as herbivory act to reduce the importance of neighbor interactions among plants. In this study, we examined the effects of herbivory (primarily by nutria, Myocastor coy-pus) on neighbor interactions between three dominant grasses in three coastal marsh communities, fresh, oligohaline, and mesohaline. The grasses studied were Panicum virgatum, Spartina patens, and Spartina alterniflora, which are dominant species in the fresh, oligohaline, and mesohaline marshes, respectively. Additive mixtures and monocultures of transplants were used in conjunction with exclosure fences to determine the impact of herbivory on neighbor interactions in the different marsh types. Herbivory had a strong effect on all three species and was important in all three marshes. In the absence of herbivores, the impact of neighbors was significant for two of the species (Panicum virgatum and Spartina patens) and varied considerably between environments, with competition intensifying for Panicum virgatum and decreasing for Spartina patens with increasing salinity. Indications of positive neighbor effects (mutualisms) were observed for both of these species, though in contrasting habitats and to differing degrees. In the presence of herbivores, however, competitive and positive effects were eliminated. Overall, then, it was observed that in this case, intense herbivory was able to override other biotic interactions such as competition and mutualism, which were not detectable in the presence of herbivores.

  15. Final Report: Weighted Neighbor Data Mining

    SciTech Connect

    Carlson, J.J.; Muguira, M.R.; Jordan, J.B.; Flachs, G.M.; Peterson, A.K.

    2000-12-01

    Data mining involves the discovery and fusion of features from large databases to establish minimal probability of error (MPE) decision and estimation models. Our approach combines a weighted nearest neighbor (WNN) decision model for classification and estimation with genetic algorithms (GA) for feature discovery and model optimization. The WNN model is used to provide a mathematical framework for adaptively discovering and fusing features into near-MPE decision algorithms. The GA is used to discover weighted features and select decision points for the WNN decision model to achieve near-MPE decisions. The performance of the WNN fusion model is demonstrated on the first of two very different problems to demonstrate its robust and practical application to a wide variety of data-mining problems. The first problem involves the isolation of factors that cause hepatitis C virus (HCV) and requires the evaluation of large databases to establish the critical features that can detect with minimal error whether a person is at risk of having HCV. This requires discovering and extracting relevant information (features) from a questionnaire database and combining (fusing) them to achieve a minimal error decision rule. The primary objective of the research is to develop a practical basis for fusing information from questionnaires administered at hospitals to identify and verify features important to isolate risk factors for HCV. The basic problem involves creating a feature database from the questionnaire information, discovering features that provide sufficient information to reliably identify when a person is at risk under conditions with uncertainties caused by recording errors and evasive tactics of people answering the questionnaire. The results of this study demonstrate the WNN fusion algorithm ability to perform in supervised learning environments. The second phase of the research project is directed at the unsupervised learning environment. In this environment the feature

  16. Proxy-Based IPv6 Neighbor Discovery Scheme for Wireless LAN Based Mesh Networks

    NASA Astrophysics Data System (ADS)

    Lee, Jihoon; Jeon, Seungwoo; Kim, Jaehoon

    Multi-hop Wireless LAN-based mesh network (WMN) provides high capacity and self-configuring capabilities. Due to data forwarding and path selection based on MAC address, WMN requires additional operations to achieve global connectivity using IPv6 address. The neighbor discovery operation over WLAN mesh networks requires repeated all-node broadcasting and this gives rise to a big burden in the entire mesh networks. In this letter, we propose the proxy neighbor discovery scheme for optimized IPv6 communication over WMN to reduce network overhead and communication latency. Using simulation experiments, we show that the control overhead and communication setup latency can be significantly reduced using the proxy-based neighbor discovery mechanism.

  17. Fluctuating asymmetry and testing isolation of Montana grizzly bear populations

    USGS Publications Warehouse

    Picton, Harold D.; Palmisciano, D.A.; Nelson, Gerald

    1990-01-01

    Fluctuating asymmetry of adult skulls was used to test he genetic isolation of the Yellowstone grizzly bear population from its nearest neighbor. An overall summary statistic was used in addition to 16 other parameters. Tests found the males of the Yellowstone populaion to be more vaiable than those of the North Conitinental Divide Exosystem. Evidence for precipitaiton effects is also included. This test tends to support the existing management haypothesis that the Yellowstone population is isolatied.

  18. A Good Neighbor Nonresident Tuition Plan: The Nevada Initiative.

    ERIC Educational Resources Information Center

    Davidson, Barry S.; Hansen, David A.

    The University of Nevada's "Good Neighbor" nonresident tuition plan for residents of 10 contiguous California counties is described. Data was gathered and interest cultivated over an 8-year period to bring the "Good Neighbor" proposal before the Board of Regents who subsequently approved it. Previous to the new policy, all out-of-state students…

  19. The Minnesota Family, Friend and Neighbor Grant Program

    ERIC Educational Resources Information Center

    Susman-Stillman, Amy; Stout, Karen; Cleveland, Jennifer; Hawley, Vicki

    2011-01-01

    In 1997, Minnesota became the first state in the nation to pass legislation establishing an education and support program for family, friend, and neighbor (FFN) care providers. This article describes the Minnesota Family, Friend and Neighbor Grant Program and findings from an evaluation of the programs and a curriculum scan of materials used in…

  20. What Do Foreign Neighbors Say about the Mental Lexicon?

    ERIC Educational Resources Information Center

    Vitevitch, Michael S.

    2012-01-01

    A corpus analysis of phonological word-forms shows that English words have few phonological neighbors that are Spanish words. Concomitantly, Spanish words have few phonological neighbors that are English words. These observations appear to undermine certain accounts of bilingual language processing, and have significant implications for the…

  1. Masked Priming from Orthographic Neighbors: An ERP Investigation

    ERIC Educational Resources Information Center

    Massol, Stephanie; Grainger, Jonathan; Dufau, Stephane; Holcomb, Phillip

    2010-01-01

    Two experiments combined masked priming with event-related potential (ERP) recordings to examine effects of primes that are orthographic neighbors of target words. Experiment 1 compared effects of repetition primes with effects of primes that were high-frequency orthographic neighbors of low-frequency targets (e.g., faute-faune [error-wildlife]),…

  2. Fast Coding of Feature Vectors Using Neighbor-to-Neighbor Search.

    PubMed

    Inoue, Nakamasa; Shinoda, Koichi

    2016-06-01

    Searching for matches to high-dimensional vectors using hard/soft vector quantization is the most computationally expensive part of various computer vision algorithms including the bag of visual word (BoW). This paper proposes a fast computation method, Neighbor-to-Neighbor (NTN) search [1] , which skips some calculations based on the similarity of input vectors. For example, in image classification using dense SIFT descriptors, the NTN search seeks similar descriptors from a point on a grid to an adjacent point. Applications of the NTN search to vector quantization, a Gaussian mixture model, sparse coding, and a kernel codebook for extracting image or video representation are presented in this paper. We evaluated the proposed method on image and video benchmarks: the PASCAL VOC 2007 Classification Challenge and the TRECVID 2010 Semantic Indexing Task. NTN-VQ reduced the coding cost by 77.4 percent, and NTN-GMM reduced it by 89.3 percent, without any significant degradation in classification performance. PMID:26415151

  3. Opinion dynamics in networks with common-neighbors-based connections

    NASA Astrophysics Data System (ADS)

    Wang, Huanjing; Shang, Lihui

    2015-03-01

    We investigate opinion dynamics of the model in which each agent can communicate with local neighbors whose opinions are inside the bound of confidence and meanwhile selecting long-range neighbors according to a common-neighbors rule. The common-neighbors rule means that two agents sharing more neighbors have larger probability to be connected. We find that increasing communication between agents who have common friends will prolong the time needed for the system to reach a consensus state. In contrast, the long-range connections between agents sharing no friends will promote the convergence of the system. The generality of this observation is tested against different system sizes. Simulation results also show that a large number of long-range connections help the system to reach a consensus fast.

  4. Plant response to climate change varies with topography, interactions with neighbors, and ecotype.

    PubMed

    Liancourt, Pierre; Spence, Laura A; Song, Daniel S; Lkhagva, Ariuntsetseg; Sharkhuu, Anarmaa; Boldgiv, Bazartseren; Helliker, Brent R; Petraitis, Peter S; Casper, Brenda B

    2013-02-01

    Predicting the future of any given species represents an unprecedented challenge in light of the many environmental and biological factors that affect organismal performance and that also interact with drivers of global change. In a three-year experiment set in the Mongolian steppe, we examined the response of the common grass Festuca lenensis to manipulated temperature and water while controlling for topographic variation, plant-plant interactions, and ecotypic differentiation. Plant survival and growth responses to a warmer, drier climate varied within the landscape. Response to simulated increased precipitation occurred only in the absence of neighbors, demonstrating that plant-plant interactions can supersede the effects of climate change. F. lenensis also showed evidence of local adaptation in populations that were only 300 m apart. Individuals from the steep and dry upper slope showed a higher stress/drought tolerance, whereas those from the more productive lower slope showed a higher biomass production and a greater ability to cope with competition. Moreover, the response of this species to increased precipitation was ecotype specific, with water addition benefiting only the least stress-tolerant ecotype from the lower slope origin. This multifaceted approach illustrates the importance of placing climate change experiments within a realistic ecological and evolutionary framework. Existing sources of variation impacting plant performance may buffer or obscure climate change effects. PMID:23691663

  5. How neighbor canopy architecture affects target plant performance

    SciTech Connect

    Tremmel, D.C.; Bazzaz, F.A. )

    1993-10-01

    Plant competition occurs through the negative effects that individual plants have on resource availability to neighboring individuals. Therefore competition experiments need to examine how different species change resource availability to their neighbors, and how different species respond to these changes-allocationally, architecturally, and physiologically-through time. In a greenhouse study we used a model system of annuals to examine how canopies of species having differing morphologies differed in their architectures and light-interception abilities, and how different species performed when grown in these canopies. Abutilon theophrasti, Datura stramonium, and Polygonum pensylvanicum were grown as [open quotes]targets[close quotes]. Plants were grown in pots, with one target plant and four neighbor plants. Detailed measurements of neighbor canopy structure and target plant canopy architecture were made at five harvests. Species with different morphologies showed large differences in canopy structure, particularly when grass and forb species were compared. Setaria, a grass, had a more open canopy than the other species (all forbs), and was a consistently weak competitor. Overall, however, the relative effects of different neighbors on target biomass varied with target species. Target biomass was poorly correlated with neighbor biomass and leaf area, but was highly correlated with a measure of target light-interception ability that took into account both target leaf deployment and neighbor light interception. Despite clear differences among neighbor species in canopy structure and effect on light penetration, the results suggest no broad generalizations about the effects of different species as neighbors. Knowledge of morphological, physiological, and life history characteristics of both the target and neighbor species may be necessary to explain the results of their competition. 53 refs., 4 figs., 4 tabs.

  6. Additional exposure of the Irish adult population to dioxins and PCBs from the diet as a consequence of the 2008 Irish dioxin food contamination incident.

    PubMed

    Tlustos, C; Anderson, W; Flynn, A; Pratt, I

    2014-01-01

    In 2008, the discovery of elevated levels of dioxins and PCBs in a porcine fat sample taken as part of the national residues monitoring programme led to the detection of a major feed contamination incidence in the Republic of Ireland. To estimate additional exposure to dioxins and PCBs due to the contamination incident, all data associated with the contamination incident were collected and reviewed. An exposure model was devised that took into account the proportion of contaminated product reaching the final consumer during the contamination incident window and which utilised all additional information that became available after the incident occurred. Exposure estimates derived for both dioxins and PCBs showed that the body burden of the general population remained largely unaffected by the contamination incident and only approximately 10% were exposed to elevated levels of dioxins and PCBs. Whilst this proportion of the population experienced quite a significant additional load to the existing body burden, the estimated exposure values do not suggest that these would be associated with adverse health effects, based on current knowledge. The exposure period was also limited in time to approximately 3 months, following the recall of contaminated meat immediately on detection of the contamination. PMID:24512325

  7. Robust Neighboring Optimal Guidance for the Advanced Launch System

    NASA Technical Reports Server (NTRS)

    Hull, David G.

    1993-01-01

    In recent years, optimization has become an engineering tool through the availability of numerous successful nonlinear programming codes. Optimal control problems are converted into parameter optimization (nonlinear programming) problems by assuming the control to be piecewise linear, making the unknowns the nodes or junction points of the linear control segments. Once the optimal piecewise linear control (suboptimal) control is known, a guidance law for operating near the suboptimal path is the neighboring optimal piecewise linear control (neighboring suboptimal control). Research conducted under this grant has been directed toward the investigation of neighboring suboptimal control as a guidance scheme for an advanced launch system.

  8. Additive influence of genetic predisposition and conventional risk factors in the incidence of coronary heart disease: a population-based study in Greece

    PubMed Central

    Yiannakouris, Nikos; Katsoulis, Michail; Trichopoulou, Antonia; Ordovas, Jose M; Trichopoulos, Dimitrios

    2014-01-01

    Objectives An additive genetic risk score (GRS) for coronary heart disease (CHD) has previously been associated with incident CHD in the population-based Greek European Prospective Investigation into Cancer and nutrition (EPIC) cohort. In this study, we explore GRS-‘environment’ joint actions on CHD for several conventional cardiovascular risk factors (ConvRFs), including smoking, hypertension, type-2 diabetes mellitus (T2DM), body mass index (BMI), physical activity and adherence to the Mediterranean diet. Design A case–control study. Setting The general Greek population of the EPIC study. Participants and outcome measures 477 patients with medically confirmed incident CHD and 1271 controls participated in this study. We estimated the ORs for CHD by dividing participants at higher or lower GRS and, alternatively, at higher or lower ConvRF, and calculated the relative excess risk due to interaction (RERI) as a measure of deviation from additivity. Results The joint presence of higher GRS and higher risk ConvRF was in all instances associated with an increased risk of CHD, compared with the joint presence of lower GRS and lower risk ConvRF. The OR (95% CI) was 1.7 (1.2 to 2.4) for smoking, 2.7 (1.9 to 3.8) for hypertension, 4.1 (2.8 to 6.1) for T2DM, 1.9 (1.4 to 2.5) for lower physical activity, 2.0 (1.3 to 3.2) for high BMI and 1.5 (1.1 to 2.1) for poor adherence to the Mediterranean diet. In all instances, RERI values were fairly small and not statistically significant, suggesting that the GRS and the ConvRFs do not have effects beyond additivity. Conclusions Genetic predisposition to CHD, operationalised through a multilocus GRS, and ConvRFs have essentially additive effects on CHD risk. PMID:24500614

  9. Trinary-projection trees for approximate nearest neighbor search.

    PubMed

    Wang, Jingdong; Wang, Naiyan; Jia, You; Li, Jian; Zeng, Gang; Zha, Hongbin; Hua, Xian-Sheng

    2014-02-01

    We address the problem of approximate nearest neighbor (ANN) search for visual descriptor indexing. Most spatial partition trees, such as KD trees, VP trees, and so on, follow the hierarchical binary space partitioning framework. The key effort is to design different partition functions (hyperplane or hypersphere) to divide the points so that 1) the data points can be well grouped to support effective NN candidate location and 2) the partition functions can be quickly evaluated to support efficient NN candidate location. We design a trinary-projection direction-based partition function. The trinary-projection direction is defined as a combination of a few coordinate axes with the weights being 1 or -1. We pursue the projection direction using the widely adopted maximum variance criterion to guarantee good space partitioning and find fewer coordinate axes to guarantee efficient partition function evaluation. We present a coordinate-wise enumeration algorithm to find the principal trinary-projection direction. In addition, we provide an extension using multiple randomized trees for improved performance. We justify our approach on large-scale local patch indexing and similar image search. PMID:24356357

  10. Estimation of Carcinogenicity using Hierarchical Clustering and Nearest Neighbor Methodologies

    EPA Science Inventory

    Previously a hierarchical clustering (HC) approach and a nearest neighbor (NN) approach were developed to model acute aquatic toxicity end points. These approaches were developed to correlate the toxicity for large, noncongeneric data sets. In this study these approaches applie...

  11. Additive Effects of the Risk Alleles of PNPLA3 and TM6SF2 on Non-alcoholic Fatty Liver Disease (NAFLD) in a Chinese Population

    PubMed Central

    Wang, Xiaoliang; Liu, Zhipeng; Wang, Kai; Wang, Zhaowen; Sun, Xing; Zhong, Lin; Deng, Guilong; Song, Guohe; Sun, Baining; Peng, Zhihai; Liu, Wanqing

    2016-01-01

    Recent genome-wide association studies have identified that variants in or near PNPLA3, NCAN, GCKR, LYPLAL1, and TM6SF2 are significantly associated with non-alcoholic fatty liver disease (NAFLD) in multiple ethnic groups. Studies on their impact on NAFLD in Han Chinese are still limited. In this study, we examined the relevance of these variants to NAFLD in a community-based Han Chinese population and further explored their potential joint effect on NAFLD. Six single nucleotide polymorphisms (SNPs) (PNPLA3 rs738409, rs2294918, NCAN rs2228603, GCKR rs780094, LYPLAL1 rs12137855, and TM6SF2 rs58542926) previously identified in genome-wide analyses, to be associated with NAFLD were genotyped in 384 NAFLD patients and 384 age- and gender-matched healthy controls. We found two out of the six polymorphisms, PNPLA3 rs738409 (OR = 1.52, 95%CI: 1.19–1.96; P = 0.00087) and TM6SF2 rs58542926 (OR = 2.11, 95%CI: 1.34–3.39; P = 0.0016) are independently associated with NAFLD after adjustment for the effects of age, gender, and BMI. Our analysis further demonstrated the strong additive effects of the risk alleles of PNPLA3 and TM6SF2 with an overall significance between the number of risk alleles and NAFLD (OR = 1.64, 95%CI: 1.34–2.01; P = 1.4 × 10-6). The OR for NAFLD increased in an additive manner, with an average increase in OR of 1.52 per additional risk allele. Our results confirmed that the PNPLA3 and TM6SF2 variants were the most significant risk alleles for NAFLD in Chinese population. Therefore, genotyping these two genetic risk factors may help identify individuals with the highest risk of NAFLD. PMID:27532011

  12. Scalable Nearest Neighbor Algorithms for High Dimensional Data.

    PubMed

    Muja, Marius; Lowe, David G

    2014-11-01

    For many computer vision and machine learning problems, large training sets are key for good performance. However, the most computationally expensive part of many computer vision and machine learning algorithms consists of finding nearest neighbor matches to high dimensional vectors that represent the training data. We propose new algorithms for approximate nearest neighbor matching and evaluate and compare them with previous algorithms. For matching high dimensional features, we find two algorithms to be the most efficient: the randomized k-d forest and a new algorithm proposed in this paper, the priority search k-means tree. We also propose a new algorithm for matching binary features by searching multiple hierarchical clustering trees and show it outperforms methods typically used in the literature. We show that the optimal nearest neighbor algorithm and its parameters depend on the data set characteristics and describe an automated configuration procedure for finding the best algorithm to search a particular data set. In order to scale to very large data sets that would otherwise not fit in the memory of a single machine, we propose a distributed nearest neighbor matching framework that can be used with any of the algorithms described in the paper. All this research has been released as an open source library called fast library for approximate nearest neighbors (FLANN), which has been incorporated into OpenCV and is now one of the most popular libraries for nearest neighbor matching. PMID:26353063

  13. Additive-dominance genetic model analyses for late-maturity alpha-amylase activity in a bread wheat factorial crossing population.

    PubMed

    Rasul, Golam; Glover, Karl D; Krishnan, Padmanaban G; Wu, Jixiang; Berzonsky, William A; Ibrahim, Amir M H

    2015-12-01

    Elevated level of late maturity α-amylase activity (LMAA) can result in low falling number scores, reduced grain quality, and downgrade of wheat (Triticum aestivum L.) class. A mating population was developed by crossing parents with different levels of LMAA. The F2 and F3 hybrids and their parents were evaluated for LMAA, and data were analyzed using the R software package 'qgtools' integrated with an additive-dominance genetic model and a mixed linear model approach. Simulated results showed high testing powers for additive and additive × environment variances, and comparatively low powers for dominance and dominance × environment variances. All variance components and their proportions to the phenotypic variance for the parents and hybrids were significant except for the dominance × environment variance. The estimated narrow-sense heritability and broad-sense heritability for LMAA were 14 and 54%, respectively. High significant negative additive effects for parents suggest that spring wheat cultivars 'Lancer' and 'Chester' can serve as good general combiners, and that 'Kinsman' and 'Seri-82' had negative specific combining ability in some hybrids despite of their own significant positive additive effects, suggesting they can be used as parents to reduce LMAA levels. Seri-82 showed very good general combining ability effect when used as a male parent, indicating the importance of reciprocal effects. High significant negative dominance effects and high-parent heterosis for hybrids demonstrated that the specific hybrid combinations; Chester × Kinsman, 'Lerma52' × Lancer, Lerma52 × 'LoSprout' and 'Janz' × Seri-82 could be generated to produce cultivars with significantly reduced LMAA level. PMID:26403988

  14. Effectiveness of Phytogenic Feed Additive as Alternative to Bacitracin Methylene Disalicylate on Hematological Parameters, Intestinal Histomorphology and Microbial Population and Production Performance of Japanese Quails

    PubMed Central

    Manafi, M.; Hedayati, M.; Khalaji, S.

    2016-01-01

    This study was conducted to evaluate the effects of phytogenic additive and antibiotic growth promoter in laying Japanese quails. One hundred and sixty five quails were divided into three groups of 5 replicates and 11 quails (8 females and 3 males) in each replicate. Treatment 1 was fed control diet, treatment 2 was fed control diet supplemented with 0.05% bacitracin methylene disalicylate as antibiotic growth promoter and treatment 3 was fed control diet supplemented with 0.1% phytogenic feed additive (PFA) for two periods of 3 weeks each from 37 to 42 weeks of age. Results showed that egg production, eggshell strength, eggshell weight, villus height and villus height to crypt depth ratio were significantly (p≤0.05) increased and feed consumption, feed conversion ratio, albumen, Haugh unit, cholesterol, low-density lipoprotein, alanine transaminase, gamma glutamyltransferase, alkaline phosphatase, high-density lipoprotein, triglyceride, number of goblet cell, crypt depth and intestinal bacterial population of Coliforms, Salmonella and E. coli were significantly (p≤0.05) decreased in PFA fed group. It is concluded that addition of PFA containing phytomolecules and organic acids as main ingredients could significantly improve the production parameters and the general health of laying quails as an alternative to antibiotic growth promoters. PMID:27189636

  15. Effectiveness of Phytogenic Feed Additive as Alternative to Bacitracin Methylene Disalicylate on Hematological Parameters, Intestinal Histomorphology and Microbial Population and Production Performance of Japanese Quails.

    PubMed

    Manafi, M; Hedayati, M; Khalaji, S

    2016-09-01

    This study was conducted to evaluate the effects of phytogenic additive and antibiotic growth promoter in laying Japanese quails. One hundred and sixty five quails were divided into three groups of 5 replicates and 11 quails (8 females and 3 males) in each replicate. Treatment 1 was fed control diet, treatment 2 was fed control diet supplemented with 0.05% bacitracin methylene disalicylate as antibiotic growth promoter and treatment 3 was fed control diet supplemented with 0.1% phytogenic feed additive (PFA) for two periods of 3 weeks each from 37 to 42 weeks of age. Results showed that egg production, eggshell strength, eggshell weight, villus height and villus height to crypt depth ratio were significantly (p≤0.05) increased and feed consumption, feed conversion ratio, albumen, Haugh unit, cholesterol, low-density lipoprotein, alanine transaminase, gamma glutamyltransferase, alkaline phosphatase, high-density lipoprotein, triglyceride, number of goblet cell, crypt depth and intestinal bacterial population of Coliforms, Salmonella and E. coli were significantly (p≤0.05) decreased in PFA fed group. It is concluded that addition of PFA containing phytomolecules and organic acids as main ingredients could significantly improve the production parameters and the general health of laying quails as an alternative to antibiotic growth promoters. PMID:27189636

  16. Fusion yield rate recovery by escaping hot-spot fast ions in the neighboring fuel layer

    NASA Astrophysics Data System (ADS)

    Tang, Xian-Zhu; McDevitt, C. J.; Guo, Zehua; Berk, H. L.

    2014-02-01

    Free-streaming loss by fast ions can deplete the tail population in the hot spot of an inertial confinement fusion (ICF) target. Escaping fast ions in the neighboring fuel layer of a cryogenic target can produce a surplus of fast ions locally. In contrast to the Knudsen layer effect that reduces hot-spot fusion reactivity due to tail ion depletion, the inverse Knudsen layer effect increases fusion reactivity in the neighboring fuel layer. In the case of a burning ICF target in the presence of significant hydrodynamic mix which aggravates the Knudsen layer effect, the yield recovery largely compensates for the yield reduction. For mix-dominated sub-ignition targets, the yield reduction is the dominant process.

  17. Probing Nearest-Neighbor Correlations of Ultracold Fermions in an Optical Lattice

    SciTech Connect

    Greif, Daniel; Tarruell, Leticia; Uehlinger, Thomas; Joerdens, Robert; Esslinger, Tilman

    2011-04-08

    We demonstrate a probe for nearest-neighbor correlations of fermionic quantum gases in optical lattices. It gives access to spin and density configurations of adjacent sites and relies on creating additional doubly occupied sites by perturbative lattice modulation. The measured correlations for different lattice temperatures are in good agreement with an ab initio calculation without any fitting parameters. This probe opens new prospects for studying the approach to magnetically ordered phases.

  18. A GIANT STAR FACTORY IN NEIGHBORING GALAXY NGC 6822

    NASA Technical Reports Server (NTRS)

    2002-01-01

    Resembling curling flames from a campfire, this magnificent nebula in a neighboring galaxy is giving astronomers new insight into the fierce birth of stars as it may have more commonly happened in the early universe. The glowing gas cloud, called Hubble-V, has a diameter of about 200 light-years. A faint tail of nebulosity trailing off the top of the image sits opposite a dense cluster of bright stars at the bottom of the irregularly shaped nebula. NASA's Hubble Space Telescope's resolution and ultraviolet sensitivity reveals a dense knot of dozens of ultra-hot stars nestled in the nebula, each glowing 100,000 times brighter than our Sun. These youthful 4-million-year-old stars are too distant and crowded together to be resolved from ground-based telescopes. The small, irregular host galaxy, called NGC 6822, is one of the Milky Way's closest neighbors and is considered prototypical of the earliest fragmentary galaxies that inhabited the young universe. The galaxy is 1.6 million light-years away in the constellation Sagittarius. The Hubble-V image data was taken with Hubble's Wide Field Planetary Camera 2 (WFPC2) by two science teams: C. Robert O'Dell of Vanderbilt University and collaborators, and Luciana Bianchi of Johns Hopkins University and Osservatorio Astronomico, Torinese, Italy, and collaborators. This color image was produced by The Hubble Heritage Team (STScI). A Hubble image of Hubble-X, another intense star-forming region in NGC 6822, was released by The Heritage Team in January 2001. Credits: NASA, ESA and The Hubble Heritage Team (STScI/AURA) Acknowledgment: C. R. O'Dell (Vanderbilt University) and L. Bianchi (Johns Hopkins University and Osservatorio Astronomico, Torinese, Italy) NOTE TO EDITORS: For additional information, please contact C. R. O'Dell, Vanderbilt University, Physics and Astronomy Dept., Box 1807 Station B, Nashville, TN 37235, (phone) 615-343-1779, (fax) 615-343-7263, (e-mail) cr.odell@vanderbilt.edu or Luciana Bianchi, Johns Hopkins

  19. 77 FR 50504 - Good Neighbor Environmental Board Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-08-21

    ... AGENCY Good Neighbor Environmental Board Notification of Public Advisory Committee Teleconference AGENCY.... ] SUMMARY: Pursuant to the Federal Advisory Committee Act, notice is hereby given that the Good Neighbor... Good Neighbor Environmental Board's Fifteenth Report. The report will focus on water...

  20. Estimating correlations of neighboring frequencies in ambient seismic noise

    NASA Astrophysics Data System (ADS)

    Liu, Xin; Ben-Zion, Yehuda

    2016-05-01

    Extracting accurate empirical Green's functions from the ambient seismic noise field requires the noise to be fully diffuse and that different frequency components are not correlated. Calculating a matrix of correlation coefficients of power spectral samples can be used to estimate deviations from a fully diffuse random noise field in the analyzed frequency range. A fully diffuse field has correlations only in a narrow region around the diagonal of the matrix, with frequency resolution inversely proportional to length of the used time window. Analysis of low frequency data (0.005-0.6 Hz) recorded by three broadband stations of the southern California seismic network reveals three common types of correlations, manifested in the correlation coefficient matrix as square, diagonal halo and correlated stripes. Synthetic calculations show that these types of signatures in the correlation coefficient matrix can result from certain combinations of cross-frequency correlated random components and diffuse field. The analysis of observed data indicates that the secondary microseismic peak around 0.15 Hz is correlated with its neighboring frequencies, while the primary peak around 0.06 Hz is more diffuse. This suggests that the primary and secondary peaks may be associated with somewhat different physical origins. In addition, significant correlation of frequencies below that of the primary microseismic peak suggests that the very low frequencies noise is less scattered during propagation. The power spectra recorded by a station close to the edge of the Los Angles basin is higher compared to data recorded by stations outside the basin perhaps because of enhanced basin reverberations and/or closer proximity to the ocean. This and other regional variations should be tested further using data from many more stations.

  1. Our Southern Neighbors - 2000 Nearby Red Dwarf Systems

    NASA Astrophysics Data System (ADS)

    Winters, Jennifer G.; Hosey, A. D.; Lurie, J. C.; Hambly, N.; Henry, T. J.; Jao, W.; Riedel, A. R.; Subasavage, J.

    2013-01-01

    Distance determinations to nearby objects are vitally important, as our solar neighbors set the standards for the primary rung in the cosmic distance ladder. The optimal tool for accomplishing this seemingly simple task is trigonometric parallax. Measuring parallaxes is very time-intensive, however. Photometric distance estimates can be useful in deciding which are the best targets for the limited slots available in traditional parallax programs. Photometry also reveals stars that do not fall neatly onto the main sequence, such as young stars, unresolved multiples, and subdwarfs, once an accurate trigonometric parallax has been measured. We present photometry and distances for more than 2000 southern M dwarf systems thought to be near the Sun, broken into three distinct samples. The first includes ~500 systems with accurate trigonometric parallaxes placing them within 25 pc --- ~150 have been published as a result of the RECONS astrometry program at the CTIO 0.9m telescope, which we now operate for NOAO. For an additional ~700 systems, we use VRI measurements from our photometry program (also at the 0.9m) with 2MASS JHK photometry to estimate distances accurate to 15%. Roughly one third of these systems are on our parallax program. The third sample includes ~1000 more systems for which plate BRI photometry from SuperCOSMOS is combined with JHK to provide distances accurate to 26%. Together, these three sets of stars comprise a list of ~2100 red dwarf systems within 25 pc in the southern sky. These stars are crucial to our understanding of the stellar luminosity and mass functions in the Milky Way and beyond, and provide ideal targets for planets searches using a variety of techniques. This effort is supported by the NSF through grants AST-0908402 and AST-1109445, and via observations made possible by the SMARTS Consortium.

  2. Assessment of air quality at neighbor residences in the vicinity of swine production facilities.

    PubMed

    Donham, Kelley J; Lee, Joung Ae; Thu, Kendall; Reynolds, Stephen J

    2006-01-01

    Air sampling was completed on the front lawn of 35 homes neighboring swine farms in three different regions in the Upper Midwest of the United States. One region was dominated by large scale, swine confined animal feeding operations (CAFO's) noted as swine confinement area (SCA). The second area was dominated by smaller scale operations utilizing hoop structure facilities (HA). The third area was basically devoid of livestock, dominated by row-crop production, and served as the control area (CA). The time weighted average concentrations of hydrogen sulfide (8.42 ppb) was higher (p = 0.047) in SCA area than the control (3.48 ppb). However, carbon dioxide (449.6 ppm), ammonia (12.78 ppb) and PM10 (42.25 microg/m3) were higher in the hoop structure area than the other areas. Swine population density, distance between the homes and swine facilities, and wind direction had an interactive effect on the average levels of ammonia (p = 0.04). The contaminant levels at the homes were relatively low compared to typical concentrations inside animal buildings. However, exceedences of federal recommended limits for hydrogen sulfide in outdoor air were observed in the swine CAFO area. Concentration of hydrogen sulfide exceeded the recommended limits of the ATSDR (30 ppb) for chronic exposure at two of the 12 homes in the CAFO area (17%). Average hydrogen sulfide concentration exceeded the EPA recommended community standards (0.7 ppb) in all three areas assessed (SCA, HA, and CA). As chronic exposure to hydrogen sulfide may be present in areas of production agriculture, a potential health risk may be present. Further studies to provide additional information regarding exposures to hydrogen sulfide in rural environments are warranted. PMID:19274894

  3. Topological phase transition on honeycomb lattice with third neighbor hooping

    NASA Astrophysics Data System (ADS)

    Chen, Yao-Hua; Hung, Hsiang-Hsuan; Ting, C. S.

    2014-03-01

    The topological phases originating in spin-orbital coupling systems have attracted great attention in modern condensed matter physics. Many interesting phenomena have been found in recent theoretical and experimental works, such as the integer and fractional quantum Hall effect, topological band insulator, topological Mott insulator, and topological superconductor. We have investigated the topological phase transition on honeycomb lattice with third neighbor hooping by employing the cellular dynamical mean-field theory combining with the continuous-time Monte Carlo method. The non-trivial topological insulator can be found by observing the spin Chern number directly, and the effects of the third neighbor hopping and interaction are also discussed. Furthermore, we also provide the whole phase diagram for interaction, third neighbor hopping, and temperature. This work is supported by the Texas Center for Superconductivity at the University of Houston and by the Robert A. Welch Foundation under Grant No. E-1146.

  4. Robust neighboring extremal guidance for the advanced launch system

    NASA Technical Reports Server (NTRS)

    Bain, John; Speyer, Jason L.

    1993-01-01

    With the availability of modern flight computers, realtime neighboring extremal guidance seems feasible. To overcome sensitivity to unknown system parameters and environmental uncertainties, a robust neighboring extremal guidance scheme is proposed. About the optimal trajectory, the accessory problem in the calculus of variations is formed, generating a quadratic cost criterion in the perturbed states and controls. By formulating a disturbance attenuation problem based upon the second variation cost criterion, a differential game is formulated. The game theoretic cost criterion is minimized with respect to the perturbed control but maximized with respect to the unknown parameters in the linearized dynamics. The resulting differential game problem gives rise to a two-point boundary-value problem solved using the sweep method. The sweep method solution provides a linear robust neighboring extremal guidance scheme that is applied to the Advanced Launch System.

  5. Efficient nearest neighbor searches in N-ABLE.

    SciTech Connect

    Mackey, Greg Edward

    2010-07-01

    The nearest neighbor search is a significant problem in transportation modeling and simulation. This paper describes how the nearest neighbor search is implemented efficiently with respect to running time in the NISAC Agent-Based Laboratory for Economics. The paper shows two methods to optimize running time of the nearest neighbor search. The first optimization uses a different distance metric that is more computationally efficient. The concept of a magnitude-comparable distance is described, and the paper gives a specific magnitude-comparable distance that is more computationally efficient than the actual distance function. The paper also shows how the given magnitude-comparable distance can be used to speed up the actual distance calculation. The second optimization reduces the number of points the search examines by using a spatial data structure. The paper concludes with testing of the different techniques discussed and the results.

  6. [A need to implement new tools for diagnosing tobacco-addition syndrome and readiness/motivation to quit smoking in the working-age population in Poland].

    PubMed

    Broszkiewicz, Marzenna; Drygas, Wojciech

    2016-01-01

    High rates of tobacco use is still observed in working-age population in Poland. The present level of the state tobacco control has been achieved through adopting legal regulations and population-based interventions. In Poland a sufficient contribution of health professionals to the diagnosis of the tobacco-addition syndrome (TAS) and the application of the 5A's (ask, advice, assess, assist, arrange follow-up) brief intervention, has not been confirmed by explicit research results. Systemic solutions of the health care system of the professional control, specialist health care, health professional trainings and reference centres have not as yet been elaborated. The tools for diagnosing tobacco dependence and motivation to quit smoking, developed over 30 years ago and recommended by experts to be used in clinical and research practice, have not met the current addiction criteria. In this paper other tools than those previously recommended - tests developed in the first decade of the 21st century (including Cigarette Dependence Scale and Nicotine Dependence Syndrome Scale), reflecting modern concepts of nicotine dependence are presented. In the literature on the readiness/motivation to change health behaviors, a new approach dominates. The motivational interviewing (MI) by Miller and Rollnick concentrates on a smoking person and his or her internal motivation. Motivational interviewing is recommended by the World Health Organization as a 5R's (relevance, risks, rewards, roadblocks, repetition) brief motivational advice, addressed to tobacco users who are unwilling to make a quit attempt. In Poland new research studies on the implementation of new diagnostic tools and updating of binding guidelines should be undertaken, to strengthen primary health care in treating tobacco dependence, and to incorporate MI and 5R's into trainings in TAS diagnosing and treating addressed to health professionals. PMID:27044722

  7. Breast cancer classification using cluster k-nearest neighbor

    NASA Astrophysics Data System (ADS)

    Samir, Brahim Belhaouari; Al-Absi, Hamada R. H.; Kassoul, Khelil

    2012-09-01

    Breast cancer is the leading cause of deaths among women. To reduce the number of deaths, early diagnosis and treatment have been pointed at as the most reliable approach. This paper introduces the application of cluster-knearest neighbor for breast cancer diagnosis. First, we apply wavelet transform to extract features. Feature selection is applied to select the most relevant features out of the huge number of coefficients that are extracted. After that, we apply the cluster-k-nearest neighbor classifier for classification.

  8. When good neighbors don’t need fences: Temporal landscape partitioning among baboon social groups

    PubMed Central

    MARKHAM, A. CATHERINE; GUTTAL, VISHWESHA; ALBERTS, SUSAN C.; ALTMANN, JEANNE

    2013-01-01

    Intraspecific competition is a key factor shaping space-use strategies and movement decisions in many species, yet how and when neighbors utilize shared areas while exhibiting active avoidance of one another is largely unknown. Here we investigated temporal landscape partitioning in a population of wild baboons (Papio cynocephalus). We used global positioning system (GPS) collars to synchronously record the hourly locations of 5 baboon social groups for ~900 days, and we used behavioral, demographic, and life history data to measure factors affecting use of overlap areas. Annual home ranges of neighboring groups overlapped substantially, as predicted (baboons are considered non-territorial), but home ranges overlapped less when space use was assessed over shorter time scales. Moreover, neighboring groups were in close spatial proximity to one another on fewer days than predicted by a null model, suggesting an avoidance-based spacing pattern. At all time scales examined (monthly, biweekly, and weekly), time spent in overlap areas was greater during time periods when groups fed on evenly dispersed, low-quality foods. The percent of fertile females in social groups was negatively correlated with time spent in overlap areas only during weekly time intervals. This suggests that broad temporal changes in ecological resources are a major predictor of how intensively overlap areas are used, and groups modify these ecologically driven spacing patterns at short time scales based on female reproductive status. Together these findings offer insight into the economics of territoriality by highlighting the dynamics of spacing patterns at differing time scales. PMID:23914003

  9. The C allele of JAK2 rs4495487 is an additional candidate locus that contributes to myeloproliferative neoplasm predisposition in the Japanese population

    PubMed Central

    2012-01-01

    Background Polycythemia vera (PV), essential thrombocythemia (ET), and primary myelofibrosis (PMF) are myeloproliferative neoplasms (MPNs) characterized in most cases by a unique somatic mutation, JAK2 V617F. Recent studies revealed that JAK2 V617F occurs more frequently in a specific JAK2 haplotype, named JAK2 46/1 or GGCC haplotype, which is tagged by rs10974944 (C/G) and/or rs12343867 (T/C). This study examined the impact of single nucleotide polymorphisms (SNPs) of the JAK2 locus on MPNs in a Japanese population. Methods We sequenced 24 JAK2 SNPs in Japanese patients with PV. We then genotyped 138 MPN patients (33 PV, 96 ET, and 9 PMF) with known JAK2 mutational status and 107 controls for a novel SNP, in addition to two SNPs known to be part of the 46/1 haplotype (rs10974944 and rs12343867). Associations with risk of MPN were estimated by odds ratios and their 95% confidence intervals using logistic regression. Results A novel locus, rs4495487 (T/C), with a mutated T allele was significantly associated with PV. Similar to rs10974944 and rs12343867, rs4495487 in the JAK2 locus is significantly associated with JAK2-positive MPN. Based on the results of SNP analysis of the three JAK2 locus, we defined the "GCC genotype" as having at least one minor allele in each SNP (G allele in rs10974944, C allele in rs4495487, and C allele in rs12343867). The GCC genotype was associated with increased risk of both JAK2 V617F-positive and JAK2 V617F-negative MPN. In ET patients, leukocyte count and hemoglobin were significantly associated with JAK2 V617F, rather than the GCC genotype. In contrast, none of the JAK2 V617F-negative ET patients without the GCC genotype had thrombosis, and splenomegaly was frequently seen in this subset of ET patients. PV patients without the GCC genotype were significantly associated with high platelet count. Conclusions Our results indicate that the C allele of JAK2 rs4495487, in addition to the 46/1 haplotype, contributes significantly to the

  10. Enhancement of charge transport in DNA molecules induced by the next nearest-neighbor effects

    NASA Astrophysics Data System (ADS)

    Malakooti, Sadeq; Hedin, Eric R.; Kim, Young D.; Joe, Yong S.

    2012-11-01

    An advanced two-dimensional tight-binding model including the next nearest-neighbor effects for quantum mechanical electron transport through double-stranded DNA molecules is proposed. Considering the next nearest-neighbor hopping strengths between sites gives a more rational and realistic model for the electron path-way through DNA molecules. We show higher overall transmission and enhanced current for a 30 base-pair poly(G)-poly(C) DNA molecule with the inclusion of diagonal electron hopping between the sites. In addition, an optimum condition of the contact hopping strength and Fermi energy to obtain the maximum current for the system is demonstrated. Finally, we present the current-voltage characteristics showing a transition from a semiconductor-like to a metal-like DNA molecule with the variation of the Fermi energy.

  11. Misperception of orthographic neighbors during silent and oral reading.

    PubMed

    Gregg, Julie; Inhoff, Albrecht W

    2016-06-01

    The study examined whether words are misperceived during natural fluent reading and the extent to which contextual and lexical properties bias perception. Target words were pairs of orthographic neighbors that differed in frequency. Pretarget context was neutral (Experiment 1) or biased toward the higher frequency member of the pair (Experiments 2 and 3), and posttarget context was neutral, congruent, or incongruent. Critically, incongruent context was constructed so that it was congruent with the target's neighbor. First-pass viewing showed only effects of target frequency. During silent reading (Experiments 1 and 2), rereading measures showed that the target frequency effect was smaller in the incongruent posttarget context condition than in the neutral and congruent conditions, and this occurred irrespective of prior context. Presumably, lower frequency words were less impeded by incongruent context because they were often misperceived as a congruent higher frequency neighbor. An oral reading task (Experiment 3) showed that the lower frequency target was more often misread than the higher frequency neighbor, and this proneness to error was influenced by posttarget context. Although target frequency influenced proneness to error, biased prior sentence context appeared to influence the construal of sentence meaning to accommodate incongruent targets and posttarget context. (PsycINFO Database Record PMID:26727017

  12. Love Thy Neighbor: Sharing and Cooperativity in the Gut Microbiota.

    PubMed

    Porter, Nathan T; Martens, Eric C

    2016-06-01

    To persist in the competitive gastrointestinal ecosystem, microbes often enforce selfish strategies that limit resource loss to neighboring bacteria. In contrast, a recent study in Nature by Rakoff-Nahoum et al. (2016) reveals that one commensal bacterium releases nutrients to benefit another species, which reciprocally provides growth-promoting factors to the producer. PMID:27281562

  13. VIEW OF ENTRANCE SIDE OF HOUSE, TAKEN FROM NEIGHBORING CARPORT ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    VIEW OF ENTRANCE SIDE OF HOUSE, TAKEN FROM NEIGHBORING CARPORT AREA. WITH NEIGHBOR’S TRASH ENCLOSURE IN FOREGROUND. VIEW FACING WEST - Camp H.M. Smith and Navy Public Works Center Manana Title VII (Capehart) Housing, Three-Bedroom Single-Family Types 8 and 11, Birch Circle, Elm Drive, Elm Circle, and Date Drive, Pearl City, Honolulu County, HI

  14. Massive parallel optical systems with nearest-neighbor interconnections

    NASA Astrophysics Data System (ADS)

    Giglmayr, Josef

    1995-08-01

    Two basic architectures are deduced from 1D multistage architectures with nearest-neighbor (NN) interconnection of switches and extended into 2D architectures by a mathematical transformation. These two architectures are the Spanke-Benes (SB) network and the NN multistage interconnection network of switches (NN-MIN). The properties and applications of the two 2D architectures are described.

  15. Writing as a Neighborly Act: An Antidote for Academentia.

    ERIC Educational Resources Information Center

    Savage, Mary C.

    1989-01-01

    Describes "academentia," the delusion that disciplines are intellectually powerful as a result of their specialization. Prescribes "neighborliness"--intellectual and practical work done from the perspective of critical consciousness--as the antidote to academentia. Suggests that writing projects have great potential as "neighborly" activities. (MM)

  16. Neighboring Genes Show Correlated Evolution in Gene Expression

    PubMed Central

    Ghanbarian, Avazeh T.; Hurst, Laurence D.

    2015-01-01

    When considering the evolution of a gene’s expression profile, we commonly assume that this is unaffected by its genomic neighborhood. This is, however, in contrast to what we know about the lack of autonomy between neighboring genes in gene expression profiles in extant taxa. Indeed, in all eukaryotic genomes genes of similar expression-profile tend to cluster, reflecting chromatin level dynamics. Does it follow that if a gene increases expression in a particular lineage then the genomic neighbors will also increase in their expression or is gene expression evolution autonomous? To address this here we consider evolution of human gene expression since the human-chimp common ancestor, allowing for both variation in estimation of current expression level and error in Bayesian estimation of the ancestral state. We find that in all tissues and both sexes, the change in gene expression of a focal gene on average predicts the change in gene expression of neighbors. The effect is highly pronounced in the immediate vicinity (<100 kb) but extends much further. Sex-specific expression change is also genomically clustered. As genes increasing their expression in humans tend to avoid nuclear lamina domains and be enriched for the gene activator 5-hydroxymethylcytosine, we conclude that, most probably owing to chromatin level control of gene expression, a change in gene expression of one gene likely affects the expression evolution of neighbors, what we term expression piggybacking, an analog of hitchhiking. PMID:25743543

  17. The Effectiveness of Document Neighboring in Search Enhancement.

    ERIC Educational Resources Information Center

    Wilbur, W. John; Coffee, Leona

    1994-01-01

    Compares two methods of information retrieval--one that rates documents according to a query and another that uses relevant documents to find further relevant documents (i.e., neighboring documents). Highlights include experiments at the National Library of Medicine; feedback; vector cosine retrieval; and a measure of retrieval effectiveness…

  18. The genetic structure of the Kuwaiti population: mtDNA Inter- and intra-population variation.

    PubMed

    Theyab, Jasem B; Al-Bustan, Suzanne; Crawford, Michael H

    2012-08-01

    This study investigated: (1) the mitochondrial DNA (mtDNA) genetic variation in 116 unrelated individuals who originated from the Arabian Peninsula, Iran, or were of Bedouin ethnicity and (2) the genetic structure of Kuwaiti populations and compared it to their neighboring populations. These subpopulations were tested for genetic homogeneity and shown to be heterogeneous. Restriction fragment length polymorphism (RFLP) and mtDNA sequencing analyses of HVRI were used to reconstruct the genetic structure of Kuwait. The results indicated that the combined Kuwaiti population has a high frequency of haplogroup R0 (17%), J (12%), and U (12%) similar to other Arabian populations. In addition, contemporary African gene flow was detected through the presence of sub-haplogroup L (L1 and L2) (2%) and the absence of L3 which is reflective of an earlier migration. Furthermore, the multidimensional scaling (MDS) plot showed that the Kuwaiti population clusters with neighboring populations, including Iran and Saudi Arabia indicating gene flow into Kuwait. According to this study, the Kuwaiti population may be undergoing an expansion in a relatively short period of time, and the maternal genetic structure of Kuwait resembles both Saudi Arabia and Iran. PMID:23249314

  19. Knee Pain and Low Back Pain Additively Disturb Sleep in the General Population: A Cross-Sectional Analysis of the Nagahama Study

    PubMed Central

    Murase, Kimihiko; Tabara, Yasuharu; Ito, Hiromu; Kobayashi, Masahiko; Takahashi, Yoshimitsu; Setoh, Kazuya; Kawaguchi, Takahisa; Muro, Shigeo; Kadotani, Hiroshi; Kosugi, Shinji; Sekine, Akihiro; Yamada, Ryo; Nakayama, Takeo; Mishima, Michiaki; Matsuda, Shuichi; Matsuda, Fumihiko; Chin, Kazuo

    2015-01-01

    low back pain: OR = 1.61, p<0.01; both knee and low back pain: OR = 2.17, p<0.01). Conclusion Knee and low back pains were independently associated with short sleep duration and poor sleep quality. Further, they additively increased the correlation with these sleep problems in the general population. PMID:26444713

  20. Lipid-Coated Cisplatin Nanoparticles Induce Neighboring Effect and Exhibit Enhanced Anticancer Efficacy

    PubMed Central

    Guo, Shutao; Wang, Yuhua; Miao, Lei; Xu, Zhenghong; Lin, C. Michael; Zhang, Yuan; Huang, Leaf

    2014-01-01

    Encapsulation of cisplatin (CDDP) into nanoparticles (NPs) with high drug loading and encapsulation efficiency has been difficult due to the poor solubility of CDDP. However, this barrier has been overcome with a reverse microemulsion method appropriating CDDP’s poor solubility to our advantage promoting the synthesis of a pure cisplatin nanoparticle with a high drug loading capacity (approximately 80.8wt%). Actively targeted CDDP NPs exhibited significant accumulation in human A375M melanoma tumor cells in vivo. In addition, CDDP NPs achieved potent anti-tumor efficacy through the neighboring effect at a dose of 1 mg/kg when injected weekly via IV without inducing nephrotoxicity. The neighboring effect regards an observation made in vivo when the tumor cells that took up CDDP NPs released active drug following apoptosis. Via diffusion, surrounding cells that were previously unaffected showed intake of the released drug and their apoptosis soon followed. This observation was also made in vitro when A375M melanoma tumor cells incubated with CDDP NPs exhibited release of active drug and induced apoptosis on untreated neighboring cells. However, the neighboring effect was unique to rapidly proliferating tumor cells. Liver functional parameters and H&E staining of liver tissue in vivo failed to detect any difference between CDDP NP treated and control groups in terms of tissue health. By simultaneously promoting an increase in cytotoxicity and a lesser degree of side effects over free CDDP, CDDP NPs show great therapeutic potential with lower doses of drug while enhancing anti-cancer effectiveness. PMID:24083505

  1. Social dilemma alleviated by sharing the gains with immediate neighbors.

    PubMed

    Wu, Zhi-Xi; Yang, Han-Xin

    2014-01-01

    We study the evolution of cooperation in the evolutionary spatial prisoner's dilemma game (PDG) and snowdrift game (SG), within which a fraction α of the payoffs of each player gained from direct game interactions is shared equally by the immediate neighbors. The magnitude of the parameter α therefore characterizes the degree of the relatedness among the neighboring players. By means of extensive Monte Carlo simulations as well as an extended mean-field approximation method, we trace the frequency of cooperation in the stationary state. We find that plugging into relatedness can significantly promote the evolution of cooperation in the context of both studied games. Unexpectedly, cooperation can be more readily established in the spatial PDG than that in the spatial SG, given that the degree of relatedness and the cost-to-benefit ratio of mutual cooperation are properly formulated. The relevance of our model with the stakeholder theory is also briefly discussed. PMID:24580174

  2. Social dilemma alleviated by sharing the gains with immediate neighbors

    NASA Astrophysics Data System (ADS)

    Wu, Zhi-Xi; Yang, Han-Xin

    2014-01-01

    We study the evolution of cooperation in the evolutionary spatial prisoner's dilemma game (PDG) and snowdrift game (SG), within which a fraction α of the payoffs of each player gained from direct game interactions is shared equally by the immediate neighbors. The magnitude of the parameter α therefore characterizes the degree of the relatedness among the neighboring players. By means of extensive Monte Carlo simulations as well as an extended mean-field approximation method, we trace the frequency of cooperation in the stationary state. We find that plugging into relatedness can significantly promote the evolution of cooperation in the context of both studied games. Unexpectedly, cooperation can be more readily established in the spatial PDG than that in the spatial SG, given that the degree of relatedness and the cost-to-benefit ratio of mutual cooperation are properly formulated. The relevance of our model with the stakeholder theory is also briefly discussed.

  3. A New Adaptive Image Denoising Method Based on Neighboring Coefficients

    NASA Astrophysics Data System (ADS)

    Biswas, Mantosh; Om, Hari

    2016-03-01

    Many good techniques have been discussed for image denoising that include NeighShrink, improved adaptive wavelet denoising method based on neighboring coefficients (IAWDMBNC), improved wavelet shrinkage technique for image denoising (IWST), local adaptive wiener filter (LAWF), wavelet packet thresholding using median and wiener filters (WPTMWF), adaptive image denoising method based on thresholding (AIDMT). These techniques are based on local statistical description of the neighboring coefficients in a window. These methods however do not give good quality of the images since they cannot modify and remove too many small wavelet coefficients simultaneously due to the threshold. In this paper, a new image denoising method is proposed that shrinks the noisy coefficients using an adaptive threshold. Our method overcomes these drawbacks and it has better performance than the NeighShrink, IAWDMBNC, IWST, LAWF, WPTMWF, and AIDMT denoising methods.

  4. Nearest Neighbor Networks: clustering expression data based on gene neighborhoods

    PubMed Central

    Huttenhower, Curtis; Flamholz, Avi I; Landis, Jessica N; Sahi, Sauhard; Myers, Chad L; Olszewski, Kellen L; Hibbs, Matthew A; Siemers, Nathan O; Troyanskaya, Olga G; Coller, Hilary A

    2007-01-01

    Background The availability of microarrays measuring thousands of genes simultaneously across hundreds of biological conditions represents an opportunity to understand both individual biological pathways and the integrated workings of the cell. However, translating this amount of data into biological insight remains a daunting task. An important initial step in the analysis of microarray data is clustering of genes with similar behavior. A number of classical techniques are commonly used to perform this task, particularly hierarchical and K-means clustering, and many novel approaches have been suggested recently. While these approaches are useful, they are not without drawbacks; these methods can find clusters in purely random data, and even clusters enriched for biological functions can be skewed towards a small number of processes (e.g. ribosomes). Results We developed Nearest Neighbor Networks (NNN), a graph-based algorithm to generate clusters of genes with similar expression profiles. This method produces clusters based on overlapping cliques within an interaction network generated from mutual nearest neighborhoods. This focus on nearest neighbors rather than on absolute distance measures allows us to capture clusters with high connectivity even when they are spatially separated, and requiring mutual nearest neighbors allows genes with no sufficiently similar partners to remain unclustered. We compared the clusters generated by NNN with those generated by eight other clustering methods. NNN was particularly successful at generating functionally coherent clusters with high precision, and these clusters generally represented a much broader selection of biological processes than those recovered by other methods. Conclusion The Nearest Neighbor Networks algorithm is a valuable clustering method that effectively groups genes that are likely to be functionally related. It is particularly attractive due to its simplicity, its success in the analysis of large datasets

  5. Neighboring extremals of dynamic optimization problems with path equality constraints

    NASA Technical Reports Server (NTRS)

    Lee, A. Y.

    1988-01-01

    Neighboring extremals of dynamic optimization problems with path equality constraints and with an unknown parameter vector are considered in this paper. With some simplifications, the problem is reduced to solving a linear, time-varying two-point boundary-value problem with integral path equality constraints. A modified backward sweep method is used to solve this problem. Two example problems are solved to illustrate the validity and usefulness of the solution technique.

  6. BMP2 Transfer to Neighboring Cells and Activation of Signaling.

    PubMed

    Alborzinia, Hamed; Shaikhkarami, Marjan; Hortschansky, Peter; Wölfl, Stefan

    2016-09-01

    Morphogen gradients and concentration are critical features during early embryonic development and cellular differentiation. Previously we reported the preparation of biologically active, fluorescently labeled BMP2 and quantitatively analyzed their binding to the cell surface and followed BMP2 endocytosis over time on the level of single endosomes. Here we show that this internalized BMP2 can be transferred to neighboring cells and, moreover, also activates downstream BMP signaling in adjacent cells, indicated by Smad1/5/8 phosphorylation and activation of the downstream target gene id1. Using a 3D matrix to modulate cell-cell contacts in culture we could show that direct cell-cell contact significantly increased BMP2 transfer. Using inhibitors of vesicular transport, transfer was strongly inhibited. Interestingly, cotreatment with the physiological BMP inhibitor Noggin increased BMP2 uptake and transfer, albeit activation of Smad signaling in neighboring cells was completely suppressed. Our findings present a novel and interesting mechanism by which morphogens such as BMP2 can be transferred between cells and how this is modulated by BMP antagonists such as Noggin, and how this influences activation of Smad signaling by BMP2 in neighboring cells. PMID:27306974

  7. Isolation of avian pneumovirus from mallard ducks that is genetically similar to viruses isolated from neighboring commercial turkeys.

    PubMed

    Shin, Hyun-Jin; Nagaraja, Kakambi V; McComb, Brian; Halvorson, David A; Jirjis, Faris F; Shaw, Daniel P; Seal, Bruce S; Njenga, M Kariuki

    2002-02-26

    Our earlier studies demonstrating avian pneumovirus (APV) RNA in wild geese, sparrows, swallows, starlings and mallard ducks suggested that wild birds might be involved in the circulation of APV in the United States. To determine whether turkey virus can be transmitted to the free flying birds, we placed APV-negative mallard ducks next to a turkey farm experiencing a severe APV outbreak and in an area with a large population of waterfowls. The sentinel ducks did not develop clinical APV disease but infectious APV (APV/MN-12) was recovered from choanal swabs after 2 weeks, and anti-APV antibodies detected after 4 weeks. Four APV isolates recovered from the neighboring turkeys that were experiencing an APV outbreak at the same time shared 95-99% nucleotide identity and 97-99% predicted amino acid identity with the duck isolate. In addition experimental infection of turkey poults with APV/MN-12 resulted in detection of viral RNA in nasal turbinates and APV-specific IgG in serum. These results indicate that the APV isolates from turkeys and ducks shared a common source, and the viruses from different avian species can cross-infect. PMID:11864753

  8. [Galaxy/quasar classification based on nearest neighbor method].

    PubMed

    Li, Xiang-Ru; Lu, Yu; Zhou, Jian-Ming; Wang, Yong-Jun

    2011-09-01

    With the wide application of high-quality CCD in celestial spectrum imagery and the implementation of many large sky survey programs (e. g., Sloan Digital Sky Survey (SDSS), Two-degree-Field Galaxy Redshift Survey (2dF), Spectroscopic Survey Telescope (SST), Large Sky Area Multi-Object Fiber Spectroscopic Telescope (LAMOST) program and Large Synoptic Survey Telescope (LSST) program, etc.), celestial observational data are coming into the world like torrential rain. Therefore, to utilize them effectively and fully, research on automated processing methods for celestial data is imperative. In the present work, we investigated how to recognizing galaxies and quasars from spectra based on nearest neighbor method. Galaxies and quasars are extragalactic objects, they are far away from earth, and their spectra are usually contaminated by various noise. Therefore, it is a typical problem to recognize these two types of spectra in automatic spectra classification. Furthermore, the utilized method, nearest neighbor, is one of the most typical, classic, mature algorithms in pattern recognition and data mining, and often is used as a benchmark in developing novel algorithm. For applicability in practice, it is shown that the recognition ratio of nearest neighbor method (NN) is comparable to the best results reported in the literature based on more complicated methods, and the superiority of NN is that this method does not need to be trained, which is useful in incremental learning and parallel computation in mass spectral data processing. In conclusion, the results in this work are helpful for studying galaxies and quasars spectra classification. PMID:22097877

  9. Query-Adaptive Reciprocal Hash Tables for Nearest Neighbor Search.

    PubMed

    Liu, Xianglong; Deng, Cheng; Lang, Bo; Tao, Dacheng; Li, Xuelong

    2016-02-01

    Recent years have witnessed the success of binary hashing techniques in approximate nearest neighbor search. In practice, multiple hash tables are usually built using hashing to cover more desired results in the hit buckets of each table. However, rare work studies the unified approach to constructing multiple informative hash tables using any type of hashing algorithms. Meanwhile, for multiple table search, it also lacks of a generic query-adaptive and fine-grained ranking scheme that can alleviate the binary quantization loss suffered in the standard hashing techniques. To solve the above problems, in this paper, we first regard the table construction as a selection problem over a set of candidate hash functions. With the graph representation of the function set, we propose an efficient solution that sequentially applies normalized dominant set to finding the most informative and independent hash functions for each table. To further reduce the redundancy between tables, we explore the reciprocal hash tables in a boosting manner, where the hash function graph is updated with high weights emphasized on the misclassified neighbor pairs of previous hash tables. To refine the ranking of the retrieved buckets within a certain Hamming radius from the query, we propose a query-adaptive bitwise weighting scheme to enable fine-grained bucket ranking in each hash table, exploiting the discriminative power of its hash functions and their complement for nearest neighbor search. Moreover, we integrate such scheme into the multiple table search using a fast, yet reciprocal table lookup algorithm within the adaptive weighted Hamming radius. In this paper, both the construction method and the query-adaptive search method are general and compatible with different types of hashing algorithms using different feature spaces and/or parameter settings. Our extensive experiments on several large-scale benchmarks demonstrate that the proposed techniques can significantly outperform both

  10. Equilibrium polymerization on the equivalent-neighbor lattice

    NASA Technical Reports Server (NTRS)

    Kaufman, Miron

    1989-01-01

    The equilibrium polymerization problem is solved exactly on the equivalent-neighbor lattice. The Flory-Huggins (Flory, 1986) entropy of mixing is exact for this lattice. The discrete version of the n-vector model is verified when n approaches 0 is equivalent to the equal reactivity polymerization process in the whole parameter space, including the polymerized phase. The polymerization processes for polymers satisfying the Schulz (1939) distribution exhibit nonuniversal critical behavior. A close analogy is found between the polymerization problem of index the Schulz r and the Bose-Einstein ideal gas in d = -2r dimensions, with the critical polymerization corresponding to the Bose-Einstein condensation.

  11. Neighbor effects in marmosets: social contagion of agonism and affiliation in captive Callithrix jacchus.

    PubMed

    Watson, Claire F I; Caldwell, Christine A

    2010-06-01

    Researchers have demonstrated the neighbor effect for affiliative and agonistic neighbor vocalizations in captive chimpanzees. We extend the investigation of the neighbor effect to New World monkeys, Callithrix jacchus. We collected data on vocalizations and behaviors of 31 focal individuals and concurrent neighbor vocalization within three behavioral categories: intragroup and intergroup aggression and intragroup affiliation. We investigated whether there was an influence of neighbor vocalizations on focal behavior within the same behavioral category. For data analysis we used approximate randomization of paired-sample t-tests. We found that marmosets performed intergroup aggressive behavior (bristle, anogenital present for neighbor loud shrill only) for significantly longer, and emitted significantly more intergroup agonistic vocalizations (twitter, loud shrill), at a high frequency of intergroup agonistic neighbor vocalizations (twitter, loud shrill) than at low. The marmosets were also significantly more likely to engage in bristle behavior immediately after hearing a neighbor intergroup aggressive call (twitter, loud shrill) than directly beforehand. High neighbor intragroup agonistic calls (chatter) were associated with significantly longer spent in related behavior (composite of: attack, chase, steal food). Affiliative behaviors (share food, grooming invite) were engaged in by marmosets for significantly longer at higher frequencies of affiliative neighbor chirp calls than at low. Marmosets were also significantly more likely to perform food sharing and active affiliative contact immediately after rather than before hearing a neighbor chirp call. Our findings suggest that neighbor vocalizations influence marmoset behavior through social contagion and indicate that the neighbor effect for affiliation and aggression generalizes to the marmoset. PMID:20131362

  12. Nearest-neighbor analysis of small features on Mars: Applications to tumuli and rootless cones

    NASA Astrophysics Data System (ADS)

    Baloga, S. M.; Glaze, L. S.; Bruno, B. C.

    2007-03-01

    Fields of low relief cones, domes, and mounds on Mars have been interpreted as tumuli, rootless cones, and pingos. The spatial distribution of such features can be characterized by their nearest-neighbor (NN) distances. The NN distributions can provide insight into the physical processes that affected field formation and can possibly provide a future diagnostic of the feature type present on Mars. The conventional approach for analyzing the observed NN distribution is based on the Poisson probability distribution and uses one statistic, c. Our simulations of spatial randomness show that there is an unrecognized bias in c that often leads to erroneous conclusions. Three alternative extensions of the Poisson distribution are proposed here. The first accounts for a minimum threshold on the size of features discerned, the second considers the scavenging of the resources necessary to form neighboring features (e.g., inflation pressurization and subsurface volatiles), and the third models self-limiting growth of the feature population. Three statistical tests are proposed to improve the conventional NN analysis. We provide the critical regions needed to perform these tests for common sample sizes of these geologic features. Our methodology is applied to tumuli at Mauna Ulu, Hawaii, and conjectured tumuli and rootless cones on Mars. Each example exhibits a different aspect of spatial randomness. These applications suggest avenues for further field and theoretical studies to develop this approach as a remote-sensing diagnostic.

  13. Sources of secondary metabolite variation in Dysidea avara (Porifera: Demospongiae): the importance of having good neighbors.

    PubMed

    De Caralt, Sonia; Bry, Delphine; Bontemps, Nataly; Turon, Xavier; Uriz, Maria-Jesus; Banaigs, Bernard

    2013-02-01

    Several studies report temporal, geographical, and intra-individual variation in sponge metabolite yields. However, the internal and/or external factors that regulate the metabolite production remain poorly understood. Dysidea avara is a demosponge that produces sesquiterpenoids (avarol and derivatives) with interesting medical properties, which has prompted addressed studies to obtain enough amounts of these metabolites for research on drug discovery. Within this framework, specimens of Dysidea avara from a population of the Northwest Mediterranean were sampled and their secondary metabolites quantified to assess their variability and the possible relationship with external (seasonality, interactions with neighbors) and internal (reproductive stages) factors. The results show a variation of the amount of both avarol and its monoacetate derivative with time, with no clear relationship with seawater temperature. A trade-off with sponge reproduction was not found either. However, our results showed for the first time that sponges are able to increase production or accumulation of secondary metabolites in their peripheral zone depending on the nature of their neighbors. This finding could explain part of the high variability in the amount of secondary metabolites usually found in chemical ecology studies on sponges and opens new biotechnological approaches to enhance the metabolite yield in sponge cultures. PMID:23429282

  14. 78 FR 60280 - Good Neighbor Environmental Board; Cancellation Notice of Public Advisory Committee teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-10-01

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board; Cancellation Notice of Public Advisory Committee teleconference AGENCY: Environmental Protection Agency (EPA). ACTION: Cancellation of the Good Neighbor...

  15. Plant neighbor detection through touching leaf tips precedes phytochrome signals.

    PubMed

    de Wit, Mieke; Kegge, Wouter; Evers, Jochem B; Vergeer-van Eijk, Marleen H; Gankema, Paulien; Voesenek, Laurentius A C J; Pierik, Ronald

    2012-09-01

    Plants in dense vegetation compete for resources, including light, and optimize their growth based on neighbor detection cues. The best studied of such behaviors is the shade-avoidance syndrome that positions leaves in optimally lit zones of a vegetation. Although proximate vegetation is known to be sensed through a reduced ratio between red and far-red light, we show here through computational modeling and manipulative experiments that leaves of the rosette species Arabidopsis thaliana first need to move upward to generate sufficient light reflection potential for subsequent occurrence and perception of a reduced red to far-red ratio. This early hyponastic leaf growth response is not induced by known neighbor detection cues under both climate chamber and natural sunlight conditions, and we identify a unique way for plants to detect future competitors through touching of leaf tips. This signal occurs before light signals and appears to be the earliest means of above-ground plant-plant signaling in horizontally growing rosette plants. PMID:22908260

  16. Love Thy Neighbor? Ethnoracial Diversity and Trust Reexamined.

    PubMed

    Abascal, Maria; Baldassarri, Delia

    2015-11-01

    According to recent research, ethnoracial diversity negatively affects trust and social capital. This article challenges the current conception and measurement of "diversity" and invites scholars to rethink "so-cial capital" in complex societies. It reproduces the analysis of Putnam and shows that the association between diversity and self-reported trust is a compositional artifact attributable to residential sorting: non-whites report lower trust and are overrepresented in heterogeneous communities. The association between diversity and trust is better explained by differences between communities and their residents in terms of race/ethnicity, residential stability, and economic conditions; these classic indicators of inequality, not diversity, strongly and consistently predict self-reported trust. Diversity indexes also obscure the distinction between in-group and out-group contact. For whites, heterogeneity means more out-group neighbors; for nonwhites, heterogeneity means more in-group neighbors. Therefore, separate analyses were conducted by ethnoracial groups. Only for whites does living among out-group members--not in diverse communities per se--negatively predict trust. PMID:26900618

  17. Legumes Can Increase Cadmium Contamination in Neighboring Crops

    PubMed Central

    Tang, Jianjun; Xu, Ligen; Yang, Xiantian; Yong, Jean W. H.; Chen, Xin

    2012-01-01

    Legumes are widely used in many cropping systems because they share their nitrogen fixation products and phosphorus mobilization activities with their neighbors. In the current study, however, we showed that co-cultivation with legumes increased cadmium (Cd) contamination in the adjacent crops. Both field and mesocosm experiments indicated that legumes increased Cd levels in edible parts and shoots of four neighboring crops and five maize varieties tested, regardless of the Cd levels in the soil. This enhanced Cd accumulation in crops was attributed to root interactions that alter the rhizosphere environment. Co-cultivation with legumes reduced soil pH, which somewhat increased the exchangeable forms of Cd. Our results have demonstrated the inevitable increases in Cd levels of crops as a direct result of co-cultivation with legumes even under situations when these levels are below the permissible threshold. With this new revelation, we need to consider carefully the current cropping systems involving legumes and perhaps to re-design the current and future cropping systems in view of avoiding food contamination by Cd. PMID:22905189

  18. Attractor Dynamics and Semantic Neighborhood Density: Processing Is Slowed by Near Neighbors and Speeded by Distant Neighbors

    PubMed Central

    Mirman, Daniel; Magnuson, James S.

    2008-01-01

    The authors investigated semantic neighborhood density effects on visual word processing to examine the dynamics of activation and competition among semantic representations. Experiment 1 validated feature-based semantic representations as a basis for computing semantic neighborhood density and suggested that near and distant neighbors have opposite effects on word processing. Experiment 2 confirmed these results: Word processing was slower for dense near neighborhoods and faster for dense distant neighborhoods. Analysis of a computational model showed that attractor dynamics can produce this pattern of neighborhood effects. The authors argue for reconsideration of traditional models of neighborhood effects in terms of attractor dynamics, which allow both inhibitory and facilitative effects to emerge. PMID:18194055

  19. Melting point prediction employing k-nearest neighbor algorithms and genetic parameter optimization.

    PubMed

    Nigsch, Florian; Bender, Andreas; van Buuren, Bernd; Tissen, Jos; Nigsch, Eduard; Mitchell, John B O

    2006-01-01

    We have applied the k-nearest neighbor (kNN) modeling technique to the prediction of melting points. A data set of 4119 diverse organic molecules (data set 1) and an additional set of 277 drugs (data set 2) were used to compare performance in different regions of chemical space, and we investigated the influence of the number of nearest neighbors using different types of molecular descriptors. To compute the prediction on the basis of the melting temperatures of the nearest neighbors, we used four different methods (arithmetic and geometric average, inverse distance weighting, and exponential weighting), of which the exponential weighting scheme yielded the best results. We assessed our model via a 25-fold Monte Carlo cross-validation (with approximately 30% of the total data as a test set) and optimized it using a genetic algorithm. Predictions for drugs based on drugs (separate training and test sets each taken from data set 2) were found to be considerably better [root-mean-squared error (RMSE)=46.3 degrees C, r2=0.30] than those based on nondrugs (prediction of data set 2 based on the training set from data set 1, RMSE=50.3 degrees C, r2=0.20). The optimized model yields an average RMSE as low as 46.2 degrees C (r2=0.49) for data set 1, and an average RMSE of 42.2 degrees C (r2=0.42) for data set 2. It is shown that the kNN method inherently introduces a systematic error in melting point prediction. Much of the remaining error can be attributed to the lack of information about interactions in the liquid state, which are not well-captured by molecular descriptors. PMID:17125183

  20. Neighboring and Community Mobilization in High-Poverty Inner-City Neighborhoods.

    ERIC Educational Resources Information Center

    Bolland, John M.; McCallum, Debra Moehle

    2002-01-01

    Interviewed 257 impoverished, urban public housing residents regarding how empowerment, sense of community, and neighboring behavior affected the likelihood of their engaging in discussion about community issues directly affecting their lives and the lives of their neighbors. Overall, sense of community and neighboring behaviors predicted…

  1. Effects of environmental cadmium and lead exposure on adults neighboring a discharge: Evidences of adverse health effects.

    PubMed

    Cabral, Mathilde; Toure, Aminata; Garçon, Guillaume; Diop, Cheikh; Bouhsina, Saâd; Dewaele, Dorothée; Cazier, Fabrice; Courcot, Dominique; Tall-Dia, Anta; Shirali, Pirouz; Diouf, Amadou; Fall, Mamadou; Verdin, Anthony

    2015-11-01

    The purpose of the study was to determine Pb and Cd concentrations in humans and to assess the effect of co-exposure to these metals on biomarkers of oxidative stress and nephrotoxicity. Blood and urine levels of Pb and Cd, oxidative stress and urinary renal biomarkers were measured in 77 subjects neighboring a discharge and 52 in the control site. Exposed subjects showed significantly higher levels of lead and cadmium in blood and urine than the controls. Excessive production of reactive oxygen species induced by these metals in exposed subjects conducted to a decrease in antioxidant defense system (GPx, Selenium, GSH) and an increase in lipid peroxidation (MDA). Moreover, changes in markers of nephrotoxicity (high urinary concentrations of total protein, RBP and CC16, as well as GSTα and LDH increased activities) suggested the occurrence of discrete and early signs of impaired renal function for the discharge neighboring population. PMID:26196314

  2. Flight-deck display of neighboring aircraft wake vortices

    NASA Astrophysics Data System (ADS)

    Holforty, Wendy L.

    Over the coming decades, aviation operations are predicted to rise steadily, increasing the burden on already congested and constrained airspace. A major factor governing the safe minimum separation distance between aircraft is the hazard generated by the wake of neighboring aircraft. Unaware of their proximity to other traffic, aircraft have encountered the wake turbulence of neighboring aircraft tens of miles ahead of them with serious or fatal consequences. The wake display described herein is a perspective view, synthetic vision, flight deck display that enables flight crews to "see" neighboring aircraft, as well as their wakes via a predictive algorithm. Capable of enhancing the situational awareness with respect to the wake-vortex encounter hazard by enabling the flight crew to see the relative position of their aircraft with respect to the wake hazard, the display may allow for a decrease in the standard aircraft spacing to those now used in VFR conditions and an increase in airport and airspace capacity. At present, there is no mechanism in place in the National Airspace System that warns pilots of potential wake vortex encounters. The concept of a wake vortex display addresses the need for a real-time wake vortex avoidance scheme available directly to the pilot. The wake display has been evaluated under both simulated and actual flight conditions. Thirteen pilots with flight experience ranging from a student pilot to commercial airline and military pilots served as pilot test subjects evaluating the display under simulated conditions. The pilot test subjects completed a survey concerning their knowledge and understanding of wake vortices prior to the simulation data trials and, after the trials, they completed a pilot evaluation and postflight survey rating their experience and providing feedback for the display design. One test pilot and four guest pilots flew the display during the in-flight evaluations incorporating three wake encounter scenarios. They

  3. Evidence of Shared Genome-Wide Additive Genetic Effects on Interpersonal Trauma Exposure and Generalized Vulnerability to Drug Dependence in a Population of Substance Users.

    PubMed

    Palmer, Rohan H C; Nugent, Nicole R; Brick, Leslie A; Bidwell, Cinnamon L; McGeary, John E; Keller, Matthew C; Knopik, Valerie S

    2016-06-01

    Exposure to traumatic experiences is associated with an increased risk for drug dependence and poorer response to substance abuse treatment (Claus & Kindleberger, 2002; Jaycox, Ebener, Damesek, & Becker, 2004). Despite this evidence, the reasons for the observed associations of trauma and the general tendency to be dependent upon drugs of abuse remain unclear. Data (N = 2,596) from the Study of Addiction: Genetics and Environment were used to analyze (a) the degree to which commonly occurring single nucleotide polymorphisms (SNPs; minor allele frequency > 1%) in the human genome explains exposure to interpersonal traumatic experiences, and (b) the extent to which additive genetic effects on trauma are shared with additive genetic effects on drug dependence. Our results suggested moderate additive genetic influences on interpersonal trauma, h(2) SNP-Interpersonal = .47, 95% confidence interval (CI) [.10, .85], that are partially shared with additive genetic effects on generalized vulnerability to drug dependence, h(2) SNP-DD = .36, 95% CI [.11, .61]; rG-SNP = .49, 95% CI [.02, .96]. Although the design/technique does not exclude the possibility that substance abuse causally increases risk for traumatic experiences (or vice versa), these findings raise the possibility that commonly occurring SNPs influence both the general tendency towards drug dependence and interpersonal trauma. PMID:27214850

  4. Genetic predisposition to coronary heart disease and stroke using an additive genetic risk score: a population-based study in Greece

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Objective: To determine the extent to which the risk for incident coronary heart disease (CHD) increases in relation to a genetic risk score (GRS) that additively integrates the influence of high-risk alleles in nine documented single nucleotide polymorphisms (SNPs) for CHD, and to examine whether t...

  5. Knowing Our Neighbors: Fundamental Properties of Nearby Stars

    NASA Astrophysics Data System (ADS)

    Bartlett, Jennifer Lynn

    2007-07-01

    The stars within 25 pc constitute the sample that we aspire to know thoroughly. A well-understood, volume-limited sample of nearby stars is an essential input for the stellar luminosity function, the mass-luminosity relationship, the stellar velocity distribution, and the stellar multiplicity fraction, including substellar companions. Such samples help define stellar populations and estimate the amount mass contributed by local stars. In addition, the stars in this volume provide insight into stellar evolution and the history of star formation in the disk. These physical relationships and subsamples describe the makeup of our Galaxy and, by extension, more distant galaxies. However, models are being developed from an incomplete catalog with limited parameters. Although trigonometric parallaxes establish both sample membership and the cosmic distance scale, many objects within reach of ground-based telescopes remain unmeasured. To advance the solar neighborhood census, observations of 56 nearby stars are presented, including astrometric companion search results, along with a possible a new infrared parallax program.

  6. Neighboring Optimal Aircraft Guidance in a General Wind Environment

    NASA Technical Reports Server (NTRS)

    Jardin, Matthew R. (Inventor)

    2003-01-01

    Method and system for determining an optimal route for an aircraft moving between first and second waypoints in a general wind environment. A selected first wind environment is analyzed for which a nominal solution can be determined. A second wind environment is then incorporated; and a neighboring optimal control (NOC) analysis is performed to estimate an optimal route for the second wind environment. In particular examples with flight distances of 2500 and 6000 nautical miles in the presence of constant or piecewise linearly varying winds, the difference in flight time between a nominal solution and an optimal solution is 3.4 to 5 percent. Constant or variable winds and aircraft speeds can be used. Updated second wind environment information can be provided and used to obtain an updated optimal route.

  7. Introduction to machine learning: k-nearest neighbors

    PubMed Central

    2016-01-01

    Machine learning techniques have been widely used in many scientific fields, but its use in medical literature is limited partly because of technical difficulties. k-nearest neighbors (kNN) is a simple method of machine learning. The article introduces some basic ideas underlying the kNN algorithm, and then focuses on how to perform kNN modeling with R. The dataset should be prepared before running the knn() function in R. After prediction of outcome with kNN algorithm, the diagnostic performance of the model should be checked. Average accuracy is the mostly widely used statistic to reflect the kNN algorithm. Factors such as k value, distance calculation and choice of appropriate predictors all have significant impact on the model performance. PMID:27386492

  8. Young fire ant workers feign death and survive aggressive neighbors

    NASA Astrophysics Data System (ADS)

    Cassill, Deby L.; Vo, Kim; Becker, Brandie

    2008-07-01

    Feigning death is a method of self-defense employed among a wide range of prey species when threatened by predator species. This paper reports on death-feigning behavior by the fire ant, Solenopsis invicta, during intraspecific aggression among neighboring fire ant workers. Days-old workers responded to aggression by death feigning, weeks-old workers responded by fleeing and months-old workers responded by fighting back. By feigning death, days-old workers were four times more likely to survive aggression than older workers. From a proximate perspective, retaliation by young workers against aggressive older workers is certain to fail. With their relatively soft exoskeleton, young workers would be prone to injury and death and unable to execute an effective attack of biting or stinging older workers with harder exoskeletons. From an ultimate perspective, death feigning allows young workers to survive and contribute to brood care and colony growth, both of which are essential to queen survival and fitness.

  9. Introduction to machine learning: k-nearest neighbors.

    PubMed

    Zhang, Zhongheng

    2016-06-01

    Machine learning techniques have been widely used in many scientific fields, but its use in medical literature is limited partly because of technical difficulties. k-nearest neighbors (kNN) is a simple method of machine learning. The article introduces some basic ideas underlying the kNN algorithm, and then focuses on how to perform kNN modeling with R. The dataset should be prepared before running the knn() function in R. After prediction of outcome with kNN algorithm, the diagnostic performance of the model should be checked. Average accuracy is the mostly widely used statistic to reflect the kNN algorithm. Factors such as k value, distance calculation and choice of appropriate predictors all have significant impact on the model performance. PMID:27386492

  10. Reduction of Conflicts in Mining Development Using "Good Neighbor Agreements"

    NASA Astrophysics Data System (ADS)

    Masaitis, A.

    2013-05-01

    New environmental and social challenges for the mining industry in both developed and developing countries show the obvious need to implement "responsible" mining practices that include improved community involvement. Good Neighbor Agreements (GNA's) are a relatively new mechanism for improving communication and trust between a mining company and the community. The focus of a GNA will be to provide a written and enforceable agreement, negotiated between the concerned public and the respective mining company to respond to concerns from the public, and also provide a mechanism for conflict resolution, when there is mutual benefit to maintain a working relationship. Development of GNA's, a recently evolving process that promotes environmentally sound relationships between mines and the surrounding communities. Modify and apply the resulting GNA formulas to the developing countries and countries with transitional economies. This is particularly important for countries that have poorly functioning regulatory systems that cannot guarantee a healthy and safe environment for the communities. The fundamental questions addressed by this research. 1. This is a three-year research project started in August 2012 at the University of Nevada, Reno (UNR) to develop a Good Neighbor Agreements standards as well as to investigate the details of mine development. 2. Identify spheres of possible cooperation between mining companies, government organizations, and the Non-Governmental Organizations (NGO's). Use this cooperation to develop international standards for the GNA, to promote exchange of environmental information, and exchange of successful environmental, health, and safety practices between mining operations from different countries. Discussion: The Good Neighbor Agreement currently evolving will address the following: 1. Provide an economically viable mechanism for developing a partnership between mining operations and the local communities that will increase mining industry

  11. Simple optical neighbor discovery (SOND): architecture, applications, and experimental verification

    NASA Astrophysics Data System (ADS)

    Larsson, Stefan N.; Hubendick, Sten; Nedelchef, Robert

    2003-10-01

    The architecture, applications, and experimental verification of a simple neighbor discovery method are presented. The method follows the recent International Telecommunication Union - Telecommunication Standardization Sector (ITU-T) and Internet Engineering Task Force (IETF) standardization, automatically switched optical network (ASON)/generalized multiprotocol label switching (GMPLS), on automatically switched optical networks. The method needs no specific hardware components but claims to be so simple that virtually any equipment with common optical ports can support it. It eliminates the need for costly and complex synchronous optical network/synchronous digital hierarchy/optical transport network (SONET/SDH/OTN) overhead read-write functionality in optical elements such as optical cross connects (OXCs). The method thus offers a fast track to automated optical networks.

  12. Neighboring optimal guidance for aeroassisted noncoplanar orbital transfer

    NASA Technical Reports Server (NTRS)

    Naidu, D. S.

    1991-01-01

    The fuel-optimal control problem in aeroassisted noncoplanar orbital transfer is addressed. The equations of motion for the atmospheric maneuver are nonlinear and the optimal (nominal) trajectory and control are obtained. In order to follow the nominal trajectory under actual conditions, a neighboring optimum guidance scheme is designed using linear quadratic regulator theory for onboard real-time implementation. One of the state variables is used as the independent variable in preference to the time. The weighting matrices in the performance index are chosen by a combination of a heuristic method and an optimal modal approach. The necessary feedback control law is obtained in order to minimize the deviations from the nominal conditions. The results are presented to a typical aeroassisted noncoplanar orbital transfer problem.

  13. Fuzzy understanding of neighborhoods with nearest unlike neighbor sets

    NASA Astrophysics Data System (ADS)

    Dasarathy, Belur V.

    1995-06-01

    A new fuzzy learning and classification scheme based on developing a fuzzy understanding of neighborhoods with nearest unlike neighbor sets (NUNS) is reported in this study. NUNS, by definition, the set of samples identified as the nearest from the other class(es) for each given sample, represent in essence the boundaries between pattern classes known in the problem environment. Accordingly, samples close to the NUNS are likely to have more ambiguity or uncertainty in their labels than those farther away from these NUNS. This information about the uncertainty or imprecision in the labels of the given training set can be extracted and represented in terms of fuzzy memberships. These fuzzy membership values, which may be determined in the learning phase using appropriate fuzzy membership models, can then be utilized in the classification phase to derive the identity of an unknown sample. This classification can be accomplished using any one of the established fuzzy classification techniques.

  14. Influence of neighboring levels in three-pulse photon-echo processes

    SciTech Connect

    Villaeys, A. A.; Dappe, Y. J.; Liang, K. K.; Lin, S. H.

    2009-05-15

    It is the purpose of the present paper to study the dynamics underlying a three-pulse photon-echo process performed on a vibronic system coupled to non-Markovian baths, when a neighboring level enters into the global dynamical evolution because of broadband excitation required in these experiments. Particular emphasis is on the energy gap between the vibronic levels, but also on the fluctuation amplitudes and correlation times of their corresponding thermal baths. The photon-echo signal appears to be very sensitive to the additional interfering contributions introduced by the neighboring vibronic level. It is shown that these contributions associated to the pathways involving different vibronic states are modulated by their corresponding energy gap. As a consequence, these contributions to the integrated photon-echo signal strongly decrease for large energy gaps. Also, an oscillating behavior is observed on the time dependence of the photon-echo signal resulting from the summation of the contributions provided by the individual vibronic levels. Moreover, the influence of the non-Markovian character of the baths, accountable for inhomogeneous broadening, affects the amplitude and the time dependence of the photon-echo signal, as well as its dependence with the delay time of the laser pulses. Of course, for longer times a Markovian dynamical evolution is recovered.

  15. Adaptive redundant multiwavelet denoising with improved neighboring coefficients for gearbox fault detection

    NASA Astrophysics Data System (ADS)

    Chen, Jinglong; Zi, Yanyang; He, Zhengjia; Wang, Xiaodong

    2013-07-01

    Gearbox fault detection under strong background noise is a challenging task. It is feasible to make the fault feature distinct through multiwavelet denoising. In addition to the advantage of multi-resolution analysis, multiwavelet with several scaling functions and wavelet functions can detect the different fault features effectively. However, the fixed basis functions not related to the given signal may lower the accuracy of fault detection. Moreover, the multiwavelet transform may result in Gibbs phenomena in the step of reconstruction. Furthermore, both traditional term-by-term threshold and neighboring coefficients do not consider the direct spatial dependency of wavelet coefficients at adjacent scale. To overcome these deficiencies, adaptive redundant multiwavelet (ARM) denoising with improved neighboring coefficients (NeighCoeff) is proposed. Based on symmetric multiwavelet lifting scheme (SMLS), taking kurtosis—partial envelope spectrum entropy as the evaluation objective and genetic algorithms as the optimization method, ARM is proposed. Considering the intra-scale and inter-scale dependency of wavelet coefficients, the improved NeighCoeff method is developed and incorporated into ARM. The proposed method is applied to both the simulated signal and the practical gearbox vibration signal under different conditions. The results show its effectiveness and reliance for gearbox fault detection.

  16. Spectral neighbor analysis method for automated generation of quantum-accurate interatomic potentials

    SciTech Connect

    Thompson, A.P.; Swiler, L.P.; Trott, C.R.; Foiles, S.M.; Tucker, G.J.

    2015-03-15

    We present a new interatomic potential for solids and liquids called Spectral Neighbor Analysis Potential (SNAP). The SNAP potential has a very general form and uses machine-learning techniques to reproduce the energies, forces, and stress tensors of a large set of small configurations of atoms, which are obtained using high-accuracy quantum electronic structure (QM) calculations. The local environment of each atom is characterized by a set of bispectrum components of the local neighbor density projected onto a basis of hyperspherical harmonics in four dimensions. The bispectrum components are the same bond-orientational order parameters employed by the GAP potential [1]. The SNAP potential, unlike GAP, assumes a linear relationship between atom energy and bispectrum components. The linear SNAP coefficients are determined using weighted least-squares linear regression against the full QM training set. This allows the SNAP potential to be fit in a robust, automated manner to large QM data sets using many bispectrum components. The calculation of the bispectrum components and the SNAP potential are implemented in the LAMMPS parallel molecular dynamics code. We demonstrate that a previously unnoticed symmetry property can be exploited to reduce the computational cost of the force calculations by more than one order of magnitude. We present results for a SNAP potential for tantalum, showing that it accurately reproduces a range of commonly calculated properties of both the crystalline solid and the liquid phases. In addition, unlike simpler existing potentials, SNAP correctly predicts the energy barrier for screw dislocation migration in BCC tantalum.

  17. Effects of nationwide addition of selenium to fertilizers on foods, and animal and human health in Finland: From deficiency to optimal selenium status of the population.

    PubMed

    Alfthan, Georg; Eurola, Merja; Ekholm, Päivi; Venäläinen, Eija-Riitta; Root, Tarja; Korkalainen, Katja; Hartikainen, Helinä; Salminen, Pirjo; Hietaniemi, Veli; Aspila, Pentti; Aro, Antti

    2015-01-01

    Despite different geological features the Nordic countries are generally selenium-poor areas. In each country various factors such as food importation and life-style determine the selenium (Se) intake. Due to an extremely low Se intake in the 1970s in Finland, 0.025 mg/day, an official decision was made in 1984 to supplement multinutrient fertilizers with Se in the chemical form of sodium selenate. Almost all fertilizers used in Finland since 1985 have contained Se. Currently all crop fertilizers contain 15 mg Se/kg. Finland is still the only country to take this country-wide measure. In a national monitoring programme, sampling of cereals, basic foodstuffs, feeds, fertilizers, soils, and human tissues has been carried out annually since 1985 by four governmental research organizations. Sampling of foods has been done four times per year and human blood has been obtained annually from the same (n=60) adults. The accuracy of analyses has been verified by annual interlaboratory quality control. During this programme the selenium concentration of spring cereals has increased on average 15-fold compared with the level before the Se fertilization. The mean increase in the Se concentration in beef, pork and milk was 6-, 2- and 3-fold. In terms of Se, organically grown foods of plant origin are generally comparable to products produced before the Se supplementation of fertilizers. Milk from organically fed cows is 50% lower in Se than the usual milk. The average dietary human intake increased from 0.04 mg Se/day/10 MJ in 1985 to a present plateau of 0.08 mg Se/day/10 MJ, which is well above the current nutrition recommendations. Foods of animal origin contribute over 70% of the total daily Se intake. The mean human plasma Se concentration increased from 0.89 μmol/L to a general level of 1.40 μmol/L that can be considered to be an optimal status. The absence of Se deficiency diseases and a reference population have made conclusions on the impact on human health difficult

  18. Food additives

    MedlinePlus

    Food additives are substances that become part of a food product when they are added during the processing or making of that food. "Direct" food additives are often added during processing to: Add nutrients ...

  19. Food additives

    PubMed Central

    Spencer, Michael

    1974-01-01

    Food additives are discussed from the food technology point of view. The reasons for their use are summarized: (1) to protect food from chemical and microbiological attack; (2) to even out seasonal supplies; (3) to improve their eating quality; (4) to improve their nutritional value. The various types of food additives are considered, e.g. colours, flavours, emulsifiers, bread and flour additives, preservatives, and nutritional additives. The paper concludes with consideration of those circumstances in which the use of additives is (a) justified and (b) unjustified. PMID:4467857

  20. Additional perspectives on chronic kidney disease of unknown aetiology (CKDu) in Sri Lanka – lessons learned from the WHO CKDu population prevalence study

    PubMed Central

    2014-01-01

    The recent emergence of an apparently new form of chronic kidney disease of unknown aetiology (CKDu) has become a serious public health crisis in Sri Lanka. CKDu is slowly progressive, irreversible, and asymptomatic until late stages, and is not attributable to hypertension, diabetes, or other known aetiologies. In response to the scope and severity of the emerging CKDu health crisis, the Sri Lanka Ministry of Health and the World Health Organization initiated a collaborative research project from 2009 through 2012 to investigate CKDu prevalence and aetiology. The objective of this paper is to discuss the recently published findings of this investigation and present additional considerations and recommendations that may enhance subsequent investigations designed to identify and understand CKDu risk factors in Sri Lanka or other countries. PMID:25069485

  1. Epistatic Gene-Based Interaction Analyses for Glaucoma in eMERGE and NEIGHBOR Consortium.

    PubMed

    Verma, Shefali Setia; Cooke Bailey, Jessica N; Lucas, Anastasia; Bradford, Yuki; Linneman, James G; Hauser, Michael A; Pasquale, Louis R; Peissig, Peggy L; Brilliant, Murray H; McCarty, Catherine A; Haines, Jonathan L; Wiggs, Janey L; Vrabec, Tamara R; Tromp, Gerard; Ritchie, Marylyn D

    2016-09-01

    Primary open angle glaucoma (POAG) is a complex disease and is one of the major leading causes of blindness worldwide. Genome-wide association studies have successfully identified several common variants associated with glaucoma; however, most of these variants only explain a small proportion of the genetic risk. Apart from the standard approach to identify main effects of variants across the genome, it is believed that gene-gene interactions can help elucidate part of the missing heritability by allowing for the test of interactions between genetic variants to mimic the complex nature of biology. To explain the etiology of glaucoma, we first performed a genome-wide association study (GWAS) on glaucoma case-control samples obtained from electronic medical records (EMR) to establish the utility of EMR data in detecting non-spurious and relevant associations; this analysis was aimed at confirming already known associations with glaucoma and validating the EMR derived glaucoma phenotype. Our findings from GWAS suggest consistent evidence of several known associations in POAG. We then performed an interaction analysis for variants found to be marginally associated with glaucoma (SNPs with main effect p-value <0.01) and observed interesting findings in the electronic MEdical Records and GEnomics Network (eMERGE) network dataset. Genes from the top epistatic interactions from eMERGE data (Likelihood Ratio Test i.e. LRT p-value <1e-05) were then tested for replication in the NEIGHBOR consortium dataset. To replicate our findings, we performed a gene-based SNP-SNP interaction analysis in NEIGHBOR and observed significant gene-gene interactions (p-value <0.001) among the top 17 gene-gene models identified in the discovery phase. Variants from gene-gene interaction analysis that we found to be associated with POAG explain 3.5% of additional genetic variance in eMERGE dataset above what is explained by the SNPs in genes that are replicated from previous GWAS studies (which

  2. Nearest-Neighbor Repulsion and Competing Charge and Spin Order in the Extended Hubbard Model.

    NASA Astrophysics Data System (ADS)

    Bahman, Davoudi; Tremblay, A.-M. S.

    2006-03-01

    We generalize the Two-Particle Self-Consistent (TPSC) approach to study the extended Hubbard model where the nearest-neighbor interaction V is present in addition to the local interaction U. Our results are in good agreement with available Quantum Monte-Carlo results over the whole range of density n up to intermediate coupling. As a function of U, V and n we observe different kinds of charge and spin orders, like commensurate/incommensurate charge and spin density wave, phase separation, and ferromagnetic order. For attractive V superconductivity could exist in the regions where the other types of charge and spin orders do not dominate. Ref.: B. Davoudi and A.-M.S. Tremblay, cond-mat/0509707

  3. The Association of Peroxisome Proliferator-Activated Receptor δ and Additional Gene-Gene Interaction with C-Reactive Protein in Chinese Population

    PubMed Central

    Ding, Xiao-Ying; Yuan, Hao-Zheng; Gu, Ru; Gao, Yan-Feng; Liu, Xiao-Gang; Gao, Ya

    2016-01-01

    Aims. To examine the association between 4 single nucleotide polymorphisms (SNPs) of peroxisome proliferator-activated receptors δ (PPARδ) polymorphisms and C-reactive protein (CRP) level and additional gene-gene interaction. Methods. Line regression analysis was performed to verify polymorphism association between SNP and CRP levels. Generalized multifactor dimensionality reduction (GMDR) was employed to analyze the interaction. Results. A total of 1028 subjects (538 men, 490 women) were selected. The carriers of the C allele (TC or CC) of rs2016520 were associated with a significant decreased level of CRP, regression coefficients was −0.338, and standard error was 0.104 (p = 0.001). The carriers of the G allele (CG or GG) of rs9794 were also significantly associated with decreased level of CRP, regression coefficients was −0.219, and standard error was 0.114 (p = 0.012). We also found a potential gene-gene interaction between rs2016520 and rs9794. Subjects with rs2016520-TC or CC, rs9794-CG or GG genotypes have lowest CRP level, difference (95% CI) = −0.50 (−0.69 to −0.21) (p < 0.001), compared to subjects with rs2016520-TT and rs9794-CC genotypes. Conclusions. rs2016520 and rs9794 minor allele of PPARδ and combined effect between the two SNP were associated with decreased CRP level. PMID:26884762

  4. CD90-positive cells, an additional cell population, produce laminin {alpha}2 upon transplantation to dy{sup 3k}/dy{sup 3k} mice

    SciTech Connect

    Fukada, So-ichiro Yamamoto, Yukiko; Segawa, Masashi; Sakamoto, Kenta; Nakajima, Mari; Sato, Masaki; Morikawa, Daisuke; Uezumi, Akiyoshi; Miyagoe-Suzuki, Yuko; Takeda, Shin'ichi; Tsujikawa, Kazutake; Yamamoto, Hiroshi

    2008-01-01

    Laminin {alpha}2 is a component of skeletal and cardiac muscle basal lamina. A defect of the laminin {alpha}2 chain leads to severe congenital muscular dystrophy (MDC1A) in humans and dy/dy mice. Myogenic cells including myoblasts, myotubes, and myofibers in skeletal muscle are a possible source of the laminin {alpha}2 chain, and myogenic cells are thus proposed as a cell source for congenital muscular dystrophy therapy. However, we observed production of laminin {alpha}2 in non-myogenic cells of normal mice, and we could enrich these laminin {alpha}2-producing cells in CD90{sup +} cell fractions. Intriguingly, the number of CD90{sup +} cells increased dramatically during skeletal muscle regeneration in mice. This fraction did not include myogenic cells but exhibited a fibroblast-like phenotype. Moreover, these cells were resident in skeletal muscle, not derived from bone marrow. Finally, the production of laminin {alpha}2 in CD90{sup +} cells was not dependent on fusion with myogenic cells. Thus, CD90{sup +} cells are a newly identified additional cell fraction that increased during skeletal muscle regeneration in vivo and could be another cell source for therapy for lama2-deficient muscular dystrophy.

  5. Tularemia, a re-emerging infectious disease in Iran and neighboring countrie

    PubMed Central

    Zargar, Afsaneh; Maurin, Max; Mostafavi, Ehsan

    2015-01-01

    OBJECTIVES: Tularemia is a zoonotic disease transmitted by direct contact with infected animals and through arthropod bites, inhalation of contaminated aerosols, ingestion of contaminated meat or water, and skin contact with any infected material. It is widespread throughout the northern hemisphere, including Iran and its neighbors to the north, northeast, and northwest. METHODS: In this paper, the epidemiology of tularemia as a re-emerging infectious disease in the world with a focus on Iran and the neighboring countries is reviewed. RESULTS: In Iran, positive serological tests were first reported in 1973, in wildlife and domestic livestock in the northwestern and southeastern parts of the country. The first human case was reported in 1980 in the southwest of Iran, and recent studies conducted among at-risk populations in the western, southeastern, and southwestern parts of Iran revealed seroprevalences of 14.4, 6.52, and 6%, respectively. CONCLUSIONS: Several factors may explain the absence of reported tularemia cases in Iran since 1980. Tularemia may be underdiagnosed in Iran because Francisella tularensis subspecies holarctica is likely to be the major etiological agent and usually causes mild to moderately severe disease. Furthermore, tularemia is not a disease extensively studied in the medical educational system in Iran, and empirical therapy may be effective in many cases. Finally, it should be noted that laboratories capable of diagnosing tularemia have only been established in the last few years. Since both recent and older studies have consistently found tularemia antibodies in humans and animals, the surveillance of this disease should receive more attention. In particular, it would be worthwhile for clinical researchers to confirm tularemia cases more often by isolating F. tularensis from infected humans and animals. PMID:25773439

  6. Gentle Nearest Neighbors Boosting over Proper Scoring Rules.

    PubMed

    Nock, Richard; Ali, Wafa Bel Haj; D'Ambrosio, Roberto; Nielsen, Frank; Barlaud, Michel

    2015-01-01

    Tailoring nearest neighbors algorithms to boosting is an important problem. Recent papers study an approach, UNN, which provably minimizes particular convex surrogates under weak assumptions. However, numerical issues make it necessary to experimentally tweak parts of the UNN algorithm, at the possible expense of the algorithm's convergence and performance. In this paper, we propose a lightweight Newton-Raphson alternative optimizing proper scoring rules from a very broad set, and establish formal convergence rates under the boosting framework that compete with those known for UNN. To the best of our knowledge, no such boosting-compliant convergence rates were previously known in the popular Gentle Adaboost's lineage. We provide experiments on a dozen domains, including Caltech and SUN computer vision databases, comparing our approach to major families including support vector machines, (Ada)boosting and stochastic gradient descent. They support three major conclusions: (i) GNNB significantly outperforms UNN, in terms of convergence rate and quality of the outputs, (ii) GNNB performs on par with or better than computationally intensive large margin approaches, (iii) on large domains that rule out those latter approaches for computational reasons, GNNB provides a simple and competitive contender to stochastic gradient descent. Experiments include a divide-and-conquer improvement of GNNB exploiting the link with proper scoring rules optimization. PMID:26353210

  7. Using nearest-neighbor designs and analyses in ecological experiments

    SciTech Connect

    Dixon, P.M. )

    1994-06-01

    Most ecological experiments handle spatial variation either by ignoring it (e.g. completely randomized designs) or by identifying putatively homogeneous areas (e.g. a blocked design). Analysis of data from two experiments, estimating density effects on frog growth and variety differences in yield of triticale, show that there can be large correlations (r = 0.51 and r = 0.72) between residuals on adjacent plots. Nearest-neighbor ANOVA methods use the spatial correlation among residuals to improve the estimation of treatment effects. Incorporating the spatial correlation reduces the variance of treatment effects by 50-75%, depending on the size of the correlation and the arrangement of plots in the field. This decreased variance is equivalent to that from experiments that are 2[times] or 4[times] larger. Potential problems include estimating the spatial correlation, adjusting the error degrees of freedom, and confounding the treatment and spatial effects if there are few replicates. The consequences of these problems will be illustrated.

  8. Maximal Neighbor Similarity Reveals Real Communities in Networks

    NASA Astrophysics Data System (ADS)

    Žalik, Krista Rizman

    2015-12-01

    An important problem in the analysis of network data is the detection of groups of densely interconnected nodes also called modules or communities. Community structure reveals functions and organizations of networks. Currently used algorithms for community detection in large-scale real-world networks are computationally expensive or require a priori information such as the number or sizes of communities or are not able to give the same resulting partition in multiple runs. In this paper we investigate a simple and fast algorithm that uses the network structure alone and requires neither optimization of pre-defined objective function nor information about number of communities. We propose a bottom up community detection algorithm in which starting from communities consisting of adjacent pairs of nodes and their maximal similar neighbors we find real communities. We show that the overall advantage of the proposed algorithm compared to the other community detection algorithms is its simple nature, low computational cost and its very high accuracy in detection communities of different sizes also in networks with blurred modularity structure consisting of poorly separated communities. All communities identified by the proposed method for facebook network and E-Coli transcriptional regulatory network have strong structural and functional coherence.

  9. Why do chimpanzee males attack the females of neighboring communities?

    PubMed

    Pradhan, Gauri R; Pandit, Sagar A; Van schaik, Carel P

    2014-11-01

    Our closest nonhuman primate relatives, chimpanzees, engage in potentially lethal between-group conflict; this collective aggressive behavior shows parallels with human warfare. In some communities, chimpanzee males also severely attack and even kill females of the neighboring groups. This is surprising given their system of resource defense polygyny, where males are expected to acquire potential mates. We develop a simple mathematical model based on reproductive skew among primate males to solve this puzzle. The model predicts that it is advantageous for high-ranking males but not for low-ranking males to attack females. It also predicts that more males gain a benefit from attacking females as the community's reproductive skew decreases, i.e., as mating success is more evenly distributed. Thus, fatal attacks on females should be concentrated in communities with low reproductive skew. These attacks should also concur with between-community infanticide. A review of the chimpanzee literature provides enough preliminary support for this prediction to warrant more detailed testing. PMID:25100507

  10. Maximal Neighbor Similarity Reveals Real Communities in Networks

    PubMed Central

    Žalik, Krista Rizman

    2015-01-01

    An important problem in the analysis of network data is the detection of groups of densely interconnected nodes also called modules or communities. Community structure reveals functions and organizations of networks. Currently used algorithms for community detection in large-scale real-world networks are computationally expensive or require a priori information such as the number or sizes of communities or are not able to give the same resulting partition in multiple runs. In this paper we investigate a simple and fast algorithm that uses the network structure alone and requires neither optimization of pre-defined objective function nor information about number of communities. We propose a bottom up community detection algorithm in which starting from communities consisting of adjacent pairs of nodes and their maximal similar neighbors we find real communities. We show that the overall advantage of the proposed algorithm compared to the other community detection algorithms is its simple nature, low computational cost and its very high accuracy in detection communities of different sizes also in networks with blurred modularity structure consisting of poorly separated communities. All communities identified by the proposed method for facebook network and E-Coli transcriptional regulatory network have strong structural and functional coherence. PMID:26680448

  11. Neighboring Gene Regulation by Antisense Long Non-Coding RNAs

    PubMed Central

    Villegas, Victoria E.; Zaphiropoulos, Peter G.

    2015-01-01

    Antisense transcription, considered until recently as transcriptional noise, is a very common phenomenon in human and eukaryotic transcriptomes, operating in two ways based on whether the antisense RNA acts in cis or in trans. This process can generate long non-coding RNAs (lncRNAs), one of the most diverse classes of cellular transcripts, which have demonstrated multifunctional roles in fundamental biological processes, including embryonic pluripotency, differentiation and development. Antisense lncRNAs have been shown to control nearly every level of gene regulation—pretranscriptional, transcriptional and posttranscriptional—through DNA–RNA, RNA–RNA or protein–RNA interactions. This review is centered on functional studies of antisense lncRNA-mediated regulation of neighboring gene expression. Specifically, it addresses how these transcripts interact with other biological molecules, nucleic acids and proteins, to regulate gene expression through chromatin remodeling at the pretranscriptional level and modulation of transcriptional and post-transcriptional processes by altering the sense mRNA structure or the cellular compartmental distribution, either in the nucleus or the cytoplasm. PMID:25654223

  12. Hyperspectral image visualization using t-distributed stochastic neighbor embedding

    NASA Astrophysics Data System (ADS)

    Zhang, Biyin; Yu, Xin

    2015-12-01

    Hyperspectral image visualization reduces high-dimensional spectral bands to three color channels, which are sought in order to explain well the nonlinear data characteristics that are hidden in the high-dimensional spectral bands. Despite the surge in the linear visualization techniques, the development of nonlinear visualization has been limited. The paper presents a new technique for visualization of hyperspectral image using t-distributed stochastic neighbor embedding, called VHI-tSNE, which learns a nonlinear mapping between the high-dimensional spectral space and the three-dimensional color space. VHI-tSNE transforms hyperspectral data into bilateral probability similarities, and employs a heavy-tailed distribution in three-dimensional color space to alleviate the crowding problem and optimization problem in SNE technique. We evaluate the performance of VHI-tSNE in experiments on several hyperspectral imageries, in which we compare it to the performance of other state-of-art techniques. The results of experiments demonstrated the strength of the proposed technique.

  13. Nearest neighbor interaction in the Path Integral Renormalization Group method

    NASA Astrophysics Data System (ADS)

    de Silva, Wasanthi; Clay, R. Torsten

    2014-03-01

    The Path Integral Renormalization Group (PIRG) method is an efficient numerical algorithm for studying ground state properties of strongly correlated electron systems. The many-body ground state wave function is approximated by an optimized linear combination of Slater determinants which satisfies the variational principle. A major advantage of PIRG is that is does not suffer the Fermion sign problem of quantum Monte Carlo. Results are exact in the noninteracting limit and can be enhanced using space and spin symmetries. Many observables can be calculated using Wick's theorem. PIRG has been used predominantly for the Hubbard model with a single on-site Coulomb interaction U. We describe an extension of PIRG to the extended Hubbard model (EHM) including U and a nearest-neighbor interaction V. The EHM is particularly important in models of charge-transfer solids (organic superconductors) and at 1/4-filling drives a charge-ordered state. The presence of lattice frustration also makes studying these systems difficult. We test the method with comparisons to small clusters and long one dimensional chains, and show preliminary results for a coupled-chain model for the (TMTTF)2X materials. This work was supported by DOE grant DE-FG02-06ER46315.

  14. Contextual object localization with multiple kernel nearest neighbor.

    PubMed

    McFee, Brian; Galleguillos, Carolina; Lanckriet, Gert

    2011-02-01

    Recently, many object localization models have shown that incorporating contextual cues can greatly improve accuracy over using appearance features alone. Therefore, many of these models have explored different types of contextual sources, but only considering one level of contextual interaction at the time. Thus, what context could truly contribute to object localization, through integrating cues from all levels, simultaneously, remains an open question. Moreover, the relative importance of the different contextual levels and appearance features across different object classes remains to be explored. Here we introduce a novel framework for multiple class object localization that incorporates different levels of contextual interactions. We study contextual interactions at the pixel, region and object level based upon three different sources of context: semantic, boundary support, and contextual neighborhoods. Our framework learns a single similarity metric from multiple kernels, combining pixel and region interactions with appearance features, and then applies a conditional random field to incorporate object level interactions. To effectively integrate different types of feature descriptions, we extend the large margin nearest neighbor to a novel algorithm that supports multiple kernels. We perform experiments on three challenging image databases: Graz-02, MSRC and PASCAL VOC 2007. Experimental results show that our model outperforms current state-of-the-art contextual frameworks and reveals individual contributions for each contextual interaction level as well as appearance features, indicating their relative importance for object localization. PMID:20736139

  15. A neighboring optimal feedback control scheme for systems using discontinuous control.

    NASA Technical Reports Server (NTRS)

    Foerster, R. E.; Flugge-Lotz, I.

    1971-01-01

    The calculation and implementation of the neighboring optimal feedback control law for multiinput, nonlinear dynamical systems, using discontinuous control, is discussed. An initialization procedure is described which removes the requirement that the neighboring initial state be in the neighborhood of the nominal initial state. This procedure is a bootstrap technique for determining the most appropriate control-law gain for the neighboring initial state. The mechanization of the neighboring control law described is closed loop in that the concept of time-to-go is utilized in the determination of the control-law gains appropriate for each neighboring state. The gains are chosen such that the time-to-go until the next predicted switch time or predicted final time is the same for both the neighboring and nominal trajectories. The procedure described is utilized to solve the minimum-time satellite attitude-acquisition problem.

  16. Zooplankton Successions in Neighboring Lakes with Contrasting Impacts of Amphibian and Fish Predators

    NASA Astrophysics Data System (ADS)

    Schabetsberger, Robert; Grill, Susanne; Hauser, Gabriele; Wukits, Petra

    2006-06-01

    Two pairs of neighboring subalpine lakes located in the Northern Calcareous Alps of Austria were investigated. Each pair comprised a deeper lake containing European minnows (Phoxinus phoxinus ), and a corresponding shallower lake harboring Alpine newts (Triturus alpestris ) as top predators. Plankton successions within fish and amphibian lakes differed markedly from each other. Throughout the year rotifers numerically dominated within the minnow lakes, while pigmented copepods (Genera Heterocope, Acanthodiaptomus , Arctodiaptomus , Mixodiaptomus ) and Daphnia were prominent in the amphibian lakes, at least early during the ice-free period. We argue that size-selective predation by minnows was the ultimate reason for this predominance of smaller zooplankton. While one of the minnow lakes was characterized by a succession of spatially and temporally segregated rotifer species, the other minnow lake permitted the development of populations of small-sized Bosmina and Ceriodaphnia during summer, probably due to the existence of a strong oxycline allowing zooplankton crustaceans to avoid predation from shore-based shoals of minnows. Once trout were introduced into this lake, minnows were visibly reduced in abundance. Bosmina and Ceriodaphnia disappeared and Daphnia together with a predacious copepod (Heterocope ) emerged either from egg banks or arrived from nearby source populations. We argue that the crustacean communities within the fishless lakes were adapted to the comparatively weak predation rates of Alpine newts.

  17. K-nearest neighbors based methods for identification of different gear crack levels under different motor speeds and loads: Revisited

    NASA Astrophysics Data System (ADS)

    Wang, Dong

    2016-03-01

    features, some other popular statistical models including linear discriminant analysis, quadratic discriminant analysis, classification and regression tree and naive Bayes classifier, are compared with the developed method. The results show that the developed method has the highest prediction accuracies among these statistical models. Additionally, selection of the number of new significant features and parameter selection of K-nearest neighbors are thoroughly investigated.

  18. Neighbor influences on root morphology and mycorrhizal fungus colonization in tallgrass prairie plants

    SciTech Connect

    Jastrow, J.D. Univ. of Illinois, Chicago ); Miller, R.M. )

    1993-03-01

    A field study was conducted across a chronosequence of tallgrass prairie restorations to investigate the influence a plant's neighbor may have on its gross root morphology and association with mycorrhizal fungi. The root systems of a warm-season grass, Andropogon gerardii, and two perennial forbs, Coreopsis tripteris and Solidago altissima, were sampled by excavating soil blocks representing all pairwise inter- and intra-specific combinations of these species. With forb neighbors, Andropogon had higher percentages of its firbrous roots colonized by mycorrhizal fungi than with conspecific neighbors. Andropogon root morphology (as measured by average root radius, specific root length, and root branching) did not vary with neighbor growth form; however, Andropogon roots did become finer as restoration age and root densities increased. For Coreopsis and Solidago, colonization of fibrous roots did not vary with neighbor species, but both forbs had coarser roots with interspecific neighbors than with conspecifics. With interspecific neighbors, Coreopsis almost doubled the number of branches per centimetre of root observed in conspecific pairs. Although some of the variations in colonization and root morphology may be attributable specifically to neighbor root mass, others were related to the overall root mass of the target-neighbor pair. The observed variations in mycorrhizal colonization may be related to increased opportunities for colonization by the fungus that are due not only to higher root densities but also to some sort of interaction between the root systems of Andropogon and the forbs. 44 refs., 2 figs., 2 tabs.

  19. Correlation in the Discharges of Neighboring Rat Retinal Ganglion Cells During Prenatal Life

    NASA Astrophysics Data System (ADS)

    Maffei, Lamberto; Galli-Resta, Lucia

    1990-04-01

    The spontaneous discharges of neighboring retinal ganglion cells were recorded simultaneously in anesthetized prenatal rats between embryonic days 18 and 21. We report here that in the majority of cases the firings of neighboring retinal ganglion cells are strongly correlated during prenatal life. Correlation in the discharges of neighboring cells during development has long been suggested as a way to consolidate synaptic connections with a target cell onto which they converge, a model first proposed by Hebb. Correlation in the activities of neighboring neurons in the retina could be the basis of developmental processes such as refinement of retinotopic maps in the brain and segregation of the inputs from the two eyes.

  20. Forecasting Space Weather Events for a Neighboring World

    NASA Technical Reports Server (NTRS)

    Zheng, Yihua; Mason, Tom; Wood, Erin L.

    2015-01-01

    Shortly after NASA's Mars Atmosphere and Volatile EvolutioN mission (MAVEN) spacecraft entered Mars' orbit on 21 September 2014, scientists glimpsed the Martian atmosphere's response to a front of solar energetic particles (SEPs) and an associated coronal mass ejection (CME). In response to some solar flares and CMEs, streams of SEPs burst from the solar atmosphere and are further accelerated in the interplanetary medium between the Sun and the planets. These particles deposit their energy and momentum into anything in their path, including the Martian atmosphere and MAVEN particle detectors. MAVEN scientists had been alerted to the likely CME-Mars encounter by a space weather prediction system that had its origins in space weather forecasting for Earth but now forecasts space weather for Earth's neighboring planets. The two Solar Terrestrial Relations Observatory spacecraft and Solar Heliospheric Observatory observed a CME on 26 September, with a trajectory that suggested a Mars intercept. A computer model developed for solar wind prediction, the Wang-Sheeley-Arge-Enlil cone model [e.g., Zheng et al., 2013; Parsons et al., 2011], running in real time at the Community Coordinated Modeling Center (CCMC) located at NASA Goddard since 2006, showed the CME propagating in the direction of Mars (Figure 1). According to MAVEN particle detectors, the disturbance and accompanying SEP enhancement at the leading edge of the CME reached Mars at approximately 17 hours Universal Time on 29 September 2014. Such SEPs may have a profound effect on atmospheric escape - they are believed to be a possible means for driving atmospheric loss. SEPs can cause loss of Mars' upper atmosphere through several loss mechanisms including sputtering of the atmosphere. Sputtering occurs when atoms are ejected from the atmosphere due to impacts with energetic particles.

  1. Blind tests of RNA nearest-neighbor energy prediction.

    PubMed

    Chou, Fang-Chieh; Kladwang, Wipapat; Kappel, Kalli; Das, Rhiju

    2016-07-26

    The predictive modeling and design of biologically active RNA molecules requires understanding the energetic balance among their basic components. Rapid developments in computer simulation promise increasingly accurate recovery of RNA's nearest-neighbor (NN) free-energy parameters, but these methods have not been tested in predictive trials or on nonstandard nucleotides. Here, we present, to our knowledge, the first such tests through a RECCES-Rosetta (reweighting of energy-function collection with conformational ensemble sampling in Rosetta) framework that rigorously models conformational entropy, predicts previously unmeasured NN parameters, and estimates these values' systematic uncertainties. RECCES-Rosetta recovers the 10 NN parameters for Watson-Crick stacked base pairs and 32 single-nucleotide dangling-end parameters with unprecedented accuracies: rmsd of 0.28 kcal/mol and 0.41 kcal/mol, respectively. For set-aside test sets, RECCES-Rosetta gives rmsd values of 0.32 kcal/mol on eight stacked pairs involving G-U wobble pairs and 0.99 kcal/mol on seven stacked pairs involving nonstandard isocytidine-isoguanosine pairs. To more rigorously assess RECCES-Rosetta, we carried out four blind predictions for stacked pairs involving 2,6-diaminopurine-U pairs, which achieved 0.64 kcal/mol rmsd accuracy when tested by subsequent experiments. Overall, these results establish that computational methods can now blindly predict energetics of basic RNA motifs, including chemically modified variants, with consistently better than 1 kcal/mol accuracy. Systematic tests indicate that resolving the remaining discrepancies will require energy function improvements beyond simply reweighting component terms, and we propose further blind trials to test such efforts. PMID:27402765

  2. Chemical Cross-linking of Neighboring Thylakoid Membrane Polypeptides 12

    PubMed Central

    Novak-Hofer, Ilse; Siegenthaler, Paul-Andre

    1978-01-01

    Cross-linking between protein components of whole spinach (Spinacia oleracea var. Nobel) thylakoids and of photosystem I- and II-enriched thylakoid fractions has been produced by reaction with the bifunctional imidoester dimethyl-3,3′-dithiobispropionimidate dihydrochloride as well as by the oxidation of intrinsic sulfydryl groups with an orthophenanthrolinecupric ion complex. The mixture of membrane proteins and their cross-linked products has been analyzed by two-dimensional sodium dodecyl sulfate electrophoresis, with a reductive cleavage step of the cross-linkages before the second dimension. Cross-linked aggregates up to a molecular weight of about 130 kilodaltons (kD) were analyzed, and it was inferred that the polypeptides appearing together in the same aggregates were neighbors within the membrane. In thylakoids as well as in isolated photosystem fractions, oligomers were formed by cross-linking polypeptides of the 60 to 90 kD range, among them the polypeptides of the chlorophyll-protein complex I. Polypeptides of 46, 19, and 12 kD were cross-linked to these complexes. Polypeptides of 25 and 22 kD, which are related to the chlorophyll-protein complex II, were cross-linked in thylakoids as well as in photosystem II fractions, suggesting that in the membrane these molecules are close together. In photosystem II fractions an oligomer having a molecular weight of about 60 kD was formed by cross-linking several polypeptides of different molecular weights: 40, 25, and 22 kD. Our cross-linking experiments show that protein interactions in the thylakoid membrane occurred mainly among the polypeptides of the two chlorophyll-protein complexes, thus suggesting an oligomeric nature of these apoproteins. ImagesFig. 1Fig. 2Fig. 3 PMID:16660519

  3. Food additives.

    PubMed

    Berglund, F

    1978-01-01

    The use of additives to food fulfils many purposes, as shown by the index issued by the Codex Committee on Food Additives: Acids, bases and salts; Preservatives, Antioxidants and antioxidant synergists; Anticaking agents; Colours; Emulfifiers; Thickening agents; Flour-treatment agents; Extraction solvents; Carrier solvents; Flavours (synthetic); Flavour enhancers; Non-nutritive sweeteners; Processing aids; Enzyme preparations. Many additives occur naturally in foods, but this does not exclude toxicity at higher levels. Some food additives are nutrients, or even essential nutritents, e.g. NaCl. Examples are known of food additives causing toxicity in man even when used according to regulations, e.g. cobalt in beer. In other instances, poisoning has been due to carry-over, e.g. by nitrate in cheese whey - when used for artificial feed for infants. Poisonings also occur as the result of the permitted substance being added at too high levels, by accident or carelessness, e.g. nitrite in fish. Finally, there are examples of hypersensitivity to food additives, e.g. to tartrazine and other food colours. The toxicological evaluation, based on animal feeding studies, may be complicated by impurities, e.g. orthotoluene-sulfonamide in saccharin; by transformation or disappearance of the additive in food processing in storage, e.g. bisulfite in raisins; by reaction products with food constituents, e.g. formation of ethylurethane from diethyl pyrocarbonate; by metabolic transformation products, e.g. formation in the gut of cyclohexylamine from cyclamate. Metabolic end products may differ in experimental animals and in man: guanylic acid and inosinic acid are metabolized to allantoin in the rat but to uric acid in man. The magnitude of the safety margin in man of the Acceptable Daily Intake (ADI) is not identical to the "safety factor" used when calculating the ADI. The symptoms of Chinese Restaurant Syndrome, although not hazardous, furthermore illustrate that the whole ADI

  4. Communicating worst-case scenarios: neighbors' views of industrial accident management.

    PubMed

    Johnson, Branden B; Chess, Caron

    2003-08-01

    The prospect of industrial accidents motivated the U.S. Congress to require in the Clean Air Act of 1990 that manufacturing facilities develop Risk Management Plans (RMP) to submit to the U.S. Environmental Protection Agency (USEPA) by July 1999. Industry worried that the requirement to communicate to the public a "worst-case scenario" would arouse unnecessary and counterproductive fears among industry neighbors. We report here the results of focus groups and surveys with such neighbors, focusing particularly upon their reactions to messages about a hypothetical worst-case scenario and management of these risks by industry, government, and other parties. Our findings confirmed our hypotheses that citizens would be skeptical of the competence and trustworthiness of these managers and that this stance would color their views of industrial-facility accident risks. People with job ties to industry or who saw industrial benefits to the community as exceeding its risks had more positive views of industrial risks, but still expressed great concern about the risk and doubt about accident management. Notwithstanding these reactions, overall respondents welcomed this and other related information, which they wanted their local industries to supply. Respondents were not more reassured by additional text describing management of accidents by government and industry. However, respondents did react very positively to the concept of community oversight to review plant safety. Claims about the firm's moral obligation or financial self-interest in preventing accidents were also received positively. Further research on innovative communication and management of accident risks is warranted by these results, even before recent terrorist attacks made this topic more salient. PMID:12926575

  5. Analysis of Mycobacterium tuberculosis Genotypic Lineage Distribution in Chile and Neighboring Countries.

    PubMed

    Lagos, Jaime; Couvin, David; Arata, Loredana; Tognarelli, Javier; Aguayo, Carolina; Leiva, Tamara; Arias, Fabiola; Hormazabal, Juan Carlos; Rastogi, Nalin; Fernández, Jorge

    2016-01-01

    Tuberculosis (TB), caused by the pathogen Mycobacterium tuberculosis (MTB), remains a disease of high importance to global public health. Studies into the population structure of MTB have become vital to monitoring possible outbreaks and also to develop strategies regarding disease control. Although Chile has a low incidence of MTB, the current rates of migration have the potential to change this scenario. We collected and analyzed a total of 458 M. tuberculosis isolates (1 isolate per patient) originating from all 15 regions of Chile. The isolates were genotyped using the spoligotyping method and the data obtained were analyzed and compared with the SITVIT2 database. A total of 169 different patterns were identified, of which, 119 patterns (408 strains) corresponded to Spoligotype International Types (SITs) and 50 patterns corresponded to orphan strains. The most abundantly represented SITs/lineages were: SIT53/T1 (11.57%), SIT33/LAM3 (9.6%), SIT42/LAM9 (9.39%), SIT50/H3 (5.9%), SIT37/T3 (5%); analysis of the spoligotyping minimum spanning tree as well as spoligoforest were suggestive of a recent expansion of SIT42, SIT50 and SIT37; all of which potentially evolved from SIT53. The most abundantly represented lineages were LAM (40.6%), T (34.1%) and Haarlem (13.5%). LAM was more prevalent in the Santiago (43.6%) and Concepción (44.1%) isolates, rather than the Iquique (29.4%) strains. The proportion of X lineage was appreciably higher in Iquique and Concepción (11.7% in both) as compared to Santiago (1.6%). Global analysis of MTB lineage distribution in Chile versus neighboring countries showed that evolutionary recent lineages (LAM, T and Haarlem) accounted together for 88.2% of isolates in Chile, a pattern which mirrored MTB lineage distribution in neighboring countries (n = 7378 isolates recorded in SITVIT2 database for Peru, Brazil, Paraguay, and Argentina; and published studies), highlighting epidemiological advantage of Euro-American lineages in this region

  6. Analysis of Mycobacterium tuberculosis Genotypic Lineage Distribution in Chile and Neighboring Countries

    PubMed Central

    Lagos, Jaime; Couvin, David; Arata, Loredana; Tognarelli, Javier; Aguayo, Carolina; Leiva, Tamara; Arias, Fabiola; Hormazabal, Juan Carlos; Rastogi, Nalin; Fernández, Jorge

    2016-01-01

    Tuberculosis (TB), caused by the pathogen Mycobacterium tuberculosis (MTB), remains a disease of high importance to global public health. Studies into the population structure of MTB have become vital to monitoring possible outbreaks and also to develop strategies regarding disease control. Although Chile has a low incidence of MTB, the current rates of migration have the potential to change this scenario. We collected and analyzed a total of 458 M. tuberculosis isolates (1 isolate per patient) originating from all 15 regions of Chile. The isolates were genotyped using the spoligotyping method and the data obtained were analyzed and compared with the SITVIT2 database. A total of 169 different patterns were identified, of which, 119 patterns (408 strains) corresponded to Spoligotype International Types (SITs) and 50 patterns corresponded to orphan strains. The most abundantly represented SITs/lineages were: SIT53/T1 (11.57%), SIT33/LAM3 (9.6%), SIT42/LAM9 (9.39%), SIT50/H3 (5.9%), SIT37/T3 (5%); analysis of the spoligotyping minimum spanning tree as well as spoligoforest were suggestive of a recent expansion of SIT42, SIT50 and SIT37; all of which potentially evolved from SIT53. The most abundantly represented lineages were LAM (40.6%), T (34.1%) and Haarlem (13.5%). LAM was more prevalent in the Santiago (43.6%) and Concepción (44.1%) isolates, rather than the Iquique (29.4%) strains. The proportion of X lineage was appreciably higher in Iquique and Concepción (11.7% in both) as compared to Santiago (1.6%). Global analysis of MTB lineage distribution in Chile versus neighboring countries showed that evolutionary recent lineages (LAM, T and Haarlem) accounted together for 88.2% of isolates in Chile, a pattern which mirrored MTB lineage distribution in neighboring countries (n = 7378 isolates recorded in SITVIT2 database for Peru, Brazil, Paraguay, and Argentina; and published studies), highlighting epidemiological advantage of Euro-American lineages in this region

  7. 75 FR 3730 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-01-22

    ... AGENCY Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference AGENCY...: Pursuant to the Federal Advisory Committee Act, Public Law 92- 463, notice is hereby given that the Good... is to discuss and approve the Good Neighbor Environmental Board's Thirteenth Report....

  8. 75 FR 5790 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-02-04

    ... AGENCY Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference AGENCY...: Pursuant to the Federal Advisory Committee Act, Public Law 92- 463, notice is hereby given that the Good... continue discussion on the Good Neighbor Environmental Board's Thirteenth Report. SUPPLEMENTARY...

  9. Masked Priming with Orthographic Neighbors: A Test of the Lexical Competition Assumption

    ERIC Educational Resources Information Center

    Nakayama, Mariko; Sears, Christopher R.; Lupker, Stephen J.

    2008-01-01

    In models of visual word identification that incorporate inhibitory competition among activated lexical units, a word's higher frequency neighbors will be the word's strongest competitors. Preactivation of these neighbors by a prime is predicted to delay the word's identification. Using the masked priming paradigm (K. I. Forster & C. Davis, 1984,…

  10. Working with Family, Friend, and Neighbor Caregivers: Lessons from Four Diverse Communities

    ERIC Educational Resources Information Center

    Powell, Douglas R.

    2011-01-01

    This article is excerpted from "Who's Watching the Babies? Improving the Quality of Family, Friend, and Neighbor Care" by Douglas R. Powell ("ZERO TO THREE," 2008). The article explores questions about program development and implementation strategies for supporting Family, Friend, and Neighbor (FFN) caregivers: How do programs and their host…

  11. Potlining Additives

    SciTech Connect

    Rudolf Keller

    2004-08-10

    In this project, a concept to improve the performance of aluminum production cells by introducing potlining additives was examined and tested. Boron oxide was added to cathode blocks, and titanium was dissolved in the metal pool; this resulted in the formation of titanium diboride and caused the molten aluminum to wet the carbonaceous cathode surface. Such wetting reportedly leads to operational improvements and extended cell life. In addition, boron oxide suppresses cyanide formation. This final report presents and discusses the results of this project. Substantial economic benefits for the practical implementation of the technology are projected, especially for modern cells with graphitized blocks. For example, with an energy savings of about 5% and an increase in pot life from 1500 to 2500 days, a cost savings of $ 0.023 per pound of aluminum produced is projected for a 200 kA pot.

  12. Phosphazene additives

    SciTech Connect

    Harrup, Mason K; Rollins, Harry W

    2013-11-26

    An additive comprising a phosphazene compound that has at least two reactive functional groups and at least one capping functional group bonded to phosphorus atoms of the phosphazene compound. One of the at least two reactive functional groups is configured to react with cellulose and the other of the at least two reactive functional groups is configured to react with a resin, such as an amine resin of a polycarboxylic acid resin. The at least one capping functional group is selected from the group consisting of a short chain ether group, an alkoxy group, or an aryloxy group. Also disclosed are an additive-resin admixture, a method of treating a wood product, and a wood product.

  13. A Neighboring Dwarf Irregular Galaxy Hidden by the Milky Way

    NASA Astrophysics Data System (ADS)

    Massey, Philip; Henning, P. A.; Kraan-Korteweg, R. C.

    2003-11-01

    We have obtained VLA and optical follow-up observations of the low-velocity H I source HIZSS 3 discovered by Henning et al. and Rivers in a survey for nearby galaxies hidden by the disk of the Milky Way. Its radio characteristics are consistent with this being a nearby (~1.8 Mpc) low-mass dwarf irregular galaxy (dIm). Our optical imaging failed to reveal a resolved stellar population but did detect an extended Hα emission region. The location of the Hα source is coincident with a partially resolved H I cloud in the 21 cm map. Spectroscopy confirms that the Hα source has a similar radial velocity to that of the H I emission at this location, and thus we have identified an optical counterpart. The Hα emission (100 pc in diameter and with a luminosity of 1.4×1038 ergs s-1) is characteristic of a single H II region containing a modest population of OB stars. The galaxy's radial velocity and distance from the solar apex suggests that it is not a Local Group member, although a more accurate distance is needed to be certain. The properties of HIZSS 3 are comparable to those of GR 8, a nearby dIm with a modest amount of current star formation. Further observations are needed to characterize its stellar population, determine the chemical abundances, and obtain a more reliable distance estimate.

  14. Polymorphic Alu insertions in six Brazilian African-derived populations.

    PubMed

    Cotrim, Nelson Henderson; Auricchio, Maria Teresa B M; Vicente, João Pedro; Otto, Paulo A; Mingroni-Netto, Regina Célia

    2004-01-01

    At least 25 African-derived populations (quilombo remnants) are believed to exist in the Ribeira River Valley, located in the southern part of São Paulo State, Brazil. We studied four Alu polymorphic loci (APO, ACE, TPA25, and FXIIIB) in individuals belonging to six quilombo remnants in addition to individuals sampled from the city of São Paulo. The allelic frequencies observed in the quilombo remnants were similar to those previously observed in African-derived populations from Central and North America. Genetic variability indexes (Fst and Gst values) in our quilombos were higher than the reported values for the majority of other populations analyzed for the same kind of markers, but lower than the variability usually observed in Amerindian groups. The observed high degree of genetic differentiation may be due to genetic drift, especially the founder effect. Our results suggest that these populations behave genetically as semi-isolates. The degree of genetic variability within populations was larger than among them, a finding described in other studies. In the neighbor-joining tree, some of the Brazilian quilombos clustered with the African and African-derived populations (São Pedro and Galvão), others with the Europeans (Pilões, Maria Rosa, and Abobral). Pedro Cubas was placed in an isolated branch. Principal component analysis was also performed and confirmed the trends observed in the neighbor-joining tree. Overall, the quilombos showed a higher degree of gene flow than average when compared to other worldwide populations, but similar to other African-derived populations. PMID:15101052

  15. A common neighbor analysis of crystallization kinetics and excess entropy of charged spherical colloids.

    PubMed

    Urrutia Bañuelos, Efraín; Contreras Aburto, Claudio; Maldonado Arce, Amir

    2016-03-01

    The topological analysis tool known as the common neighbor analysis (CNA) is used for the first time in this work to analyze crystallization kinetics and excess entropy of charge-stabilized colloidal suspensions. For this purpose, Brownian dynamics computer simulations are implemented to investigate the crystallization kinetics of homogeneously melted colloidal crystals that are composed of hard-core-screened-Coulomb interacting particles. The results are in agreement with recent static structure factor measurements that could indicate the presence of icosahedral units in the metastable melt, and with the fact that weakly screened charged colloids crystallize into body-centered-cubic (bcc) ordering. A two-step crystallization pathway is found, in which the population of bcc-subunit CNA-pairs satisfactorily obeys a Verhulst model. Moreover, the CNA helped to unveil that the excess entropy obeys a quasi-universal functional form, relating the behavior of colloidal, molecular, and metallic liquid systems. The work contributes to the scientific understanding of the crystallization pathway of charged colloids, and to the development of new ways to assess the degree of crystalline order, starting from the excess entropy. PMID:26957168

  16. A common neighbor analysis of crystallization kinetics and excess entropy of charged spherical colloids

    NASA Astrophysics Data System (ADS)

    Urrutia Bañuelos, Efraín; Contreras Aburto, Claudio; Maldonado Arce, Amir

    2016-03-01

    The topological analysis tool known as the common neighbor analysis (CNA) is used for the first time in this work to analyze crystallization kinetics and excess entropy of charge-stabilized colloidal suspensions. For this purpose, Brownian dynamics computer simulations are implemented to investigate the crystallization kinetics of homogeneously melted colloidal crystals that are composed of hard-core-screened-Coulomb interacting particles. The results are in agreement with recent static structure factor measurements that could indicate the presence of icosahedral units in the metastable melt, and with the fact that weakly screened charged colloids crystallize into body-centered-cubic (bcc) ordering. A two-step crystallization pathway is found, in which the population of bcc-subunit CNA-pairs satisfactorily obeys a Verhulst model. Moreover, the CNA helped to unveil that the excess entropy obeys a quasi-universal functional form, relating the behavior of colloidal, molecular, and metallic liquid systems. The work contributes to the scientific understanding of the crystallization pathway of charged colloids, and to the development of new ways to assess the degree of crystalline order, starting from the excess entropy.

  17. Birth rates decline as neighbors learn from one another how to control fertility.

    PubMed

    1997-01-01

    This article refers to a recent article (by Population Council demographer John Bongaarts and University of Pennsylvania sociology professor Susan Cotts Watkins) on strategies for promoting future global fertility decline. The article emphasizes the importance of the process of social interaction as a powerful force that accelerates the pace of demographic transition. The force of social interaction is frequently overlooked. Social interaction operates through personal networks that connect individuals; national channels of interaction connecting social and territorial communities within a country; and global channels connecting countries. Empirical evidence finds that the most important interaction for fertility change occurs in exchanges between personal networks of small communities. When innovative fertility behavior is adopted by a group within a community, then changes are communicated in an ever widening band. It is expected that countries with multiple channels of linked transportation and communication networks and extensive media facilities would experience more rapid fertility decline. Bongaarts and Watkins argue that the extent of a country's links with a global society help determine the timing of its transition to lower fertility. All countries are connected to some extent by ideas, information, or social influence and are at some level of development. When some countries in a region begin their fertility transition, neighboring countries soon follow. Fertility transition occurs even at low levels of development. Fertility decline can occur rapidly, even if socioeconomic development is modest, once the onset of the transition has occurred. PMID:12292644

  18. Probing hybridization parameters from microarray experiments: nearest-neighbor model and beyond

    PubMed Central

    Hadiwikarta, W. W.; Walter, J.-C.; Hooyberghs, J.; Carlon, E.

    2012-01-01

    In this article, it is shown how optimized and dedicated microarray experiments can be used to study the thermodynamics of DNA hybridization for a large number of different conformations in a highly parallel fashion. In particular, free energy penalties for mismatches are obtained in two independent ways and are shown to be correlated with values from melting experiments in solution reported in the literature. The additivity principle, which is at the basis of the nearest-neighbor model, and according to which the penalty for two isolated mismatches is equal to the sum of the independent penalties, is thoroughly tested. Additivity is shown to break down for a mismatch distance below 5 nt. The behavior of mismatches in the vicinity of the helix edges, and the behavior of tandem mismatches are also investigated. Finally, some thermodynamic outlying sequences are observed and highlighted. These sequences contain combinations of GA mismatches. The analysis of the microarray data reported in this article provides new insights on the DNA hybridization parameters and can help to increase the accuracy of hybridization-based technologies. PMID:22661582

  19. Reduction in Predator Defense in the Presence of Neighbors in a Colonial Fish

    PubMed Central

    Schädelin, Franziska C.; Fischer, Stefan; Wagner, Richard H.

    2012-01-01

    Predation pressure has long been considered a leading explanation of colonies, where close neighbors may reduce predation via dilution, alarming or group predator attacks. Attacking predators may be costly in terms of energy and survival, leading to the question of how neighbors contribute to predator deterrence in relationship to each other. Two hypotheses explaining the relative efforts made by neighbors are byproduct-mutualism, which occurs when breeders inadvertently attack predators by defending their nests, and reciprocity, which occurs when breeders deliberately exchange predator defense efforts with neighbors. Most studies investigating group nest defense have been performed with birds. However, colonial fish may constitute a more practical model system for an experimental approach because of the greater ability of researchers to manipulate their environment. We investigated in the colonial fish, Neolamprologus caudopunctatus, whether prospecting pairs preferred to breed near conspecifics or solitarily, and how breeders invested in anti-predator defense in relation to neighbors. In a simple choice test, prospecting pairs selected breeding sites close to neighbors versus a solitary site. Predators were then sequentially presented to the newly established test pairs, the previously established stimulus pairs or in between the two pairs. Test pairs attacked the predator eight times more frequently when they were presented on their non-neighbor side compared to between the two breeding sites, where stimulus pairs maintained high attack rates. Thus, by joining an established pair, test pairs were able to reduce their anti-predator efforts near neighbors, at no apparent cost to the stimulus pairs. These findings are unlikely to be explained by reciprocity or byproduct-mutualism. Our results instead suggest a commensal relationship in which new pairs exploit the high anti-predator efforts of established pairs, which invest similarly with or without neighbors

  20. Bone and Skeletal Muscle: Neighbors With Close Ties

    PubMed Central

    DiGirolamo, Douglas J; Kiel, Douglas P; Esser, Karyn A

    2016-01-01

    The musculoskeletal system evolved in mammals to perform diverse functions that include locomotion, facilitating breathing, protecting internal organs, and coordinating global energy expenditure. Bone and skeletal muscles involved with locomotion are both derived from somitic mesoderm and accumulate peak tissue mass synchronously, according to genetic information and environmental stimuli. Aging results in the progressive and parallel loss of bone (osteopenia) and skeletal muscle (sarcopenia) with profound consequences for quality of life. Age-associated sarcopenia results in reduced endurance, poor balance, and reduced mobility that predispose elderly individuals to falls, which more frequently result in fracture because of concomitant osteoporosis. Thus, a better understanding of the mechanisms underlying the parallel development and involution of these tissues is critical to developing new and more effective means to combat osteoporosis and sarcopenia in our increasingly aged population. This perspective highlights recent advances in our understanding of mechanisms coupling bone and skeletal muscle mass, and identify critical areas where further work is needed. PMID:23630111

  1. The Additional Information of Bitewing Radiographs in the Detection of Established or Severe Dentinal Decay in 14-Year Olds: A Cross-Sectional Study in Low-Caries Population

    PubMed Central

    Hietala-Lenkkeri, Aija-Maaria; Alanen, Pentti; Pienihäkkinen, Kaisu

    2014-01-01

    Aim. To reveal the additional value of radiographic bitewings (BW) in detection of caries and in comparing the occurrence of clinically undetected severe decay between 14-year olds with and without clinically observed dentinal caries in a low-caries prevalence population. Design. The cross-sectional study used 363 pairs of radiographs read by one examiner without knowledge of the clinical findings. The yield was analyzed on a tooth surface level by cross tabulating the clinical and radiographic information and on an individual level by counting the number of yield surfaces for all subjects. Mann-Whitney U test was used. Results. On a tooth surface level, the contribution of BW was the greatest on the occlusal surfaces of the first molars, where established or severe dentinal decay was registered in BW in 11% of clinically sound surfaces and in 40% of established cavitated enamel lesions. On an individual level, 53% of subjects benefited from BW. The subjects clinically DMFS > 0 benefited more than the clinically DMFS = 0 subjects (P = .004), nearly 60% in relation to 47%, respectively. Conclusions. In a low-caries prevalence population a remarkable portion of both clinically DMFS = 0 and DMFS > 0 14-year olds benefit from BW examination. Most of the benefit is obtained on the occlusal surfaces of the first and the second permanent molars. PMID:24574869

  2. Heterogeneity and nearest-neighbor coupling can explain small-worldness and wave properties in pancreatic islets

    NASA Astrophysics Data System (ADS)

    Cappon, Giacomo; Pedersen, Morten Gram

    2016-05-01

    Many multicellular systems consist of coupled cells that work as a syncytium. The pancreatic islet of Langerhans is a well-studied example of such a microorgan. The islets are responsible for secretion of glucose-regulating hormones, mainly glucagon and insulin, which are released in distinct pulses. In order to observe pulsatile insulin secretion from the β-cells within the islets, the cellular responses must be synchronized. It is now well established that gap junctions provide the electrical nearest-neighbor coupling that allows excitation waves to spread across islets to synchronize the β-cell population. Surprisingly, functional coupling analysis of calcium responses in β-cells shows small-world properties, i.e., a high degree of local coupling with a few long-range "short-cut" connections that reduce the average path-length greatly. Here, we investigate how such long-range functional coupling can appear as a result of heterogeneity, nearest-neighbor coupling, and wave propagation. Heterogeneity is also able to explain a set of experimentally observed synchronization and wave properties without introducing all-or-none cell coupling and percolation theory. Our theoretical results highlight how local biological coupling can give rise to functional small-world properties via heterogeneity and wave propagation.

  3. Heterogeneity and nearest-neighbor coupling can explain small-worldness and wave properties in pancreatic islets.

    PubMed

    Cappon, Giacomo; Pedersen, Morten Gram

    2016-05-01

    Many multicellular systems consist of coupled cells that work as a syncytium. The pancreatic islet of Langerhans is a well-studied example of such a microorgan. The islets are responsible for secretion of glucose-regulating hormones, mainly glucagon and insulin, which are released in distinct pulses. In order to observe pulsatile insulin secretion from the β-cells within the islets, the cellular responses must be synchronized. It is now well established that gap junctions provide the electrical nearest-neighbor coupling that allows excitation waves to spread across islets to synchronize the β-cell population. Surprisingly, functional coupling analysis of calcium responses in β-cells shows small-world properties, i.e., a high degree of local coupling with a few long-range "short-cut" connections that reduce the average path-length greatly. Here, we investigate how such long-range functional coupling can appear as a result of heterogeneity, nearest-neighbor coupling, and wave propagation. Heterogeneity is also able to explain a set of experimentally observed synchronization and wave properties without introducing all-or-none cell coupling and percolation theory. Our theoretical results highlight how local biological coupling can give rise to functional small-world properties via heterogeneity and wave propagation. PMID:27249943

  4. Kagome lattices for ultracold atoms induced by additional lightfields

    NASA Astrophysics Data System (ADS)

    Zhang, Huirong; Chen, Xuzong; Ma, Zhaoyuan; Zhou, Yuqing

    2016-06-01

    We propose a novel method for the realization of an optical Kagome lattice due to the Raman processes driven by additional light fields applied to the ultracold atoms of two hyperfine internal states trapped in a planar optical triangular lattice. The tunneling between the different internal states of the nearest-neighbor atoms in Kagome lattices can be adjusted by the additional light fields independently of the on-site interaction. This optical lattice protocol can be used to investigate the magnetic quantum phenomena and the nearest-neighbor magnetic coupling becomes strong enough by increasing the intensities of the additional light fields.

  5. Mixed random walks with a trap in scale-free networks including nearest-neighbor and next-nearest-neighbor jumps

    NASA Astrophysics Data System (ADS)

    Zhang, Zhongzhi; Dong, Yuze; Sheng, Yibin

    2015-10-01

    Random walks including non-nearest-neighbor jumps appear in many real situations such as the diffusion of adatoms and have found numerous applications including PageRank search algorithm; however, related theoretical results are much less for this dynamical process. In this paper, we present a study of mixed random walks in a family of fractal scale-free networks, where both nearest-neighbor and next-nearest-neighbor jumps are included. We focus on trapping problem in the network family, which is a particular case of random walks with a perfect trap fixed at the central high-degree node. We derive analytical expressions for the average trapping time (ATT), a quantitative indicator measuring the efficiency of the trapping process, by using two different methods, the results of which are consistent with each other. Furthermore, we analytically determine all the eigenvalues and their multiplicities for the fundamental matrix characterizing the dynamical process. Our results show that although next-nearest-neighbor jumps have no effect on the leading scaling of the trapping efficiency, they can strongly affect the prefactor of ATT, providing insight into better understanding of random-walk process in complex systems.

  6. LEDs/ALAN-Working To Be Good Neighbors

    NASA Astrophysics Data System (ADS)

    Adams, Robert

    2015-08-01

    ALAN (Artificial Light At Night) and LEDs have recently become major discussion topics in the areas of astronomy, light pollution, endangered species and human health to mention but a few. In years past, MH, LPS and HPS dominated night lighting with LPS and its associated narrow spectrum as the preferred source around observatories and shorelines. LEDs offer the ability to modify the spectrum, realize substantial energy savings and other associated benefits while meeting the requirements of the astronomy community.The primary concern of the different groups relates to blue light content of the LED. For astronomers, the molecular (Raleigh) scattering related to the blue light interferes with certain portions of the spectrum used for deep space studies. The ecologists studying various endangered species find blue and green light can be related to declining leatherback turtle population in certain areas of the world. Other animals ranging from bats to moths and other insects are now being studied to determine the effect of the blue light spectrum on their behavior. The impact of blue light on the human circadian rhythm and vision, especially in the older population, is being extensively studied today.This presentation will discuss the spectral power distribution (SPD) of various light sources, the performance of new LED solutions and how the SPD of these new LED’s can be adapted to address some of the issues raised by various constituencies. A discussion describing why some of the metrics used to describe standard lighting are not adequate for specifying the new LED solutions with the modified spectra will be included.Today, lighting plans and implementation are all too often based on opinions and limited data. The ensuing problems and repercussions make it imperative to collect accurate and thorough information. Data collection is now ongoing using a variety of techniques analyzing the “before” and “after” lighting results from the C of HI LED streetlight

  7. Rigidity percolation by next-nearest-neighbor bonds on generic and regular isostatic lattices.

    PubMed

    Zhang, Leyou; Rocklin, D Zeb; Chen, Bryan Gin-ge; Mao, Xiaoming

    2015-03-01

    We study rigidity percolation transitions in two-dimensional central-force isostatic lattices, including the square and the kagome lattices, as next-nearest-neighbor bonds ("braces") are randomly added to the system. In particular, we focus on the differences between regular lattices, which are perfectly periodic, and generic lattices with the same topology of bonds but whose sites are at random positions in space. We find that the regular square and kagome lattices exhibit a rigidity percolation transition when the number of braces is ∼LlnL, where L is the linear size of the lattice. This transition exhibits features of both first-order and second-order transitions: The whole lattice becomes rigid at the transition, and a diverging length scale also exists. In contrast, we find that the rigidity percolation transition in the generic lattices occur when the number of braces is very close to the number obtained from Maxwell's law for floppy modes, which is ∼L. The transition in generic lattices is a very sharp first-order-like transition, at which the addition of one brace connects all small rigid regions in the bulk of the lattice, leaving only floppy modes on the edge. We characterize these transitions using numerical simulations and develop analytic theories capturing each transition. Our results relate to other interesting problems, including jamming and bootstrap percolation. PMID:25871071

  8. Multiple burn fuel-optimal orbit transfers: Numerical trajectory computation and neighboring optimal feedback guidance

    NASA Technical Reports Server (NTRS)

    Chuang, C.-H.; Goodson, Troy D.; Ledsinger, Laura A.

    1995-01-01

    This report describes current work in the numerical computation of multiple burn, fuel-optimal orbit transfers and presents an analysis of the second variation for extremal multiple burn orbital transfers as well as a discussion of a guidance scheme which may be implemented for such transfers. The discussion of numerical computation focuses on the use of multivariate interpolation to aid the computation in the numerical optimization. The second variation analysis includes the development of the conditions for the examination of both fixed and free final time transfers. Evaluations for fixed final time are presented for extremal one, two, and three burn solutions of the first variation. The free final time problem is considered for an extremal two burn solution. In addition, corresponding changes of the second variation formulation over thrust arcs and coast arcs are included. The guidance scheme discussed is an implicit scheme which implements a neighboring optimal feedback guidance strategy to calculate both thrust direction and thrust on-off times.

  9. Building a Co-Created Citizen Science Program with Community Members Neighboring a Hazardous Waste Site

    NASA Astrophysics Data System (ADS)

    Ramirez-Andreotta, M.; Brusseau, M. L. L.; Artiola, J. F.; Maier, R. M.; Gandolfi, A. J.

    2015-12-01

    A research project that is only expert-driven may ignore the role of local knowledge in research, often gives low priority to the development of a comprehensive strategy to engage the community, and may not deliver the results of the study to the community in an effective way. To date, only a limited number of co-created citizen science projects, where community members are involved in most or all steps of the scientific process, have been initiated at contaminated sites and even less in conjunction with risk communication. Gardenroots: The Dewey-Humboldt AZ Garden Project was a place-based, co-created citizen science project where community members and researchers together: defined the question for study, developed hypotheses, collected environmental samples, disseminated results broadly, translated the results into action, and posed new research questions. This co-created environmental research project produced new data and addressed an additional exposure route (consumption of vegetables grown in soils with elevated arsenic levels) that was not being evaluated in the current site assessment. Furthermore, co-producing science led to both individual learning and social-ecological outcomes. This approach illustrates the benefits of a co-created citizen-science program in addressing the complex problems that arise in communities neighboring a hazardous waste sites. Such a project increased the community's involvement in regional environmental assessment and decision-making, which has the potential to help mitigate environmental exposures and thereby reduce associated risks.

  10. Magnetic and pair correlations of the Hubbard model with next-nearest-neighbor hopping

    SciTech Connect

    Veilleux, A.F.; Dare, A.; Chen, L.; Vilk, Y.M.; Tremblay, A.S.

    1995-12-01

    A combination of analytical approaches and quantum Monte Carlo simulations is used to study both magnetic and pairing correlations for a version of the Hubbard model that includes second-neighbor hopping {ital t}{sup {prime}}={minus}0.35{ital t} as a model for high-temperature superconductors. Magnetic properties are analyzed using the two-particle self-consistent approach. The maximum in magnetic susceptibility as a function of doping appears both at finite {ital t}{sup {prime}} and at {ital t}{sup {prime}}=0 but for two totally different physical reasons. When {ital t}{sup {prime}}=0, it is induced by antiferromagnetic correlations while at {ital t}{sup {prime}}={minus}0.35{ital t} it is a band structure effect amplified by interactions. Finally, pairing fluctuations are compared with {ital T}-matrix results to disentangle the effects of van Hove singularity and of nesting on superconducting correlations. The addition of antiferromagnetic fluctuations increases slightly the {ital d}-wave superconducting correlations despite the presence of a van Hove singularity which tends to decrease them in the repulsive model. Some aspects of the phase diagram and some subtleties of finite-size scaling in Monte Carlo simulations, such as inverted finite-size dependence, are also discussed.

  11. 77 FR 57083 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-09-17

    ... Law 92463. GNEB provides advice and recommendations to the President and Congress on environmental and... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference...

  12. 77 FR 13599 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-03-07

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference AGENCY: Environmental Protection Agency (EPA). ACTION: Notification of Public Advisory Committee Teleconference....

  13. 78 FR 17395 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-03-21

    ... environmental infrastructure issues in the U.S.- Mexico border region. SUPPLEMENTARY INFORMATION: If you wish to... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference...

  14. 76 FR 62062 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-10-06

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference AGENCY: Environmental Protection Agency (EPA). ACTION: Notification of Public Advisory Committee Teleconference....

  15. 78 FR 29132 - Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-05-17

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY (EPA-HQ-OA-2013-0124) Good Neighbor Environmental Board; Notification of Public Advisory Committee Teleconference AGENCY: Environmental Protection Agency (EPA). ACTION: Notice. Public Advisory...

  16. Warm Jupiters Are Less Lonely than Hot Jupiters: Close Neighbors

    NASA Astrophysics Data System (ADS)

    Huang, Chelsea; Wu, Yanqin; Triaud, Amaury H. M. J.

    2016-07-01

    Exploiting the Kepler transit data, we uncover a dramatic distinction in the prevalence of sub-Jovian companions between systems that contain hot Jupiters (HJs) (periods inward of 10 days) and those that host warm Jupiters (WJs) (periods between 10 and 200 days). HJs, with the singular exception of WASP-47b, do not have any detectable inner or outer planetary companions (with periods inward of 50 days and sizes down to 2 R Earth). Restricting ourselves to inner companions, our limits reach down to 1 R Earth. In stark contrast, half of the WJs are closely flanked by small companions. Statistically, the companion fractions for hot and WJs are mutually exclusive, particularly in regard to inner companions. The high companion fraction of WJs also yields clues to their formation. The WJs that have close-by siblings should have low orbital eccentricities and low mutual inclinations. The orbital configurations of these systems are reminiscent of those of the low-mass close-in planetary systems abundantly discovered by the Kepler mission. This, and other arguments, lead us to propose that these WJs are formed in situ. There are indications that there may be a second population of WJs with different characteristics. In this picture, WASP-47b could be regarded as the extending tail of the in situ WJs into the HJ region and does not represent the generic formation route for HJs.

  17. SibRank: Signed bipartite network analysis for neighbor-based collaborative ranking

    NASA Astrophysics Data System (ADS)

    Shams, Bita; Haratizadeh, Saman

    2016-09-01

    Collaborative ranking is an emerging field of recommender systems that utilizes users' preference data rather than rating values. Unfortunately, neighbor-based collaborative ranking has gained little attention despite its more flexibility and justifiability. This paper proposes a novel framework, called SibRank that seeks to improve the state of the art neighbor-based collaborative ranking methods. SibRank represents users' preferences as a signed bipartite network, and finds similar users, through a novel personalized ranking algorithm in signed networks.

  18. Finger vein identification using fuzzy-based k-nearest centroid neighbor classifier

    NASA Astrophysics Data System (ADS)

    Rosdi, Bakhtiar Affendi; Jaafar, Haryati; Ramli, Dzati Athiar

    2015-02-01

    In this paper, a new approach for personal identification using finger vein image is presented. Finger vein is an emerging type of biometrics that attracts attention of researchers in biometrics area. As compared to other biometric traits such as face, fingerprint and iris, finger vein is more secured and hard to counterfeit since the features are inside the human body. So far, most of the researchers focus on how to extract robust features from the captured vein images. Not much research was conducted on the classification of the extracted features. In this paper, a new classifier called fuzzy-based k-nearest centroid neighbor (FkNCN) is applied to classify the finger vein image. The proposed FkNCN employs a surrounding rule to obtain the k-nearest centroid neighbors based on the spatial distributions of the training images and their distance to the test image. Then, the fuzzy membership function is utilized to assign the test image to the class which is frequently represented by the k-nearest centroid neighbors. Experimental evaluation using our own database which was collected from 492 fingers shows that the proposed FkNCN has better performance than the k-nearest neighbor, k-nearest-centroid neighbor and fuzzy-based-k-nearest neighbor classifiers. This shows that the proposed classifier is able to identify the finger vein image effectively.

  19. Plant neighbor identity influences plant biochemistry and physiology related to defense

    PubMed Central

    2010-01-01

    Background Chemical and biological processes dictate an individual organism's ability to recognize and respond to other organisms. A small but growing body of evidence suggests that plants may be capable of recognizing and responding to neighboring plants in a species specific fashion. Here we tested whether or not individuals of the invasive exotic weed, Centaurea maculosa, would modulate their defensive strategy in response to different plant neighbors. Results In the greenhouse, C. maculosa individuals were paired with either conspecific (C. maculosa) or heterospecific (Festuca idahoensis) plant neighbors and elicited with the plant defense signaling molecule methyl jasmonate to mimic insect herbivory. We found that elicited C. maculosa plants grown with conspecific neighbors exhibited increased levels of total phenolics, whereas those grown with heterospecific neighbors allocated more resources towards growth. To further investigate these results in the field, we conducted a metabolomics analysis to explore chemical differences between individuals of C. maculosa growing in naturally occurring conspecific and heterospecific field stands. Similar to the greenhouse results, C. maculosa individuals accumulated higher levels of defense-related secondary metabolites and lower levels of primary metabolites when growing in conspecific versus heterospecific field stands. Leaf herbivory was similar in both stand types; however, a separate field study positively correlated specialist herbivore load with higher densities of C. maculosa conspecifics. Conclusions Our results suggest that an individual C. maculosa plant can change its defensive strategy based on the identity of its plant neighbors. This is likely to have important consequences for individual and community success. PMID:20565801

  20. Molecular Epidemiology of Mycobacterium leprae as Determined by Structure-Neighbor Clustering ▿ †

    PubMed Central

    Hall, Barry G.; Salipante, Stephen J.

    2010-01-01

    It has proven challenging to investigate the molecular epidemiology of Mycobacterium leprae, the causative agent of leprosy, due to difficulties with culturing of the organism and a lack of genetic heterogeneity between strains. Recently, a cost-effective panel of variable-number tandem-repeat (VNTR) markers has been developed. Use of this panel allows some of those limitations to be overcome and has allowed the genotyping of 475 M. leprae strains from six different countries. In the present report, we provide a comprehensive analysis of the relationships among the strains in order to investigate the patterns of transmission and migration of M. leprae. We find phylogenetic analysis to be inadequate and have developed an alternative method, structure-neighbor clustering, which assigns isolates with the most similar genotypes to the same groups and, subsequently, subgroups, without inferring how the strains descended from a common ancestor. We validate the approach by using simulated data and detecting expected epidemiological relationships from experimental data. Our results suggest that most M. leprae strains from a given country cluster together and that the occasional isolates assigned to different clusters are a consequence of migration. We found three genetically distinguishable populations among isolates from the Philippines, as well as evidence for the significant influx of strains to that nation from India. We also report that reference strain TN originated from the Philippines and not from India, as was previously believed. Lastly, analysis of isolates from the same families and villages suggests that most community infections originate from a common source or person-to-person transmission but that infection from independent sources does occur with measurable frequency. PMID:20351204

  1. Donating Otx2 to support neighboring neuron survival

    PubMed Central

    Prochiantz, Alain; Kim, Jin Woo

    2016-01-01

    Mutations of orthodentricle homeobox 2 (OTX2) in human and mice often cause retinal dystrophy and nyctalopia, suggesting a role of OTX2 in mature retina, in addition to its functions in the development of the eye and retina. In support of this, the number of bipolar cells in Otx2+/− post-natal mouse retina was found to be significantly lower than normal. Degeneration of the cells becomes greater as the mice age, leading to the loss of vision. Especially, the type-2 OFF-cone bipolar cells, which do not express Otx2 mRNA but carry Otx2 protein, are most sensitive to Otx2 haplodeficiency. Interestingly, this bipolar cell subpopulation imports Otx2 protein from photoreceptors to protect itself from glutamate excitotoxicity in the dark. Moreover, in the bipolar cells, the exogenous Otx2 relocates to the mitochondria to support mitochondrial ATP synthesis. This novel mitochondrial activity of exogenous Otx2 highlights the therapeutic potential of Otx2 protein transduction in retinal dystrophy. [BMB Reports 2016; 49(2): 69-70] PMID:26779998

  2. Donating Otx2 to support neighboring neuron survival.

    PubMed

    Kim, Hyoung-Tai; Prochiantz, Alain; Kim, Jin Woo

    2016-02-01

    Mutations of orthodentricle homeobox 2 (OTX2) in human and mice often cause retinal dystrophy and nyctalopia, suggesting a role of OTX2 in mature retina, in addition to its functions in the development of the eye and retina. In support of this, the number of bipolar cells in Otx2+/- post-natal mouse retina was found to be significantly lower than normal. Degeneration of the cells becomes greater as the mice age, leading to the loss of vision. Especially, the type-2 OFF-cone bipolar cells, which do not express Otx2 mRNA but carry Otx2 protein, are most sensitive to Otx2 haplodeficiency. Interestingly, this bipolar cell subpopulation imports Otx2 protein from photoreceptors to protect itself from glutamate excitotoxicity in the dark. Moreover, in the bipolar cells, the exogenous Otx2 relocates to the mitochondria to support mitochondrial ATP synthesis. This novel mitochondrial activity of exogenous Otx2 highlights the therapeutic potential of Otx2 protein transduction in retinal dystrophy. [BMB Reports 2016; 49(2): 69-70]. PMID:26779998

  3. Effect of neighboring perturbations on drop coalescence at an interface

    NASA Astrophysics Data System (ADS)

    Bordoloi, Ankur Deep; Longmire, Ellen K.

    2012-06-01

    Coalescence at a quiescent silicone oil/water glycerine interface was investigated for water/glycerine drops with Bond number ˜7 and Ohnesorge number = 0.01 using high-speed imaging and time-resolved tomographic particle image velocimetry. In addition to a single drop case, three perturbation cases were considered corresponding with a second drop, a solid particle wetted in oil, and a solid particle wetted in water/glycerine placed adjacent to the coalescing drop. Each perturbing object caused an initial tilting of the drop, influencing its rupture location and eventual collapse behavior. Once tilted, drops typically ruptured near their lowest vertical position which was located either toward or away from the perturbing object depending on the case. The initial retraction speed of the ruptured film was higher for drops initially tilted at significant angles, and the local variations in retraction speed correlated well with the expected variations in local film thickness. The drop fluid always collapsed away from the drop axis in the direction of the rupture location in all unperturbed or perturbed cases. In the case of a drop next to a particle wetted in water/glycerine, the collapsing fluid travelled away from the particle, and the downward propagating vortex ring which developed was similar to that resulting from an unperturbed drop rupture. By contrast, the drop fluid collapsed toward either a second drop or a particle wetted in oil. The resulting vortex rings were more asymmetric, and viscous interaction between the particle and collapsing fluid hindered the downward motion of the associated ring.

  4. Neighboring group catalysis in the design of nucleotide prodrugs.

    PubMed

    Khamnei, S; Torrence, P F

    1996-09-27

    An approach is described for potential application to the delivery of polar nucleosides and nucleotides across lipophilic membranes, namely, nucleotide prodrugs based on salicyl phosphate. 3'-Azido-3'-deoxythymidine (AZT) and 3'-deoxythymidine (ddT) were chosen as models. For the synthesis of prototype compounds 1 and 2, the approach was first to react either methyl salicylate (for 1) or phenyl salicylate (for 2) with phosphorus oxychloride in dry methylene chloride at 0 degree C with the addition of triethylamine as acid scavenger. The resulting intermediate phosphorodichloridate was reacted immediately with excess nucleoside under the same conditions. The control model compound 3 was prepared by reaction of phenyl phosphorodichloridate and excess nucleoside in pyridine/methylene chloride at 0 degree C to give 3 in 82% yield. The synthesis of triester 7 involved reaction of alpha-(chloroacetyl)salicyl chloride with 2,3,4,6-tetra-O-benzyl-D-glucopyranose to give [[(2,3,4,6-tetra-O-benzyl-D-glucopyranosyl)-oxy]carbonyl]-2- (1-chloroacetoxy)benzene (4) which was dechloroacetylated to 5,2,3,4,6-tetra-O-benzyl-D-glucopyranosyl salicylate. Phosphorylation of 5 with phosphorus oxychloride provided the phosphorodichloridate which was directly converted to 6 by reaction with dideoxythymidine. Removal of benzyl groups by catalytic hydrogenation gave compound 7, bis(2',3'-dideoxythymidin-5'-yl) D-glucopyranosyl phosphate. The AZT prodrug triesters, 1 and 2, underwent much more rapid hydrolysis than the triester 3, most probably due to the formation of an acyl phosphate complex from the attack on phosphorus of the salicylate carboxylate. The hydrolysis of the less lipophilic 7 was significantly slower than that of 1 or 2. Both pig liver esterase and rat brain cytosol were able to effect the cleavage to dinucleotide or mononucleotide of prodrug forms 2 and 7, much more rapidly than either 3 or 1, suggesting that the esterase-like enzymatic activity of rat brain was similar to

  5. Knowing Our Neighbors: Two In and One Out

    NASA Astrophysics Data System (ADS)

    Bartlett, Jennifer L.; Lurie, John C.; Ianna, Philip A.; Riedel, Adric R.; Winters, Jennifer G.; Finch, Charlie T.; Jao, Wei-Chun; Subasavage, John P.; Henry, Todd J.

    2016-01-01

    Obtaining a well-understood, volume-limited (and ultimately volume-complete) sample of nearby stars is necessary for determining a host of interesting astrophysical quantities, including the stellar luminosity and mass functions, the distribution of stellar velocities, and the stellar multiplicity fraction. Furthermore, such a sample provides insight into the local star formation history. Towards that end, the Research Consortium on Nearby Stars (RECONS) team measures trigonometric parallaxes to establish which systems truly lie within the Solar Neighborhood, emphasizing those within 25 pc. Less accurate photometric and spectroscopic estimates previously suggested LP 991-84, LHS 6167AB, and LHS 2880 as possible members of the 10-pc sample, which made them desirable candidates.Recent measurements with the CTIO/SMARTS 0.9-m telescope place LP 991-84 and LHS 6167AB at 8.6 ± 0.1 and 9.68 ± 0.09 pc, respectively, which is consistent with earlier estimates of their distances. However, the final parallax for LHS 2880 places it beyond 25 pc, at a distance of 31 ± 1 pc, despite its previous identification as a member of the 10-pc sample. The proper motions of these systems are 0.2589 ± 0.0004, 0.4394 ± 0.0003, and 0.7113 ± 0.0009 arcsec yr-1, respectively.To characterize these systems more fully, the RECONS team obtained VRI photometry for each; they range from 13.8-14.5 mag. in V. LHS 6167AB also shows signs of long-term variability in V, including a possible flare. In addition, CTIO 1.5-m spectroscopy identifies LP 991-84 and LHS 6167AB as M4.5 V systems.Even as we aspire to identify all the stars within 25 pc, we find that the 10-pc volume still holds some surprises.NSF grants AST 05-07711 and AST 09-08402, NASA-SIM, Georgia State University, the University of Virginia, Hampden-Sydney College, and the Levinson Fund of the Peninsula Community Foundation supported this research. CTIOPI was an NOAO Survey Program and continues as part of the SMARTS Consortium. We

  6. Assessing the Impacts of Reduced Noise Operations of Wind Turbines on Neighbor Annoyance: A Preliminary Analysis in Vinalhaven, Maine

    SciTech Connect

    Hoen, Ben; Wiser, Ryan; Eckholdt, Haftan

    2010-06-23

    differences in turbine sound outputs that did exist might have been masked by higher (non-turbine) wind sound levels that were coincident with NRO periods. Because this preliminary test only included a small portion of the population surrounding the turbines, the sample of self-reported ratings was itself very small. In addition, the conditions varied greatly over the study period, as described in the report that follows. Consequently, the results presented here should be considered preliminary, and further data collection and analysis are warranted. The main findings of this preliminary study are: (1) As planned, periods in which the NRO was engaged were found to have noticeably lower turbine rotational speeds (rpm), based on turbine operational data. (2) 11% of responses overall indicated that the turbines were perceived as either 'very' or 'extremely' loud at the time they were logged, and roughly two thirds of those (7% overall) indicated the sounds to be 'very' or 'extremely' annoying. (3) Self-reported turbine loudness and annoyance ratings were higher during the night and when the wind was from the North (participants in the study were located to the east and south of the turbines). (4) Self-reported turbine loudness and annoyance ratings were generally found to be lower during the NRO periods, but these observed differences are relatively small in magnitude, and are not statistically significant. (5) There is some limited evidence that high-speed surface winds mask self-reported turbine loudness and annoyance ratings. Therefore, because NRO settings are only engaged during periods of high winds, the true effects of the NRO adjustments might be diluted to some degree. (6) The results of this preliminary assessment should not be applied to the full population of homeowners near the turbines in Vinalhaven, Maine because the potentially most-sensitive individuals (those most vocal of their dislike of the turbine sounds) opted not to participate in the study, and because

  7. Genetics and population history of Caucasus populations.

    PubMed

    Bulayeva, Kazima; Jorde, Lynn B; Ostler, Christopher; Watkins, Scott; Bulayev, Oleg; Harpending, Henry

    2003-12-01

    We describe aspects of genetic diversity in several ethnic populations of the Caucasus Mountains of Daghestan using mitochondrial DNA sequences and a sample of 100 polymorphic Alu insertion loci. The mitochondrial DNA (mtDNA) sequences are like those of Europe. Principal coordinates and nearest neighbor statistics show that there is little detectable structure in the distances among populations computed from mtDNA. The Alu frequencies of the Caucasus populations suggest that they have undergone more genetic drift than most other groups since the dispersal of modern humans. Genetic differences among these populations are not large; instead, they are of the same order as distances among populations of Europe. We compare two methods of inference about the demography of ancient colonizing populations from Africa, one based on conventional FST statistics and one based on mean Alu insertion frequencies. The two approaches agree reasonably well if we assume that there was demographic growth in Africa before the diaspora of ancestors of contemporary regional human groups outside Africa. PMID:15018034

  8. Plant Clonal Integration Mediates the Horizontal Redistribution of Soil Resources, Benefiting Neighboring Plants

    PubMed Central

    Ye, Xue-Hua; Zhang, Ya-Lin; Liu, Zhi-Lan; Gao, Shu-Qin; Song, Yao-Bin; Liu, Feng-Hong; Dong, Ming

    2016-01-01

    Resources such as water taken up by plants can be released into soils through hydraulic redistribution and can also be translocated by clonal integration within a plant clonal network. We hypothesized that the resources from one (donor) microsite could be translocated within a clonal network, released into different (recipient) microsites and subsequently used by neighbor plants in the recipient microsite. To test these hypotheses, we conducted two experiments in which connected and disconnected ramet pairs of Potentilla anserina were grown under both homogeneous and heterogeneous water regimes, with seedlings of Artemisia ordosica as neighbors. The isotopes [15N] and deuterium were used to trace the translocation of nitrogen and water, respectively, within the clonal network. The water and nitrogen taken up by P. anserina ramets in the donor microsite were translocated into the connected ramets in the recipient microsites. Most notably, portions of the translocated water and nitrogen were released into the recipient microsite and were used by the neighboring A. ordosica, which increased growth of the neighboring A. ordosica significantly. Therefore, our hypotheses were supported, and plant clonal integration mediated the horizontal hydraulic redistribution of resources, thus benefiting neighboring plants. Such a plant clonal integration-mediated resource redistribution in horizontal space may have substantial effects on the interspecific relations and composition of the community and consequently on ecosystem processes. PMID:26904051

  9. Error Analysis for RADAR Neighbor Matching Localization in Linear Logarithmic Strength Varying Wi-Fi Environment

    PubMed Central

    Tian, Zengshan; Xu, Kunjie; Yu, Xiang

    2014-01-01

    This paper studies the statistical errors for the fingerprint-based RADAR neighbor matching localization with the linearly calibrated reference points (RPs) in logarithmic received signal strength (RSS) varying Wi-Fi environment. To the best of our knowledge, little comprehensive analysis work has appeared on the error performance of neighbor matching localization with respect to the deployment of RPs. However, in order to achieve the efficient and reliable location-based services (LBSs) as well as the ubiquitous context-awareness in Wi-Fi environment, much attention has to be paid to the highly accurate and cost-efficient localization systems. To this end, the statistical errors by the widely used neighbor matching localization are significantly discussed in this paper to examine the inherent mathematical relations between the localization errors and the locations of RPs by using a basic linear logarithmic strength varying model. Furthermore, based on the mathematical demonstrations and some testing results, the closed-form solutions to the statistical errors by RADAR neighbor matching localization can be an effective tool to explore alternative deployment of fingerprint-based neighbor matching localization systems in the future. PMID:24683349

  10. Handling Neighbor Discovery and Rendezvous Consistency with Weighted Quorum-Based Approach

    PubMed Central

    Own, Chung-Ming; Meng, Zhaopeng; Liu, Kehan

    2015-01-01

    Neighbor discovery and the power of sensors play an important role in the formation of Wireless Sensor Networks (WSNs) and mobile networks. Many asynchronous protocols based on wake-up time scheduling have been proposed to enable neighbor discovery among neighboring nodes for the energy saving, especially in the difficulty of clock synchronization. However, existing researches are divided two parts with the neighbor-discovery methods, one is the quorum-based protocols and the other is co-primality based protocols. Their distinction is on the arrangements of time slots, the former uses the quorums in the matrix, the latter adopts the numerical analysis. In our study, we propose the weighted heuristic quorum system (WQS), which is based on the quorum algorithm to eliminate redundant paths of active slots. We demonstrate the specification of our system: fewer active slots are required, the referring rate is balanced, and remaining power is considered particularly when a device maintains rendezvous with discovered neighbors. The evaluation results showed that our proposed method can effectively reschedule the active slots and save the computing time of the network system. PMID:26404297

  11. Handling Neighbor Discovery and Rendezvous Consistency with Weighted Quorum-Based Approach.

    PubMed

    Own, Chung-Ming; Meng, Zhaopeng; Liu, Kehan

    2015-01-01

    Neighbor discovery and the power of sensors play an important role in the formation of Wireless Sensor Networks (WSNs) and mobile networks. Many asynchronous protocols based on wake-up time scheduling have been proposed to enable neighbor discovery among neighboring nodes for the energy saving, especially in the difficulty of clock synchronization. However, existing researches are divided two parts with the neighbor-discovery methods, one is the quorum-based protocols and the other is co-primality based protocols. Their distinction is on the arrangements of time slots, the former uses the quorums in the matrix, the latter adopts the numerical analysis. In our study, we propose the weighted heuristic quorum system (WQS), which is based on the quorum algorithm to eliminate redundant paths of active slots. We demonstrate the specification of our system: fewer active slots are required, the referring rate is balanced, and remaining power is considered particularly when a device maintains rendezvous with discovered neighbors. The evaluation results showed that our proposed method can effectively reschedule the active slots and save the computing time of the network system. PMID:26404297

  12. Polymers with nearest- and next nearest-neighbor interactions on the Husimi lattice

    NASA Astrophysics Data System (ADS)

    Oliveira, Tiago J.

    2016-04-01

    The exact grand-canonical solution of a generalized interacting self-avoid walk (ISAW) model, placed on a Husimi lattice built with squares, is presented. In this model, beyond the traditional interaction {ω }1={{{e}}}{ɛ 1/{k}BT} between (nonconsecutive) monomers on nearest-neighbor (NN) sites, an additional energy {ɛ }2 is associated to next-NN (NNN) monomers. Three definitions of NNN sites/interactions are considered, where each monomer can have, effectively, at most two, four, or six NNN monomers on the Husimi lattice. The phase diagrams found in all cases have (qualitatively) the same thermodynamic properties: a non-polymerized (NP) and a polymerized (P) phase separated by a critical and a coexistence surface that meet at a tricritical (θ-) line. This θ-line is found even when one of the interactions is repulsive, existing for {ω }1 in the range [0,∞ ), i.e., for {ɛ }1/{k}BT in the range [-∞ ,∞ ). Thus, counterintuitively, a θ-point exists even for an infinite repulsion between NN monomers ({ω }1=0), being associated to a coil-‘soft globule’ transition. In the limit of an infinite repulsive force between NNN monomers, however, the coil-globule transition disappears, and only NP-P continuous transition is observed. This particular case, with {ω }2=0, is also solved exactly on the square lattice, using a transfer matrix calculation where a discontinuous NP-P transition is found. For attractive and repulsive forces between NN and NNN monomers, respectively, the model becomes quite similar to the semiflexible-ISAW one, whose crystalline phase is not observed here, as a consequence of the frustration due to competing NN and NNN forces. The mapping of the phase diagrams in canonical ones is discussed and compared with recent results from Monte Carlo simulations on the square lattice.

  13. Determining spectroscopic redshifts by using k nearest neighbor regression. I. Description of method and analysis

    NASA Astrophysics Data System (ADS)

    Kügler, S. D.; Polsterer, K.; Hoecker, M.

    2015-04-01

    Context. In astronomy, new approaches to process and analyze the exponentially increasing amount of data are inevitable. For spectra, such as in the Sloan Digital Sky Survey spectral database, usually templates of well-known classes are used for classification. In case the fitting of a template fails, wrong spectral properties (e.g. redshift) are derived. Validation of the derived properties is the key to understand the caveats of the template-based method. Aims: In this paper we present a method for statistically computing the redshift z based on a similarity approach. This allows us to determine redshifts in spectra for emission and absorption features without using any predefined model. Additionally, we show how to determine the redshift based on single features. As a consequence we are, for example, able to filter objects that show multiple redshift components. Methods: The redshift calculation is performed by comparing predefined regions in the spectra and individually applying a nearest neighbor regression model to each predefined emission and absorption region. Results: The choice of the model parameters controls the quality and the completeness of the redshifts. For ≈90% of the analyzed 16 000 spectra of our reference and test sample, a certain redshift can be computed that is comparable to the completeness of SDSS (96%). The redshift calculation yields a precision for every individually tested feature that is comparable to the overall precision of the redshifts of SDSS. Using the new method to compute redshifts, we could also identify 14 spectra with a significant shift between emission and absorption or between emission and emission lines. The results already show the immense power of this simple machine-learning approach for investigating huge databases such as the SDSS.

  14. Detection of arbitrarily-shaped clusters using a neighbor-expanding approach: A case study on murine typhus in South Texas

    PubMed Central

    2011-01-01

    Background Kulldorff's spatial scan statistic has been one of the most widely used statistical methods for automatic detection of clusters in spatial data. One limitation of this method lies in the fact that it has to rely on scan windows with predefined shapes in the search process, and therefore it cannot detect cluster with arbitrary shapes. We employ a new neighbor-expanding approach and introduce two new algorithms to detect cluster with arbitrary shapes in spatial data. These two algorithms are called the maximum-likelihood-first (MLF) algorithm and non-greedy growth (NGG) algorithm. We then compare the performance of these two new algorithms with the spatial scan statistic (SaTScan), Tango's flexibly shaped spatial scan statistic (FlexScan), and Duczmal's simulated annealing (SA) method using two datasets. Furthermore, we utilize the methods to examine clusters of murine typhus cases in South Texas from 1996 to 2006. Result When compared with the SaTScan and FlexScan method, the two new algorithms were more flexible and sensitive in detecting the clusters with arbitrary shapes in the test datasets. Clusters detected by the MLF algorithm are statistically more significant than those detected by the NGG algorithm. However, the NGG algorithm appears to be more stable when there are no extreme cluster patterns in the data. For the murine typhus data in South Texas, a large portion of the detected clusters were located in coastal counties where environmental conditions and socioeconomic status of some population groups were at a disadvantage when compared with those in other counties with no clusters of murine typhus cases. Conclusion The two new algorithms are effective in detecting the location and boundary of spatial clusters with arbitrary shapes. Additional research is needed to better understand the etiology of the concentration of murine typhus cases in some counties in south Texas. PMID:21453514

  15. Learn good from bad: Effects of good and bad neighbors in spatial prisoners' dilemma games

    NASA Astrophysics Data System (ADS)

    Lu, Peng

    2015-10-01

    Cooperation is vital for the human society and this study focuses on how to promote cooperation. In our stratification model, there exist three classes: two minorities are elites who are prone to cooperate and scoundrels who are born to defect; one majority is the class of common people. Agents of these three classes interact with each other on a square lattice. Commons' cooperation and its factors are investigated. Contradicting our common sense, it indicates that elites play a negative role while scoundrels play a positive one in promoting commons' cooperation. Besides, effects of good and bad neighbors vary with temptation. When the temptation is smaller the positive effect is able to overcome the negative effect, but the later prevails when the temptation is larger. It concludes that common people are more prone to cooperate in harsh environment with bad neighbors, and a better environment with good neighbors merely leads to laziness and free riding of commons.

  16. What Will the Neighbors Think? Building Large-Scale Science Projects Around the World

    ScienceCinema

    Jones, Craig; Mrotzek, Christian; Toge, Nobu; Sarno, Doug

    2010-01-08

    Public participation is an essential ingredient for turning the International Linear Collider into a reality. Wherever the proposed particle accelerator is sited in the world, its neighbors -- in any country -- will have something to say about hosting a 35-kilometer-long collider in their backyards. When it comes to building large-scale physics projects, almost every laboratory has a story to tell. Three case studies from Japan, Germany and the US will be presented to examine how community relations are handled in different parts of the world. How do particle physics laboratories interact with their local communities? How do neighbors react to building large-scale projects in each region? How can the lessons learned from past experiences help in building the next big project? These and other questions will be discussed to engage the audience in an active dialogue about how a large-scale project like the ILC can be a good neighbor.

  17. The role of neighboring infected cattle in bovine leukemia virus transmission risk

    PubMed Central

    KOBAYASHI, Sota; TSUTSUI, Toshiyuki; YAMAMOTO, Takehisa; HAYAMA, Yoko; MUROGA, Norihiko; KONISHI, Misako; KAMEYAMA, Ken-ichiro; MURAKAMI, Kenji

    2015-01-01

    A cohort study was conducted to evaluate the risk of bovine leukemia virus (BLV) transmission to uninfected cattle by adjacent infected cattle in 6 dairy farms. Animals were initially tested in 2010–2011 using a commercial ELISA kit. Uninfected cattle were repeatedly tested every 4 to 6 months until fall of 2012. The Cox proportional hazard model with frailty showed that uninfected cattle neighboring to infected cattle (n=53) had a significant higher risk of seroconversion than those without any infected neighbors (n=81) (hazard ratio: 12.4, P=0.001), implying that neighboring infected cattle were a significant risk factor for BLV transmission. This finding provides scientific support for animal health authorities and farmers to segregate infected cattle on farms to prevent spread of BLV. PMID:25754652

  18. Do the major axes of rich clusters of galaxies point toward their neighbors?

    NASA Technical Reports Server (NTRS)

    Ulmer, M. P.; Mcmillan, S. L. W.; Kowalski, M. P.

    1989-01-01

    The major axis orientation of rich clusters of galaxies, determined from an analysis of X-ray images, is used to investigate whether these clusters point toward their nearest neighbors. No statistical significance is found for a pointing effect between clusters and their nearest neighbors in either X-ray, optical, or combined X-ray and optical samples. Using updated redshifts and permitting nonstatistical sample Abell clusters as nearest neighbors does not affect this conclusion. The lack of statistical significance for a pointing effect favors hierarchical models in which galaxies form first, followed by clusters and then superclusters. For clusters with well-defined X-ray orientations, it is found that cluster position angles determined from X-ray and optical data are in general agreement.

  19. Sibling, peer, neighbor, and schoolmate correlations as indicators of the importance of context for adolescent development.

    PubMed

    Duncan, G J; Boisjoly, J; Harris, K M

    2001-08-01

    We use nationally representative data to calculate correlations in achievement and delinquency between genetically differentiated siblings within a family, between peers as defined by adolescents' "best friend" nominations, between schoolmates living in the same neighborhood, and between grademates within a school. We find the largest correlations between siblings, especially identical twins. Grademate and neighbor correlations are small. Peer-based correlations are considerably larger than grademate and neighbor correlations but not larger than most sibling correlations. The data suggest that family-based factors are several times more powerful than neighborhood and school contexts in affecting adolescents' achievement and behavior. PMID:11523270

  20. Long-term effect of September 11 on the political behavior of victims’ families and neighbors

    PubMed Central

    Hersh, Eitan D.

    2013-01-01

    This article investigates the long-term effect of September 11, 2001 on the political behaviors of victims’ families and neighbors. Relative to comparable individuals, family members and residential neighbors of victims have become—and have stayed—significantly more active in politics in the last 12 years, and they have become more Republican on account of the terrorist attacks. The method used to demonstrate these findings leverages the random nature of the terrorist attack to estimate a causal effect and exploits new techniques to link multiple, individual-level, governmental databases to measure behavioral change without relying on surveys or aggregate analysis. PMID:24324145

  1. Efficient neighbor list calculation for molecular simulation of colloidal systems using graphics processing units

    NASA Astrophysics Data System (ADS)

    Howard, Michael P.; Anderson, Joshua A.; Nikoubashman, Arash; Glotzer, Sharon C.; Panagiotopoulos, Athanassios Z.

    2016-06-01

    We present an algorithm based on linear bounding volume hierarchies (LBVHs) for computing neighbor (Verlet) lists using graphics processing units (GPUs) for colloidal systems characterized by large size disparities. We compare this to a GPU implementation of the current state-of-the-art CPU algorithm based on stenciled cell lists. We report benchmarks for both neighbor list algorithms in a Lennard-Jones binary mixture with synthetic interaction range disparity and a realistic colloid solution. LBVHs outperformed the stenciled cell lists for systems with moderate or large size disparity and dilute or semidilute fractions of large particles, conditions typical of colloidal systems.

  2. Distribution of glutamine and asparagine residues and their near neighbors in peptides and proteins.

    PubMed Central

    Robinson, A B; Robinson, L R

    1991-01-01

    In a statistical study of neighboring residues in 1465 peptides and proteins comprising 450,431 residues, it was found that the preferences for residues neighboring to glutamine and asparagine residues are consistent with the hypothesis that the rates of deamidation of these residues are of biological significance. Some dipeptide and tripeptide structures have special usefulness and some are especially undesirable. More such structures exist for amide residues than for other residues, and their specific types are those most relevant to the deamidation of amide residues under biological conditions. PMID:1924347

  3. More neighbors

    NASA Astrophysics Data System (ADS)

    Just 3 months after the discovery of a planet around the star 51 Pegasus, Geoffrey Marcy and Paul Butler of San Francisco State University and UC Berkeley announced that they have found two Jupiter-sized planets orbiting stars just 35 light years from Earth. Studying the stars 70 Virginis (in the constellation Virgo) and 47 Ursae Majoris (in the Big Dipper and Ursa Major), Marcy and Butler detected a tell-tale wobble in the motion of each star. Essentially, the researchers observed slight modulations in the light coming from the star, which are attributed to the gravitational tugs between planets and stars.The planet around 70 Virginis is believed to have a mass nine times that of Jupiter, an orbital period of 116 days at 0.43 AU from the star, and a temperature of roughly 85°C.

  4. Effect of further-neighbor interactions on the magnetization behaviors of the Ising model on a triangular lattice

    NASA Astrophysics Data System (ADS)

    Chen, J.; Zhuo, W. Z.; Qin, M. H.; Dong, S.; Zeng, M.; Lu, X. B.; Gao, X. S.; Liu, J.-M.

    2016-09-01

    In this work, we study the magnetization behaviors of the classical Ising model on the triangular lattice using Monte Carlo simulations, and pay particular attention to the effect of further-neighbor interactions. Several fascinating spin states are identified to be stabilized in certain magnetic field regions, respectively, resulting in the magnetization plateaus at 2/3, 5/7, 7/9 and 5/6 of the saturation magnetization M S, in addition to the well-known plateaus at 0, 1/3 and 1/2 of M S. The stabilization of these interesting orders can be understood as the consequence of the competition between Zeeman energy and exchange energy.

  5. Effect of further-neighbor interactions on the magnetization behaviors of the Ising model on a triangular lattice.

    PubMed

    Chen, J; Zhuo, W Z; Qin, M H; Dong, S; Zeng, M; Lu, X B; Gao, X S; Liu, J-M

    2016-09-01

    In this work, we study the magnetization behaviors of the classical Ising model on the triangular lattice using Monte Carlo simulations, and pay particular attention to the effect of further-neighbor interactions. Several fascinating spin states are identified to be stabilized in certain magnetic field regions, respectively, resulting in the magnetization plateaus at 2/3, 5/7, 7/9 and 5/6 of the saturation magnetization M S, in addition to the well-known plateaus at 0, 1/3 and 1/2 of M S. The stabilization of these interesting orders can be understood as the consequence of the competition between Zeeman energy and exchange energy. PMID:27356040

  6. A Novel Hybrid Classification Model of Genetic Algorithms, Modified k-Nearest Neighbor and Developed Backpropagation Neural Network

    PubMed Central

    Salari, Nader; Shohaimi, Shamarina; Najafi, Farid; Nallappan, Meenakshii; Karishnarajah, Isthrinayagy

    2014-01-01

    Among numerous artificial intelligence approaches, k-Nearest Neighbor algorithms, genetic algorithms, and artificial neural networks are considered as the most common and effective methods in classification problems in numerous studies. In the present study, the results of the implementation of a novel hybrid feature selection-classification model using the above mentioned methods are presented. The purpose is benefitting from the synergies obtained from combining these technologies for the development of classification models. Such a combination creates an opportunity to invest in the strength of each algorithm, and is an approach to make up for their deficiencies. To develop proposed model, with the aim of obtaining the best array of features, first, feature ranking techniques such as the Fisher's discriminant ratio and class separability criteria were used to prioritize features. Second, the obtained results that included arrays of the top-ranked features were used as the initial population of a genetic algorithm to produce optimum arrays of features. Third, using a modified k-Nearest Neighbor method as well as an improved method of backpropagation neural networks, the classification process was advanced based on optimum arrays of the features selected by genetic algorithms. The performance of the proposed model was compared with thirteen well-known classification models based on seven datasets. Furthermore, the statistical analysis was performed using the Friedman test followed by post-hoc tests. The experimental findings indicated that the novel proposed hybrid model resulted in significantly better classification performance compared with all 13 classification methods. Finally, the performance results of the proposed model was benchmarked against the best ones reported as the state-of-the-art classifiers in terms of classification accuracy for the same data sets. The substantial findings of the comprehensive comparative study revealed that performance of the

  7. A novel hybrid classification model of genetic algorithms, modified k-Nearest Neighbor and developed backpropagation neural network.

    PubMed

    Salari, Nader; Shohaimi, Shamarina; Najafi, Farid; Nallappan, Meenakshii; Karishnarajah, Isthrinayagy

    2014-01-01

    Among numerous artificial intelligence approaches, k-Nearest Neighbor algorithms, genetic algorithms, and artificial neural networks are considered as the most common and effective methods in classification problems in numerous studies. In the present study, the results of the implementation of a novel hybrid feature selection-classification model using the above mentioned methods are presented. The purpose is benefitting from the synergies obtained from combining these technologies for the development of classification models. Such a combination creates an opportunity to invest in the strength of each algorithm, and is an approach to make up for their deficiencies. To develop proposed model, with the aim of obtaining the best array of features, first, feature ranking techniques such as the Fisher's discriminant ratio and class separability criteria were used to prioritize features. Second, the obtained results that included arrays of the top-ranked features were used as the initial population of a genetic algorithm to produce optimum arrays of features. Third, using a modified k-Nearest Neighbor method as well as an improved method of backpropagation neural networks, the classification process was advanced based on optimum arrays of the features selected by genetic algorithms. The performance of the proposed model was compared with thirteen well-known classification models based on seven datasets. Furthermore, the statistical analysis was performed using the Friedman test followed by post-hoc tests. The experimental findings indicated that the novel proposed hybrid model resulted in significantly better classification performance compared with all 13 classification methods. Finally, the performance results of the proposed model was benchmarked against the best ones reported as the state-of-the-art classifiers in terms of classification accuracy for the same data sets. The substantial findings of the comprehensive comparative study revealed that performance of the

  8. GPR measurements and estimation for road subgrade damage caused by neighboring train vibration load

    NASA Astrophysics Data System (ADS)

    Zhao, Yonghui; Lu, Gang; Ge, Shuangcheng

    2015-04-01

    Generally, road can be simplified as a three-layer structure, including subgrade, subbase and pavement. Subgrade is the native material underneath a constructed road. It is commonly compacted before the road construction, and sometimes stabilized by the addition of asphalt, lime or other modifiers. As the mainly supporting structure, subgrade damage would lead in pavement settlement, displacement and crack. Assessment and monitoring of the subgrade condition currently involves trial pitting and subgrade sampling. However there is a practical limit on spatial density at which trail pits and cores can be taken. Ground penetrating radar (GPR) has been widely used to characterize highway pavement profiling, concrete structure inspection and railroad track ballast estimation. GPR can improve the economics of road maintenance. Long-term train vibration load might seriously influence the stability of the subgrade of neighboring road. Pavement settlement and obvious cracks have been found at a municipal road cross-under a railway with culvert box method. GPR test was conducted to estimate the subgrade and soil within 2.0 m depth for the further road maintenance. Two survey lines were designed in each lane, and total 12 GPR sections have been implemented. Considering both the penetrating range and the resolution, a antenna with a 500 MHz central frequency was chosen for on-site GPR data collection. For data acquisition, we used the default operating environment and scanning parameters for the RAMAC system: 60kHz transmission rate, 50 ns time window, 1024 samples per scan and 0.1 m step-size. Continuous operation was used; the antenna was placed on the road surface and slowly moved along the road. The strong surrounding disturbance related to railroad and attachments, might decrease the reliability of interpretation results. Some routine process methods (including the background removing, filtering) have been applied to suppress the background noise. Additionally, attribute

  9. Predicting Change for Individual Psychotherapy Clients on the Basis of their Nearest Neighbors

    ERIC Educational Resources Information Center

    Lutz, Wolfgang; Leach, Chris; Barkham, Michael; Lucock, Mike; Stiles, William B.; Evans, Chris; Noble, Rachael; Iveson, Steve

    2005-01-01

    This study extended client-focused research by using the nearest neighbor (NN) approach, a client-specific sampling and prediction strategy derived from research on alpine avalanches. Psychotherapy clients (N = 203) seen in routine practice settings in the United Kingdom completed a battery of intake measures and then completed symptom intensity…

  10. The neural basis of inhibitory effects of semantic and phonological neighbors in spoken word production

    PubMed Central

    Mirman, Daniel; Graziano, Kristen M.

    2014-01-01

    Theories of word production and word recognition generally agree that multiple word candidates are activated during processing. The facilitative and inhibitory effects of these “lexical neighbors” have been studied extensively using behavioral methods and have spurred theoretical development in psycholinguistics, but relatively little is known about the neural basis of these effects and how lesions may affect them. The present study used voxel-wise lesion overlap subtraction to examine semantic and phonological neighbor effects in spoken word production following left hemisphere stroke. Increased inhibitory effects of near semantic neighbors were associated with inferior frontal lobe lesions, suggesting impaired selection among strongly activated semantically-related candidates. Increased inhibitory effects of phonological neighbors were associated with posterior superior temporal and inferior parietal lobe lesions. In combination with previous studies, these results suggest that such lesions cause phonological-to-lexical feedback to more strongly activate phonologically-related lexical candidates. The comparison of semantic and phonological neighbor effects and how they are affected by left hemisphere lesions provides new insights into the cognitive dynamics and neural basis of phonological, semantic, and cognitive control processes in spoken word production. PMID:23647518

  11. Text Categorization Based on K-Nearest Neighbor Approach for Web Site Classification.

    ERIC Educational Resources Information Center

    Kwon, Oh-Woog; Lee, Jong-Hyeok

    2003-01-01

    Discusses text categorization and Web site classification and proposes a three-step classification system that includes the use of Web pages linked with the home page. Highlights include the k-nearest neighbor (k-NN) approach; improving performance with a feature selection method and a term weighting scheme using HTML tags; and similarity…

  12. Stuttering Attitudes among Turkish Family Generations and Neighbors from Representative Samples

    ERIC Educational Resources Information Center

    Ozdemir, R. Sertan; St. Louis, Kenneth O.; Topbas, Seyhun

    2011-01-01

    Purpose: Attitudes toward stuttering, measured by the "Public Opinion Survey of Human Attributes-Stuttering" ("POSHA-S"), are compared among (a) two different representative samples; (b) family generations (children, parents, and either grandparents or uncles and aunts) and neighbors; (c) children, parents, grandparents/adult relatives, and…

  13. Response of Ivyleaf Morningglory [(Ipomoea hederacea (L.) Jacq.] to Neighboring Plants and Objects

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Field observations of morningglory (Ipomoea spp.) noted that many plants grew out of places of comparable competitive advantage (alleys in field experiments with little or no vegetation) onto neighboring plants or structures that allowed a climbing habitat. A total of 223 morningglory plants growin...

  14. Testing for Lexical Competition during Reading: Fast Priming with Orthographic Neighbors

    ERIC Educational Resources Information Center

    Nakayama, Mariko; Sears, Christopher R.; Lupker, Stephen J.

    2010-01-01

    Recent studies have found that masked word primes that are orthographic neighbors of the target inhibit lexical decision latencies (Davis & Lupker, 2006; Nakayama, Sears, & Lupker, 2008), consistent with the predictions of lexical competition models of visual word identification (e.g., Grainger & Jacobs, 1996). In contrast, using the fast priming…

  15. Word Misperception, the Neighbor Frequency Effect, and the Role of Sentence Context: Evidence from Eye Movements

    ERIC Educational Resources Information Center

    Slattery, Timothy J.

    2009-01-01

    An eye movement experiment was conducted to investigate whether the processing of a word can be affected by its higher frequency neighbor (HFN). Target words with an HFN (birch) or without one (spruce) were embedded into 2 types of sentence frames: 1 in which the HFN (birth) could fit given the prior sentence context, and 1 in which it could not.…

  16. Sense of community, neighboring, and social capital as predictors of local political participation in China.

    PubMed

    Xu, Qingwen; Perkins, Douglas D; Chow, Julian Chun-Chung

    2010-06-01

    This study examines the state of sense of community, neighboring behavior, and social capital in the People's Republic of China, and explores their ability to predict local political participation, in the form of voting in elections for Urban Resident/Rural Villager Committees. Using a nationally representative survey, rural, older and married residents and those with a primary or high school education and higher perceived socio-economic status are more likely to participate. In rural areas, men are more likely than women to vote. For urban residents, knowing one's neighbors is more important whereas in rural areas, neighboring behavior is more important, but both predict voting. Social capital does not generally predict Chinese people's local political participation. Western definitions of social capital derived from theories about networking, bonding and bridging ties may be too culturally individualistic for China, whose collectivist society and agrarian kinship networks predate Communism. Simply knowing and helping one's neighbors, rather than more abstract notions of trust, reciprocity or membership, may lead to the development of local democracy. PMID:20229225

  17. NEAR: A Neighbor-Cooperation-Based Off-Duty Eligibility Acquisition Rule for Wireless Sensor Nodes

    NASA Astrophysics Data System (ADS)

    Pu, Juhua; Chen, Jia; Tang, Xiaolan; Han, Zhicheng

    This paper presents an efficient algorithm, NEAR, that allows sensor nodes to acquire their off-duty eligibility. Any node only needs to calculate the coverage degrees of the intersections on its sensing boundary, and cooperates with its neighbors to know if it is redundant or not. The computing complexity of NEAR is only O(nlogn).

  18. Lexical Precision in Skilled Readers: Individual Differences in Masked Neighbor Priming

    ERIC Educational Resources Information Center

    Andrews, Sally; Hersch, Jolyn

    2010-01-01

    Two experiments investigated the relationship between masked form priming and individual differences in reading and spelling proficiency among university students. Experiment 1 assessed neighbor priming for 4-letter word targets from high- and low-density neighborhoods in 97 university students. The overall results replicated previous evidence of…

  19. Forming and Using Peer Groups Based on Nearest Neighbors with IPEDS Data

    ERIC Educational Resources Information Center

    McLaughlin, Gerald; Howard, Richard; McLaughlin, Josetta

    2011-01-01

    Institutional performance benchmarking requires identifying a set of reference or comparator institutions. This paper describes a method by which an institution can identify other institutions that are most similar to itself using a methodology that identifies the nearest institutional neighbors based on a balanced set of metrics accessed from…

  20. Adult and Child Semantic Neighbors of the Kroll and Potter (1984) Nonobjects

    ERIC Educational Resources Information Center

    Storkel, Holly L.; Adlof, Suzanne M.

    2009-01-01

    Purpose: The purpose was to determine the number of semantic neighbors, namely, "semantic set size," for 88 nonobjects (J. F. Kroll & M. C. Potter, 1984) and determine how semantic set size related to other measures and age. Method: Data were collected from 82 adults and 92 preschool children in a discrete association task. The nonobjects were…

  1. Perspectives on Family, Friend and Neighbor Child Care: Research, Programs and Policy. Occasional Paper Series 15

    ERIC Educational Resources Information Center

    Rice, Rena, Ed.

    2005-01-01

    Family, friend and neighbor care has frequently been characterized in the media, and even in the early care and education field, as "substandard, unregulated care," a "fall-back" position when parents can not find or afford a regulated setting. However, up until quite recently, there was virtually no research to support any claims about this type…

  2. Neighboring States See Economic Value in Early Childhood Education. Research Brief. Volume 97, Number 1

    ERIC Educational Resources Information Center

    Public Policy Forum, 2009

    2009-01-01

    As the push for economic stimulus has states contemplating economic development in new and different ways, Wisconsin may find it helpful to note the unconventional efforts of its neighbors. who have positioned themselves to reap potential long-term economic benefits from high quality early childhood care and education. Business leaders in…

  3. Integration and Analysis of Neighbor Discovery and Link Quality Estimation in Wireless Sensor Networks

    PubMed Central

    Radi, Marjan; Dezfouli, Behnam; Abu Bakar, Kamalrulnizam; Abd Razak, Shukor

    2014-01-01

    Network connectivity and link quality information are the fundamental requirements of wireless sensor network protocols to perform their desired functionality. Most of the existing discovery protocols have only focused on the neighbor discovery problem, while a few number of them provide an integrated neighbor search and link estimation. As these protocols require a careful parameter adjustment before network deployment, they cannot provide scalable and accurate network initialization in large-scale dense wireless sensor networks with random topology. Furthermore, performance of these protocols has not entirely been evaluated yet. In this paper, we perform a comprehensive simulation study on the efficiency of employing adaptive protocols compared to the existing nonadaptive protocols for initializing sensor networks with random topology. In this regard, we propose adaptive network initialization protocols which integrate the initial neighbor discovery with link quality estimation process to initialize large-scale dense wireless sensor networks without requiring any parameter adjustment before network deployment. To the best of our knowledge, this work is the first attempt to provide a detailed simulation study on the performance of integrated neighbor discovery and link quality estimation protocols for initializing sensor networks. This study can help system designers to determine the most appropriate approach for different applications. PMID:24678277

  4. Mi Vecina es una Mujer Colpeada (My Neighbor Is a Battered Woman).

    ERIC Educational Resources Information Center

    Howard, Melissa

    This book, the Spanish version of "My Neighbor is a Battered Woman," is intended as a general introduction to the problems of battered women. The format for part 1 consists of the presentation of facts about wife beating, i.e., who are victims, characteristics of batterers, the environment in which family violence exists, and services for battered…

  5. Salt tolerance and stress level affect plant biomass-density relationships and neighbor effects

    NASA Astrophysics Data System (ADS)

    Yu, Zhenxing; Chen, Wenwen; Zhang, Qian; Yang, Haishui; Tang, Jianjun; Weiner, Jacob; Chen, Xin

    2014-07-01

    It has been shown that plant biomass-density relationships are altered under extreme or stressed conditions. We do not know whether variation in biomass-density relationships is a direct result of stress tolerance or occurs via changes in plant-plant interactions. Here, we evaluated biomass-density relationships and neighbor effects in six plant species that differ in salt tolerance in a salt marsh, and conducted a literature review of biomass-density relationship under higher and lower stress levels. Our field study showed that both neighbor effects and the exponent of the biomass-density relationship (α) varied among plant species with different degrees of salt tolerance. There was a positive relationship between neighbor effects (measured as relative interaction index) and α-value among the tested species. The literature review showed that α and its variation increased under higher stress. Our results indicate that plant species with different salinity tolerance differ in the direction and strength of neighbor effects, resulting in variation in biomass-density relationships. Our results support the hypothesis that differences in biomass-density relationships among species are not due to differences in stress tolerance alone, they are mediated by changes in plant-plant interactions.

  6. Does weeping lovegrass maintain its crude protein content at the expense of its neighbors?

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Data would suggest that weeping lovegrass [Eragrostis curvula (Schrad.) Nees] does maintain its crude protein (CP) content at a steady state at the expense of its surrounding neighbors. While studying the combining ability effects of binary mixtures of cool- and warm-season grasses and legumes it w...

  7. Loving All Your Neighbors: Why Community Colleges Need the Academic Study of Religion

    ERIC Educational Resources Information Center

    Maley, Melissa

    2013-01-01

    This chapter explains how the study of world religions prepares the community college student to become a better citizen, worker, and neighbor. The effective middle between the pitfalls of religious relativism and religious dominance in a world religions classroom is central to this discussion of teaching critical thinking, empathy, and…

  8. Knowledge base interpolation of path-dependent data using irregularly spaced natural neighbors

    SciTech Connect

    Hipp, J.; Keyser, R.; Young, C.; Shepard-Dombroski, E.; Chael, E.

    1996-08-01

    This paper summarizes the requirements for the interpolation scheme needed for the CTBT Knowledge Base and discusses interpolation issues relative to the requirements. Based on these requirements, a methodology for providing an accurate and robust interpolation scheme for the CTBT Knowledge Base is proposed. The method utilizes a Delaunay triangle tessellation to mesh the Earth`s surface and employs the natural-neighbor interpolation technique to provide accurate evaluation of geophysical data that is important for CTBT verification. The natural-neighbor interpolation method is a local weighted average technique capable of modeling sparse irregular data sets as is commonly found in the geophysical sciences. This is particularly true of the data to be contained in the CTBT Knowledge Base. Furthermore, natural neighbor interpolation is first order continuous everywhere except at the data points. The non-linear form of the natural-neighbor interpolation method can provide continuous first and second order derivatives throughout the entire data domain. Since one of the primary support functions of the Knowledge Base is to provide event location capabilities, and the seismic event location algorithms typically require first and second order continuity, this is a prime requirement of any interpolation methodology chosen for use by the CTBT Knowledge Base.

  9. Collaborating with Neighbors. Tierra de Oportunidad Module 19. LAES: Latino Adult Education Services Project.

    ERIC Educational Resources Information Center

    Kissam, Ed; Dorsey, Holda

    This module, which may be used as the basis for a workshop or as a special topic unit in adult basic education or English-as-a-Second-Language (ESL) courses, discusses how to become involved in the communities and advocate with neighbors for needs. Topics covered include the following: researching and analyzing information; preparing a survey…

  10. Impact of Training Bolivian Farmers on Integrated Pest Management and Diffusion of Knowledge to Neighboring Farmers.

    PubMed

    Jørs, Erik; Konradsen, Flemming; Huici, Omar; Morant, Rafael C; Volk, Julie; Lander, Flemming

    2016-01-01

    Teaching farmers integrated pest management (IPM) in farmer field schools (FFS) has led to reduced pesticide use and safer handling. This article evaluates the long-term impact of training farmers on IPM and the diffusion of knowledge from trained farmers to neighboring farmers, a subject of importance to justify training costs and to promote a healthy and sustainable agriculture. Training on IPM of farmers took place from 2002 to 2004 in their villages in La Paz County, Bolivia, whereas dissemination of knowledge from trained farmer to neighboring farmer took place until 2009. To evaluate the impact of the intervention, self-reported knowledge and practice on pesticide handling and IPM among trained farmers (n = 23) and their neighboring farmers (n = 47) were analyzed in a follow-up study and compared in a cross-sectional analysis with a control group of farmers (n = 138) introduced in 2009. Variables were analyzed using χ(2) test and analysis of variance (ANOVA). Trained farmers improved and performed significantly better in all tested variables than their neighboring farmers, although the latter also improved their performance from 2002 to 2009. Including a control group showed an increasing trend in all variables, with the control farmers having the poorest performance and trained farmers the best. The same was seen in an aggregated variable where trained farmers had a mean score of 16.55 (95% confidence interval [CI]: 15.45-17.65), neighboring farmers a mean score of 11.97 (95% CI: 10.56-13.38), and control farmers a mean score of 9.18 (95% CI: 8.55-9.80). Controlling for age and living altitude did not change these results. Trained farmers and their neighboring farmers improved and maintained knowledge and practice on IPM and pesticide handling. Diffusion of knowledge from trained farmers might explain the better performance of the neighboring farmers compared with the control farmers. Dissemination of knowledge can contribute to justify the cost and

  11. Simple cubic random-site percolation thresholds for neighborhoods containing fourth-nearest neighbors.

    PubMed

    Malarz, Krzysztof

    2015-04-01

    In this paper, random-site percolation thresholds for a simple cubic (SC) lattice with site neighborhoods containing next-next-next-nearest neighbors (4NN) are evaluated with Monte Carlo simulations. A recently proposed algorithm with low sampling for percolation thresholds estimation (Bastas et al., arXiv:1411.5834) is implemented for the studies of the top-bottom wrapping probability. The obtained percolation thresholds are p(C)(4NN)=0.31160(12),p(C)(4NN+NN)=0.15040(12),p(C)(4NN+2NN)=0.15950(12),p(C)(4NN+3NN)=0.20490(12),p(C)(4NN+2NN+NN)=0.11440(12),p(C)(4NN+3NN+NN)=0.11920(12),p(C)(4NN+3NN+2NN)=0.11330(12), and p(C)(4NN+3NN+2NN+NN)=0.10000(12), where 3NN, 2NN, and NN stand for next-next-nearest neighbors, next-nearest neighbors, and nearest neighbors, respectively. As an SC lattice with 4NN neighbors may be mapped onto two independent interpenetrated SC lattices but with a lattice constant that is twice as large, the percolation threshold p(C)(4NN) is exactly equal to p(C)(NN). The simplified method of Bastas et al. allows for uncertainty of the percolation threshold value p(C) to be reached, similar to that obtained with the classical method but ten times faster. PMID:25974606

  12. Nearest Neighbor Interactions Affect the Conformational Distribution in the Unfolded State of Peptides

    NASA Astrophysics Data System (ADS)

    Toal, Siobhan; Schweitzer-Stenner, Reinhard; Rybka, Karin; Schwalbe, Hardol

    2013-03-01

    In order to enable structural predictions of intrinsically disordered proteins (IDPs) the intrinsic conformational propensities of amino acids must be complimented by information on nearest-neighbor interactions. To explore the influence of nearest-neighbors on conformational distributions, we preformed a joint vibrational (Infrared, Vibrational Circular Dichroism (VCD), polarized Raman) and 2D-NMR study of selected GxyG host-guest peptides: GDyG, GSyG, GxLG, GxVG, where x/y ={A,K,LV}. D and S (L and V) were chosen at the x (y) position due to their observance to drastically change the distribution of alanine in xAy tripeptide sequences in truncated coil libraries. The conformationally sensitive amide' profiles of the respective spectra were analyzed in terms of a statistical ensemble described as a superposition of 2D-Gaussian functions in Ramachandran space representing sub-ensembles of pPII-, β-strand-, helical-, and turn-like conformations. Our analysis and simulation of the amide I' band profiles exploits excitonic coupling between the local amide I' vibrational modes in the tetra-peptides. The resulting distributions reveal that D and S, which themselves have high propensities for turn-structures, strongly affect the conformational distribution of their downstream neighbor. Taken together, our results indicate that Dx and Sx motifs might act as conformational randomizers in proteins, attenuating intrinsic propensities of neighboring residues. Overall, our results show that nearest neighbor interactions contribute significantly to the Gibbs energy landscape of disordered peptides and proteins.

  13. Examining the impact of urban biophysical composition and neighboring environment on surface urban heat island effect

    NASA Astrophysics Data System (ADS)

    Song, Yang; Wu, Changshan

    2016-01-01

    Due to atmospheric and surface modifications associated with urbanization, surface urban heat island (SUHI) effects have been considered essential in examining urban ecological environments. With remote sensing technologies, numerous land cover type related variables, including spectral indices and land cover fractions, have been applied to estimate land surface temperature (LST), thereby further examining SUHI. This study begins with the reexamination of the commonly used indicators of LST using Landsat Enhanced Thematic Mapper Plus (ETM+) and Landsat Thematic Mapper (TM) images which cover four counties of Wisconsin, United States. Origin of the large variation of LST found in urban areas is then investigated by discriminating soil and impervious surfaces. Except land cover types, neighboring environment is another key factor which may affect LST in urban areas. Thus, a neighboring effect considered method is proposed at the end of the study to better understand the relationship between impervious surfaces fraction (%ISA) and LST by taking the influence of neighboring environment into account. Results indicate that spectral indices have better performance in predicting LST than land cover fractions do within the study area. However, the result remains arguable due to the complexity and uncertainty of spectral mixture analysis. Impervious surfaces are found responsible for the large variation of LST in urban areas, which indicates that impervious surfaces should not be simply considered as a single land cover type has stable negative correlation with LST. Moreover, a better relationship is found between %ISA and LST when neighboring effect is considered, when compared to the traditional method which ignores the neighboring effect.

  14. Nitrate dual isotopic composition in the northern South China Sea and neighboring West Philippine Sea

    NASA Astrophysics Data System (ADS)

    Yang, J.; Xu, M.; Wu, Y.; Dai, M.; Kao, S.

    2013-12-01

    Nitrate nitrogen and oxygen isotopic compositions (δ15NNO3 and δ18ONO3) were used to diagnose nitrate dynamics and the origins of water masses in the northern South China Sea (SCS) and West Philippine Sea (WPS) where water exchanges via the Luzon Strait at different depths. In the SCS, 1-3‰ greater upward increase in δ18ONO3 relative to corresponding δ15NNO3 was just observed in the lower euphotic zone (EZ), indicating a rapid internal cycle of nitrate assimilation and remineralization. Much lower nitrate concentration in the EZ of WPS does not allow us to measure its dual isotopes. From 500 m deep to the base of EZ in the WPS, non-proportional decreases in δ15NNO3 (from 6.4‰ to 2.1-2.6‰) and δ18ONO3 (from 3.0‰ to 1.1‰) accompanying with elevated N:P ratio anomalies (N* from -1.2 μM up to 2 μM), suggest the accumulation of atmospheric-derived N (e.g. N2 fixation and/or N deposition). This allochthonous N signal cumulated in the subsurface of WPS may regulate the δ15NNO3 in the SCS subsurface due to seasonal Kuroshio intrusion, which could supply isotopically light nitrate as newly fixed N source to the SCS. The higher (~0.5‰) δ15NNO3 and δ18ONO3 values, associated with lower N* were detected in the WPS intermediate water (WPS-IW, σθ = 26.5~27.1 kg m-3) around depth of 600-800 m (especially at a southern site) when compared to those of the conventional water source coming from North Pacific Intermediate Water (NPIW). By combining nitrate concentration, N* and δ15NNO3 as constraints, we propose that an additional southerly source other than NPIW may feed into the WPS-IW. On the other hand, the SCS intermediate water (SCS-IW, ~400-700 m), which supposedly sourced from WPS-IW along similar isopycnal levels, showed ~1‰ lower δ15NNO3 and δ18ONO3 values. This reduction in nitrate duel isotopes indicates intense diapycnal mixing primarily due to basin-wide upwelling in the SCS interior. This is the first hand data in the SCS for deep profiles

  15. Population attribute compression

    DOEpatents

    White, James M.; Faber, Vance; Saltzman, Jeffrey S.

    1995-01-01

    An image population having a large number of attributes is processed to form a display population with a predetermined smaller number of attributes that represent the larger number of attributes. In a particular application, the color values in an image are compressed for storage in a discrete look-up table (LUT). Color space containing the LUT color values is successively subdivided into smaller volumes until a plurality of volumes are formed, each having no more than a preselected maximum number of color values. Image pixel color values can then be rapidly placed in a volume with only a relatively few LUT values from which a nearest neighbor is selected. Image color values are assigned 8 bit pointers to their closest LUT value whereby data processing requires only the 8 bit pointer value to provide 24 bit color values from the LUT.

  16. On the consistency between nearest-neighbor peridynamic discretizations and discretized classical elasticity models

    DOE PAGESBeta

    Seleson, Pablo; Du, Qiang; Parks, Michael L.

    2016-08-16

    The peridynamic theory of solid mechanics is a nonlocal reformulation of the classical continuum mechanics theory. At the continuum level, it has been demonstrated that classical (local) elasticity is a special case of peridynamics. Such a connection between these theories has not been extensively explored at the discrete level. This paper investigates the consistency between nearest-neighbor discretizations of linear elastic peridynamic models and finite difference discretizations of the Navier–Cauchy equation of classical elasticity. While nearest-neighbor discretizations in peridynamics have been numerically observed to present grid-dependent crack paths or spurious microcracks, this paper focuses on a different, analytical aspect of suchmore » discretizations. We demonstrate that, even in the absence of cracks, such discretizations may be problematic unless a proper selection of weights is used. Specifically, we demonstrate that using the standard meshfree approach in peridynamics, nearest-neighbor discretizations do not reduce, in general, to discretizations of corresponding classical models. We study nodal-based quadratures for the discretization of peridynamic models, and we derive quadrature weights that result in consistency between nearest-neighbor discretizations of peridynamic models and discretized classical models. The quadrature weights that lead to such consistency are, however, model-/discretization-dependent. We motivate the choice of those quadrature weights through a quadratic approximation of displacement fields. The stability of nearest-neighbor peridynamic schemes is demonstrated through a Fourier mode analysis. Finally, an approach based on a normalization of peridynamic constitutive constants at the discrete level is explored. This approach results in the desired consistency for one-dimensional models, but does not work in higher dimensions. The results of the work presented in this paper suggest that even though nearest-neighbor

  17. 78 FR 70957 - 60-Day Notice of Proposed Information Collection: HUD-Owned Real Estate Good Neighbor Next Door...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-11-27

    ... From the Federal Register Online via the Government Publishing Office DEPARTMENT OF HOUSING AND URBAN DEVELOPMENT 60-Day Notice of Proposed Information Collection: HUD-Owned Real Estate Good Neighbor... Information Collection: HUD Real Estate Owned Good Neighbor Next Door. OMB Approval Number: 2502-0570. Type...

  18. Measuring Quality in Family, Friend, and Neighbor Child Care: Conceptual and Practical Issues. Research-to-Policy Connections No. 6

    ERIC Educational Resources Information Center

    Maher, Erin J.

    2007-01-01

    The contribution of family, friend, and neighbor caregivers to the overall supply of child care and the care and education of our nation's youngest children is substantial. This brief explores, for policy and other audiences, some of the issues around measuring quality in family, friend, and neighbor care. The purpose is not to provide a…

  19. Neighborhood disorder, fear, and mistrust: the buffering role of social ties with neighbors.

    PubMed

    Ross, C E; Jang, S J

    2000-08-01

    This paper proposes that individuals who report that they live in neighborhoods characterized by disorder--by crime, vandalism, graffiti, danger, noise, dirt, and drugs--have high levels of fear and mistrust. It further proposes that an individual's alliances and connections with neighbors can buffer the negative effects of living in a neighborhood characterized by disorder on fear and mistrust. Results from a representative sample of 2482 Illinois residents collected by telephone in 1995 support the propositions. Living in a neighborhood with a lot of perceived disorder significantly affects mistrust and the fear of victimization, adjusting for sociodemographic characteristics. Perceived neighborhood disorder and social ties significantly interact: informal social ties with neighbors reduce the fear- and mistrust-producing effects of disorder. However, formal participation in neighborhood organizations shows little buffering effect. PMID:10965384

  20. Prediction of nucleic acid binding probability in proteins: a neighboring residue network based score.

    PubMed

    Miao, Zhichao; Westhof, Eric

    2015-06-23

    We describe a general binding score for predicting the nucleic acid binding probability in proteins. The score is directly derived from physicochemical and evolutionary features and integrates a residue neighboring network approach. Our process achieves stable and high accuracies on both DNA- and RNA-binding proteins and illustrates how the main driving forces for nucleic acid binding are common. Because of the effective integration of the synergetic effects of the network of neighboring residues and the fact that the prediction yields a hierarchical scoring on the protein surface, energy funnels for nucleic acid binding appear on protein surfaces, pointing to the dynamic process occurring in the binding of nucleic acids to proteins. PMID:25940624

  1. Nearest neighbor tight binding models with an exact mobility edge in one dimension.

    PubMed

    Ganeshan, Sriram; Pixley, J H; Das Sarma, S

    2015-04-10

    We investigate localization properties in a family of deterministic (i.e., no disorder) nearest neighbor tight binding models with quasiperiodic on site modulation. We prove that this family is self-dual under a generalized duality transformation. The self-dual condition for this general model turns out to be a simple closed form function of the model parameters and energy. We introduce the typical density of states as an order parameter for localization in quasiperiodic systems. By direct calculations of the inverse participation ratio and the typical density of states we numerically verify that this self-dual line indeed defines a mobility edge in energy separating localized and extended states. Our model is a first example of a nearest neighbor tight binding model manifesting a mobility edge protected by a duality symmetry. We propose a realistic experimental scheme to realize our results in atomic optical lattices and photonic waveguides. PMID:25910146

  2. Prediction of nucleic acid binding probability in proteins: a neighboring residue network based score

    PubMed Central

    Miao, Zhichao; Westhof, Eric

    2015-01-01

    We describe a general binding score for predicting the nucleic acid binding probability in proteins. The score is directly derived from physicochemical and evolutionary features and integrates a residue neighboring network approach. Our process achieves stable and high accuracies on both DNA- and RNA-binding proteins and illustrates how the main driving forces for nucleic acid binding are common. Because of the effective integration of the synergetic effects of the network of neighboring residues and the fact that the prediction yields a hierarchical scoring on the protein surface, energy funnels for nucleic acid binding appear on protein surfaces, pointing to the dynamic process occurring in the binding of nucleic acids to proteins. PMID:25940624

  3. Combining Nearest Neighbor Search with Tabu Search for Large-Scale Vehicle Routing Problem

    NASA Astrophysics Data System (ADS)

    Du, Lingling; He, Ruhan

    The vehicle routing problem is a classical problem in operations research, where the objective is to design least cost routes for a fleet of identical capacitated vehicles to service geographically scattered customers. In this paper, we present a new and effective hybrid metaheuristic algorithm for large-scale vehicle routing problem. The algorithm combines the strengths of the well-known Nearest Neighbor Search and Tabu Search into a two-stage procedure. More precisely, Nearest Neighbor Search is used to construct initial routes in the first stage and the Tabu Search is utilized to optimize the intra-route and the inter-route in the second stage. The presented algorithm is specifically designed for large-scale problems. The computational experiments were carried out on a standard benchmark and a real dataset with 6772 tobacco customers. The results demonstrate that the suggested method is highly competitive.

  4. Symmetric Z2 spin liquids and their neighboring phases on triangular lattice

    NASA Astrophysics Data System (ADS)

    Lu, Yuan-Ming

    2016-04-01

    Motivated by recent numerical discovery of a gapped spin liquid phase in spin-1 /2 triangular-lattice J1-J2 Heisenberg model, we classify symmetric Z2 spin liquids on triangular lattice in the Abrikosov-fermion representation. We find 20 phases with distinct spinon symmetry quantum numbers, eight of which have their counterparts in the Schwinger-boson representation. Among them we identify two promising candidates (#1 and #20), which can realize a gapped Z2 spin liquid with up to next nearest neighbor mean-field amplitudes. We analyze their neighboring magnetic orders and valence bond solid patterns, and find one state (#20) that is connected to 120-degree Neel order by a continuous quantum phase transition. We also identify gapped nematic Z2 spin liquids in the neighborhood of the symmetric states and find three promising candidates (#1, #6, and #20).

  5. A dynamic evolutionary clustering perspective: Community detection in signed networks by reconstructing neighbor sets

    NASA Astrophysics Data System (ADS)

    Chen, Jianrui; Wang, Hua; Wang, Lina; Liu, Weiwei

    2016-04-01

    Community detection in social networks has been intensively studied in recent years. In this paper, a novel similarity measurement is defined according to social balance theory for signed networks. Inter-community positive links are found and deleted due to their low similarity. The positive neighbor sets are reconstructed by this method. Then, differential equations are proposed to imitate the constantly changing states of nodes. Each node will update its state based on the difference between its state and average state of its positive neighbors. Nodes in the same community will evolve together with time and nodes in the different communities will evolve far away. Communities are detected ultimately when states of nodes are stable. Experiments on real world and synthetic networks are implemented to verify detection performance. The thorough comparisons demonstrate the presented method is more efficient than two acknowledged better algorithms.

  6. Acid Rain and Friendly Neighbors. The policy dispute between Canada and the United States

    SciTech Connect

    Schmandt, J.; Roderick, H.

    1986-01-01

    Acid Rain and Friendly Neighbors is a source book that summarizes the results of the various studies of acid rain and traces the issues historically. Contents: Part One: The Search for a Bilateral Agreement. Acid rain is different; The nature and effects of acid rain: a comparison of assessments; U.S.-Canadian negotiations on acid rain; Part Two: Domestic Policy Development. Canada's acid rain policy: federal and provincial roles; The U.S. policy response to acid rain; Environmental and economic interests in Canada and the United States; Part Three: Supportive Structures. The international joint commission: the role it might play; Lessons from the Great Lakes water quality agreements; Supporting structures for resolving environmental disputes among friendly neighbors.

  7. Collective coherence in nearest neighbor coupled metamaterials: A metasurface ruler equation

    SciTech Connect

    Xu, Ningning; Zhang, Weili; Singh, Ranjan

    2015-10-28

    The collective coherent interactions in a meta-atom lattice are the key to myriad applications and functionalities offered by metasurfaces. We demonstrate a collective coherent response of the nearest neighbor coupled split-ring resonators whose resonance shift decays exponentially in the strong near-field coupled regime. This occurs due to the dominant magnetic coupling between the nearest neighbors which leads to the decay of the electromagnetic near fields. Based on the size scaling behavior of the different periodicity metasurfaces, we identified a collective coherent metasurface ruler equation. From the coherent behavior, we also show that the near-field coupling in a metasurface lattice exists even when the periodicity exceeds the resonator size. The identification of a universal coherence in metasurfaces and their scaling behavior would enable the design of novel metadevices whose spectral tuning response based on near-field effects could be calibrated across microwave, terahertz, infrared, and the optical parts of the electromagnetic spectrum.

  8. Individual and community factors affecting psychological sense of community, attraction, and neighboring in rural communities.

    PubMed

    Wilkinson, Derek

    2008-08-01

    One thousand nine hundred ninety-five individuals in 20 rural Canadian communities were measured on perceived social cohesion by the three Buckner scale subdimensions: psychological sense of community (PSOC), attraction, and neighboring. Number of household children, income over $20,000, age, birthplace in, and years lived in the community significantly positively influenced PSOC and Attraction. Number of household children (positive for income over $20,000; otherwise negative), income over $40,000, birthplace, and years in the community significantly influenced neighboring. Increased interaction generally increases individuals' social cohesion. As the only significant community variable was being on an island province, individual-oriented policies are recommended to increase cohesion. PMID:19579352

  9. An inhibitory influence of transposed-letter neighbors on eye movements during reading.

    PubMed

    Pagán, Ascensión; Paterson, Kevin B; Blythe, Hazel I; Liversedge, Simon P

    2016-02-01

    Previous research has shown that prior exposure to a word's substitution neighbor earlier in the same sentence can disrupt processing of that word, indicating that interword lexical priming occurs naturally during reading, due to the competition between lexical candidates during word identification. Through the present research, we extended these findings by investigating the effects of prior exposure to a word's transposed-letter neighbor (TLN) earlier in a sentence. TLNs are constituted from the same letters, but in different orders. The findings revealed an inhibitory TLN effect, with longer total reading times for target words, and increased regressions to prime and target words, when the target followed a TLN rather than a control word. These findings indicate that prior exposure to a TLN can disrupt word identification during reading. We suggest that this is caused by a failure of word identification, due to the initial misidentification of the target word (potentially as its TLN) triggering postlexical checking. PMID:26032225

  10. 77 FR 51533 - Good Neighbor Environmental Board Notification of Public Advisory Committee Teleconference

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-08-24

    ...Pursuant to the Federal Advisory Committee Act, Public Law 92- 463, notice is hereby given that the Good Neighbor Environmental Board (GNEB) will hold a public teleconference on September 6, 2012 from 2 p.m. to 4:30 p.m. Eastern Standard Time. The meeting is open to the public. For further information regarding the teleconference and background materials, please contact Mark Joyce at the......

  11. Phase diagram of the three-dimensional axial next-nearest-neighbor Ising model

    NASA Astrophysics Data System (ADS)

    Gendiar, A.; Nishino, T.

    2005-01-01

    The three-dimensional axial next-nearest-neighbor Ising model is studied by a modified tensor product variational approach. A global phase diagram is constructed with numerous commensurate and incommensurate magnetic phases. The devil’s stairs behavior for the model is confirmed. The wavelength of the spin modulated phases increases to infinity at the boundary with the ferromagnetic phase. Widths of the commensurate phases are considerably narrower than those calculated by mean-field approximations.

  12. Nearest-neighbor-spacing distribution of prime numbers and quantum chaos

    NASA Astrophysics Data System (ADS)

    Wolf, Marek

    2014-02-01

    We give heuristic arguments and computer results to support the hypothesis that, after appropriate rescaling, the statistics of spacings between adjacent prime numbers follows the Poisson distribution. The scaling transformation removes the oscillations in the nearest-neighbor-spacing distribution of primes. These oscillations have the very profound period of length six. We also calculate the spectral rigidity Δ3 for prime numbers by two methods. After suitable averaging one of these methods gives the Poisson dependence Δ3(L)=L/15.

  13. Frustrated quantum antiferromagnet with third neighbor interactions and single ion anisotropy on the honeycomb lattice

    NASA Astrophysics Data System (ADS)

    Pires, A. S. T.

    2016-08-01

    I study the spin-1 Heisenberg antiferromagnet on the two dimensional honeycomb lattice at zero temperature, with first J1, second J2 and third J3 neighbors exchange interactions and single ion easy plane anisotropy, using the SU(3) Schwinger boson formalism. The phase diagram is shown. The results show the existence of a region in the intermediate frustrated regime where the system does not have quantum magnetic order.

  14. Airborne Signals from a Wounded Leaf Facilitate Viral Spreading and Induce Antibacterial Resistance in Neighboring Plants

    PubMed Central

    Dorokhov, Yuri L.; Komarova, Tatiana V.; Petrunia, Igor V.; Frolova, Olga Y.; Pozdyshev, Denis V.; Gleba, Yuri Y.

    2012-01-01

    Many plants release airborne volatile compounds in response to wounding due to pathogenic assault. These compounds serve as plant defenses and are involved in plant signaling. Here, we study the effects of pectin methylesterase (PME)-generated methanol release from wounded plants (“emitters”) on the defensive reactions of neighboring “receiver” plants. Plant leaf wounding resulted in the synthesis of PME and a spike in methanol released into the air. Gaseous methanol or vapors from wounded PME-transgenic plants induced resistance to the bacterial pathogen Ralstonia solanacearum in the leaves of non-wounded neighboring “receiver” plants. In experiments with different volatile organic compounds, gaseous methanol was the only airborne factor that could induce antibacterial resistance in neighboring plants. In an effort to understand the mechanisms by which methanol stimulates the antibacterial resistance of “receiver” plants, we constructed forward and reverse suppression subtractive hybridization cDNA libraries from Nicotiana benthamiana plants exposed to methanol. We identified multiple methanol-inducible genes (MIGs), most of which are involved in defense or cell-to-cell trafficking. We then isolated the most affected genes for further analysis: β-1,3-glucanase (BG), a previously unidentified gene (MIG-21), and non-cell-autonomous pathway protein (NCAPP). Experiments with Tobacco mosaic virus (TMV) and a vector encoding two tandem copies of green fluorescent protein as a tracer of cell-to-cell movement showed the increased gating capacity of plasmodesmata in the presence of BG, MIG-21, and NCAPP. The increased gating capacity is accompanied by enhanced TMV reproduction in the “receivers”. Overall, our data indicate that methanol emitted by a wounded plant acts as a signal that enhances antibacterial resistance and facilitates viral spread in neighboring plants. PMID:22496658

  15. Herbivores mediate different competitive and facilitative responses of native and invader populations of Brassica nigra.

    PubMed

    Oduor, Ayub M O; Strauss, Sharon Y; García, Yedra; Cascales, Modesto Berbel; Gómez, José M

    2013-10-01

    Differences in plant and herbivore community assemblages between exotic and native ranges may select for different levels of plant traits in invasive and native populations of plant species. Little is currently known of how herbivores may mediate competitive and facilitative interactions between invasive and native populations of plant species and their plant neighbors. Here, we conducted a common-garden field experiment to test whether invasive and native populations of Brassica nigra differ in phenotypic expressions of growth (biomass and plant height) and reproductive (seed yield) traits under different plant neighbor treatments and ambient vs. reduced level of insect herbivore damage on the B. nigra plants. We found significant interactive effects of plant neighbor treatments, level of insect herbivore damage on B. nigra plants, and invasive status of B. nigra on the phenotypic trait expressions. Plant neighbor treatments had minimal effects on phenotypic trait expressions by invasive populations of B. nigra under either level of insect herbivore damage. In contrast, for native populations of B. nigra, ambient level of insect herbivore damage resulted in plant neighbors facilitating expression of the traits above, while reduced damage resulted in plant neighbors competitively suppressing trait expression. Our results suggest that insect herbivores and plant neighbors interactively shape expression of plant traits in native and exotic ranges of invasive plants. Such interactions could potentially lead to different selection pressures on traits that determine antiherbivore defenses and plant-plant interactions. PMID:24358714

  16. The influence of neighboring blade rows on the unsteady aerodynamic response of cascades

    SciTech Connect

    Hall, K.C.; Silkowski, P.D.

    1997-01-01

    In this paper, the authors present an analysis of the unsteady aerodynamic response of cascades due to incident gusts (the forced response problem) or blade vibration (the flutter problem) when the cascade is part of a multistage fan, compressor, or turbine. Most current unsteady aerodynamic models assume the cascade to be isolated in an infinitely long duct. This assumption, however, neglects the potentially important influence of neighboring blade rows. They present an elegant and computationally efficient method to model these neighboring blade row effects. In the present method, they model the unsteady aerodynamic response due to so-called spinning modes (pressure and vorticity waves), with each mode corresponding to a different circumferential wave number and frequency. Then, for each mode, they compute the reflection and transmission coefficients for each blade row. These coefficients can be obtained from any of the currently available unsteady linearized aerodynamic models of isolated cascades. A set of linear equations is then constructed that couples together the various spinning modes, and the linear equations are solved via LU decomposition. Numerical results are presented for both the gust response and blade vibration problems. To validate the model, the authors compare their results to other analytical models, and to a multistage vortex lattice model. They show that the effect of neighboring blade rows on the aerodynamic damping of vibrating cascades is significant, but nevertheless can be modeled with a small number of modes.

  17. Local and neighboring patch conditions alter sex-specific movement in banana weevils.

    PubMed

    Carval, Dominique; Perrin, Benjamin; Duyck, Pierre-François; Tixier, Philippe

    2015-12-01

    Understanding the mechanisms underlying the movements and spread of a species over time and space is a major concern of ecology. Here, we assessed the effects of an individual's sex and the density and sex ratio of conspecifics in the local and neighboring environment on the movement probability of the banana weevil, Cosmopolites sordidus. In a "two patches" experiment, we used radiofrequency identification tags to study the C. sordidus movement response to patch conditions. We showed that local and neighboring densities of conspecifics affect the movement rates of individuals but that the density-dependent effect can be either positive or negative depending on the relative densities of conspecifics in local and neighboring patches. We demonstrated that sex ratio also influences the movement of C. sordidus, that is, the weevil exhibits nonfixed sex-biased movement strategies. Sex-biased movement may be the consequence of intrasexual competition for resources (i.e., oviposition sites) in females and for mates in males. We also detected a high individual variability in the propensity to move. Finally, we discuss the role of demographic stochasticity, sex-biased movement, and individual heterogeneity in movement on the colonization process. PMID:27069621

  18. Efficient generation and optimization of stochastic template banks by a neighboring cell algorithm

    NASA Astrophysics Data System (ADS)

    Fehrmann, Henning; Pletsch, Holger J.

    2014-12-01

    Placing signal templates (grid points) as efficiently as possible to cover a multidimensional parameter space is crucial in computing-intensive matched-filtering searches for gravitational waves, but also in similar searches in other fields of astronomy. To generate efficient coverings of arbitrary parameter spaces, stochastic template banks have been advocated, where templates are placed at random while rejecting those too close to others. However, in this simple scheme, for each new random point its distance to every template in the existing bank is computed. This rapidly increasing number of distance computations can render the acceptance of new templates computationally prohibitive, particularly for wide parameter spaces or in large dimensions. This paper presents a neighboring cell algorithm that can dramatically improve the efficiency of constructing a stochastic template bank. By dividing the parameter space into subvolumes (cells), for an arbitrary point an efficient hashing technique is exploited to obtain the index of its enclosing cell along with the parameters of its neighboring templates. Hence only distances to these neighboring templates in the bank are computed, massively lowering the overall computing cost, as demonstrated in simple examples. Furthermore, we propose a novel method based on this technique to increase the fraction of covered parameter space solely by directed template shifts, without adding any templates. As is demonstrated in examples, this method can be highly effective.

  19. Effect of neighboring cells on cell stiffness measured by optical tweezers indentation

    NASA Astrophysics Data System (ADS)

    Yousafzai, Muhammad S.; Coceano, Giovanna; Mariutti, Alberto; Ndoye, Fatou; Amin, Ladan; Niemela, Joseph; Bonin, Serena; Scoles, Giacinto; Cojoc, Dan

    2016-05-01

    We report on the modification of mechanical properties of breast cancer cells when they get in contact with other neighboring cells of the same type. Optical tweezers vertical indentation was employed to investigate cell mechanics in isolated and contact conditions, by setting up stiffness as a marker. Two human breast cancer cell lines with different aggressiveness [MCF-7 (luminal breast cancer) and MDA-MB-231 (basal-like breast cancer)] and one normal immortalized breast cell line HBL-100 (normal and myoepithelial) were selected. We found that neighboring cells significantly alter cell stiffness: MDA-MB-231 becomes stiffer when in contact, while HBL-100 and MCF-7 exhibit softer character. Cell stiffness was probed at three cellular subregions: central (above nucleus), intermediate (cytoplasm), and near the leading edge. In an isolated condition, all cells showed a significant regional variation in stiffness: higher at the center and fading toward the leading edge. However, the regional variation becomes statistically insignificant when the cells were in contact with other neighboring cells. The proposed approach will contribute to understand the intriguing temporal sequential alterations in cancer cells during interaction with their surrounding microenvironment.

  20. [Radioecological investigation of the soil cover of eastern Urals State radioactive reserve and neighboring areas].

    PubMed

    Mikhaĭlovskaia, L N; Molchanova, I V; Karavaeva, E N; Pozolotina, V N; Tarasov, O V

    2011-01-01

    The contamination levels and spatial distribution of 90Sr and 137Cs in the soil cover of the Eastern Ural State Radioactive Reserve and neighboring areas have been studied. Situated in the Chelyabinsk region, the Reserve embraces the frontal part of the Eastern Urals Radioactive Trace. This Trace emerged in 1957 as a result of the nuclear accident at the Production Association "Mayak". In the studied areas, the content of radionuclides in soils decreases exponentially as the distance from the source of contamination increases. 90Sr received by the soil cover as a result of the accident in 1957 has remained the main contaminant of the Reserve central part (97% of the total contamination). Its contribution throughout western neighboring areas reduces up to 67%, which decreases the effect of 90Sr on the environment. Within eastern neighboring areas, soil is mainly contaminated by 137Cs received as a result of the wind disseminated dried sediments from the shores of Lake Karachay (1967) that was used for dumping high-level radioactive waste. Also observed was enrichment of forest litters with this radionuclide due to current atmospheric fallout. PMID:21950106

  1. Study of Near-Neighbor Structure of Point Defects in α-FE by Displacement Cascade

    NASA Astrophysics Data System (ADS)

    Wang, Wei-Lu; Liu, Wei; Wu, Xuebang; Fang, Q. F.; Liu, C. S.; Huang, Qun-Ying; Wu, Y. C.

    2012-07-01

    Molecular dynamics simulations have been performed to study the primary damage formation in α-Fe by collision cascades in the recoil energy range 0.5-20 keV. Two near-neighbor analysis methods including the near-neighbor defect density (NPDD) analysis and cluster analysis were introduced to characterize the spatial aggregation of point defects and the morphologies of clusters, respectively. It is found that the NPDD of self-interstitial atom (SIA) and the number of Frenkel pairs show a similar variation trend, while the NPDD of vacancy exhibits a peak at shorter time than that of SIA. Furthermore, we find that the clusters of point defects exist mostly in the form of chainlike structure in the course and the end of cascades, but the proportion of chainlike clusters decreases with increasing the number of point defects included in one cluster. Therefore, the present methods are found to be effective to characterize the aggregation and the near-neighbor structure of point defects by displacement cascades at any time.

  2. Comparison of a k-Nearest-Neighbor Simulator and LARS-WG for generating daily Precipitation

    NASA Astrophysics Data System (ADS)

    Mehdizadeh, M.; Bárdossy, A.; Guenni, L.

    2009-04-01

    Weather generators are stochastic models that produce synthetic long time series of weather data from limited records of historical data with statistically similar characteristics to those of observed. Long timeseries of synthetic weather daily data, especially precipitation, are required as climate inputs to hydrological and agricultural models, in order to evaluate the performance of the associated physical systems. LARS-WG is a semi parametric weather generator that uses flexible semi-empirical distributions for the lengths of wet and dry day series and daily precipitation. On the other hand, k-Nearest Neighbor is a non parametric technique to resample data from historical records by conditioning on the preceding days (feature vector). The model finds the historical number of nearest neighbors of the current weather vector using the Euclidean distance and resamples from it their successors. To preserve the temporal persistence, the model calculates the Euclidean distance of vectors which have similar sequence of wet and dry days. The objective of this study is to evaluate the performance of these two different models in reproducing interannual variability of precipitation in three stations in Germany. Keywords: Weather generator, k-Nearest-Neighbor, LARSWG, daily precipitation

  3. Influence of the number of topologically interacting neighbors on swarm dynamics

    PubMed Central

    Shang, Yilun; Bouffanais, Roland

    2014-01-01

    Recent empirical and theoretical works on collective behaviors based on a topological interaction are beginning to offer some explanations as for the physical reasons behind the selection of a particular number of nearest neighbors locally affecting each individual's dynamics. Recently, flocking starlings have been shown to topologically interact with a very specific number of neighbors, between six to eight, while metric-free interactions were found to govern human crowd dynamics. Here, we use network- and graph-theoretic approaches combined with a dynamical model of locally interacting self-propelled particles to study how the consensus reaching process and its dynamics are influenced by the number k of topological neighbors. Specifically, we prove exactly that, in the absence of noise, consensus is always attained with a speed to consensus strictly increasing with k. The analysis of both speed and time to consensus reveals that, irrespective of the swarm size, a value of k ~ 10 speeds up the rate of convergence to consensus to levels close to the one of the optimal all-to-all interaction signaling. Furthermore, this effect is found to be more pronounced in the presence of environmental noise. PMID:24567077

  4. Interelectrode coherences from nearest-neighbor and spherical harmonic expansion computation of laplacian of scalp potential.

    PubMed

    Lagerlund, T D; Sharbrough, F W; Busacker, N E; Cicora, K M

    1995-09-01

    Interchannel coherence is a measure of spatial extent of and timing relationships among cerebral electroencephalogram (EEG) generators. Interchannel coherence of referentially recorded potentials includes components due to volume conduction and reference site activity. The laplacian of the potential is reference independent and decreases the contribution of volume conduction. Interchannel coherences of the laplacian should, therefore, be less than those of referentially recorded potentials. However, methods used to compute the laplacian involve forming linear combinations of multiple recorded potentials, which may inflate interchannel coherences. WE compared 3 methods of computing the laplacian: (1) modified Hjorth (4 equidistant neighbors to each electrode), (2) Taylor's series (4 nonequidistant neighbors), and (3) spherical harmonic expansion (SHE). Average interchannel coherence introduced by computing the laplacian was less for nearest-neighbor methods (0.0207 +/- 0.0766) but still acceptable for the SHE method (0.0337 +/- 0.0865). Average interchannel coherence for simulated EEG (random data plus a common 10 Hz signal) was less for laplacian than for referential data because of removal of the common referential signal. Interchannel coherences of background EEG and partial seizure activity were less with the laplacian (any method) than with referential recordings. Laplacians calculated from the SHE do not demonstrate excessively large interchannel coherences, as have been reported for laplacians from spherical splines. PMID:7555908

  5. Genetic characterization of Clupisoma garua (Hamilton 1822) from six Indian populations using mtDNA cytochrome b gene.

    PubMed

    Saraswat, Darpan; Lakra, W S; Nautiyal, Prakash; Goswami, Mukunda; Shyamakant, Komal; Malakar, Abhishekh

    2014-02-01

    Clupisoma garua (Hamilton, 1822) is a commercially important freshwater fish and a potential candidate species for aquaculture. This study investigates the genetic diversity and population structure of six Indian populations of C. garua using cytochrome b (cyt b) sequences of mitochondrial DNA (mtDNA). We sequenced cyt b gene of 64 individuals collected from five distant rivers: Ganga, Gomti, Betwa, Gandak and Brahmaputra. Sequencing of 1054 bp cyt b mtDNA fragment revealed the presence of 19 haplotypes with a haplotype diversity value of 1.000 and a nucleotide diversity value of 0.0258 ± 0.00164. The Gandak river fish population showed highest nucleotide diversity. The fixation index analysis indicated significant genetic divergence among populations from different geographical areas. Both the neighbor-joining tree and median-joining network analysis of the haplotype data showed distinct patterns of phylo-geographic structure. The hierarchical analysis of molecular variance revealed that intra-group variation among populations was highly significant. The results of this study suggest that C. garua populations, especially geographically isolated groups, have developed significant genetic structures within the population. In addition, tests of neutrality suggest that C. garua may have experienced a population expansion. The study results establish cyt b as polymorphic and a potential marker to determine the population structure of C. garua. Information of genetic variation and population structure generated from this study would be useful for planning effective strategies for the conservation and rehabilitation of Schilibid cat fishes. PMID:23676141

  6. Belowground neighbor perception in Arabidopsis thaliana studied by transcriptome analysis: roots of Hieracium pilosella cause biotic stress.

    PubMed

    Schmid, Christoph; Bauer, Sibylle; Müller, Benedikt; Bartelheimer, Maik

    2013-01-01

    Root-root interactions are much more sophisticated than previously thought, yet the mechanisms of belowground neighbor perception remain largely obscure. Genome-wide transcriptome analyses allow detailed insight into plant reactions to environmental cues. A root interaction trial was set up to explore both morphological and whole genome transcriptional responses in roots of Arabidopsis thaliana in the presence or absence of an inferior competitor, Hieracium pilosella. Neighbor perception was indicated by Arabidopsis roots predominantly growing away from the neighbor (segregation), while solitary plants placed more roots toward the middle of the pot. Total biomass remained unaffected. Database comparisons in transcriptome analysis revealed considerable similarity between Arabidopsis root reactions to neighbors and reactions to pathogens. Detailed analyses of the functional category "biotic stress" using MapMan tools found the sub-category "pathogenesis-related proteins" highly significantly induced. A comparison to a study on intraspecific competition brought forward a core of genes consistently involved in reactions to neighbor roots. We conclude that beyond resource depletion roots perceive neighboring roots or their associated microorganisms by a relatively uniform mechanism that involves the strong induction of pathogenesis-related proteins. In an ecological context the findings reveal that belowground neighbor detection may occur independently of resource depletion, allowing for a time advantage for the root to prepare for potential interactions. PMID:23967000

  7. The statistical investigation of the First and Second Byurakan survey galaxies and their neighbors

    NASA Astrophysics Data System (ADS)

    Nazaryan, Tigran A.

    2014-05-01

    In the thesis we study close pairs of galaxies with the aim of understanding the influence of gravitational interaction on nuclear activity and star formation of paired galaxies. For this purpose we investigate dependences of integral parameters of galaxies, their star formation and properties of nuclei on kinematic parameters of systems and their large-scale environment. The thesis has an introduction, three main chapters, a summary, lists of abbreviations and references, and three appendices. In the first chapter, the methods of selection of sample of pairs of galaxies and measurements of physical parameters of the First Byurakan Survey (Markarian) galaxies and their neighbors are presented, and the databases in appendices A and B are described, which contain parameters of neighbors of Markarian galaxies measured by us, and the parameters of pairs having Markarian galaxies, based on the Sloan Digital Sky Survey (SDSS) data. The selection effects of sample of pairs are discussed, and the statistical comparison of Markarian galaxies and their neighbors is done. The results of statistical study of star formation and activity of nuclei in pairs having Markarian galaxies are presented, as well as the correlations between properties of galaxies in pairs and the physical mechanisms behind them. In the second chapter, the results of statistical study of the Second Byurakan Survey (SBS) galaxies and their neighbors, and star formation and activity of nuclei in those pairs are presented and discussed. In the third chapter, possibilities of using supernovae as indicators of star formation are discussed, the sample of supernovae in pairs of galaxies is presented, and study of star formation in pairs of interacting galaxies by means of that sample of supernovae is done. Also а conclusion about the nature of progenitors of different types of supernovae is made. The short summary of main results of the study concludes the thesis. The thesis has 158 pages. The main results

  8. Combining high-dispersion spectroscopy with high contrast imaging: Probing rocky planets around our nearest neighbors

    NASA Astrophysics Data System (ADS)

    Snellen, I.; de Kok, R.; Birkby, J. L.; Brandl, B.; Brogi, M.; Keller, C.; Kenworthy, M.; Schwarz, H.; Stuik, R.

    2015-04-01

    Context. Ground-based high-dispersion (R ~ 100 000) spectroscopy (HDS) is proving to be a powerful technique with which to characterize extrasolar planets. The planet signal is distilled from the bright starlight, combining ral and time-differential filtering techniques. In parallel, high-contrast imaging (HCI) is developing rapidly, aimed at spatially separating the planet from the star. While HDS is limited by the overwhelming noise from the host star, HCI is limited by residual quasi-static speckles. Both techniques currently reach planet-star contrast limits down to ~10-5, albeit for very different types of planetary systems. Aims: In this work, we discuss a way to combine HDS and HCI (HDS+HCI). For a planet located at a resolvable angular distance from its host star, the starlight can be reduced up to several orders of magnitude using adaptive optics and/or coronography. In addition, the remaining starlight can be filtered out using high-dispersion spectroscopy, utilizing the significantly different (or Doppler shifted) high-dispersion spectra of the planet and star. In this way, HDS+HCI can in principle reach contrast limits of ~10-5 × 10-5, although in practice this will be limited by photon noise and/or sky-background. In contrast to current direct imaging techniques, such as Angular Differential Imaging and Spectral Differential Imaging, it will work well at small working angles and is much less sensitive to speckle noise. For the discovery of previously unknown planets HDS+HCI requires a high-contrast adaptive optics system combined with a high-dispersion R ~ 100 000 integral field spectrograph (IFS). This combination currently does not exist, but is planned for the European Extremely Large Telescope. Methods: We present simulations of HDS+HCI observations with the E-ELT, both probing thermal emission from a planet at infrared wavelengths, and starlight reflected off a planet atmosphere at optical wavelengths. For the infrared simulations we use the

  9. Mapping asthma-associated variants in admixed populations

    PubMed Central

    Mersha, Tesfaye B.

    2015-01-01

    Admixed populations arise when two or more previously isolated populations interbreed. Mapping asthma susceptibility loci in an admixed population using admixture mapping (AM) involves screening the genome of individuals of mixed ancestry for chromosomal regions that have a higher frequency of alleles from a parental population with higher asthma risk as compared with parental population with lower asthma risk. AM takes advantage of the admixture created in populations of mixed ancestry to identify genomic regions where an association exists between genetic ancestry and asthma (in contrast to between the genotype of the marker and asthma). The theory behind AM is that chromosomal segments of affected individuals contain a significantly higher-than-average proportion of alleles from the high-risk parental population and thus are more likely to harbor disease–associated loci. Criteria to evaluate the applicability of AM as a gene mapping approach include: (1) the prevalence of the disease differences in ancestral populations from which the admixed population was formed; (2) a measurable difference in disease-causing alleles between the parental populations; (3) reduced linkage disequilibrium (LD) between unlinked loci across chromosomes and strong LD between neighboring loci; (4) a set of markers with noticeable allele-frequency differences between parental populations that contributes to the admixed population (single nucleotide polymorphisms (SNPs) are the markers of choice because they are abundant, stable, relatively cheap to genotype, and informative with regard to the LD structure of chromosomal segments); and (5) there is an understanding of the extent of segmental chromosomal admixtures and their interactions with environmental factors. Although genome-wide association studies have contributed greatly to our understanding of the genetic components of asthma, the large and increasing degree of admixture in populations across the world create many challenges

  10. Risk of Trypanosoma cruzi I (Kinetoplastida: Trypanosomatidae) transmission by Panstrongylus geniculatus (Hemiptera: Reduviidae) in Caracas (Metropolitan District) and neighboring States, Venezuela.

    PubMed

    Carrasco, Hernán J; Torrellas, Annhymariet; García, Carlos; Segovia, Maikell; Feliciangeli, M Dora

    2005-11-01

    The collection of Panstrongylus geniculatus bugs by inhabitants of dwellings in Caracas city (Metropolitan District) and in the neighboring Miranda and Vargas Sates, Venezuela, allowed for the gathering of data on the potential role of this sylvatic triatomine bug as a vector of Chagas disease in this area. The natural infection by Trypanosoma cruzi was recorded by examining fresh and stained faeces of the bugs. Additionally, a random amplification of polymorphic DNA technique for parasite identification and group typing was employed. A dot-ELISA test was used to identify the gut content of the triatomine bugs with the aim of assessing and quantifying the vector-human contact. Sixty-seven specimens (76.1%) were positive to T. cruzi (identified as T. cruzi I) and 60.2% (53/88) gave a positive reaction to the human antiserum. The human blood-positive samples included mixed blood meals with domestic animals (dog, pig and cow) (9.4%) and with mouse (3.8%). The overall Human Blood Index, measured as the percentage of bugs whose gut contents reacted with human antiserum on the total numbers of bugs that reacted with all the antisera tested, was 98.1%. Almost 41% of the bugs that had fed on humans were also positive for T. cruzi. These data show that the feeding of P. geniculatus on humans does not seem to be accidental and that its rate of infection by T. cruzi is high in this area which is not regarded as endemic for Chagas disease by the National Control Programme. This situation is particularly striking because it occurs in and around Caracas, the capital city, where 20% of the whole population of Venezuela live, human migrations from endemic areas are continuous, people in the crowded shantytown as well as people living in high-quality country houses are equally at risk and the epidemiological cycle Didelphis marsupialis/Rattus rattus-P. geniculatus-human does appear to occur successfully. PMID:16019006

  11. Sub-population structure evident in forensic Y-STR profiles from Armenian geographical groups.

    PubMed

    Lowery, Robert K; Herrera, Kristian; Uribe, Gabriel; Reguiero, Maria; Herrera, Rene J

    2013-03-01

    Over the course of its long history, Armenia has acted as both a source of numerous indigenous cultures and as a recipient of foreign invasions. As a result of this complex history among populations, the gene pool of the Armenian population may contain traces of historically well-documented ancient migrations. Furthermore, the regions within the historical boundaries of Armenia possess unique demographic histories, having hosted both autochthonous and specific exogenous genetic influences. In the present study, we analyze the Armenian population sub-structure utilizing 17 Y-chromosome short tandem repeat (Y-STR) loci of 412 Armenians from four geographically and anthropologically well-defined groups (Ararat Valley, Gardman, Lake Van and Sasun). To place the genetic composition of Armenia in a regional and historic context, we have compared the Y-STR profiles from these four Armenian collections to 18 current-day Eurasian populations and two ancient DNA collections. Our results illustrate regional trends in Armenian paternal lineages and locale-specific patterns of affinities with neighboring regions. Additionally, we observe a phylogenetic relationship between the Northern Caucasus and the group from Sasun, which offers an explanation for the genetic divergence of this group from other three Armenian collections. These findings highlight the importance of analyzing both general populations as well as geographically defined sub-populations when utilizing Y-STRs for forensic analyses and population genetics studies. PMID:23201231

  12. Untangling long branches: identifying conflicting phylogenetic signals using spectral analysis, neighbor-net, and consensus networks.

    PubMed

    Kennedy, Martyn; Holland, Barbara R; Gray, Russell D; Spencer, Hamish G

    2005-08-01

    Long-branch attraction is a well-known source of systematic error that can mislead phylogenetic methods; it is frequently invoked post hoc, upon recovering a different tree from the one expected based on prior evidence. We demonstrate that methods that do not force the data onto a single tree, such as spectral analysis, Neighbor-Net, and consensus networks, can be used to detect conflicting signals within the data, including those caused by long-branch attraction. We illustrate this approach using a set of taxa from three unambiguously monophyletic families within the Pelecaniformes: the darters, the cormorants and shags, and the gannets and boobies. These three families are universally acknowledged as forming a monophyletic group, but the relationship between the families remains contentious. Using sequence data from three mitochondrial genes (12S, ATPase 6, and ATPase 8) we demonstrate that the relationship between these three families is difficult to resolve because they are separated by a short internal branch and there are conflicting signals due to long-branch attraction, which are confounded with nonhomogeneous sequence evolution across the different genes. Spectral analysis, Neighbor-Net, and consensus networks reveal conflicting signals regarding the placement of one of the darters, with support found for darter monophyly, but also support for a conflicting grouping with the outgroup, pelicans. Furthermore, parsimony and maximum-likelihood analyses produced different trees, with one of the two most parsimonious trees not supporting the monophyly of the darters. Monte Carlo simulations, however, were not sensitive enough to reveal long-branch attraction unless the branches are longer than those actually observed. These results indicate that spectral analysis, Neighbor-Net, and consensus networks offer a powerful approach to detecting and understanding the source of conflicting signals within phylogenetic data. PMID:16109705

  13. A {gamma} dose distribution evaluation technique using the k-d tree for nearest neighbor searching

    SciTech Connect

    Yuan Jiankui; Chen Weimin

    2010-09-15

    Purpose: The authors propose an algorithm based on the k-d tree for nearest neighbor searching to improve the {gamma} calculation time for 2D and 3D dose distributions. Methods: The {gamma} calculation method has been widely used for comparisons of dose distributions in clinical treatment plans and quality assurances. By specifying the acceptable dose and distance-to-agreement criteria, the method provides quantitative measurement of the agreement between the reference and evaluation dose distributions. The {gamma} value indicates the acceptability. In regions where {gamma}{<=}1, the predefined criterion is satisfied and thus the agreement is acceptable; otherwise, the agreement fails. Although the concept of the method is not complicated and a quick naieve implementation is straightforward, an efficient and robust implementation is not trivial. Recent algorithms based on exhaustive searching within a maximum radius, the geometric Euclidean distance, and the table lookup method have been proposed to improve the computational time for multidimensional dose distributions. Motivated by the fact that the least searching time for finding a nearest neighbor can be an O(log N) operation with a k-d tree, where N is the total number of the dose points, the authors propose an algorithm based on the k-d tree for the {gamma} evaluation in this work. Results: In the experiment, the authors found that the average k-d tree construction time per reference point is O(log N), while the nearest neighbor searching time per evaluation point is proportional to O(N{sup 1/k}), where k is between 2 and 3 for two-dimensional and three-dimensional dose distributions, respectively. Conclusions: Comparing with other algorithms such as exhaustive search and sorted list O(N), the k-d tree algorithm for {gamma} evaluation is much more efficient.

  14. Astrocytes Surviving Severe Stress Can Still Protect Neighboring Neurons from Proteotoxic Injury.

    PubMed

    Gleixner, Amanda M; Posimo, Jessica M; Pant, Deepti B; Henderson, Matthew P; Leak, Rehana K

    2016-09-01

    Astrocytes are one of the major cell types to combat cellular stress and protect neighboring neurons from injury. In order to fulfill this important role, astrocytes must sense and respond to toxic stimuli, perhaps including stimuli that are severely stressful and kill some of the astrocytes. The present study demonstrates that primary astrocytes that managed to survive severe proteotoxic stress were protected against subsequent challenges. These findings suggest that the phenomenon of preconditioning or tolerance can be extended from mild to severe stress for this cell type. Astrocytic stress adaptation lasted at least 96 h, the longest interval tested. Heat shock protein 70 (Hsp70) was raised in stressed astrocytes, but inhibition of neither Hsp70 nor Hsp32 activity abolished their resistance against a second proteotoxic challenge. Only inhibition of glutathione synthesis abolished astrocytic stress adaptation, consistent with our previous report. Primary neurons were plated upon previously stressed astrocytes, and the cocultures were then exposed to another proteotoxic challenge. Severely stressed astrocytes were still able to protect neighboring neurons against this injury, and the protection was unexpectedly independent of glutathione synthesis. Stressed astrocytes were even able to protect neurons after simultaneous application of proteasome and Hsp70 inhibitors, which otherwise elicited synergistic, severe loss of neurons when applied together. Astrocyte-induced neuroprotection against proteotoxicity was not elicited with astrocyte-conditioned media, suggesting that physical cell-to-cell contacts may be essential. These findings suggest that astrocytes may adapt to severe stress so that they can continue to protect neighboring cell types from profound injury. PMID:26374549

  15. Influence of neighboring particles on the drag of a particle suspended in laminar flows

    NASA Astrophysics Data System (ADS)

    Roig, Adam Vincent

    Understanding particle-fluid flows is very important for the areas of sedimentation in river beds, fluidized bed reactors, and other fields of multiphase flow. The effect of one particle on another in a fluid flow is not very well understood nor does a correlation exist to describe the behavior of the drag coefficient between particles. The use of Proteus was validated by comparison to previous studies to the result obtained through simulations in Proteus, including analysis of the wake structure of a single sphere. Two particles were then analyzed for various Reynolds numbers less than 250 but greater than 5 and for the dimensionless gap of L/D ≥ 2, where L is the distance between the two particle centers and D is the diameter of the particles. Two arrangements were used for simulation, with the particles spaced horizontally or vertically within the fluid flow. Both orientations were evaluated for the effects of the dimensionless gap on the drag coefficient. The wake structure at higher Reynolds numbers were also evaluated for effects due to neighboring particles. A correlation was developed for the case of the horizontal particles at a dimensionless gap, L/D ≥ 2 for the range of Reynolds numbers described. The orientation effect is then studied at a fixed distance for offsets of thirty, forty-five and sixty degrees from the horizontal. Results are also presented to evaluate the effect of the diameter of a neighboring particle. The current results are restricted to the case described in the work. Future studies may build on the current work to extend the work to other effects of neighboring particles and multiple particle influence.

  16. Distribution and Epidemiologic Trends of HBV Genotypes and Subtypes in 14 Countries Neighboring China

    PubMed Central

    Qian, Zhao; Jianqiong, Wang; Hongmei, Li; Rong, Zeng; Li, Li; Jinping, Zhang; Tao, Shen

    2015-01-01

    Background: The number of cases of HBV infection reported by the WHO for each district and country is positively correlated with the number of HBV sequences in the database isolated from the corresponding district and country. Objectives: This study determined distribution characteristics of HBV genotypes and subtypes in 14 countries neighboring China. The progress made in genomic research involving HBV was also reviewed. Materials and Methods: Nine hundred fifty-one complete genome sequences of HBV from 14 countries neighboring China were selected from NCBI. The sequence-related information was analyzed and recorded. One hundred seventy-two sequences of HBV genotype B were screened for alignment using DNA star and MEGA 5.1. Results: Dominant HBV genotypes in the countries neighboring China were genotypes B, C and D and dominant subtypes were adw2 and adrq+. The association between genotype and serotype of HBV in these countries was shown to differ from previous research results. As shown by sequence alignment, the sequence divergence between five subgenotypes (B3, B5, B7, B8 and B9) was below 4%. The B subgenotypes shared six common specific amino acid sites in the S region. Conclusions: The B3, B5, B7, B8 and B9 subgenotypes can be clustered into quasi-sub-genotype B3 and the open reading frame of HBV has a start codon preference; however, whether a mutation in the start codon in the pre-S2 region has an impact on survival and replication of HBV remains to be determined. PMID:26045702

  17. Highly flexible nearest-neighbor-search associative memory with integrated k nearest neighbor classifier, configurable parallelism and dual-storage space

    NASA Astrophysics Data System (ADS)

    An, Fengwei; Mihara, Keisuke; Yamasaki, Shogo; Chen, Lei; Jürgen Mattausch, Hans

    2016-04-01

    VLSI-implementations are often applied to solve the high computational cost of pattern matching but have usually low flexibility for satisfying different target applications. In this paper, a digital word-parallel associative memory architecture for k nearest neighbor (KNN) search, which is one of the most basic algorithms in pattern recognition, is reported applying the squared Euclidean distance measure. The reported architecture features reconfigurable parallelism, dual-storage space to achieve a flexible number of reference vectors, and a dedicated majority vote circuit. Programmable switching circuits, located between vector components, enable scalability of the searching parallelism by configuring the reference feature-vector dimensionality. A pipelined storage with dual static-random-access-memory (SRAM) cells for each unit and an intermediate winner control circuit are designed to extend the applicability by improving the flexibility of the reference storage. A test chip in 180 nm CMOS technology, which has 32 rows, 4 elements in each row and 2-parallel 8-bit dual-components in each element, consumes altogether 61.4 mW and in particular only 11.9 mW during the reconfigurable KNN classification (at 45.58 MHz and 1.8 V).

  18. Nearest-neighbor-spacing distribution of prime numbers and quantum chaos.

    PubMed

    Wolf, Marek

    2014-02-01

    We give heuristic arguments and computer results to support the hypothesis that, after appropriate rescaling, the statistics of spacings between adjacent prime numbers follows the Poisson distribution. The scaling transformation removes the oscillations in the nearest-neighbor-spacing distribution of primes. These oscillations have the very profound period of length six. We also calculate the spectral rigidity Δ(3) for prime numbers by two methods. After suitable averaging one of these methods gives the Poisson dependence Δ(3)(L) = L/15. PMID:25353560

  19. Interaction of coherent confined optical modes in neighboring 3D cylindrical ZnO microcavities

    SciTech Connect

    Gruzintsev, A. N. Volkov, V. T.; Knyazev, M. A.; Yakimov, E. E.

    2006-11-15

    Luminescent properties of pairs of neighboring variously spaced 3D cylindrical ZnO microcavities 1.8 {mu}m in diameter, produced by electron-beam lithography and reactive ion etching, are studied. Narrow luminescence peaks in the ZnO exciton spectral region, related to single-mode lasing, were observed. The energy of exchange interaction of coupled modes of two microcavities was calculated as a function of the intercavity distance. Broadening of the line of stimulated UV luminescence associated with coupled photonic modes of two microcavities was observed as the intercavity distance decreased.

  20. Simulation of Ostwald Ripening in Two Dimensions: Spatial and Nearest Neighbor Correlations

    NASA Astrophysics Data System (ADS)

    Masbaum, Norbert

    1995-09-01

    Recent experimental results on late stage coarsening (Ostwald ripening) in two dimensions were reinvestigated by means of numerical simulation using the Cahn-Hilliard equation (model B). We determine the spatial particle-particle and charge-charge correlation functions according to the experimental results of Krichevsky and Stavans. We find that our numerical results correspond well with these experiments. We also investigate particle-particle correlations between nearest neighbors (defined by the Voronoi diagram of particle centroids) following the experiments of Seul, Morgan and Sire and compare our numerical results with their Maximum Entropy model of Ostwald ripening.

  1. Neighbor-directed histidine N(τ) alkylation. A route to imidazolium-containing phosphopeptide macrocycles

    SciTech Connect

    Qian, Wen-Jian; Park, Jung-Eun; Grant, Robert; Lai, Christopher C.; Kelley, James A.; Yaffe, Michael B.; Lee, Kyung S.; Burke, Terrence R.

    2015-07-07

    Our recently discovered, selective, on-resin route to N(τ)-alkylated imidazolium-containing histidine residues affords new strategies for peptide mimetic design. In this, we demonstrate the use of this chemistry to prepare a series of macrocyclic phosphopeptides, in which imidazolium groups serve as ring-forming junctions. These cationic moieties subsequently serve to charge-mask the phosphoamino acid group that directed their formation. Furthermore, neighbor-directed histidine N(τ)-alkylation opens the door to new families of phosphopeptidomimetics for use in a range of chemical biology contexts.

  2. Nearest-neighbor doublets in protein-coding regions of MS2 RNA. [coliphage virus

    NASA Technical Reports Server (NTRS)

    Jukes, T. H.

    1977-01-01

    'Nearest neighbor' base pairs ('doublets') in the protein-coding regions of MS2 RNA have been tabulated with respect to their positions in the first two bases of amino acid codons, in the second two bases, or paired by contact between adjoining codons. Considerable variation is evident between numbers of doublets in each of these three possible positions, but the totals of each of the 16 doublets in the coding regions of the MS2 RNA molecule show much less variation. Compilations of doublets in nucleic acid strands have no predictive value for the amino acid composition of proteins coded by such strands.

  3. Effects on pulmonary health of neighboring residents of concentrated animal feeding operations: exposure assessed using optimized estimation technique.

    PubMed

    Schulze, Anja; Römmelt, Horst; Ehrenstein, Vera; van Strien, Rob; Praml, Georg; Küchenhoff, Helmut; Nowak, Dennis; Radon, Katja

    2011-01-01

    Potential adverse health effects of concentrated animal feeding operations (CAFOs), which were also shown in the authors' Lower Saxony Lung Study, are of public concern. The authors aimed to investigate pulmonary health effect of neighboring residents assessed using optimized estimation technique. Annual ammonia emission was measured to assess the emission from CAFO and from surrounding fields. Location of sampling points was optimized using cluster analysis. Individual exposure of 457 nonfarm subjects was interpolated by weighting method. Mean estimated annual ammonia levels varied between 16 and 24 μg/m³. Higher exposed participants were more likely to be sensitized against ubiquitous allergens as compared to lower exposed subjects (adjusted odds ratio [OR] 4.2; 95% confidence interval [CI] 1.2-13.2). In addition, they showed a significantly lower forced expiratory volume in 1 second (FEV₁) (adjusted mean difference in % of predicted -8%; 95% CI -13% to -3%). The authors' previous findings that CAFOs may contribute to burden of respiratory diseases were confirmed by this study. PMID:21864103

  4. Characterization of 3D Voronoi Tessellation Nearest Neighbor Lipid Shells Provides Atomistic Lipid Disruption Profile of Protein Containing Lipid Membranes

    PubMed Central

    Cheng, Sara Y.; Duong, Hai V.; Compton, Campbell; Vaughn, Mark W.; Nguyen, Hoa; Cheng, Kwan H.

    2015-01-01

    Quantifying protein-induced lipid disruptions at the atomistic level is a challenging problem in membrane biophysics. Here we propose a novel 3D Voronoi tessellation nearest-atom-neighbor shell method to classify and characterize lipid domains into discrete concentric lipid shells surrounding membrane proteins in structurally heterogeneous lipid membranes. This method needs only the coordinates of the system and is independent of force fields and simulation conditions. As a proof-of-principle, we use this multiple lipid shell method to analyze the lipid disruption profiles of three simulated membrane systems: phosphatidylcholine, phosphatidylcholine/cholesterol, and beta-amyloid/phosphatidylcholine/cholesterol. We observed different atomic volume disruption mechanisms due to cholesterol and beta-amyloid Additionally, several lipid fractional groups and lipid-interfacial water did not converge to their control values with increasing distance or shell order from the protein. This volume divergent behavior was confirmed by bilayer thickness and chain orientational order calculations. Our method can also be used to analyze high-resolution structural experimental data. PMID:25637891

  5. Comparison of Neural Networks and Tabular Nearest Neighbor Encoding for Hyperspectral Signature Classification in Unresolved Object Detection

    NASA Astrophysics Data System (ADS)

    Schmalz, M.; Ritter, G.; Key, R.

    detections (Rfa). As proof of principle, we analyze classification of multiple closely spaced signatures from a NASA database of space material signatures. Additional analysis pertains to computational complexity and noise sensitivity, which are superior to Bayesian techniques based on classical neural networks. [1] Winter, M.E. "Fast autonomous spectral end-member determination in hyperspectral data," in Proceedings of the 13th International Conference On Applied Geologic Remote Sensing, Vancouver, B.C., Canada, pp. 337-44 (1999). [2] N. Keshava, "A survey of spectral unmixing algorithms," Lincoln Laboratory Journal 14:55-78 (2003). [3] Key, G., M.S. SCHMALZ, F.M. Caimi, and G.X. Ritter. "Performance analysis of tabular nearest neighbor encoding algorithm for joint compression and ATR", in Proceedings SPIE 3814:115-126 (1999). [4] Schmalz, M.S. and G. Key. "Algorithms for hyperspectral signature classification in unresolved object detection using tabular nearest neighbor encoding" in Proceedings of the 2007 AMOS Conference, Maui HI (2007). [5] Ritter, G.X., G. Urcid, and M.S. Schmalz. "Autonomous single-pass endmember approximation using lattice auto-associative memories", Neurocomputing (Elsevier), accepted (June 2008).

  6. Dimer adsorption on a (100) nanotube of arbitrary diameter, with first- and second-neighbor interactions.

    PubMed

    Phares, Alain J; Grumbine, David W

    2014-06-17

    Dimer adsorption on an infinitely long (100) or square lattice nanotube of fixed lattice constant and arbitrary number M of sites in its normal cross section is considered with first- and second-neighbor interaction energies, V and W, respectively. An increase in M keeping the lattice constant fixed corresponds to a nanotube with increasing diameter. The system is at thermodynamic equilibrium and relatively low temperature in order to determine all of the possible crystallization patterns or phases that may exist. Under these conditions, the energy phase space diagram is two-dimensional, and the dimensionless parameters are u = W/|V| and v = μ/|V|, where μ is the sum of the chemical potential energy, μ', of a dimer and the dimer-substrate interaction energy V0. The low temperature energy phase diagram is numerically generated using a transfer matrix method adapted to the present problem. For both attractive and repulsive first-neighbors, it is M-independent for M even, and its M-dependence when M is odd is established. As a consistency check, the infinite odd-M limit matches exactly the M-independent phase diagram for even M. The knowledge of the boundaries of the regions in the phase diagram where these phases occur and the knowledge of their respective occupational configurations are particularly useful information when experimental data on dimer adsorption on square nanotubes become available. PMID:24897920

  7. Promoting pollution prevention through community-industry dialogues: the good neighbor model in Minnesota.

    PubMed

    Murdock, Barbara Scott; Sexton, Ken

    2002-05-15

    This article examines five attempts by communities to promote pollution prevention through direct negotiations with local manufacturing plants. These projects were Good Neighbor Dialogues spearheaded by Citizens for a Better Environment-Minnesota, an environmental advocacy organization. Three community-company partnerships (a container plant, a foundry, and a cabinet manufacturer) were successful and two (a munitions plant and a petroleum refinery) were not. Successful dialogues all shared certain characteristics: the company was open to negotiating with the community; there was an effective "champion" within the company; a skilled, independent facilitator served as moderator; community participants received independent technical assistance; and both the company and community understood the value of cooperative environmental decision making. Results suggest that Good Neighbor Dialogues can, under the right settings and circumstances, be an effective mechanism for building social capital by fostering greater understanding and trust between companies and communities. They offer the prospect of community-company partnerships that promote pollution prevention and other environmental improvements, while at the same time reinforcing and amplifying traditional pollution control strategies. PMID:12038821

  8. Sequential nearest-neighbor effects on computed 13Cα chemical shifts

    PubMed Central

    Vila, Jorge A.; Serrano, Pedro; Wüthrich, Kurt

    2010-01-01

    To evaluate sequential nearest-neighbor effects on quantum-chemical calculations of 13Cα chemical shifts, we selected the structure of the nucleic acid binding (NAB) protein from the SARS coronavirus determined by NMR in solution (PDB id 2K87). NAB is a 116-residue α/β protein, which contains 9 prolines and has 50% of its residues located in loops and turns. Overall, the results presented here show that sizeable nearest-neighbor effects are seen only for residues preceding proline, where Pro introduces an overestimation, on average, of 1.73 ppm in the computed 13Cα chemical shifts. A new ensemble of 20 conformers representing the NMR structure of the NAB, which was calculated with an input containing backbone torsion angle constraints derived from the theoretical 13Cα chemical shifts as supplementary data to the NOE distance constraints, exhibits very similar topology and comparable agreement with the NOE constraints as the published NMR structure. However, the two structures differ in the patterns of differences between observed and computed 13Cα chemical shifts, Δca,i, for the individual residues along the sequence. This indicates that the Δca,i -values for the NAB protein are primarily a consequence of the limited sampling by the bundles of 20 conformers used, as in common practice, to represent the two NMR structures, rather than of local flaws in the structures. PMID:20644980

  9. Nearest-neighbor parameters for 7-deaza-adenosine·uridine base pairs in RNA duplexes.

    PubMed

    Richardson, Katherine E; Znosko, Brent M

    2016-06-01

    One of the major limitations in RNA structure prediction is the lack of information about the effect of nonstandard nucleotides on stability. The nonstandard nucleotide 7-deaza-adenosine (7DA) is a naturally occurring analog of adenosine that has been studied for medicinal purposes and is commonly referred to as tubercidin. In 7DA, the nitrogen in the 7 position of adenosine is replaced by a carbon. Differences in RNA duplex stability due to the removal of this nitrogen can be attributed to a possible change in hydration and a difference in base stacking interactions resulting from changes in the electrostatics of the ring. In order to determine how 7DA affects the stability of RNA, optical melting experiments were conducted on RNA duplexes that contain either internal or terminal 7DA·U pairs with all possible nearest-neighbor combinations. On average, duplexes containing 7DA·U pairs are 0.43 and 0.07 kcal/mol less stable than what is predicted for the same duplex containing internal and terminal A-U pairs, respectively. Thermodynamic parameters for all nearest-neighbor combinations of 7DA·U pairs were derived from the data. These parameters can be used to more accurately predict the secondary structure and stability of RNA duplexes containing 7DA·U pairs. PMID:27099368

  10. Data Delivery Method Based on Neighbor Nodes' Information in a Mobile Ad Hoc Network

    PubMed Central

    Hayashi, Takuma; Taenaka, Yuzo; Okuda, Takeshi; Yamaguchi, Suguru

    2014-01-01

    This paper proposes a data delivery method based on neighbor nodes' information to achieve reliable communication in a mobile ad hoc network (MANET). In a MANET, it is difficult to deliver data reliably due to instabilities in network topology and wireless network condition which result from node movement. To overcome such unstable communication, opportunistic routing and network coding schemes have lately attracted considerable attention. Although an existing method that employs such schemes, MAC-independent opportunistic routing and encoding (MORE), Chachulski et al. (2007), improves the efficiency of data delivery in an unstable wireless mesh network, it does not address node movement. To efficiently deliver data in a MANET, the method proposed in this paper thus first employs the same opportunistic routing and network coding used in MORE and also uses the location information and transmission probabilities of neighbor nodes to adapt to changeable network topology and wireless network condition. The simulation experiments showed that the proposed method can achieve efficient data delivery with low network load when the movement speed is relatively slow. PMID:24672371

  11. Sources of Secondary Metabolite Variation in Dysidea avara (Porifera: Demospongiae): The Importance of Having Good Neighbors

    PubMed Central

    De Caralt, Sonia; Bry, Delphine; Bontemps, Nataly; Turon, Xavier; Uriz, Maria-Jesus; Banaigs, Bernard

    2013-01-01

    Several studies report temporal, geographical, and intra-individual variation in sponge metabolite yields. However, the internal and/or external factors that regulate the metabolite production remain poorly understood. Dysidea avara is a demosponge that produces sesquiterpenoids (avarol and derivatives) with interesting medical properties, which has prompted addressed studies to obtain enough amounts of these metabolites for research on drug discovery. Within this framework, specimens of Dysidea avara from apopulation of the Northwest Mediterranean were sampled and their secondary metabolites quantified to assess their variability and the possible relationship with external (seasonality, interactions with neighbors) and internal (reproductive stages) factors. The results show a variation of the amount of both avarol and its monoacetate derivative with time, with no clear relationship with seawater temperature. A trade-off with sponge reproduction was not found either. However, our results showed for the first time that sponges are able to increase production or accumulation of secondary metabolites in their peripheral zone depending on the nature of their neighbors. This finding could explain part of the high variability in the amount of secondary metabolites usually found in chemical ecology studies on sponges and opens new biotechnological approaches to enhance the metabolite yield in sponge cultures. PMID:23429282

  12. Mapping DNA methylation by transverse current sequencing: Reduction of noise from neighboring nucleotides

    NASA Astrophysics Data System (ADS)

    Alvarez, Jose; Massey, Steven; Kalitsov, Alan; Velev, Julian

    Nanopore sequencing via transverse current has emerged as a competitive candidate for mapping DNA methylation without needed bisulfite-treatment, fluorescent tag, or PCR amplification. By eliminating the error producing amplification step, long read lengths become feasible, which greatly simplifies the assembly process and reduces the time and the cost inherent in current technologies. However, due to the large error rates of nanopore sequencing, single base resolution has not been reached. A very important source of noise is the intrinsic structural noise in the electric signature of the nucleotide arising from the influence of neighboring nucleotides. In this work we perform calculations of the tunneling current through DNA molecules in nanopores using the non-equilibrium electron transport method within an effective multi-orbital tight-binding model derived from first-principles calculations. We develop a base-calling algorithm accounting for the correlations of the current through neighboring bases, which in principle can reduce the error rate below any desired precision. Using this method we show that we can clearly distinguish DNA methylation and other base modifications based on the reading of the tunneling current.

  13. Extremely Low Bit-Rate Nearest Neighbor Search Using a Set Compression Tree.

    PubMed

    Arandjelović, Relja; Zisserman, Andrew

    2014-12-01

    The goal of this work is a data structure to support approximate nearest neighbor search on very large scale sets of vector descriptors. The criteria we wish to optimize are: (i) that the memory footprint of the representation should be very small (so that it fits into main memory); and (ii) that the approximation of the original vectors should be accurate. We introduce a novel encoding method, named a Set Compression Tree (SCT), that satisfies these criteria. It is able to accurately compress 1 million descriptors using only a few bits per descriptor. The large compression rate is achieved by not compressing on a per-descriptor basis, but instead by compressing the set of descriptors jointly. We describe the encoding, decoding and use for nearest neighbor search, all of which are quite straightforward to implement. The method, tested on standard benchmarks (SIFT1M and 80 Million Tiny Images), achieves superior performance to a number of state-of-the-art approaches, including Product Quantization, Locality Sensitive Hashing, Spectral Hashing, and Iterative Quantization. For example, SCT has a lower error using 5 bits than any of the other approaches, even when they use 16 or more bits per descriptor. We also include a comparison of all the above methods on the standard benchmarks. PMID:26353147

  14. Personalized Feedback Interventions for College Alcohol Misuse: An Update of Walters & Neighbors (2005)

    PubMed Central

    Miller, Mary Beth; Leffingwell, Thad; Claborn, Kasey; Meier, Ellen; Walters, Scott; Neighbors, Clayton

    2016-01-01

    Personalized drinking feedback is an evidence-based and increasingly common way of intervening with high-risk college drinking. This article extends an earlier review by Walters and Neighbors (S. T. Walters & C. Neighbors, 2005, Feedback interventions for college alcohol misuse: What, why, and for whom? Addictive Behaviors, 30, 1168–1182) by reviewing the literature of published studies using personalized feedback as an intervention for heavy drinking among college students. This article updates and extends the original review with a more comprehensive and recent set of 41 studies, most of which were not included in the original article. This article also examines within-subject effect sizes for personalized feedback interventions (PFIs) for high-risk alcohol use and examines the content of PFIs more closely to provide insight on the most essential components that will guide the future development of feedback-based interventions. In general, PFIs appear to be reliably effective at reducing harmful alcohol misuse among college students. Some components are almost universally included (i.e., drinking profile and normative comparison), precluding inferences regarding their unique contribution. Significantly larger effect sizes were observed for interventions that included decisional balance, practical costs, and strategies to limit risks. The present research provides an important empirical foundation for determining the relative contribution of individual components and facets in the efficacy of PFIs. PMID:23276309

  15. Totally Asymmetric Simple Exclusion Process with Langmuir Kinetics depending on the Occupancy of the Neighboring Sites

    NASA Astrophysics Data System (ADS)

    Ichiki, Shingo; Sato, Jun; Nishinari, Katsuhiro

    2016-04-01

    We generalize the totally asymmetric simple exclusion process with Langmuir kinetics (TASEP-LK). In the original TASEP-LK, when a site on the lattice is empty, a particle is attached at a certain rate, whereas the particle is detached at a certain rate when the site is occupied. In the extended TASEP-LK, the rates of attachment and detachment depend on the occupancy of the neighboring sites. In particular, we consider the case where the attachment rate and detachment rate are equal in each state of the neighboring sites. We analytically study a density profile using a mean-field approximation. Then, the results are compared with Monte Carlo simulations. We find in detail that the characteristic of the density profile is changed by manipulating each attachment and detachment parameter. It is showed that the position of a domain wall, which is fixed in the original model, changes depending on the inflow and outflow rates when the rates at the right and left boundaries are the same.

  16. Face super-resolution via multilayer locality-constrained iterative neighbor embedding and intermediate dictionary learning.

    PubMed

    Jiang, Junjun; Hu, Ruimin; Wang, Zhongyuan; Han, Zhen

    2014-10-01

    Based on the assumption that low-resolution (LR) and high-resolution (HR) manifolds are locally isometric, the neighbor embedding super-resolution algorithms try to preserve the geometry (reconstruction weights) of the LR space for the reconstructed HR space, but neglect the geometry of the original HR space. Due to the degradation process of the LR image (e.g., noisy, blurred, and down-sampled), the neighborhood relationship of the LR space cannot reflect the truth. To this end, this paper proposes a coarse-to-fine face super-resolution approach via a multilayer locality-constrained iterative neighbor embedding technique, which intends to represent the input LR patch while preserving the geometry of original HR space. In particular, we iteratively update the LR patch representation and the estimated HR patch, and meanwhile an intermediate dictionary learning scheme is employed to bridge the LR manifold and original HR manifold. The proposed method can faithfully capture the intrinsic image degradation shift and enhance the consistency between the reconstructed HR manifold and the original HR manifold. Experiments with application to face super-resolution on the CAS-PEAL-R1 database and real-world images demonstrate the power of the proposed algorithm. PMID:25134081

  17. Hydrogen abstraction from deoxyribose by a neighboring 3'-uracil peroxyl radical.

    PubMed

    Schyman, Patric; Eriksson, Leif A; Laaksonen, Aatto

    2009-05-01

    Theoretical examination of the reactivity of the uracil-5-peroxyl radical when abstracting a hydrogen atom from a neighboring 5'-deoxyribose in 5'-ApU-5-peroxyl-3' has been performed using density functional theory with the MPWB1K functional. Halogenated uracils are often used as radiosensitizers in DNA since the reactive uracil-5-yl radical is formed upon radiation and is known to create strand break and alkali-labile sites. Under aerobic conditions, such as in the cell, it has been proposed that the uracil-5-peroxyl radical is formed and would be the damaging agent. Our results show low reactivity for the uracil-5-peroxyl radical, determined by calculating the activation and reaction energies for the plausible hydrogen abstraction sites C1', C2', and C3' of the neighboring 5'-deoxyribose. These findings support the hypothesis that hydrogen abstraction primarily occurs by the uracil-5-yl radical, also under aerobic conditions, prior to formation of the peroxyl radical. PMID:19402732

  18. Radiation dose rates now and in the future for residents neighboring restricted areas of the Fukushima Daiichi Nuclear Power Plant

    PubMed Central

    Harada, Kouji H.; Niisoe, Tamon; Imanaka, Mie; Takahashi, Tomoyuki; Amako, Katsumi; Fujii, Yukiko; Kanameishi, Masatoshi; Ohse, Kenji; Nakai, Yasumichi; Nishikawa, Tamami; Saito, Yuuichi; Sakamoto, Hiroko; Ueyama, Keiko; Hisaki, Kumiko; Ohara, Eiji; Inoue, Tokiko; Yamamoto, Kanako; Matsuoka, Yukiyo; Ohata, Hitomi; Toshima, Kazue; Okada, Ayumi; Sato, Hitomi; Kuwamori, Toyomi; Tani, Hiroko; Suzuki, Reiko; Kashikura, Mai; Nezu, Michiko; Miyachi, Yoko; Arai, Fusako; Kuwamori, Masanori; Harada, Sumiko; Ohmori, Akira; Ishikawa, Hirohiko; Koizumi, Akio

    2014-01-01

    Radiation dose rates were evaluated in three areas neighboring a restricted area within a 20- to 50-km radius of the Fukushima Daiichi Nuclear Power Plant in August–September 2012 and projected to 2022 and 2062. Study participants wore personal dosimeters measuring external dose equivalents, almost entirely from deposited radionuclides (groundshine). External dose rate equivalents owing to the accident averaged 1.03, 2.75, and 1.66 mSv/y in the village of Kawauchi, the Tamano area of Soma, and the Haramachi area of Minamisoma, respectively. Internal dose rates estimated from dietary intake of radiocesium averaged 0.0058, 0.019, and 0.0088 mSv/y in Kawauchi, Tamano, and Haramachi, respectively. Dose rates from inhalation of resuspended radiocesium were lower than 0.001 mSv/y. In 2012, the average annual doses from radiocesium were close to the average background radiation exposure (2 mSv/y) in Japan. Accounting only for the physical decay of radiocesium, mean annual dose rates in 2022 were estimated as 0.31, 0.87, and 0.53 mSv/y in Kawauchi, Tamano, and Haramachi, respectively. The simple and conservative estimates are comparable with variations in the background dose, and unlikely to exceed the ordinary permissible dose rate (1 mSv/y) for the majority of the Fukushima population. Health risk assessment indicates that post-2012 doses will increase lifetime solid cancer, leukemia, and breast cancer incidences by 1.06%, 0.03% and 0.28% respectively, in Tamano. This assessment was derived from short-term observation with uncertainties and did not evaluate the first-year dose and radioiodine exposure. Nevertheless, this estimate provides perspective on the long-term radiation exposure levels in the three regions. PMID:24567380

  19. Seismic clusters analysis in North-Eastern Italy by the nearest-neighbor approach

    NASA Astrophysics Data System (ADS)

    Peresan, Antonella; Gentili, Stefania

    2016-04-01

    The main features of earthquake clusters in the Friuli Venezia Giulia Region (North Eastern Italy) are explored, with the aim to get some new insights on local scale patterns of seismicity in the area. The study is based on a systematic analysis of robustly and uniformly detected seismic clusters of small-to-medium magnitude events, as opposed to selected clusters analyzed in earlier studies. To characterize the features of seismicity for FVG, we take advantage of updated information from local OGS bulletins, compiled at the National Institute of Oceanography and Experimental Geophysics, Centre of Seismological Research, since 1977. A preliminary reappraisal of the earthquake bulletins is carried out, in order to identify possible missing events and to remove spurious records (e.g. duplicates and explosions). The area of sufficient completeness is outlined; for this purpose, different techniques are applied, including a comparative analysis with global ISC data, which are available in the region for large and moderate size earthquakes. Various techniques are considered to estimate the average parameters that characterize the earthquake occurrence in the region, including the b-value and the fractal dimension of epicenters distribution. Specifically, besides the classical Gutenberg-Richter Law, the Unified Scaling Law for Earthquakes, USLE, is applied. Using the updated and revised OGS data, a new formal method for detection of earthquake clusters, based on nearest-neighbor distances of events in space-time-energy domain, is applied. The bimodality of the distribution, which characterizes the earthquake nearest-neighbor distances, is used to decompose the seismic catalog into sequences of individual clusters and background seismicity. Accordingly, the method allows for a data-driven identification of main shocks (first event with the largest magnitude in the cluster), foreshocks and aftershocks. Average robust estimates of the USLE parameters (particularly, b

  20. Twins born in different environments? Nuclei of two dSphs: isolated galaxy KKS3 and ESO269-66, a close neighbor of NGC5128

    NASA Astrophysics Data System (ADS)

    Sharina, Margarita; Karachentsev, Igor; Kniazev, Alexei

    2015-08-01

    The close vicinity of giant neighbors determines the environmental mechanisms that have been considered responsible for the evolution of dwarf spheroidal galaxies (dSphs). In the recent years, Karachentsev and collaborators have reported on the discovery of a few truly isolated dSphs in the Local volume. This study focuses on one of these unusual objects, KKs3 (MV=-12.3 mag). It contains a massive globular cluster (GC) (MV=-8.5 mag) near its optical center. We have performed the estimation of its radial velocity using a medium-resolution spectrum obtained with the RSS spectrograph at the Southern African Large Telescope (SALT). The signal-to-noise ratio in the spectrum was sufficient to estimate the age and metallicity for the GC using simple stellar population models, and the methods of full spectrum fitting and Lick index diagnostic diagrams. The results contribute to the knowledge about the origin of massive star clusters and their host dSphs.In the same way we have analyzed another luminous GC (MV=-10) in the center of ESO269-66 (MB=-15.4), a close dSph neighbor of the giant S0 Cen A. The cluster was observed with SALT in the same instrumental configuration. The structure and star formation histories of the two galaxies look rather similar. Both of them have experienced several star-forming events. The most recent ones occurred 1÷2 Gyr ago, and most powerful bursts happened 12÷14 Gyrs ago. Our analysis has shown that both GCs appear to be 1÷2 Gyr younger and 0.2÷0.3 dex more metal-rich than the most ancient metal-poor stars in the host dSphs. We examine signatures of multiple stellar population in the GCs using out data. Since central star-forming bursts were extended in time, the massive clusters might be considered as nuclei of the galaxies.

  1. False-nearest-neighbors algorithm and noise-corrupted time series

    NASA Astrophysics Data System (ADS)

    Rhodes, Carl; Morari, Manfred

    1997-05-01

    The false-nearest-neighbors (FNN) algorithm was originally developed to determine the embedding dimension for autonomous time series. For noise-free computer-generated time series, the algorithm does a good job in predicting the embedding dimension. However, the problem of predicting the embedding dimension when the time-series data are corrupted by noise was not fully examined in the original studies of the FNN algorithm. Here it is shown that with large data sets, even small amounts of noise can lead to incorrect prediction of the embedding dimension. Surprisingly, as the length of the time series analyzed by FNN grows larger, the cause of incorrect prediction becomes more pronounced. An analysis of the effect of noise on the FNN algorithm and a solution for dealing with the effects of noise are given here. Some results on the theoretically correct choice of the FNN threshold are also presented.

  2. Comparing distance metrics for rotation using the k-nearest neighbors algorithm for entropy estimation.

    PubMed

    Huggins, David J

    2014-02-15

    Distance metrics facilitate a number of methods for statistical analysis. For statistical mechanical applications, it is useful to be able to compute the distance between two different orientations of a molecule. However, a number of distance metrics for rotation have been employed, and in this study, we consider different distance metrics and their utility in entropy estimation using the k-nearest neighbors (KNN) algorithm. This approach shows a number of advantages over entropy estimation using a histogram method, and the different approaches are assessed using uniform randomly generated data, biased randomly generated data, and data from a molecular dynamics (MD) simulation of bulk water. The results identify quaternion metrics as superior to a metric based on the Euler angles. However, it is demonstrated that samples from MD simulation must be independent for effective use of the KNN algorithm and this finding impacts any application to time series data. PMID:24311273

  3. Self-Organized Criticality in Glassy Spin Systems Requires a Diverging Number of Neighbors

    NASA Astrophysics Data System (ADS)

    Andresen, Juan Carlos; Zhu, Zheng; Andrist, Ruben S.; Katzgraber, Helmut G.; Dobrosavljević, V.; Zimanyi, Gergely T.

    2013-08-01

    We investigate the conditions required for general spin systems with frustration and disorder to display self-organized criticality, a property which so far has been established only for the fully connected infinite-range Sherrington-Kirkpatrick Ising spin-glass model [Phys. Rev. Lett. 83, 1034 (1999)]. Here, we study both avalanche and magnetization jump distributions triggered by an external magnetic field, as well as internal field distributions in the short-range Edwards-Anderson Ising spin glass for various space dimensions between 2 and 8, as well as the fixed-connectivity mean-field Viana-Bray model. Our numerical results, obtained on systems of unprecedented size, demonstrate that self-organized criticality is recovered only in the strict limit of a diverging number of neighbors and is not a generic property of spin-glass models in finite space dimensions.

  4. Density functional theory for nearest-neighbor exclusion lattice gases in two and three dimensions

    NASA Astrophysics Data System (ADS)

    Lafuente, Luis; Cuesta, José A.

    2003-12-01

    To speak about fundamental measure theory obliges us to mention dimensional crossover. This feature, inherent to the systems themselves, was incorporated in the theory almost from the beginning. Although at first it was thought to be a consistency check for the theory, it rapidly became its fundamental pillar, thus becoming the only density functional theory which possesses such a property. It is straightforward that dimensional crossover connects, for instance, the parallel hard cube system (three dimensional) with that of squares (two dimensional) and rods (one dimensional). We show here that there are many more connections which can be established in this way. Through them we deduce from the functional for parallel hard (hyper)cubes in the simple (hyper)cubic lattice the corresponding functionals for the nearest-neighbor exclusion lattice gases in the square, triangular, simple cubic, face-centered-cubic, and body-centered-cubic lattices. As an application, the bulk phase diagram for all these systems is obtained.

  5. Quantum simulation of pairing Hamiltonians with nearest-neighbor-interacting qubits

    NASA Astrophysics Data System (ADS)

    Wang, Zhixin; Gu, Xiu; Wu, Lian-Ao; Liu, Yu-xi

    2016-06-01

    Although a universal quantum computer is still far from reach, the tremendous advances in controllable quantum devices, in particular with solid-state systems, make it possible to physically implement "quantum simulators." Quantum simulators are physical setups able to simulate other quantum systems efficiently that are intractable on classical computers. Based on solid-state qubit systems with various types of nearest-neighbor interactions, we propose a complete set of algorithms for simulating pairing Hamiltonians. The fidelity of the target states corresponding to each algorithm is numerically studied. We also compare algorithms designed for different types of experimentally available Hamiltonians and analyze their complexity. Furthermore, we design a measurement scheme to extract energy spectra from the simulators. Our simulation algorithms might be feasible with state-of-the-art technology in solid-state quantum devices.

  6. Shifts from a distant neighboring resonance for a four-level atom

    SciTech Connect

    Horbatsch, M.; Hessels, E. A.

    2011-09-15

    In a recent paper [Phys. Rev. A 82, 052519 (2010)], the systematic shifts of a resonance due to quantum-mechanical interference from a distant neighboring resonance were derived. In that paper, the simplest three-level closed system was used to calculate analytic expressions for shifts in the resonant line centers. Here, we extend the analysis to the more relevant four-level system, which consists of two ground states and two excited states and which incorporates the physics of dark states. The shifts are shown to depend on the type of experiment performed and can be much larger than the shifts for the three-level system. The analytic formulas obtained are applied to the {sup 23}S-to-{sup 23}P transitions in atomic helium, where significant shifts are found.

  7. Cells Expressing the C/EBPbeta Isoform, LIP, Engulf Their Neighbors

    PubMed Central

    Abreu, Maria; Sealy, Linda

    2012-01-01

    Descriptions of various processes that lead to cell-in-cell structures have been reported for decades. The exact molecular mechanism(s) of their formation and the physiological significance of cell-in-cell structures remain poorly understood. We had previously shown that an isoform of the CCAAT/enhancer-binding protein beta (C/EBPbeta) transcription factor, liver-enriched inhibitory protein (LIP), induces cell death in human breast cancer cells and stimulates autophagy. Here we describe a non-apoptotic cell death process where LIP mediates the engulfment of neighboring cells. We provide evidence of LIP-mediated engulfment via DNA profiling, fluorescent imaging and cell sorting studies, as well as ultrastructure analysis of LIP-expressing MDA-MB-468 breast cancer cells. Our work illustrates that expression of a specific transcription factor, LIP, can mediate cell engulfment. PMID:22860016

  8. Nearest neighbor correlations in perpendicular artificial spin ice arrays in the presence of an applied field

    NASA Astrophysics Data System (ADS)

    Kempinger, Susan; Fraleigh, Robert; Lammert, Paul; Crespi, Vincent; Samarth, Nitin; Schiffer, Peter

    By studying the field dependent magnetization switching process in perpendicular artificial spin ice arrays arrays, we hope to gain insight in to the dynamical properties of interacting spin systems. To this end, we have used diffraction-limited Kerr imaging to study lithographically patterned arrays of single domain, nanoscale islands of Co/Pt multilayers. We can tune the interaction strength and introduce geometric frustration in to the patterned systems by changing the lattice spacing and geometry of the arrays. Using MOKE microscopy we are able to optically resolve, spatially isolate, and extract the switching field of each island in an array in the presence of an external field. These switching fields allow us to calculate the magnetization and nearest neighbor spin-spin correlation throughout a hysteresis loop. These quantities help us determine the effect of increased interactions and geometric frustration on the switching process of dipole coupled arrays. Funded by DOE.

  9. An Evidence-Theoretic k-Nearest Neighbor Rule for Multi-label Classification

    NASA Astrophysics Data System (ADS)

    Younes, Zoulficar; Abdallah, Fahed; Denœux, Thierry

    In multi-label learning, each instance in the training set is associated with a set of labels, and the task is to output a label set for each unseen instance. This paper describes a new method for multi-label classification based on the Dempster-Shafer theory of belief functions to classify an unseen instance on the basis of its k nearest neighbors. The proposed method generalizes an existing single-label evidence-theoretic learning method to the multi-label case. In multi-label case, the frame of discernment is not the set of all possible classes, but it is the powerset of this set. That requires an extension of evidence theory to manipulate multi-labelled data. Using evidence theory makes us able to handle ambiguity and imperfect knowledge regarding the label sets of training patterns. Experiments on benchmark datasets show the efficiency of the proposed approach as compared to other existing methods.

  10. Spaces of phylogenetic networks from generalized nearest-neighbor interchange operations.

    PubMed

    Huber, Katharina T; Linz, Simone; Moulton, Vincent; Wu, Taoyang

    2016-02-01

    Phylogenetic networks are a generalization of evolutionary or phylogenetic trees that are used to represent the evolution of species which have undergone reticulate evolution. In this paper we consider spaces of such networks defined by some novel local operations that we introduce for converting one phylogenetic network into another. These operations are modeled on the well-studied nearest-neighbor interchange operations on phylogenetic trees, and lead to natural generalizations of the tree spaces that have been previously associated to such operations. We present several results on spaces of some relatively simple networks, called level-1 networks, including the size of the neighborhood of a fixed network, and bounds on the diameter of the metric defined by taking the smallest number of operations required to convert one network into another. We expect that our results will be useful in the development of methods for systematically searching for optimal phylogenetic networks using, for example, likelihood and Bayesian approaches. PMID:26037483

  11. Fringe-Orientation Estimation by use of a Gaussian Gradient Filter and Neighboring-Direction Averaging

    NASA Astrophysics Data System (ADS)

    Zhou, Xiang; Baird, John P.; Arnold, John F.

    1999-02-01

    We analyze the effect of image noise on the estimation of fringe orientation in principle and interpret the application of a texture-analysis technique to the problem of estimating fringe orientation in interferograms. The gradient of a Gaussian filter and neighboring-direction averaging are shown to meet the requirements of fringe-orientation estimation by reduction of the effects of low-frequency background and contrast variances as well as high-frequency random image noise. The technique also improves inaccurate orientation estimation at low-modulation points, such as fringe centers and broken fringes. Experiments demonstrate that the scales of the Gaussian gradient filter and the direction averaging should be chosen according to the fringe spacings of the interferograms.

  12. Running with neighbors: coordinating cell migration and cell-cell adhesion.

    PubMed

    Collins, Caitlin; Nelson, W James

    2015-10-01

    Coordinated movement of large groups of cells is required for many biological processes, such as gastrulation and wound healing. During collective cell migration, cell-cell and cell-extracellular matrix (ECM) adhesions must be integrated so that cells maintain strong interactions with neighboring cells and the underlying substratum. Initiation and maintenance of cadherin adhesions at cell-cell junctions and integrin-based cell-ECM adhesions require integration of mechanical cues, dynamic regulation of the actin cytoskeleton, and input from specific signaling cascades, including Rho family GTPases. Here, we summarize recent advances made in understanding the interplay between these pathways at cadherin-based and integrin-based adhesions during collective cell migration and highlight outstanding questions that remain in the field. PMID:26201843

  13. Disaggregation of Daily Rainfall using Modified K-Nearest Neighbors Resampling Method

    NASA Astrophysics Data System (ADS)

    Chung, G.; Park, H.

    2015-12-01

    As the city is developed, the protection of the city from the severe flood becomes important due to the possible massive economic damage and fatality. In a mega city, such as Seoul, the travel time in an urban area is less than 2 hours, which causes the difficulty in the estimation of runoff and requires a set of short time step rainfall data. Therefore, in this study, the daily rainfall is stochastically disaggregated into hourly data using Modified K-Nearest Neighbor (MKNN) resampling method. When MKNN resampling method is applied, 7 rainfall patterns are developed using historical hourly data and utilized these patterns to reproduce the similar hourly patterns of the disaggregated data. The proposed method is applied in the 54 years of Seoul precipitation data.

  14. Magic nucleus 132Sn and its one-neutron-hole neighbor 131Sn.

    PubMed

    Bhattacharyya, P; Daly, P J; Zhang, C T; Grabowski, Z W; Saha, S K; Broda, R; Fornal, B; Ahmad, I; Seweryniak, D; Wiedenhöver, I; Carpenter, M P; Janssens, R V; Khoo, T L; Lauritsen, T; Lister, C J; Reiter, P; Blomqvist, J

    2001-08-01

    Prompt and delayed gamma-ray cascades in doubly magic 132Sn and its neighbor 131Sn have been studied at Gammasphere using a 248Cm fission source. Isotopic assignments of unknown gamma rays were based on coincidences with known transitions in A = 112-116 Pd fission partners. The yrast level spectra of both tin nuclei are interpreted using empirical nucleon-nucleon interactions from the 132Sn and 208Pb regions. Results include identification of the (nuf(7/2)h(-1)(11/2))9(+) aligned state in 132Sn and of extensive (nuf(7/2)h(-2)(11/2)), (nuf(7/2)d(-1)(3/2)h(-1)(11/2)) and (nuh(-1)(11/2)x3(-)) multiplets in 131Sn. The previously reported beta(-) decay of an unusual 131In high-spin isomer to levels in 131Sn is also elucidated. PMID:11497825

  15. Scaling of nearest neighbors' connectivity distribution for scale-free networks

    NASA Astrophysics Data System (ADS)

    Wei, Zong-Wen; Zhang, Wen-Yao; li, Yu-Jian; Wang, Bing-Hong

    2015-09-01

    Most of real-world networks are called scale-free networks, since the degree distribution follows a power law. However, observing from a node, its nearest neighbors' degree distribution expressed by conditional probability P(k'|k) lacks definite studies and conclusions. Here, we provide a systematic study combined with theoretical and empirical demonstrations, which reveal the inherent connectivity profile of real-world networks. We show that P(k'|k) in the regime k' and k'>k can be approximated by different power laws. One is strongly determined by the degree correlation, and the other depends on both degree distribution and correlation. Based on this result, we propose a degree correlation spectra approach beyond the widely used Pearson correlation coefficient, finding that some networks exhibit sophisticated hybrid correlation patterns. Our results represent a step forward in understanding the structure of complex networks.

  16. Using the joint transform correlator as the feature extractor for the nearest neighbor classifier

    NASA Astrophysics Data System (ADS)

    Soon, Boon Y.; Karim, Mohammad A.; Alam, Mohammad S.

    1999-01-01

    Financial transactions using credit cards have gained popularity but the growing number of counterfeits and frauds may defeat the purpose of the cards. The search for a superior method to curb the criminal acts has become urgent especially in the brilliant information age. Currently, neural-network-based pattern recognition techniques are employed for security verification. However, it has been a time consuming experience, as some techniques require a long period of training time. Here, a faster and more efficient method is proposed to perform security verification that verifies the fingerprint images using the joint transform correlator as a feature extractor for nearest neighbor classifier. The uniqueness comparison scheme is proposed to improve the accuracy of the system verification. The performance of the system under noise corruption, variable contrast, and rotation of the input image is verified with a computer simulation.

  17. Modeling of free electronic state density in hydrogenic plasmas based on nearest neighbor approximation

    SciTech Connect

    Nishikawa, Takeshi

    2014-07-15

    Most conventional atomic models in a plasma do not treat the effect of the plasma on the free-electron state density. Using a nearest neighbor approximation, the state densities in hydrogenic plasmas for both bound and free electrons were evaluated and the effect of the plasma on the atomic model (especially for the state density of the free electron) was studied. The model evaluates the electron-state densities using the potential distribution formed by the superposition of the Coulomb potentials of two ions. The potential from one ion perturbs the electronic state density on the other. Using this new model, one can evaluate the free-state density without making any ad-hoc assumptions. The resulting contours of the average ionization degree, given as a function of the plasma temperature and density, are shifted slightly to lower temperatures because of the effect of the increasing free-state density.

  18. Decreased Antibiotic Prescription in an Italian Pediatric Population With Nonspecific and Persistent Upper Respiratory Tract Infections by Use of a Point-of-Care White Blood Cell Count, in Addition to Antibiotic Delayed Prescription Strategy

    PubMed Central

    Cioffi, Luigi; Limauro, Raffaele; Sassi, Roberto; Boccazzi, Antonio; del Gaizo, Donatella

    2016-01-01

    The aim of this study was to test, in delayed antibiotic strategy, if the usages of a point-of-care leukocyte count would significantly decrease the prescription rate of antibiotics for children with nonspecific upper respiratory tract infections. A prospective clinical trial was performed in 23 primary care pediatric doctors’ offices on children with nonspecific upper respiratory tract infection with fever for at least 48 hours. The children were randomized into 2 groups: one using a point-of-care white blood cell (WBC) count as guidance and the other prescribing antibiotics to all children, according to delayed antibiotics prescription strategy. A total of 792 patients participated. In the WBC group (n = 437), 56 patients had WBC >15 000/mm3 and received antibiotics. At follow-up, an additional 44 children received antibiotics. In the control group (n = 355), antibiotics were prescribed to all children. The reduction of antibiotic usage was 77% between the groups. The decrease in antibiotic usage gave no influence on recovery, complications, or other medical outcome. PMID:27335990

  19. Detection of Burkholderia pseudomallei O-antigen serotypes in near-neighbor species

    PubMed Central

    2012-01-01

    Background Burkholderia pseudomallei is the etiological agent of melioidosis and a CDC category B select agent with no available effective vaccine. Previous immunizations in mice have utilized the lipopolysaccharide (LPS) as a potential vaccine target because it is known as one of the most important antigenic epitopes in B. pseudomallei. Complicating this strategy are the four different B. pseudomallei LPS O-antigen types: A, B, B2, and rough. Sero-crossreactivity is common among O-antigens of Burkholderia species. Here, we identified the presence of multiple B. pseudomallei O-antigen types and sero-crossreactivity in its near-neighbor species. Results PCR screening of O-antigen biosynthesis genes, phenotypic characterization using SDS-PAGE, and immunoblot analysis showed that majority of B. mallei and B. thailandensis strains contained the typical O-antigen type A. In contrast, most of B. ubonensis and B. thailandensis-like strains expressed the atypical O-antigen types B and B2, respectively. Most B. oklahomensis strains expressed a distinct and non-seroreactive O-antigen type, except strain E0147 which expressed O-antigen type A. O-antigen type B2 was also detected in B. thailandensis 82172, B. ubonensis MSMB108, and Burkholderia sp. MSMB175. Interestingly, B. thailandensis-like MSMB43 contained a novel serotype B positive O-antigen. Conclusions This study expands the number of species which express B. pseudomallei O-antigen types. Further work is required to elucidate the full structures and how closely these are to the B. pseudomallei O-antigens, which will ultimately determine the efficacy of the near-neighbor B serotypes for vaccine development. PMID:23126230

  20. Distance-Constraint k-Nearest Neighbor Searching in Mobile Sensor Networks

    PubMed Central

    Han, Yongkoo; Park, Kisung; Hong, Jihye; Ulamin, Noor; Lee, Young-Koo

    2015-01-01

    The k-Nearest Neighbors (kNN) query is an important spatial query in mobile sensor networks. In this work we extend kNN to include a distance constraint, calling it a l-distant k-nearest-neighbors (l-kNN) query, which finds the k sensor nodes nearest to a query point that are also at l or greater distance from each other. The query results indicate the objects nearest to the area of interest that are scattered from each other by at least distance l. The l- kNN query can be used in most kNN applications for the case of well distributed query results. To process an l-kNN query, we must discover all sets of kNN sensor nodes and then find all pairs of sensor nodes in each set that are separated by at least a distance l. Given the limited battery and computing power of sensor nodes, this l-kNN query processing is problematically expensive in terms of energy consumption. In this paper, we propose a greedy approach for l- kNN query processing in mobile sensor networks. The key idea of the proposed approach is to divide the search space into subspaces whose all sides are l. By selecting k sensor nodes from the other subspaces near the query point, we guarantee accurate query results for l- kNN. In our experiments, we show that the proposed method exhibits superior performance compared with a post-processing based method using the kNN query in terms of energy efficiency, query latency, and accuracy. PMID:26225969

  1. Rerouting of subglacial water flow between neighboring glaciers in West Greenland

    NASA Astrophysics Data System (ADS)

    Chu, Winnie; Creyts, Timothy T.; Bell, Robin E.

    2016-05-01

    Investigations of the Greenland ice sheet's subglacial hydrological system show that the connectivity of different regions of the system influences how the glacier velocity responds to variations in surface melting. Here we examine whether subglacial water flow paths can be rerouted beneath three outlet glaciers in the ablation zone of western Greenland. We use Lamont-Doherty and Center for Remote Sensing of Ice Sheets of University of Kansas (CReSIS) ice-penetrating radar data to create a new ice thickness map. We then use a simple subglacial water flow model to examine whether flow paths can be rerouted and identify the topographic conditions that are sensitive to subglacial rerouting. By varying water pressures within an observationally constrained range, we show that moderate changes in pressure can cause flow paths to reroute and exchange water from one subglacial catchment to another. Flow across subglacial overdeepenings is particularly sensitive to rerouting. These areas have low hydraulic gradients driving flow, so subtle water pressure variations have a strong influence on water flow direction. Based on correlations between water flow paths and ice velocity changes, we infer that water piracy between neighboring catchments can result in a different spatial pattern of hydrologically induced ice velocity speedup depending on the amount and timing of surface melt. The potential for subglacial water to reroute across different catchments suggests that multiple hydrographs from neighboring glaciers are likely necessary to accurately ascertain melt budgets from proglacial point measurements. The relationship between surface runoff, ice dynamics, and proglacial discharge can be altered by rerouting of subglacial water flow within and across outlet glaciers.

  2. Remote Field Eddy Curent Signal Modeling for the Gap Measurement of Neighboring Tubes

    SciTech Connect

    Jung, H.K.; Lee, D.H.; Lee, Y.S.

    2005-04-09

    The fuel channels in the Canadian Deuterium Uranium (CANDU) reactor consist of the coaxial pressure tube (PT) and the calandria tube (CT). The Liquid injection nozzle (LIN) is cross aligned with the fuel channel to control the reactor by injecting poison. For a safe operation, the gap between the LIN and CT should be maintained in order to prevent a contact of the neighboring tubes. The remote field eddy current (RFEC) method was applied to measure the gap between a nonmagnetic Zircaloy-2 liquid injection nozzle (LIN) and a Zircaloy-2 calandria tube. Under the condition of inserting the RFEC probe into the coaxial tubes and of crossing a LIN above or under the CT, the modeling of a LIN signal is needed to check the possibility of a gap measurement. The Volume Integral Code S/W which covers the axi-symmetric 3D configuration has been very rarely applied to obtain a LIN signal. This problem was solved by assuming a LIN as a flaw which can be described as a complete 3D object. This simulated LIN signal was verified by performing the laboratory experiment. The gap between the LIN and CT can be correlated with the amplitude of the LIN signals in the voltage plane. Typical noises in the fuel channel were the relative constriction, the change in the pressure tube diameter (fill-factor), thickness variation, and so on. These noise signals were simulated by using the modeling and were analyzed by considering their dependency on the phase angle and amplitude of the voltage plane in order to separate the gap signal from them. It could be concluded that the voltage plane analysis of the simulated RFEC signals were effective for obtaining the gap measurement of the neighboring tube.

  3. Contaminant profiles of two species of shorebirds foraging together at two neighboring sites in South San Francisco Bay, California

    USGS Publications Warehouse

    Hui, C.A.; Takekawa, J.Y.; Warnock, S.E.

    2001-01-01

    The San Francisco Bay estuary is used by over one million shorebirds during spring migration and is home to several hundred thousand during the winter. Most shorebird use occurs in the southern reach of the estuary (South Bay). The reduced water circulation and discharge from industrial sources in the South Bay are responsible for the highest levels of some trace elements in the estuary. Wintering shorebirds have been found to have strong site fidelity to areas as small as a few kilometers in the South Bay, which may increase their exposure to contaminants near local point sources. In addition, different shorebird species foraging at the same site have been shown to have different contaminant burdens. Thus, our objectives were to test whether contaminant burdens differed by species, or whether contaminant burdens differed in shorebirds collected at adjacent sites. We examined the contaminant profiles of two species of shorebirds, long-billed dowitchers (Limnodromus scolopaceus) and western sandpipers (Calidris mauri) that forage together at two sites, Hayward and Newark, separated by 8 km in the South Bay. We used multivariate analysis of variance tests to compare the composition of 14 elemental analytes in their liver tissues and estimated their molar ratios of Hg and Se. Composite samples were used for contaminant analyses because of the small body size of the shorebirds. Seven elemental analytes (Ag, Ba, Be, Cr, Ni, Pb, V) were below detection limits in a majority of the samples so statistical analyses were precluded. In the measurable analytes (As, Cd, Cu, Hg, Mn, Se, Zn), we found no significant intra-site differences of contaminant profiles for the two species. We pooled the samples to examine inter-site differences and found significant differences in contaminant profiles between shorebirds at the neighboring sites (P = 0.03). Shorebirds at Newark had higher (P 0.05).

  4. Building a co-created citizen science program with gardeners neighboring a superfund site: The Gardenroots case study

    PubMed Central

    Ramirez-Andreotta, Monica D; Brusseau, Mark L; Artiola, Janick; Maier, Raina M; Gandolfi, A Jay

    2014-01-01

    A research project that is only expert-driven may ignore the role of local knowledge in research, give low priority to the development of a comprehensive communication strategy to engage the community, and may not deliver the results of the study to the community in an effective way. Objective To demonstrate how a research program can respond to a community research need, establish a community-academic partnership, and build a co-created citizen science program. Methods A place-based, community-driven project was designed where academics and community members maintained a reciprocal dialogue, and together, we: 1) defined the question for study, 2) gathered information, 3) developed hypotheses, 3) designed data collection methodologies, 4) collected environmental samples (soil, irrigation water, and vegetables), 5) interpreted data, 6) disseminated results and translated results into action, and 7) discussed results and asked new questions. Results The co-created environmental research project produced new data and addressed an additional exposure route (consumption of vegetables grown in soils with elevated arsenic levels). Public participation in scientific research improved environmental health assessment, information transfer, and risk communication efforts. Furthermore, incorporating the community in the scientific process produced both individual learning outcomes and community-level outcomes. Conclusions This approach illustrates the benefits of a community-academic co-created citizen-science program in addressing the complex problems that arise in communities neighboring a contaminated site. Such a project can increase the community's involvement in risk communication and decision-making, which ultimately has the potential to help mitigate exposure and thereby reduce associated risk. PMID:25954473

  5. Absorbing phase transition in a conserved lattice gas model with next-nearest-neighbor hopping in one dimension.

    PubMed

    Lee, Sang Bub

    2015-12-01

    The absorbing phase transition of the modified conserved lattice gas (m-CLG) model was investigated in one dimension. The m-CLG model was modified from the conserved lattice gas (CLG) model in such a way that each active particle hops to one of the nearest-neighbor and next-nearest-neighbor empty sites. The order parameter exponent, the dynamic exponent, and the correlation length exponent were estimated from the power-law behavior and finite-size scaling of the active particle densities. The exponents were found to differ considerably from those of the ordinary CLG model and were also distinct from those of the Manna model, suggesting that next-nearest-neighbor hopping is a relevant factor that alters the critical behavior in the one-dimensional CLG model. PMID:26764627

  6. The N400 as a snapshot of interactive processing: evidence from regression analyses of orthographic neighbor and lexical associate effects

    PubMed Central

    Laszlo, Sarah; Federmeier, Kara D.

    2010-01-01

    Linking print with meaning tends to be divided into subprocesses, such as recognition of an input's lexical entry and subsequent access of semantics. However, recent results suggest that the set of semantic features activated by an input is broader than implied by a view wherein access serially follows recognition. EEG was collected from participants who viewed items varying in number and frequency of both orthographic neighbors and lexical associates. Regression analysis of single item ERPs replicated past findings, showing that N400 amplitudes are greater for items with more neighbors, and further revealed that N400 amplitudes increase for items with more lexical associates and with higher frequency neighbors or associates. Together, the data suggest that in the N400 time window semantic features of items broadly related to inputs are active, consistent with models in which semantic access takes place in parallel with stimulus recognition. PMID:20624252

  7. Quantum signature of discrete breathers in a nonlinear Klein-Gordon lattice with nearest and next-nearest neighbor interactions

    NASA Astrophysics Data System (ADS)

    Tang, Bing; Li, De-Jun

    2016-05-01

    A theoretical work on quantum breathers in a nonlinear Klein-Gordon lattice model with nearest and next-nearest neighbor interactions is presented. The semiclassical and the full quantum cases are respectively considered. For the semiclassical case, we obtain the analytical solution of discrete breather, and find that the wave number corresponding to the appearance of discrete breather changes when the ratio of the next-nearest- to -nearest - neighbor harmonic force constants is greater than 1/4. For the full quantum case, by calculating the energy spectrum of the system containing two quanta, we prove numerically the existence of quantum breathers (two-quanta bound states) and find the shape of energy spectrum changes dramatically as the value of next -nearest neighbor harmonic force constant increasing.

  8. Efficiency of encounter-controlled reaction between diffusing reactants in a finite lattice: Non-nearest-neighbor effects

    NASA Astrophysics Data System (ADS)

    Bentz, Jonathan L.; Kozak, John J.; Nicolis, Gregoire

    2005-08-01

    The influence of non-nearest-neighbor displacements on the efficiency of diffusion-reaction processes involving one and two mobile diffusing reactants is studied. An exact analytic result is given for dimension d=1 from which, for large lattices, one can recover the asymptotic estimate reported 30 years ago by Lakatos-Lindenberg and Shuler. For dimensions d=2,3 we present numerically exact values for the mean time to reaction, as gauged by the mean walklength before reactive encounter, obtained via the theory of finite Markov processes and supported by Monte Carlo simulations. Qualitatively different results are found between processes occurring on d=1 versus d>1 lattices, and between results obtained assuming nearest-neighbor (only) versus non-nearest-neighbor displacements.

  9. Having quality population.

    PubMed

    Ramos, F V

    1993-06-01

    This speech was delivered during Population and Development Week in the Philippines. Attention was drawn to population statistics: an annual growth rate of 2.3%, density of 202 persons/sq km, and an expected population of 75 million by the year 2000. Coupled with rapid population growth is the uneven distribution of wealth: the top 20% have over 50% of the total income and the lowest 20% have only 5% of the income. In such a social situation, it is women and children who are the most vulnerable. In cities, unemployment is high due to population growth and the migration of the rural poor. The rural poor living in areas of declining resources also move onto marginal uplands, which adds pressure to the already fragile ecology. Everyone must accept that the nation's problems are due to overpopulation. The government's development plans aim for sustainable growth, poverty alleviation, reduction in equality, generation of job opportunities, and achievement of social justice. People in government are determined to lead the Philippines toward a higher standard comparable with other dynamic Asian neighbors. The strategy is empowerment of the people. THe value is in the welfare of individuals and their families and the welfare of the nation. Couples have the right to manage their family size voluntarily and responsibly. The government's role is to provide adequate information on family planning in accordance with individual's religious convictions. Policies will also be directed to improved access to quality education, child survival, and maternal health, employment opportunities, and access and control over resources for people. There must be fuller participation of women in development. Support for the government's population program is sought from government officials, the private sector, and nongovernmental organizations. All provincial governors, city and municipal mayors, and all local executives will be directed to formulate population plans and to provide family

  10. Development and implementation of the Good Neighbor Agreement (GNA) practice in the USA sustainable mining development.

    NASA Astrophysics Data System (ADS)

    Masaitis, Alexandra

    2014-05-01

    New economic, environmental and social challenges for the mining industry in the USA show the need to implement "responsible" mining practices that include improved community involvement. Conflicts which occur in the US territory and with US mining companies around the world are now common between the mining proponents, NGO's and communities. These conflicts can sometimes be alleviated by early development of modes of communication, and a formal discussion format that allows airing of concerns and potential resolution of problems. One of the methods that can formalize this process is to establish a Good Neighbor Agreement (GNA), which deals specifically with challenges in relationships between mining operations and the local communities. It is a new practice related to mining operations that are oriented toward social needs and concerns of local communities that arise during the normal life of a mine, which can achieve sustainable mining practices. The GNA project being currently developed at the University of Nevada, USA in cooperation with the Newmont Mining Corporation has a goal of creating an open company/community dialog that will help identify and address sociological and environmental concerns associated with mining. Discussion: The Good Neighbor Agreement currently evolving will address the following: 1. Identify spheres of possible cooperation between mining companies, government organizations, and NGO's. 2. Provide an economically viable mechanism for developing a partnership between mining operations and the local communities that will increase mining industry's accountability and provide higher levels of confidence for the community that a mine is operated in a safe and sustainable manner. Implementation of the GNA can help identify and evaluate conflict criteria in mining/community relationships; determine the status of concerns; determine the role and responsibilities of stakeholders; analyze problem resolution feasibility; maintain the community

  11. On the difference in oscillator strengths of inner shell excitations in noble gases and their alkali neighbors

    SciTech Connect

    Amusia, M.Y.; Baltenkov, A.S.; Zhuravleva, G.I.

    1995-08-01

    It is demonstrated that the oscillator strength of resonant inner-shell excitation in a noble gas atom is considerably smaller than that in its alkali neighbor because in the latter case the effective charge acting upon excited electron is much bigger. With increase of the excitation`s principal quantum number the difference between line intensities in noble gases and their alkali neighbors rapidly disappears. The calculations are performed in the Hartree-Fock approximation and with inclusion of rearrangement effects due to inner vacancy creation and its Auger decay. A paper has been submitted for publication.

  12. [Food additives and healthiness].

    PubMed

    Heinonen, Marina

    2014-01-01

    Additives are used for improving food structure or preventing its spoilage, for example. Many substances used as additives are also naturally present in food. The safety of additives is evaluated according to commonly agreed principles. If high concentrations of an additive cause adverse health effects for humans, a limit of acceptable daily intake (ADI) is set for it. An additive is a risk only when ADI is exceeded. The healthiness of food is measured on the basis of nutrient density and scientifically proven effects. PMID:24772784

  13. Polyimide processing additives

    NASA Technical Reports Server (NTRS)

    Pratt, J. R.; St. Clair, T. L.; Burks, H. D.; Stoakley, D. M.

    1987-01-01

    A method has been found for enhancing the melt flow of thermoplastic polyimides during processing. A high molecular weight 422 copoly(amic acid) or copolyimide was fused with approximately 0.05 to 5 pct by weight of a low molecular weight amic acid or imide additive, and this melt was studied by capillary rheometry. Excellent flow and improved composite properties on graphite resulted from the addition of a PMDA-aniline additive to LARC-TPI. Solution viscosity studies imply that amic acid additives temporarily lower molecular weight and, hence, enlarge the processing window. Thus, compositions containing the additive have a lower melt viscosity for a longer time than those unmodified.

  14. Export of microRNAs: A Bridge between Breast Carcinoma and Their Neighboring Cells

    PubMed Central

    Jahagirdar, Devashree; Purohit, Shruti; Jain, Aayushi; Sharma, Nilesh Kumar

    2016-01-01

    Breast cancer is a leading type of cancer among women in India as well as worldwide. According to the WHO 2015 report, it has been anticipated that there would be a twofold rise in the death due to breast cancer among women. The heterogeneous property of breast carcinoma has been suggested to be linked with dedicated set of communication and signaling pathway with their surroundings, which culminate into progression and development of the cancer. Among the plethora of communication tools in the hand of breast carcinoma cells is the recently appreciated exocytosis of the tightly packed short non-coding RNA molecules, predominantly the microRNAs (miRNAs). Recent studies suggest that miRNAs may work as courier messengers to participate in endocrine and paracrine signaling to facilitate information transfer between breast carcinoma and their neighboring cells. Evidence suggests that breast tumor cells communicate via packaged miRNAs in the tumor-released microvesicles, which enrich the tumor microenvironment. There is a strong view that dissecting out the mechanistic and regulatory aspects of miRNA export and role may uncover many prospects for overcoming the signaling defects and thereby controlling aberrant cell division. The detection of circulating miRNAs associated with breast carcinoma can also be used as biomarkers for early diagnosis. This review article is an attempt to provide updated knowledge on implications of short RNAs and their transport in the breast cancer pathophysiology. PMID:27379209

  15. Evidence of codon usage in the nearest neighbor spacing distribution of bases in bacterial genomes

    NASA Astrophysics Data System (ADS)

    Higareda, M. F.; Geiger, O.; Mendoza, L.; Méndez-Sánchez, R. A.

    2012-02-01

    Statistical analysis of whole genomic sequences usually assumes a homogeneous nucleotide density throughout the genome, an assumption that has been proved incorrect for several organisms since the nucleotide density is only locally homogeneous. To avoid giving a single numerical value to this variable property, we propose the use of spectral statistics, which characterizes the density of nucleotides as a function of its position in the genome. We show that the cumulative density of bases in bacterial genomes can be separated into an average (or secular) plus a fluctuating part. Bacterial genomes can be divided into two groups according to the qualitative description of their secular part: linear and piecewise linear. These two groups of genomes show different properties when their nucleotide spacing distribution is studied. In order to analyze genomes having a variable nucleotide density, statistically, the use of unfolding is necessary, i.e., to get a separation between the secular part and the fluctuations. The unfolding allows an adequate comparison with the statistical properties of other genomes. With this methodology, four genomes were analyzed Burkholderia, Bacillus, Clostridium and Corynebacterium. Interestingly, the nearest neighbor spacing distributions or detrended distance distributions are very similar for species within the same genus but they are very different for species from different genera. This difference can be attributed to the difference in the codon usage.

  16. Nearest Neighbor Hopping conduction observed with ionic liquid induced silicon surface states

    NASA Astrophysics Data System (ADS)

    Nelson, Jj; Reich, K. V.; Sammon, M.; Shklovskii, B. I.; Goldman, A. M.

    A two-dimensional hole gas can be created on the surface of a bulk Si wafer by using an ionic liquid in an electric double layer transistor configuration (EDLT). EDLTs are useful in observing metal to insulator and superconductor to insulator transitions due to record high carrier densities of 1015 cm-2 that can be achieved. In some cases the high carrier densities are due in part to oxidation of the sample surface. With an EDLT configuration we have observed a 2D insulator-to metal transition with low mobility Si at the highest reported critical carrier density. The experiment reported here is designed to promote electrostatic carrier induction over electrochemical reactions and is focused on carrier densities near 1011 cm-2. At such a low densities we observe nearest neighbor hopping conduction on the surface of Si. This observation suggests that the ionic liquid covering the surface should be treated as a series of discrete charges that can act as a platform to better understand EDLT physics at higher carrier densities. This work was supported in part by the National Science Foundation under Grant NSF-1263316.

  17. Ising model of cardiac thin filament activation with nearest-neighbor cooperative interactions

    NASA Technical Reports Server (NTRS)

    Rice, John Jeremy; Stolovitzky, Gustavo; Tu, Yuhai; de Tombe, Pieter P.; Bers, D. M. (Principal Investigator)

    2003-01-01

    We have developed a model of cardiac thin filament activation using an Ising model approach from equilibrium statistical physics. This model explicitly represents nearest-neighbor interactions between 26 troponin/tropomyosin units along a one-dimensional array that represents the cardiac thin filament. With transition rates chosen to match experimental data, the results show that the resulting force-pCa (F-pCa) relations are similar to Hill functions with asymmetries, as seen in experimental data. Specifically, Hill plots showing (log(F/(1-F)) vs. log [Ca]) reveal a steeper slope below the half activation point (Ca(50)) compared with above. Parameter variation studies show interplay of parameters that affect the apparent cooperativity and asymmetry in the F-pCa relations. The model also predicts that Ca binding is uncooperative for low [Ca], becomes steeper near Ca(50), and becomes uncooperative again at higher [Ca]. The steepness near Ca(50) mirrors the steep F-pCa as a result of thermodynamic considerations. The model also predicts that the correlation between troponin/tropomyosin units along the one-dimensional array quickly decays at high and low [Ca], but near Ca(50), high correlation occurs across the whole array. This work provides a simple model that can account for the steepness and shape of F-pCa relations that other models fail to reproduce.

  18. Collective Intelligence: Aggregation of Information from Neighbors in a Guessing Game

    PubMed Central

    Pérez, Toni; Zamora, Jordi; Eguíluz, Víctor M.

    2016-01-01

    Complex systems show the capacity to aggregate information and to display coordinated activity. In the case of social systems the interaction of different individuals leads to the emergence of norms, trends in political positions, opinions, cultural traits, and even scientific progress. Examples of collective behavior can be observed in activities like the Wikipedia and Linux, where individuals aggregate their knowledge for the benefit of the community, and citizen science, where the potential of collectives to solve complex problems is exploited. Here, we conducted an online experiment to investigate the performance of a collective when solving a guessing problem in which each actor is endowed with partial information and placed as the nodes of an interaction network. We measure the performance of the collective in terms of the temporal evolution of the accuracy, finding no statistical difference in the performance for two classes of networks, regular lattices and random networks. We also determine that a Bayesian description captures the behavior pattern the individuals follow in aggregating information from neighbors to make decisions. In comparison with other simple decision models, the strategy followed by the players reveals a suboptimal performance of the collective. Our contribution provides the basis for the micro-macro connection between individual based descriptions and collective phenomena. PMID:27093274

  19. Social comparisons and health: Can having richer friends and neighbors make you sick?

    PubMed Central

    Pham-Kanter, Genevieve

    2009-01-01

    Do richer friends and neighbors improve your health through positive material effects, or do they make you feel worse through the negative effect of social comparison and relative deprivation? Using the newly available National Social Life, Health, and Aging Project (NSHAP) data set that reports individuals’ income positions within their self-defined social networks, this paper examines whether there is an association between relative position and health in the US. Because this study uses measures of individuals’ positions within their self-defined social groups rather than researcher-imputed measures of relative position, I am able to more precisely examine linkages between individual relative position and health. I find a relationship between relative position and health status, and find indirect support for the biological mechanism underlying the relative deprivation model: lower relative position tends to be associated with those health conditions thought to be linked to physiological stress. I also find, however, that only extremes of relative position matter: very low relative position is associated with worse self-rated physical health and mobility, increased overall disease burden, and increased reporting of cardiovascular morbidity; very high relative position is associated with lower probabilities of reporting diabetes, ulcers, and hypertension. I observe few associations between health and either moderately high or moderately low positions. This analysis suggests that the mechanism underlying the relative deprivation model may only have significant effects for those at the very bottom or the very top. PMID:19515477

  20. The exon junction complex is required for definition and excision of neighboring introns in Drosophila

    PubMed Central

    Hayashi, Rippei; Handler, Dominik; Ish-Horowicz, David

    2014-01-01

    Splicing of pre-mRNAs results in the deposition of the exon junction complex (EJC) upstream of exon–exon boundaries. The EJC plays crucial post-splicing roles in export, translation, localization, and nonsense-mediated decay of mRNAs. It also aids faithful splicing of pre-mRNAs containing large introns, albeit via an unknown mechanism. Here, we show that the core EJC plus the accessory factors RnpS1 and Acinus aid in definition and efficient splicing of neighboring introns. This requires prior deposition of the EJC in close proximity to either an upstream or downstream splicing event. If present in isolation, EJC-dependent introns are splicing-defective also in wild-type cells. Interestingly, the most affected intron belongs to the piwi locus, which explains the reported transposon desilencing in EJC-depleted Drosophila ovaries. Based on a transcriptome-wide analysis, we propose that the dependency of splicing on the EJC is exploited as a means to control the temporal order of splicing events. PMID:25081352

  1. Selfish Neighbor Selection in Peer-to-Peer Backup and Storage Applications

    NASA Astrophysics Data System (ADS)

    Michiardi, Pietro; Toka, Laszlo

    In this work we tackle the problem of on-line backup with a peer-to-peer approach. In contrast to current peer-to-peer architectures that build upon distributed hash-tables, we investigate whether an uncoordinated approach to data placement would prove effective in providing embedded incentives for users to offer local resources to the system. By modeling peers as selfish entities striving for minimizing their cost in participating to the system, we analyze equilibrium topologies that materialize from the process of peer selection, whereby peers establish bi-lateral links that involve storing data in a symmetric way. System stratification, that is the emergence of clusters gathering peers with similar contribution efforts, is an essential outcome of the peer selection process: peers are lured to improve the “quality” of local resources they provide to access clusters with lower operational costs. Our results are corroborated by a numerical evaluation of the system that builds upon a polynomial-time best-response algorithm to the selfish neighbor selection game.

  2. Microbead-based biomimetic synthetic neighbors enhance survival and function of rat pancreatic β-cells

    NASA Astrophysics Data System (ADS)

    Li, Wei; Lee, Samuel; Ma, Minglin; Kim, Soo Min; Guye, Patrick; Pancoast, James R.; Anderson, Daniel G.; Weiss, Ron; Lee, Richard T.; Hammond, Paula T.

    2013-10-01

    Diabetes is caused by the loss or dysfunction of insulin-secreting β-cells in the pancreas. β-cells reduce their mass and lose insulin-producing ability in vitro, likely due to insufficient cell-cell and cell-extracellular matrix (ECM) interactions as β-cells lose their native microenvironment. Herein, we built an ex-vivo cell microenvironment by culturing primary β-cells in direct contact with `synthetic neighbors', cell-sized soft polymer microbeads that were modified with cell-cell signaling factors as well as components from pancreatic-tissue-specific ECMs. This biomimetic 3D microenvironment was able to promote native cell-cell and cell-ECM interactions. We obtained sustained maintenance of β-cell function in vitro enhanced cell viability from the few days usually observed in 2D culture to periods exceeding three weeks, with enhanced β-cell stability and insulin production. Our approach can be extended to create a general 3D culture platform for other cell types.

  3. Particle Communication and Domain Neighbor Coupling: Scalable Domain Decomposed Algorithms for Monte Carlo Particle Transport

    SciTech Connect

    O'Brien, M. J.; Brantley, P. S.

    2015-01-20

    In order to run Monte Carlo particle transport calculations on new supercomputers with hundreds of thousands or millions of processors, care must be taken to implement scalable algorithms. This means that the algorithms must continue to perform well as the processor count increases. In this paper, we examine the scalability of:(1) globally resolving the particle locations on the correct processor, (2) deciding that particle streaming communication has finished, and (3) efficiently coupling neighbor domains together with different replication levels. We have run domain decomposed Monte Carlo particle transport on up to 221 = 2,097,152 MPI processes on the IBM BG/Q Sequoia supercomputer and observed scalable results that agree with our theoretical predictions. These calculations were carefully constructed to have the same amount of work on every processor, i.e. the calculation is already load balanced. We also examine load imbalanced calculations where each domain’s replication level is proportional to its particle workload. In this case we show how to efficiently couple together adjacent domains to maintain within workgroup load balance and minimize memory usage.

  4. Analysis of repeat-protein folding using nearest-neighbor statistical mechanical models

    PubMed Central

    Aksel, Tural; Barrick, Doug

    2010-01-01

    The linear “Ising” model, which has been around for nearly a century, treats the behavior of linear arrays of repetitive, interacting subunits. Linear “repeat-proteins” have only been described in the last decade or so, and their folding energies have only been characterized very recently. Owing to their repetitive structures, linear repeat-proteins are particularly well suited for analysis by the nearest-neighbor Ising formalism. After briefly describing the historical origins and applications of the Ising model to biopolymers, and introducing repeat protein structure, this chapter will focus on the application of the linear Ising model to repeat proteins. When applied to homopolymers, the model can be represented and applied in a fairly simplified form. When applied to heteropolymers, where differences in energies among individual subunits (i.e. repeats) must be included, some (but not all) of this simplicity is lost. Derivations of the linear Ising model for both homopolymer and heteropolymer repeat-proteins will be presented. With the increased complexity required for analysis of heteropolymeric repeat proteins, the ability to resolve different energy terms from experimental data can be compromised. Thus, a simple matrix approach will be developed to help inform on the degree to which different thermodynamic parameters can be extracted from a particular set of unfolding curves. Finally, we will describe the application of these models to analyze repeat-protein folding equilibria, focusing on simplified repeat proteins based on “consensus” sequence information. PMID:19289204

  5. A graph-based N-body approximation with application to stochastic neighbor embedding.

    PubMed

    Parviainen, Eli

    2016-03-01

    We propose a novel approximation technique, bubble approximation (BA), for repulsion forces in an N-body problem, where attraction has a limited range and repulsion acts between all points. These kinds of systems occur frequently in dimension reduction and graph drawing. Like tree codes, the established N-body approximation method, BA replaces several point-to-point computations by one area-to-point computation. Novelty of BA is to consider not only the magnitudes but also the directions of forces from the area. Therefore, its area-to-point approximations are applicable anywhere in the space. The joint effect of forces from inside the area is calculated analytically, assuming a homogeneous mass of points inside the area. These two features free BA from hierarchical data structures and complicated bookkeeping of interactions, which plague tree codes. Instead, BA uses a simple graph to control the computations. The graph provides a sparse matrix, which, suitably weighted, replaces the full matrix of pairwise comparisons in the N-body problem. As a concrete example, we implement a sparse-matrix version of stochastic neighbor embedding (a dimension reduction method), and demonstrate its good performance by comparisons to full-matrix method, and to three different approximate versions of the same method. PMID:26690681

  6. Know Thy Neighbor: Costly Information Can Hurt Cooperation in Dynamic Networks

    PubMed Central

    Antonioni, Alberto; Cacault, Maria Paula; Lalive, Rafael; Tomassini, Marco

    2014-01-01

    People need to rely on cooperation with other individuals in many aspects of everyday life, such as teamwork and economic exchange in anonymous markets. We study whether and how the ability to make or break links in social networks fosters cooperate, paying particular attention to whether information on an individual's actions is freely available to potential partners. Studying the role of information is relevant as information on other people's actions is often not available for free: a recruiting firm may need to call a job candidate's references, a bank may need to find out about the credit history of a new client, etc. We find that people cooperate almost fully when information on their actions is freely available to their potential partners. Cooperation is less likely, however, if people have to pay about half of what they gain from cooperating with a cooperator. Cooperation declines even further if people have to pay a cost that is almost equivalent to the gain from cooperating with a cooperator. Thus, costly information on potential neighbors' actions can undermine the incentive to cooperate in fluid networks. PMID:25356905

  7. Conflict in Neighboring Countries, a Great Risk for Malaria Elimination in Southwestern Iran: Narrative Review Article.

    PubMed

    Molaee Zadeh, Maryam; Shahandeh, Khandan; Bigdeli, Shahla; Basseri, Hamid Reza

    2014-12-01

    The intensity of the conflict such as war is one of the determinants of the flow of migrants and refuges with consequence of introducing infectious disease to other countries. This paper investigates the relationship between malaria incidence and forced immigration due to war from neighboring countries in Dezful district, southwestern Iran. All available data and accessible archived documentary records on malaria cases in the period 1988-2011 in Dezful Health Centers were reviewed. Retrospective analysis of routine surveillance data from the Health authority of Dezful district was conducted to assess the trend of malaria incidence and prevalence in the last two decades. Malaria transmission dynamics was described using surveillance indicators viz, Annual Parasite Incidence (API), Slide Positivity Rate (SPR), Annual Blood Examination Rate (ABER) and based on personal information of patients. Two peaks of malaria incidence occurred during past two decades. The first one arisen by Iran-Iraq war due to residential instability in Dezful while the API reached to 8 per 1000. The second peak happened after to civil war of Afghanistan began which caused large immigrates moved into the study area. During the second peak, API reached 1.7 per 1000 at maximum and the majority of patients were immigrants. This study describes the linkage between incidence and prevalence of malaria and immigration due to civil conflict. Therefore, malaria screening of immigrants and early warning programme are effective to prevent outbreak of disease in a potential risk area such Dezful. PMID:26171354

  8. Number of Sialic Acid Residues in Ganglioside Headgroup Affects Interactions with Neighboring Lipids

    PubMed Central

    Frey, Shelli L.; Lee, Ka Yee C.

    2013-01-01

    Monolayers of binary mixtures of 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC) and asialo-(GA1), disialo-(GD1b) and trisialo-(GT1b) gangliosides were used to determine the effect of ganglioside headgroup charge and geometry on its interactions with the neighboring zwitterionic lipid. Surface pressure versus molecular area isotherm measurements along with concurrent fluorescence microscopy of the monolayers at the air-water interface were complemented with atomic force microscopy imaging of monolayers deposited on solid substrates. Results were used to further develop a proposed geometric packing model that the complementary geometry of DPPC and monosialoganglioside GM1 headgroups affects their close molecular packing, inducing condensation of the layer at small mol % of ganglioside. For GA1, GD1b, and GT1b, a similar condensing effect, followed by a fluidizing effect is seen that varies with glycosphingolipid concentration, but results do not directly follow from geometric arguments because less DPPC is needed to condense ganglioside molecules with larger cross-sectional areas. The variations in critical packing mole ratios can be explained by global effects of headgroup charge and resultant dipole moments within the monolayer. Atomic force microscopy micrographs further support the model of ganglioside-induced DPPC condensation with condensed domains composed of a striped phase of condensed DPPC and DPPC/ganglioside geometrically packed complexes at low concentrations. PMID:24047994

  9. Number of sialic acid residues in ganglioside headgroup affects interactions with neighboring lipids.

    PubMed

    Frey, Shelli L; Lee, Ka Yee C

    2013-09-17

    Monolayers of binary mixtures of 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC) and asialo-(GA1), disialo-(GD1b) and trisialo-(GT1b) gangliosides were used to determine the effect of ganglioside headgroup charge and geometry on its interactions with the neighboring zwitterionic lipid. Surface pressure versus molecular area isotherm measurements along with concurrent fluorescence microscopy of the monolayers at the air-water interface were complemented with atomic force microscopy imaging of monolayers deposited on solid substrates. Results were used to further develop a proposed geometric packing model that the complementary geometry of DPPC and monosialoganglioside GM1 headgroups affects their close molecular packing, inducing condensation of the layer at small mol % of ganglioside. For GA1, GD1b, and GT1b, a similar condensing effect, followed by a fluidizing effect is seen that varies with glycosphingolipid concentration, but results do not directly follow from geometric arguments because less DPPC is needed to condense ganglioside molecules with larger cross-sectional areas. The variations in critical packing mole ratios can be explained by global effects of headgroup charge and resultant dipole moments within the monolayer. Atomic force microscopy micrographs further support the model of ganglioside-induced DPPC condensation with condensed domains composed of a striped phase of condensed DPPC and DPPC/ganglioside geometrically packed complexes at low concentrations. PMID:24047994

  10. Neighboring block based disparity vector derivation for multiview compatible 3D-AVC

    NASA Astrophysics Data System (ADS)

    Kang, Jewon; Chen, Ying; Zhang, Li; Zhao, Xin; Karczewicz, Marta

    2013-09-01

    3D-AVC being developed under Joint Collaborative Team on 3D Video Coding (JCT-3V) significantly outperforms the Multiview Video Coding plus Depth (MVC+D) which simultaneously encodes texture views and depth views with the multiview extension of H.264/AVC (MVC). However, when the 3D-AVC is configured to support multiview compatibility in which texture views are decoded without depth information, the coding performance becomes significantly degraded. The reason is that advanced coding tools incorporated into the 3D-AVC do not perform well due to the lack of a disparity vector converted from the depth information. In this paper, we propose a disparity vector derivation method utilizing only the information of texture views. Motion information of neighboring blocks is used to determine a disparity vector for a macroblock, so that the derived disparity vector is efficiently used for the coding tools in 3D-AVC. The proposed method significantly improves a coding gain of the 3D-AVC in the multiview compatible mode about 20% BD-rate saving in the coded views and 26% BD-rate saving in the synthesized views on average.

  11. Collective Intelligence: Aggregation of Information from Neighbors in a Guessing Game.

    PubMed

    Pérez, Toni; Zamora, Jordi; Eguíluz, Víctor M

    2016-01-01

    Complex systems show the capacity to aggregate information and to display coordinated activity. In the case of social systems the interaction of different individuals leads to the emergence of norms, trends in political positions, opinions, cultural traits, and even scientific progress. Examples of collective behavior can be observed in activities like the Wikipedia and Linux, where individuals aggregate their knowledge for the benefit of the community, and citizen science, where the potential of collectives to solve complex problems is exploited. Here, we conducted an online experiment to investigate the performance of a collective when solving a guessing problem in which each actor is endowed with partial information and placed as the nodes of an interaction network. We measure the performance of the collective in terms of the temporal evolution of the accuracy, finding no statistical difference in the performance for two classes of networks, regular lattices and random networks. We also determine that a Bayesian description captures the behavior pattern the individuals follow in aggregating information from neighbors to make decisions. In comparison with other simple decision models, the strategy followed by the players reveals a suboptimal performance of the collective. Our contribution provides the basis for the micro-macro connection between individual based descriptions and collective phenomena. PMID:27093274

  12. Polypeptide motions are dominated by peptide group oscillations resulting from dihedral angle correlations between nearest neighbors.

    PubMed

    Fitzgerald, James E; Jha, Abhishek K; Sosnick, Tobin R; Freed, Karl F

    2007-01-23

    To identify basic local backbone motions in unfolded chains, simulations are performed for a variety of peptide systems using three popular force fields and for implicit and explicit solvent models. A dominant "crankshaft-like" motion is found that involves only a localized oscillation of the plane of the peptide group. This motion results in a strong anticorrelated motion of the phi angle of the ith residue (phi(i)) and the psi angle of the residue i - 1 (psi(i-1)) on the 0.1 ps time scale. Only a slight correlation is found between the motions of the two backbone dihedral angles of the same residue. Aside from the special cases of glycine and proline, no correlations are found between backbone dihedral angles that are separated by more than one torsion angle. These short time, correlated motions are found both in equilibrium fluctuations and during the transit process between Ramachandran basins, e.g., from the beta to the alpha region. A residue's complete transit from one Ramachandran basin to another, however, occurs in a manner independent of its neighbors' conformational transitions. These properties appear to be intrinsic because they are robust across different force fields, solvent models, nonbonded interaction routines, and most amino acids. PMID:17223689

  13. Seismic hazard of American Samoa and neighboring South Pacific Islands--methods, data, parameters, and results

    USGS Publications Warehouse

    Petersen, Mark D.; Harmsen, Stephen C.; Rukstales, Kenneth S.; Mueller, Charles S.; McNamara, Daniel E.; Luco, Nicolas; Walling, Melanie

    2012-01-01

    American Samoa and the neighboring islands of the South Pacific lie near active tectonic-plate boundaries that host many large earthquakes which can result in strong earthquake shaking and tsunamis. To mitigate earthquake risks from future ground shaking, the Federal Emergency Management Agency requested that the U.S. Geological Survey prepare seismic hazard maps that can be applied in building-design criteria. This Open-File Report describes the data, methods, and parameters used to calculate the seismic shaking hazard as well as the output hazard maps, curves, and deaggregation (disaggregation) information needed for building design. Spectral acceleration hazard for 1 Hertz having a 2-percent probability of exceedance on a firm rock site condition (Vs30=760 meters per second) is 0.12 acceleration of gravity (1 second, 1 Hertz) and 0.32 acceleration of gravity (0.2 seconds, 5 Hertz) on American Samoa, 0.72 acceleration of gravity (1 Hertz) and 2.54 acceleration of gravity (5 Hertz) on Tonga, 0.15 acceleration of gravity (1 Hertz) and 0.55 acceleration of gravity (5 Hertz) on Fiji, and 0.89 acceleration of gravity (1 Hertz) and 2.77 acceleration of gravity (5 Hertz) on the Vanuatu Islands.

  14. Effect of Growing Size of Interaction Neighbors on the Evolution of Cooperation in Spatial Snowdrift Game

    NASA Astrophysics Data System (ADS)

    Zhang, Juan-Juan; Wang, Juan; Sun, Shi-Wen; Wang, Li; Wang, Zhen; Xia, Cheng-Yi

    2012-04-01

    In this paper, we study the influence of the size of interaction neighbors (k) on the evolution of cooperation in the spatial snowdrift game. At first, we consider the effects of noise K and cost-to-benefit ratio r, the simulation results indicate that the evolution of cooperation depends on the combined action of noise and cost-to-benefit ratio. For a lower r, the cooperators are multitudinous and the cooperation frequency ultimately increases to 1 as the increase of noise. However, for a higher r, the defectors account for the majority of the game and dominate the game if the noise is large enough. Then we mainly investigate how k influences the evolution of cooperation by varying the noise in detail. We find that the frequency of cooperators is closely related to the size of neighborhood and cost-to-benefit ratio r. In the case of lower r, the augmentation of k plays no positive role in promoting the cooperation as compared with that of k = 4, while for higher r the cooperation is improved for a growing size of neighborhood. At last, based on the above discussions, we explore the cluster-forming mechanism among the cooperators. The current results are beneficial to further understand the evolution of cooperation in many natural, social and biological systems.

  15. Nearest neighbor density ratio estimation for large-scale applications in astronomy

    NASA Astrophysics Data System (ADS)

    Kremer, J.; Gieseke, F.; Steenstrup Pedersen, K.; Igel, C.

    2015-09-01

    In astronomical applications of machine learning, the distribution of objects used for building a model is often different from the distribution of the objects the model is later applied to. This is known as sample selection bias, which is a major challenge for statistical inference as one can no longer assume that the labeled training data are representative. To address this issue, one can re-weight the labeled training patterns to match the distribution of unlabeled data that are available already in the training phase. There are many examples in practice where this strategy yielded good results, but estimating the weights reliably from a finite sample is challenging. We consider an efficient nearest neighbor density ratio estimator that can exploit large samples to increase the accuracy of the weight estimates. To solve the problem of choosing the right neighborhood size, we propose to use cross-validation on a model selection criterion that is unbiased under covariate shift. The resulting algorithm is our method of choice for density ratio estimation when the feature space dimensionality is small and sample sizes are large. The approach is simple and, because of the model selection, robust. We empirically find that it is on a par with established kernel-based methods on relatively small regression benchmark datasets. However, when applied to large-scale photometric redshift estimation, our approach outperforms the state-of-the-art.

  16. A Context-Aware Mobile User Behavior-Based Neighbor Finding Approach for Preference Profile Construction.

    PubMed

    Gao, Qian; Fu, Deqian; Dong, Xiangjun

    2016-01-01

    In this paper, a new approach is adopted to update the user preference profile by seeking users with similar interests based on the context obtainable for a mobile network instead of from desktop networks. The trust degree between mobile users is calculated by analyzing their behavior based on the context, and then the approximate neighbors are chosen by combining the similarity of the mobile user preference and the trust degree. The approach first considers the communication behaviors between mobile users, the mobile network services they use as well as the corresponding context information. Then a similarity degree of the preference between users is calculated with the evaluation score of a certain mobile web service provided by a mobile user. Finally, based on the time attenuation function, the users with similar preference are found, through which we can dynamically update the target user's preference profile. Experiments are then conducted to test the effect of the context on the credibility among mobile users, the effect of time decay factors and trust degree thresholds. Simulation shows that the proposed approach outperforms two other methods in terms of Recall Ratio, Precision Ratio and Mean Absolute Error, because neither of them consider the context mobile information. PMID:26805852

  17. Remodeling and Tenacity of Inhibitory Synapses: Relationships with Network Activity and Neighboring Excitatory Synapses

    PubMed Central

    Rubinski, Anna; Ziv, Noam E.

    2015-01-01

    Glutamatergic synapse size remodeling is governed not only by specific activity forms but also by apparently stochastic processes with well-defined statistics. These spontaneous remodeling processes can give rise to skewed and stable synaptic size distributions, underlie scaling of these distributions and drive changes in glutamatergic synapse size “configurations”. Where inhibitory synapses are concerned, however, little is known on spontaneous remodeling dynamics, their statistics, their activity dependence or their long-term consequences. Here we followed individual inhibitory synapses for days, and analyzed their size remodeling dynamics within the statistical framework previously developed for glutamatergic synapses. Similar to glutamatergic synapses, size distributions of inhibitory synapses were skewed and stable; at the same time, however, sizes of individual synapses changed considerably, leading to gradual changes in synaptic size configurations. The suppression of network activity only transiently affected spontaneous remodeling dynamics, did not affect synaptic size configuration change rates and was not followed by the scaling of inhibitory synapse size distributions. Comparisons with glutamatergic synapses within the same dendrites revealed a degree of coupling between nearby inhibitory and excitatory synapse remodeling, but also revealed that inhibitory synapse size configurations changed at considerably slower rates than those of their glutamatergic neighbors. These findings point to quantitative differences in spontaneous remodeling dynamics of inhibitory and excitatory synapses but also reveal deep qualitative similarities in the processes that control their sizes and govern their remodeling dynamics. PMID:26599330

  18. Effects of neighboring vascular plants on the abundance of bryophytes in different vegetation types

    NASA Astrophysics Data System (ADS)

    Jägerbrand, Annika K.; Kudo, Gaku; Alatalo, Juha M.; Molau, Ulf

    2012-07-01

    Due to the climate change, vegetation of tundra ecosystems is predicted to shift toward shrub and tree dominance, and this change may influence bryophytes. To estimate how changes in growing environment and the dominance of vascular plants influence bryophyte abundance, we compared the relationship of occurrence of bryophytes among other plant types in a five-year experiment of warming (T), fertilization (F) and T + F in two vegetation types, heath and meadow, in a subarctic-alpine ecosystem. We compared individual leaf area among shrub species to confirm that deciduous shrubs might cause severe shading effect. Effects of neighboring functional types on the performance of Hylocomium splendens was also analyzed. Results show that F and T + F treatments significantly influenced bryophyte abundance negatively. Under natural conditions, bryophytes in the heath site were negatively related to the abundance of shrubs and lichens and the relationship between lichens and bryophytes strengthened after the experimental period. After five years of experimental treatments in the meadow, a positive abundance relationship emerged between bryophytes and deciduous shrubs, evergreen shrubs and forbs. This relationship was not found in the heath site. Our study therefore shows that the abundance relationships between bryophytes and plants in two vegetation types within the same area can be different. Deciduous shrubs had larger leaf area than evergreen shrubs but did not show any shading effect on H. splendens.

  19. Single-layer dual-band terahertz filter with weak coupling between two neighboring cross slots

    NASA Astrophysics Data System (ADS)

    Qi, Li-Mei; Li, Chao; Fang, Guang-You; Li, Shi-Chao

    2015-10-01

    A dual-band terahertz (THz) filter consisting of two different cross slots is designed and fabricated in a single molybdenum layer. Experimental verification by THz time-domain spectroscopy indicates good agreement with the simulation results. Owing to the weak coupling between the two neighboring cross slots in the unit cell, good selectivity performance can be easily achieved, both in the lower and higher bands, by tuning the dimensions of the two crosses. The physical mechanisms of the dual-band resonant are clarified by using three differently configured filters and electric field distribution diagrams. Owing to the rotational symmetry of the cross-shaped filter, the radiation at normal incidence is insensitive to polarization. Compared with the THz dual-band filters that were reported earlier, these filters also have the advantages of easy fabrication and low cost, which would find applications in dual-band sensors, THz communication systems, and emerging THz technologies. Project supported by the National Natural Science Foundation of China (Grant Nos. 11174280 and 61107030), the Knowledge Innovation Program of the Chinese Academy of Sciences (Grant No. YYYJ-1123), and the China Postdoctoral Science Foundation (Grant No. 2012M520377).

  20. Magnetization reversal in magnetic dot arrays: Nearest-neighbor interactions and global configurational anisotropy

    NASA Astrophysics Data System (ADS)

    Van de Wiele, Ben; Fin, Samuele; Pancaldi, Matteo; Vavassori, Paolo; Sarella, Anandakumar; Bisero, Diego

    2016-05-01

    Various proposals for future magnetic memories, data processing devices, and sensors rely on a precise control of the magnetization ground state and magnetization reversal process in periodically patterned media. In finite dot arrays, such control is hampered by the magnetostatic interactions between the nanomagnets, leading to the non-uniform magnetization state distributions throughout the sample while reversing. In this paper, we evidence how during reversal typical geometric arrangements of dots in an identical magnetization state appear that originate in the dominance of either Global Configurational Anisotropy or Nearest-Neighbor Magnetostatic interactions, which depends on the fields at which the magnetization reversal sets in. Based on our findings, we propose design rules to obtain the uniform magnetization state distributions throughout the array, and also suggest future research directions to achieve non-uniform state distributions of interest, e.g., when aiming at guiding spin wave edge-modes through dot arrays. Our insights are based on the Magneto-Optical Kerr Effect and Magnetic Force Microscopy measurements as well as the extensive micromagnetic simulations.

  1. Local Order in the Unfolded State: Conformational Biases and Nearest Neighbor Interactions

    PubMed Central

    Toal, Siobhan; Schweitzer-Stenner, Reinhard

    2014-01-01

    The discovery of Intrinsically Disordered Proteins, which contain significant levels of disorder yet perform complex biologically functions, as well as unwanted aggregation, has motivated numerous experimental and theoretical studies aimed at describing residue-level conformational ensembles. Multiple lines of evidence gathered over the last 15 years strongly suggest that amino acids residues display unique and restricted conformational preferences in the unfolded state of peptides and proteins, contrary to one of the basic assumptions of the canonical random coil model. To fully understand residue level order/disorder, however, one has to gain a quantitative, experimentally based picture of conformational distributions and to determine the physical basis underlying residue-level conformational biases. Here, we review the experimental, computational and bioinformatic evidence for conformational preferences of amino acid residues in (mostly short) peptides that can be utilized as suitable model systems for unfolded states of peptides and proteins. In this context particular attention is paid to the alleged high polyproline II preference of alanine. We discuss how these conformational propensities may be modulated by peptide solvent interactions and so called nearest-neighbor interactions. The relevance of conformational propensities for the protein folding problem and the understanding of IDPs is briefly discussed. PMID:25062017

  2. Export of microRNAs: A Bridge between Breast Carcinoma and Their Neighboring Cells.

    PubMed

    Jahagirdar, Devashree; Purohit, Shruti; Jain, Aayushi; Sharma, Nilesh Kumar

    2016-01-01

    Breast cancer is a leading type of cancer among women in India as well as worldwide. According to the WHO 2015 report, it has been anticipated that there would be a twofold rise in the death due to breast cancer among women. The heterogeneous property of breast carcinoma has been suggested to be linked with dedicated set of communication and signaling pathway with their surroundings, which culminate into progression and development of the cancer. Among the plethora of communication tools in the hand of breast carcinoma cells is the recently appreciated exocytosis of the tightly packed short non-coding RNA molecules, predominantly the microRNAs (miRNAs). Recent studies suggest that miRNAs may work as courier messengers to participate in endocrine and paracrine signaling to facilitate information transfer between breast carcinoma and their neighboring cells. Evidence suggests that breast tumor cells communicate via packaged miRNAs in the tumor-released microvesicles, which enrich the tumor microenvironment. There is a strong view that dissecting out the mechanistic and regulatory aspects of miRNA export and role may uncover many prospects for overcoming the signaling defects and thereby controlling aberrant cell division. The detection of circulating miRNAs associated with breast carcinoma can also be used as biomarkers for early diagnosis. This review article is an attempt to provide updated knowledge on implications of short RNAs and their transport in the breast cancer pathophysiology. PMID:27379209

  3. Enhancement of nearest neighbor spin-singlet correlations in d-wave SNS graphene Josephson junctions

    NASA Astrophysics Data System (ADS)

    Black-Schaffer, Annica; Doniach, Sebastian

    2009-03-01

    Using the self-consistent tight-binding Bogoliubov-de Gennes (BdG) formalism we investigate the effect of nearest neighbor spin-singlet bond (SB) correlations in a graphene SNS Josephson junction with d-wave superconducting contacts. All pπ-bonded planar organic molecules, of which graphene is the infinite extension, show a preference for SB over polar configurations, as originally captured by Pauling's idea of resonating valence bonds. At strong enough coupling and/or high doping levels, these correlations will give rise to a d-wave superconducting state. However, the estimated coupling strength in graphene would require a doping level not currently experimentally achievable by a gating bias. We demonstrate that by creating a graphene SNS Josephson junction with d-wave contacts, for example by depositing a high-Tc cuprate on top of the graphene, it should be possible to enhance the effect of the SB correlations and see clear signatures of d-wave pairing in proximity effect, superconducting decay length, and supercurrent.

  4. Additive usage levels.

    PubMed

    Langlais, R

    1996-01-01

    With the adoption of the European Parliament and Council Directives on sweeteners, colours and miscellaneous additives the Commission is now embarking on the project of coordinating the activities of the European Union Member States in the collection of the data that are to make up the report on food additive intake requested by the European Parliament. This presentation looks at the inventory of available sources on additive use levels and concludes that for the time being national legislation is still the best source of information considering that the directives have yet to be transposed into national legislation. Furthermore, this presentation covers the correlation of the food categories as found in the additives directives with those used by national consumption surveys and finds that in a number of instances this correlation still leaves a lot to be desired. The intake of additives via food ingestion and the intake of substances which are chemically identical to additives but which occur naturally in fruits and vegetables is found in a number of cases to be higher than the intake of additives added during the manufacture of foodstuffs. While the difficulties are recognized in contributing to the compilation of food additive intake data, industry as a whole, i.e. the food manufacturing and food additive manufacturing industries, are confident that in a concerted effort, use data on food additives by industry can be made available. Lastly, the paper points out that with the transportation of the additives directives into national legislation and the time by which the food industry will be able to make use of the new food legislative environment several years will still go by; food additives use data by the food industry will thus have to be reviewed at the beginning of the next century. PMID:8792135

  5. Evolution of Extremist Opinions in a Population of Interacting Agents

    NASA Astrophysics Data System (ADS)

    Boccara, Nino

    We have studied various spatial models of temporal evolution of opinions of a population of agents, located in a finite closed space, in which, at each time step, a given agent adopts, subject to a probability condition, a new opinion which depends upon the opinions of some of its neighbors. Moreover, at each time step each agent moves to a random neighboring location distributed according to a normal distribution with zero mean and a small standard deviation. The purpose of the paper is to find which types of interactions reduce the number of extremists.

  6. An additional middle cuneiform?

    PubMed Central

    Brookes-Fazakerley, S.D.; Jackson, G.E.; Platt, S.R.

    2015-01-01

    Additional cuneiform bones of the foot have been described in reference to the medial bipartite cuneiform or as small accessory ossicles. An additional middle cuneiform has not been previously documented. We present the case of a patient with an additional ossicle that has the appearance and location of an additional middle cuneiform. Recognizing such an anatomical anomaly is essential for ruling out second metatarsal base or middle cuneiform fractures and for the preoperative planning of arthrodesis or open reduction and internal fixation procedures in this anatomical location. PMID:26224890

  7. Rock Glacier Outflows May Adversely Affect Lakes: Lessons from the Past and Present of Two Neighboring Water Bodies in a Crystalline-Rock Watershed

    PubMed Central

    2014-01-01

    Despite the fact that rock glaciers are one of the most common geomorphological expressions of mountain permafrost, the impacts of their solute fluxes on lakes still remain largely obscure. We examined water and sediment chemistry, and biota of two neighboring water bodies with and without a rock glacier in their catchments in the European Alps. Paleolimnological techniques were applied to track long-term temporal trends in the ecotoxicological state of the water bodies and to establish their baseline conditions. We show that the active rock glacier in the mineralized catchment of Lake Rasass (RAS) represents a potent source of acid rock drainage that results in enormous concentrations of metals in water, sediment, and biota of RAS. The incidence of morphological abnormalities in the RAS population of Pseudodiamesa nivosa, a chironomid midge, is as high as that recorded in chironomid populations inhabiting sites heavily contaminated by trace metals of anthropogenic origin. The incidence of morphological deformities in P. nivosa of ∼70% persisted in RAS during the last 2.5 millennia and was ∼40% in the early Holocene. The formation of RAS at the toe of the rock glacier most probably began at the onset of acidic drainage in the freshly deglaciated area. The present adverse conditions are not unprecedented in the lake’s history and cannot be associated exclusively with enhanced thawing of the rock glacier in recent years. PMID:24804777

  8. Rock glacier outflows may adversely affect lakes: lessons from the past and present of two neighboring water bodies in a crystalline-rock watershed.

    PubMed

    Ilyashuk, Boris P; Ilyashuk, Elena A; Psenner, Roland; Tessadri, Richard; Koinig, Karin A

    2014-06-01

    Despite the fact that rock glaciers are one of the most common geomorphological expressions of mountain permafrost, the impacts of their solute fluxes on lakes still remain largely obscure. We examined water and sediment chemistry, and biota of two neighboring water bodies with and without a rock glacier in their catchments in the European Alps. Paleolimnological techniques were applied to track long-term temporal trends in the ecotoxicological state of the water bodies and to establish their baseline conditions. We show that the active rock glacier in the mineralized catchment of Lake Rasass (RAS) represents a potent source of acid rock drainage that results in enormous concentrations of metals in water, sediment, and biota of RAS. The incidence of morphological abnormalities in the RAS population of Pseudodiamesa nivosa, a chironomid midge, is as high as that recorded in chironomid populations inhabiting sites heavily contaminated by trace metals of anthropogenic origin. The incidence of morphological deformities in P. nivosa of ∼70% persisted in RAS during the last 2.5 millennia and was ∼40% in the early Holocene. The formation of RAS at the toe of the rock glacier most probably began at the onset of acidic drainage in the freshly deglaciated area. The present adverse conditions are not unprecedented in the lake's history and cannot be associated exclusively with enhanced thawing of the rock glacier in recent years. PMID:24804777

  9. Polymorphisms at 17 Y-STR loci in Botswana populations.

    PubMed

    Tau, Tiroyamodimo; Davison, Sean; D'Amato, María Eugenia

    2015-07-01

    Seventeen Y-chromosomal short tandem repeats (YSTRs)-DYS19, DYS389I, DYS389II, DYS385a/b, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS635, and Y-GATA-H4-were analyzed in 252 unrelated male individuals from Botswana. A total of 238 unique haplotypes were identified. The discrimination capacity (DC) was 0.9444 whereas the haplotype diversity (HD) was 0.9990. A database search of the 238 unique haplotypes in the Y chromosome haplogroup database (YHRD) yielded three African American, six Sub-Saharan African, and two admixed South American matches. Five additional African-American matches were detected in the Applied Biosystems Y-STR database. RST, multi-dimensional scaling (MDS) and AMOVA were used to investigate population differentiation in Sub-Saharan Africa and in Botswana. The populations in Sub-Saharan Africa were found to be heterogeneous, with Botswana showing significant differences from its neighbors. No geographic regional or ethnic differentiation was observed within Botswana. Regional and ethnic variation can be useful in forensic working hypotheses. PMID:25817844

  10. Intrinsic acid-base properties of a hexa-2'-deoxynucleoside pentaphosphate, d(ApGpGpCpCpT): neighboring effects and isomeric equilibria.

    PubMed

    Domínguez-Martín, Alicia; Johannsen, Silke; Sigel, Astrid; Operschall, Bert P; Song, Bin; Sigel, Helmut; Okruszek, Andrzej; González-Pérez, Josefa María; Niclós-Gutiérrez, Juan; Sigel, Roland K O

    2013-06-17

    The intrinsic acid-base properties of the hexa-2'-deoxynucleoside pentaphosphate, d(ApGpGpCpCpT) [=(A1∙G2∙G3∙C4∙C5∙T6)=(HNPP)⁵⁻] have been determined by ¹H NMR shift experiments. The pKa values of the individual sites of the adenosine (A), guanosine (G), cytidine (C), and thymidine (T) residues were measured in water under single-strand conditions (i.e., 10% D₂O, 47 °C, I=0.1 M, NaClO₄). These results quantify the release of H⁺ from the two (N7)H⁺ (G∙G), the two (N3)H⁺ (C∙C), and the (N1)H⁺ (A) units, as well as from the two (N1)H (G∙G) and the (N3)H (T) sites. Based on measurements with 2'-deoxynucleosides at 25 °C and 47 °C, they were transferred to pKa values valid in water at 25 °C and I=0.1 M. Intramolecular stacks between the nucleobases A1 and G2 as well as most likely also between G2 and G3 are formed. For HNPP three pKa clusters occur, that is those encompassing the pKa values of 2.44, 2.97, and 3.71 of G2(N7)H⁺, G3(N7)H⁺, and A1(N1)H⁺, respectively, with overlapping buffer regions. The tautomer populations were estimated, giving for the release of a single proton from five-fold protonated H₅(HNPP)(±) , the tautomers (G2)N7, (G3)N7, and (A1)N1 with formation degrees of about 74, 22, and 4%, respectively. Tautomer distributions reveal pathways for proton-donating as well as for proton-accepting reactions both being expected to be fast and to occur practically at no "cost". The eight pKa values for H₅(HNPP)(±) are compared with data for nucleosides and nucleotides, revealing that the nucleoside residues are in part affected very differently by their neighbors. In addition, the intrinsic acidity constants for the RNA derivative r(A1∙G2∙G3∙C4∙C5∙U6), where U=uridine, were calculated. Finally, the effect of metal ions on the pKa values of nucleobase sites is briefly discussed because in this way deprotonation reactions can easily be shifted to the physiological pH range. PMID:23595830

  11. A range of complex probabilistic models for RNA secondary structure prediction that includes the nearest-neighbor model and more.

    PubMed

    Rivas, Elena; Lang, Raymond; Eddy, Sean R

    2012-02-01

    The standard approach for single-sequence RNA secondary structure prediction uses a nearest-neighbor thermodynamic model with several thousand experimentally determined energy parameters. An attractive alternative is to use statistical approaches with parameters estimated from growing databases of structural RNAs. Good results have been reported for discriminative statistical methods using complex nearest-neighbor models, including CONTRAfold, Simfold, and ContextFold. Little work has been reported on generative probabilistic models (stochastic context-free grammars [SCFGs]) of comparable complexity, although probabilistic models are generally easier to train and to use. To explore a range of probabilistic models of increasing complexity, and to directly compare probabilistic, thermodynamic, and discriminative approaches, we created TORNADO, a computational tool that can parse a wide spectrum of RNA grammar architectures (including the standard nearest-neighbor model and more) using a generalized super-grammar that can be parameterized with probabilities, energies, or arbitrary scores. By using TORNADO, we find that probabilistic nearest-neighbor models perform comparably to (but not significantly better than) discriminative methods. We find that complex statistical models are prone to overfitting RNA structure and that evaluations should use structurally nonhomologous training and test data sets. Overfitting has affected at least one published method (ContextFold). The most important barrier to improving statistical approaches for RNA secondary structure prediction is the lack of diversity of well-curated single-sequence RNA secondary structures in current RNA databases. PMID:22194308

  12. The role of on-site and nearest-neighbor interactions in the correlated two-particles quantum walk

    NASA Astrophysics Data System (ADS)

    Peixoto, A. S.; Dias, W. S.

    2016-09-01

    We study the influence of the on-site and nearest-neighbor interactions on the eigenstates and dynamics of two-particles restricted to move in a one-dimensional optical lattice. An effective tight-binding approach with non-local interactions is employed in order to consider the non-perfect screening of the coulomb interaction between two-particles. Numerical and analytical results unveil the emergence of a new sub-band of bound states due to the nearest-neighbor interaction, besides a broadening of the usual sub-band associated with the hubbard-like on-site coupling. Furthermore, we solve the time-dependent schrodinger equation to follow the time evolution of an initially localized two-particles state. While the on-site interaction is responsible for a correlated dynamics in which particles occupy predominantly the same site, nearest-neighbor interactions is shown to be able to induce a quantum walk on which the particles remain predominantly in neighboring sites.

  13. 75 FR 62412 - Notice of Proposed Information Collection: Comment Request; HUD-Owned Real Estate-Good Neighbor...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-10-08

    ... From the Federal Register Online via the Government Publishing Office DEPARTMENT OF HOUSING AND URBAN DEVELOPMENT Notice of Proposed Information Collection: Comment Request; HUD- Owned Real Estate... Notice also lists the following information: Title of Proposal: HUD-Owned Real Estate-Good Neighbor...

  14. Intergenic Sequence Ribotyping using a region neighboring dkgB links genovar to Kauffman-White serotype of Salmonella enterica

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Intergenic Sequence Ribotyping using a region neighboring dkgB links genovar to Kauffman-White serotype of Salmonella enterica Previous research identified that the 5S ribosomal (rrn) gene and associated flanking sequences that are closely linked to the dkgB gene of Salmonella enterica were highly ...

  15. Software to use the non-parametric k-nearest neighbor approach to estimate soil water retention

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Non-parametric approaches are being used in various fields to address classification type problems, as well as to estimate continuous variables. One type of the non-parametric lazy learning algorithms, a k-Nearest Neighbor (k-NN) algorithm has been applied as a pedotransfer technique to estimate wat...

  16. Family, Friend, and Neighbor Child Caregivers: Results of a Statewide Study to Determine Needs and Desires for Support

    ERIC Educational Resources Information Center

    Drake, Pamela Marie; Greenspoon, Bayla; Unti, Lisa; Fawcett, Linda K.; Neville-Morgan, Sarah

    2006-01-01

    Family, friend and neighbor (FFN) child caregivers represent a significant proportion of caregivers for young children. Yet, these caregivers receive little support for their services. In 2003, the First 5 California Children and Families Commission (First 5 California) began a study to determine the work-related needs of FFN caregivers in…

  17. Beyond basins: φ,ψ preferences of a residue depend heavily on the φ,ψ values of its neighbors.

    PubMed

    Hollingsworth, Scott A; Lewis, Matthew C; Karplus, P Andrew

    2016-09-01

    The Ramachandran plot distributions of nonglycine residues from experimentally determined structures are routinely described as grouping into one of six major basins: β, PII , α, αL , ξ and γ'. Recent work describing the most common conformations adopted by pairs of residues in folded proteins [i.e., (φ,ψ)2 -motifs] showed that commonly described major basins are not true single thermodynamic basins, but are composed of distinct subregions that are associated with various conformations of either the preceding or following neighbor residue. Here, as documentation of the extent to which the conformational preferences of a central residue are influenced by the conformations of its two neighbors, we present a set of φ,ψ-plots that are delimited simultaneously by the φ,ψ-angles of its neighboring residues on both sides. The level of influence seen here is typically greater than the influence associated with considering the identities of neighboring residues, implying that the use of this heretofore untapped information can improve the accuracy of structure prediction algorithms and low resolution protein structure refinement. PMID:27342939

  18. Income Replacement and Reemployment Programs in Michigan and Neighboring States. W.E. Upjohn Institute Staff Working Paper.

    ERIC Educational Resources Information Center

    Woodbury, Stephen A.

    Income replacement and reemployment programs in Michigan and its neighboring states were examined in the context of recent changes in federal policy regarding compensation and services for individuals who have lost their jobs or sustained job-related injuries. The analysis focused primarily on the following programs: (1) Unemployment Insurance…

  19. Repulsive interactions induced by specific adsorption: Anomalous step diffusivity and inadequacy of nearest-neighbor Ising model. (part I experimental)

    NASA Astrophysics Data System (ADS)

    Al-Shakran, Mohammad; Kibler, Ludwig A.; Jacob, Timo; Ibach, Harald; Beltramo, Guillermo L.; Giesen, Margret

    2016-09-01

    This is Part I of two closely related papers, where we show that the specific adsorption of anions leads to a failure of the nearest-neighbor Ising model to describe island perimeter curvatures on Au(100) electrodes in dilute KBr, HCl and H2SO4 electrolytes and the therewith derived step diffusivity vs. step orientation. This result has major consequences for theoretical studies aiming at the understanding of growth, diffusion and degradation phenomena. Part I focuses on the experimental data. As shown theoretically in detail in Part II (doi:10.1016/j.susc.2016.03.022), a set of nearest-neighbor and next-nearest-neighbor interaction energies (ɛNN, ɛNNN) can uniquely be derived from the diffusivity of steps along <100> and <110>. We find strong repulsive next-nearest neighbor (NNN) interaction in KBr and HCl, whereas NNN interaction is negligibly for H2SO4. The NNN repulsive interaction energy ɛNNN therefore correlates positively with the Gibbs adsorption energy of the anions. We find furthermore that ɛNNN increases with increasing Br- and Cl- coverage. The results for ɛNN and ɛNNN are quantitatively consistent with the coverage dependence of the step line tension. We thereby establish a sound experimental base for theoretical studies on the energetics of steps in the presence of specific adsorption.

  20. So Close, and yet so Far: Cross-Racial Interactions among Undergraduate Students in Two Neighboring Borderland Communities

    ERIC Educational Resources Information Center

    Torres, Monica F.; Prentice, Mary; Valentine, Kathryn; Arellano, Eduardo C.; Dankovich, Robin L.

    2013-01-01

    This article discusses two studies on the extent and nature of cross-racial interactions (CRIs) among undergraduate students from two neighboring US-Mexico borderland communities. Of the four participating higher education institutions, two were adjacent to the US-Mexico borderline, while the other two were 45 miles away from the borderline. One…

  1. Understanding Population.

    ERIC Educational Resources Information Center

    Mothner, Ira

    Activities and concerns of Ford Foundation supported population research and training centers are described in this report. The centers are concerned with population growth, consequences of growth for human welfare, forces that determine family planning, interrelations among population variables, economics of contraceptive distribution, and…

  2. Counting Populations

    ERIC Educational Resources Information Center

    Damonte, Kathleen

    2004-01-01

    Scientists use sampling to get an estimate of things they cannot easily count. A population is made up of all the organisms of one species living together in one place at the same time. All of the people living together in one town are considered a population. All of the grasshoppers living in a field are a population. Scientists keep track of the…

  3. Bond additivity corrections for quantum chemistry methods

    SciTech Connect

    C. F. Melius; M. D. Allendorf

    1999-04-01

    In the 1980's, the authors developed a bond-additivity correction procedure for quantum chemical calculations called BAC-MP4, which has proven reliable in calculating the thermochemical properties of molecular species, including radicals as well as stable closed-shell species. New Bond Additivity Correction (BAC) methods have been developed for the G2 method, BAC-G2, as well as for a hybrid DFT/MP2 method, BAC-Hybrid. These BAC methods use a new form of BAC corrections, involving atomic, molecular, and bond-wise additive terms. These terms enable one to treat positive and negative ions as well as neutrals. The BAC-G2 method reduces errors in the G2 method due to nearest-neighbor bonds. The parameters within the BAC-G2 method only depend on atom types. Thus the BAC-G2 method can be used to determine the parameters needed by BAC methods involving lower levels of theory, such as BAC-Hybrid and BAC-MP4. The BAC-Hybrid method should scale well for large molecules. The BAC-Hybrid method uses the differences between the DFT and MP2 as an indicator of the method's accuracy, while the BAC-G2 method uses its internal methods (G1 and G2MP2) to provide an indicator of its accuracy. Indications of the average error as well as worst cases are provided for each of the BAC methods.

  4. Carbamate deposit control additives

    SciTech Connect

    Honnen, L.R.; Lewis, R.A.

    1980-11-25

    Deposit control additives for internal combustion engines are provided which maintain cleanliness of intake systems without contributing to combustion chamber deposits. The additives are poly(oxyalkylene) carbamates comprising a hydrocarbyloxyterminated poly(Oxyalkylene) chain of 2-5 carbon oxyalkylene units bonded through an oxycarbonyl group to a nitrogen atom of ethylenediamine.

  5. A Fast Exact k-Nearest Neighbors Algorithm for High Dimensional Search Using k-Means Clustering and Triangle Inequality

    PubMed Central

    Wang, Xueyi

    2011-01-01

    The k-nearest neighbors (k-NN) algorithm is a widely used machine learning method that finds nearest neighbors of a test object in a feature space. We present a new exact k-NN algorithm called kMkNN (k-Means for k-Nearest Neighbors) that uses the k-means clustering and the triangle inequality to accelerate the searching for nearest neighbors in a high dimensional space. The kMkNN algorithm has two stages. In the buildup stage, instead of using complex tree structures such as metric trees, kd-trees, or ball-tree, kMkNN uses a simple k-means clustering method to preprocess the training dataset. In the searching stage, given a query object, kMkNN finds nearest training objects starting from the nearest cluster to the query object and uses the triangle inequality to reduce the distance calculations. Experiments show that the performance of kMkNN is surprisingly good compared to the traditional k-NN algorithm and tree-based k-NN algorithms such as kd-trees and ball-trees. On a collection of 20 datasets with up to 106 records and 104 dimensions, kMkNN shows a 2-to 80-fold reduction of distance calculations and a 2- to 60-fold speedup over the traditional k-NN algorithm for 16 datasets. Furthermore, kMkNN performs significant better than a kd-tree based k-NN algorithm for all datasets and performs better than a ball-tree based k-NN algorithm for most datasets. The results show that kMkNN is effective for searching nearest neighbors in high dimensional spaces. PMID:22247818

  6. Strain effects on ensemble populations in AuPd/Pd(100) surface alloys

    NASA Astrophysics Data System (ADS)

    Stephens, J. Adam; Hwang, Gyeong S.

    2013-10-01

    The effects of applied strain on the arrangement of atoms in AuPd/Pd(100) surface alloys are studied using Monte Carlo simulations and cluster expansion Hamiltonians. The strain effects are found to be significant, with heteronuclear (Au-Pd) interactions more strongly enhanced by biaxial compression than homonuclear (Pd-Pd) ones. In particular, compressive strain causes an increase in the population of Pd monomers and second nearest-neighbor pairs of Pd monomers, both of which have been identified previously as important ensembles for various catalytic reactions. We also discuss the origin of these effects using density functional theory calculations of the surface electronic structure of strained AuPd/Pd(100).Our findings may suggest an additional means of employing strain to tune the catalytic properties of surface alloys.

  7. M33: A Close Neighbor Reveals its True Size and Splendor (3-color composite)

    NASA Technical Reports Server (NTRS)

    2009-01-01

    One of our closest galactic neighbors shows its awesome beauty in this new image from NASA's Spitzer Space Telescope. M33, also known as the Triangulum Galaxy, is a member of what's known as our Local Group of galaxies. Along with our own Milky Way, this group travels together in the universe, as they are gravitationally bound. In fact, M33 is one of the few galaxies that is moving toward the Milky Way despite the fact that space itself is expanding, causing most galaxies in the universe to grow farther and farther apart.

    When viewed with Spitzer's infrared eyes, this elegant spiral galaxy sparkles with color and detail. Stars appear as glistening blue gems (several of which are actually foreground stars in our own galaxy), while dust rich in organic molecules glows green. The diffuse orange-red glowing areas indicate star-forming regions, while small red flecks outside the spiral disk of M33 are most likely distant background galaxies. But not only is this new image beautiful, it also shows M33 to be surprising large bigger than its visible-light appearance would suggest. With its ability to detect cold, dark dust, Spitzer can see emission from cooler material well beyond the visible range of M33's disk. Exactly how this cold material moved outward from the galaxy is still a mystery, but winds from giant stars or supernovas may be responsible.

    M33 is located about 2.9 million light-years away in the constellation Triangulum. This is a three-color composite image showing infrared observations from two of Spitzer instruments. Blue represents combined 3.6- and 4.5-micron light and green shows light of 8 microns, both captured by Spitzer's infrared array camera. Red is 24-micron light detected by Spitzer's multiband imaging photometer.

  8. Using K-Nearest Neighbor Classification to Diagnose Abnormal Lung Sounds

    PubMed Central

    Chen, Chin-Hsing; Huang, Wen-Tzeng; Tan, Tan-Hsu; Chang, Cheng-Chun; Chang, Yuan-Jen

    2015-01-01

    A reported 30% of people worldwide have abnormal lung sounds, including crackles, rhonchi, and wheezes. To date, the traditional stethoscope remains the most popular tool used by physicians to diagnose such abnormal lung sounds, however, many problems arise with the use of a stethoscope, including the effects of environmental noise, the inability to record and store lung sounds for follow-up or tracking, and the physician’s subjective diagnostic experience. This study has developed a digital stethoscope to help physicians overcome these problems when diagnosing abnormal lung sounds. In this digital system, mel-frequency cepstral coefficients (MFCCs) were used to extract the features of lung sounds, and then the K-means algorithm was used for feature clustering, to reduce the amount of data for computation. Finally, the K-nearest neighbor method was used to classify the lung sounds. The proposed system can also be used for home care: if the percentage of abnormal lung sound frames is > 30% of the whole test signal, the system can automatically warn the user to visit a physician for diagnosis. We also used bend sensors together with an amplification circuit, Bluetooth, and a microcontroller to implement a respiration detector. The respiratory signal extracted by the bend sensors can be transmitted to the computer via Bluetooth to calculate the respiratory cycle, for real-time assessment. If an abnormal status is detected, the device will warn the user automatically. Experimental results indicated that the error in respiratory cycles between measured and actual values was only 6.8%, illustrating the potential of our detector for home care applications. PMID:26053756

  9. Dissimilar Teen Crash Rates in Two Neighboring Southeastern Virginia Cities with Different High School Start Times

    PubMed Central

    Vorona, Robert Daniel; Szklo-Coxe, Mariana; Wu, Andrew; Dubik, Michael; Zhao, Yueqin; Ware, J. Catesby

    2011-01-01

    Study Objectives: Early high school start times may contribute to insufficient sleep leading to increased teen crash rate. Virginia Beach (VB) and Chesapeake are adjacent, demographically similar cities. VB high schools start 75-80 minutes earlier than Chesapeake's. We hypothesized that VB teens would manifest a higher crash rate than Chesapeake teens. Methods: The Virginia Department of Motor Vehicles (DMV) provided de-identified, aggregate 2008 and 2007 data for weekday crashes and crash times in VB and Chesapeake for drivers aged 16-18 years (“teens”), and provided 2008 and 2007 crash data for all drivers. Data allowed comparisons of VB versus Chesapeake crash rates for teens (overall and hour-by-hour), and teens versus all other ages. We compared AM and PM traffic congestion (peak hours) in the two cities. Results: In 2008, there were 12,916 and 8,459 Virginia Beach and Chesapeake 16- to 18-year-old drivers, respectively. For VB and Chesapeake, teen drivers' crash rates in 2008 were 65.8/1000 and 46.6/1000 (p < 0.001), respectively, and in 2007 were 71.2/1000 and 55.6/1000. Teen drivers' crash peaks in the morning occurred one hour earlier in VB than Chesapeake, consistent with school commute time. Congestion data for VB and Chesapeake did not explain the different crash rates. Conclusions: A significantly increased teen crash rate for both 2008 and 2007 occurred in VB, the city with earlier high school start times. Future studies using individual level data may clarify if sleep restriction, circadian dyssynchrony, and sleep inertia might contribute to this increased crash rate. Citation: Vorona RD; Szklo-Coxe M; Wu A; Dubik M; Zhao Y; Ware JC. Dissimilar teen crash rates in two neighboring southeastern Virginia cities with different high school start times. J Clin Sleep Med 2011;7(2):145-151. PMID:21509328

  10. Multisite stochastic weather generation using cluster analysis and k-nearest neighbor time series resampling

    NASA Astrophysics Data System (ADS)

    Caraway, Nina Marie; McCreight, James Lucian; Rajagopalan, Balaji

    2014-01-01

    We offer a multisite stochastic weather generator which is an enhancement to the traditional K-nearest neighbor resampling approach. The proposed weather generator consists of three main components: (i) Clustering of spatial locations into homogeneous regions based on a selected attribute (precipitation), (ii) Markov transition probabilities (either on individual clusters or) over all eight wet/dry states of the three-cluster system to model the spatial precipitation occurrence, and (iii) the traditional K-NN weather generator applied to each cluster-averaged weather time series to generate weather sequences at all the desired locations. The weather generator is also adapted to conditional simulation based on seasonal forecasts involving modification of the third component. We demonstrate the utility of this approach by simulating daily weather sequences at 66 locations in the 25,000 sq. mile San Juan River watershed, a tributary of the Colorado River, USA. As the classic K-NN approach involves sampling from a domain-averaged feature vector, all daily weather is simulated across all locations simultaneously. While this preserves the joint statistics, it tends to be biased to the extremes on any given day. Our cluster-based approach offers the ability to account for regional persistence and spatial non-stationarities. In our comparison of the methods, the cluster-based approach demonstrates some improvement over the classic approach, particularly when modeling winter precipitation, reproducing spells, and in dry years. While this particular application shows only marginal improvement, we offer cluster-based resampling as a novel methodological contribution.

  11. Identification of Burkholderia pseudomallei Near-Neighbor Species in the Northern Territory of Australia

    PubMed Central

    Ginther, Jennifer L.; Mayo, Mark; Warrington, Stephanie D.; Kaestli, Mirjam; Mullins, Travis; Wagner, David M.; Currie, Bart J.; Tuanyok, Apichai; Keim, Paul

    2015-01-01

    Identification and characterization of near-neighbor species are critical to the development of robust molecular diagnostic tools for biothreat agents. One such agent, Burkholderia pseudomallei, a soil bacterium and the causative agent of melioidosis, is lacking in this area because of its genomic diversity and widespread geographic distribution. The Burkholderia genus contains over 60 species and occupies a large range of environments including soil, plants, rhizospheres, water, animals and humans. The identification of novel species in new locations necessitates the need to identify the true global distribution of Burkholderia species, especially the members that are closely related to B. pseudomallei. In our current study, we used the Burkholderia-specific recA sequencing assay to analyze environmental samples from the Darwin region in the Northern Territory of Australia where melioidosis is endemic. Burkholderia recA PCR negative samples were further characterized using 16s rRNA sequencing for species identification. Phylogenetic analysis demonstrated that over 70% of the bacterial isolates were identified as B. ubonensis indicating that this species is common in the soil where B. pseudomallei is endemic. Bayesian phylogenetic analysis reveals many novel branches within the B. cepacia complex, one novel B. oklahomensis-like species, and one novel branch containing one isolate that is distinct from all other samples on the phylogenetic tree. During the analysis with recA sequencing, we discovered 2 single nucleotide polymorphisms in the reverse priming region of B. oklahomensis. A degenerate primer was developed and is proposed for future use. We conclude that the recA sequencing technique is an effective tool to classify Burkholderia and identify soil organisms in a melioidosis endemic area. PMID:26121041

  12. A Nearest Neighbor Classifier Employing Critical Boundary Vectors for Efficient On-Chip Template Reduction.

    PubMed

    Xia, Wenjun; Mita, Yoshio; Shibata, Tadashi

    2016-05-01

    Aiming at efficient data condensation and improving accuracy, this paper presents a hardware-friendly template reduction (TR) method for the nearest neighbor (NN) classifiers by introducing the concept of critical boundary vectors. A hardware system is also implemented to demonstrate the feasibility of using an field-programmable gate array (FPGA) to accelerate the proposed method. Initially, k -means centers are used as substitutes for the entire template set. Then, to enhance the classification performance, critical boundary vectors are selected by a novel learning algorithm, which is completed within a single iteration. Moreover, to remove noisy boundary vectors that can mislead the classification in a generalized manner, a global categorization scheme has been explored and applied to the algorithm. The global characterization automatically categorizes each classification problem and rapidly selects the boundary vectors according to the nature of the problem. Finally, only critical boundary vectors and k -means centers are used as the new template set for classification. Experimental results for 24 data sets show that the proposed algorithm can effectively reduce the number of template vectors for classification with a high learning speed. At the same time, it improves the accuracy by an average of 2.17% compared with the traditional NN classifiers and also shows greater accuracy than seven other TR methods. We have shown the feasibility of using a proof-of-concept FPGA system of 256 64-D vectors to accelerate the proposed method on hardware. At a 50-MHz clock frequency, the proposed system achieves a 3.86 times higher learning speed than on a 3.4-GHz PC, while consuming only 1% of the power of that used by the PC. PMID:26080388

  13. M33: A Close Neighbor Reveals its True Size and Splendor

    NASA Technical Reports Server (NTRS)

    2009-01-01

    One of our closest galactic neighbors shows its awesome beauty in this new image from NASA's Spitzer Space Telescope. M33, also known as the Triangulum Galaxy, is a member of what's known as our Local Group of galaxies. Along with our own Milky Way, this group travels together in the universe, as they are gravitationally bound. In fact, M33 is one of the few galaxies that is moving toward the Milky Way despite the fact that space itself is expanding, causing most galaxies in the universe to grow farther and farther apart.

    When viewed with Spitzer's infrared eyes, this elegant spiral galaxy sparkles with color and detail. Stars appear as glistening blue gems (many of which are actually foreground stars in our own galaxy), while dust in the spiral disk of the galaxy glows pink and red. But not only is this new image beautiful, it also shows M33 to be surprising large bigger than its visible-light appearance would suggest. With its ability to detect cold, dark dust, Spitzer can see emission from cooler material well beyond the visible range of M33's disk. Exactly how this cold material moved outward from the galaxy is still a mystery, but winds from giant stars or supernovas may be responsible.

    M33 is located about 2.9 million light-years away in the constellation Triangulum. This composite image was taken by Spitzer's infrared array camera. The color blue indicates infrared light of 3.6 microns, green shows 4.5-micron light, and red 8.0 microns.

  14. A resprouter herb reduces negative density-dependent effects among neighboring seeders after fire

    NASA Astrophysics Data System (ADS)

    Raventós, José; Wiegand, Thorsten; Maestre, Fernando T.; de Luis, Martín

    2012-01-01

    Plant communities are often composed of species belonging to different functional groups, but relatively few studies to date have explicitly linked their spatial structure to the outcome of the interaction among them. We investigated if mortality of seeder species during their establishment after fire is influenced by the proximity of the resprouter herb Brachypodium retusum. The study was conducted in a Mediterranean shrubland (00°39' W; 38°43' N), 40 km northwest of Alicante (Spain) with Ulex parviflorus, Cistus albidus, Helianthemum marifolium, and Ononis fruticosa as dominant obligate seeder species and a herbaceous layer is dominated by the resprouter B. retusum. We followed the fate of mapped seedlings and the biomass of B. retusum one, two, three and nine years after an experimental fire. We used point pattern analyses to evaluate the spatial pattern of mortality of seeder species at these years in relation to the biomass of B. retusum. We hypothesize that B. retusum may initially have a positive impact on seeder survival. We implemented this hypothesis as a point process model that maintains the overall number of dead seeder plants, but seeder survival varied proportionally to the biomass of B. retusum in its neighborhood. We then contrasted this hypothesis with a previous analysis based on a random mortality hypothesis. Our data were consistent with the hypothesis that proximity of B. retusum reduced the mortality of seeder plants at their establishment phase (i.e., 2 yrs after fire). However, we found no evidence that B. retusum influenced seeder mortality when plants grow to maturity. We also found that, under the more stressful conditions (fire + erosion scenario), B. retusum had a lower impact on the performance of seeder species. Our results suggest that B. retusum may reduce negative density-dependent effects among neighboring seeder plants during the first years after fire.

  15. Using K-Nearest Neighbor Classification to Diagnose Abnormal Lung Sounds.

    PubMed

    Chen, Chin-Hsing; Huang, Wen-Tzeng; Tan, Tan-Hsu; Chang, Cheng-Chun; Chang, Yuan-Jen

    2015-01-01

    A reported 30% of people worldwide have abnormal lung sounds, including crackles, rhonchi, and wheezes. To date, the traditional stethoscope remains the most popular tool used by physicians to diagnose such abnormal lung sounds, however, many problems arise with the use of a stethoscope, including the effects of environmental noise, the inability to record and store lung sounds for follow-up or tracking, and the physician's subjective diagnostic experience. This study has developed a digital stethoscope to help physicians overcome these problems when diagnosing abnormal lung sounds. In this digital system, mel-frequency cepstral coefficients (MFCCs) were used to extract the features of lung sounds, and then the K-means algorithm was used for feature clustering, to reduce the amount of data for computation. Finally, the K-nearest neighbor method was used to classify the lung sounds. The proposed system can also be used for home care: if the percentage of abnormal lung sound frames is > 30% of the whole test signal, the system can automatically warn the user to visit a physician for diagnosis. We also used bend sensors together with an amplification circuit, Bluetooth, and a microcontroller to implement a respiration detector. The respiratory signal extracted by the bend sensors can be transmitted to the computer via Bluetooth to calculate the respiratory cycle, for real-time assessment. If an abnormal status is detected, the device will warn the user automatically. Experimental results indicated that the error in respiratory cycles between measured and actual values was only 6.8%, illustrating the potential of our detector for home care applications. PMID:26053756

  16. Air Pollution from Industrial Swine Operations and Blood Pressure of Neighboring Residents

    PubMed Central

    Horton, Rachel Avery; Rose, Kathryn M.

    2012-01-01

    Background: Industrial swine operations emit odorant chemicals including ammonia, hydrogen sulfide (H2S), and volatile organic compounds. Malodor and pollutant concentrations have been associated with self-reported stress and altered mood in prior studies. Objectives: We conducted a repeated-measures study of air pollution, stress, and blood pressure in neighbors of swine operations. Methods: For approximately 2 weeks, 101 nonsmoking adult volunteers living near industrial swine operations in 16 neighborhoods in eastern North Carolina sat outdoors for 10 min twice daily at preselected times. Afterward, they reported levels of hog odor on a 9-point scale and measured their blood pressure twice using an automated oscillometric device. During the same 2- to 3-week period, we measured ambient levels of H2S and PM10 at a central location in each neighborhood. Associations between systolic and diastolic blood pressure (SBP and DBP, respectively) and pollutant measures were estimated using fixed-effects (conditional) linear regression with adjustment for time of day. Results: PM10 showed little association with blood pressure. DBP [β (SE)] increased 0.23 (0.08) mmHg per unit of reported hog odor during the 10 min outdoors and 0.12 (0.08) mmHg per 1-ppb increase of H2S concentration in the same hour. SBP increased 0.10 (0.12) mmHg per odor unit and 0.29 (0.12) mmHg per 1-ppb increase of H2S in the same hour. Reported stress was strongly associated with BP; adjustment for stress reduced the odor–DBP association, but the H2S–SBP association changed little. Conclusions: Like noise and other repetitive environmental stressors, malodors may be associated with acute blood pressure increases that could contribute to development of chronic hypertension. PMID:23111006

  17. Predicting the Maximum Earthquake Magnitude from Seismic Data in Israel and Its Neighboring Countries.

    PubMed

    Last, Mark; Rabinowitz, Nitzan; Leonard, Gideon

    2016-01-01

    This paper explores several data mining and time series analysis methods for predicting the magnitude of the largest seismic event in the next year based on the previously recorded seismic events in the same region. The methods are evaluated on a catalog of 9,042 earthquake events, which took place between 01/01/1983 and 31/12/2010 in the area of Israel and its neighboring countries. The data was obtained from the Geophysical Institute of Israel. Each earthquake record in the catalog is associated with one of 33 seismic regions. The data was cleaned by removing foreshocks and aftershocks. In our study, we have focused on ten most active regions, which account for more than 80% of the total number of earthquakes in the area. The goal is to predict whether the maximum earthquake magnitude in the following year will exceed the median of maximum yearly magnitudes in the same region. Since the analyzed catalog includes only 28 years of complete data, the last five annual records of each region (referring to the years 2006-2010) are kept for testing while using the previous annual records for training. The predictive features are based on the Gutenberg-Richter Ratio as well as on some new seismic indicators based on the moving averages of the number of earthquakes in each area. The new predictive features prove to be much more useful than the indicators traditionally used in the earthquake prediction literature. The most accurate result (AUC = 0.698) is reached by the Multi-Objective Info-Fuzzy Network (M-IFN) algorithm, which takes into account the association between two target variables: the number of earthquakes and the maximum earthquake magnitude during the same year. PMID:26812351

  18. Predicting the Maximum Earthquake Magnitude from Seismic Data in Israel and Its Neighboring Countries

    PubMed Central

    2016-01-01

    This paper explores several data mining and time series analysis methods for predicting the magnitude of the largest seismic event in the next year based on the previously recorded seismic events in the same region. The methods are evaluated on a catalog of 9,042 earthquake events, which took place between 01/01/1983 and 31/12/2010 in the area of Israel and its neighboring countries. The data was obtained from the Geophysical Institute of Israel. Each earthquake record in the catalog is associated with one of 33 seismic regions. The data was cleaned by removing foreshocks and aftershocks. In our study, we have focused on ten most active regions, which account for more than 80% of the total number of earthquakes in the area. The goal is to predict whether the maximum earthquake magnitude in the following year will exceed the median of maximum yearly magnitudes in the same region. Since the analyzed catalog includes only 28 years of complete data, the last five annual records of each region (referring to the years 2006–2010) are kept for testing while using the previous annual records for training. The predictive features are based on the Gutenberg-Richter Ratio as well as on some new seismic indicators based on the moving averages of the number of earthquakes in each area. The new predictive features prove to be much more useful than the indicators traditionally used in the earthquake prediction literature. The most accurate result (AUC = 0.698) is reached by the Multi-Objective Info-Fuzzy Network (M-IFN) algorithm, which takes into account the association between two target variables: the number of earthquakes and the maximum earthquake magnitude during the same year. PMID:26812351

  19. Polyimide processing additives

    NASA Technical Reports Server (NTRS)

    Fletcher, James C. (Inventor); Pratt, J. Richard (Inventor); St.clair, Terry L. (Inventor); Stoakley, Diane M. (Inventor); Burks, Harold D. (Inventor)

    1992-01-01

    A process for preparing polyimides having enhanced melt flow properties is described. The process consists of heating a mixture of a high molecular weight poly-(amic acid) or polyimide with a low molecular weight amic acid or imide additive in the range of 0.05 to 15 percent by weight of additive. The polyimide powders so obtained show improved processability, as evidenced by lower melt viscosity by capillary rheometry. Likewise, films prepared from mixtures of polymers with additives show improved processability with earlier onset of stretching by TMA.

  20. Polyimide processing additives

    NASA Technical Reports Server (NTRS)

    Pratt, J. Richard (Inventor); St.clair, Terry L. (Inventor); Stoakley, Diane M. (Inventor); Burks, Harold D. (Inventor)

    1993-01-01

    A process for preparing polyimides having enhanced melt flow properties is described. The process consists of heating a mixture of a high molecular weight poly-(amic acid) or polyimide with a low molecular weight amic acid or imide additive in the range of 0.05 to 15 percent by weight of the additive. The polyimide powders so obtained show improved processability, as evidenced by lower melt viscosity by capillary rheometry. Likewise, films prepared from mixtures of polymers with additives show improved processability with earlier onset of stretching by TMA.

  1. Contaminant profiles of two species of shorebirds foraging together at two neighboring sites in South San Francisco Bay, California.

    PubMed

    Hui, C A; Takekawa, J Y; Warnock, S E

    2001-10-01

    The San Francisco Bay estuary is used by over one million shorebirds during spring migration and is home to several hundred thousand during the winter. Most shorebird use occurs in the southern reach of the estuary (South Bay). The reduced water circulation and discharge from industrial sources in the South Bay are responsible for the highest levels of some trace elements in the estuary. Wintering shorebirds have been found to have strong site fidelity to areas as small as a few kilometers in the South Bay, which may increase their exposure to contaminants near local point sources. In addition, different shorebird species foraging at the same site have been shown to have different contaminant burdens. Thus, our objectives were to test whether contaminant burdens differed by species, or whether contaminant burdens differed in shorebirds collected at adjacent sites. We examined the contaminant profiles of two species of shorebirds, long-billed dowitchers (Limnodromus scolopaceus) and western sandpipers (Calidris mauri) that forage together at two sites, Hayward and Newark, separated by 8 km in the South Bay. We used multivariate analysis of variance tests to compare the composition of 14 elemental analytes in their liver tissues and estimated their molar ratios of Hg and Se. Composite samples were used for contaminant analyses because of the small body size of the shorebirds. Seven elemental analytes (Ag, Ba, Be, Cr, Ni, Pb, V) were below detection limits in a majority of the samples so statistical analyses were precluded. In the measurable analytes (As, Cd, Cu, Hg, Mn, Se, Zn), we found no significant intra-site differences of contaminant profiles for the two species. We pooled the samples to examine inter-site differences and found significant differences in contaminant profiles between shorebirds at the neighboring sites (P = 0.03). Shorebirds at Newark had higher (P < 0.05) concentrations of As, Cd, and Se than those at Hayward. Dowitchers at Newark had

  2. Population Education: A Knowledge Base.

    ERIC Educational Resources Information Center

    Jacobson, Willard J.

    To aid junior high and high school educators and curriculum planners as they develop population education programs, the book provides an overview of the population education knowledge base. In addition, it suggests learning activities, discussion questions, and background information which can be integrated into courses dealing with population,…

  3. Smog control fuel additives

    SciTech Connect

    Lundby, W.

    1993-06-29

    A method is described of controlling, reducing or eliminating, ozone and related smog resulting from photochemical reactions between ozone and automotive or industrial gases comprising the addition of iodine or compounds of iodine to hydrocarbon-base fuels prior to or during combustion in an amount of about 1 part iodine per 240 to 10,000,000 parts fuel, by weight, to be accomplished by: (a) the addition of these inhibitors during or after the refining or manufacturing process of liquid fuels; (b) the production of these inhibitors for addition into fuel tanks, such as automotive or industrial tanks; or (c) the addition of these inhibitors into combustion chambers of equipment utilizing solid fuels for the purpose of reducing ozone.

  4. Food Additives and Hyperkinesis

    ERIC Educational Resources Information Center

    Wender, Ester H.

    1977-01-01

    The hypothesis that food additives are causally associated with hyperkinesis and learning disabilities in children is reviewed, and available data are summarized. Available from: American Medical Association 535 North Dearborn Street Chicago, Illinois 60610. (JG)

  5. Additional Types of Neuropathy

    MedlinePlus

    ... A A Listen En Español Additional Types of Neuropathy Charcot's Joint Charcot's Joint, also called neuropathic arthropathy, ... can stop bone destruction and aid healing. Cranial Neuropathy Cranial neuropathy affects the 12 pairs of nerves ...

  6. [The Marxist outlook on population].

    PubMed

    Qin, R

    1984-09-29

    Marxist population theory and world population are discussed. From his study of capitalist population theory Marx concluded, "In capitalist reproduction, poverty produces population," thus rejecting Malthusian population determinism theory and developing economic determinism. According to UN statistics, world population has stabilized since the middle of this century after having doubled every hundred years for the last 300; population in the developed countries showed a positive decrease and average net population growth of the developing countries also decreased. The premise of this paper is that population grows according to social economy development. During the last several hundred years, world wealth increased much faster than population; in the last 200 years alone, the population has increased fivefold, but wealth fortyfold. In addition, world population analysis reveals an inverse relationship between wealth and population in the developed and developing countries: the poorer the country, the greater the population. From this perspective, the study of population must begin with surplus labor. Accumulation of surplus production is the foundation of continuous social development and the basis for population growth. The major difference in methods between capitalist countries and China is that the capitalist-planned fertility affects the individual family while Chinese-planned fertility has the whole nation in mind. Human fertility is determined by the economic system. Private ownership determines the private nature of fertility and public ownership determines the public nature of fertility. Thus population development is determined by the accumulation of social wealth. PMID:12159280

  7. Effect of pH, urea, peptide length, and neighboring amino acids on alanine alpha-proton random coil chemical shifts.

    PubMed

    Carlisle, Elizabeth A; Holder, Jessica L; Maranda, Abby M; de Alwis, Adamberage R; Selkie, Ellen L; McKay, Sonya L

    2007-01-01

    Accurate random coil alpha-proton chemical shift values are essential for precise protein structure analysis using chemical shift index (CSI) calculations. The current study determines the chemical shift effects of pH, urea, peptide length and neighboring amino acids on the alpha-proton of Ala using model peptides of the general sequence GnXaaAYaaGn, where Xaa and Yaa are Leu, Val, Phe, Tyr, His, Trp or Pro, and n = 1-3. Changes in pH (2-6), urea (0-1M), and peptide length (n = 1-3) had no effect on Ala alpha-proton chemical shifts. Denaturing concentrations of urea (8M) caused significant downfield shifts (0.10 +/- 0.01 ppm) relative to an external DSS reference. Neighboring aliphatic residues (Leu, Val) had no effect, whereas aromatic amino acids (Phe, Tyr, His and Trp) and Pro caused significant shifts in the alanine alpha-proton, with the extent of the shifts dependent on the nature and position of the amino acid. Smaller aromatic residues (Phe, Tyr, His) caused larger shift effects when present in the C-terminal position (approximately 0.10 vs. 0.05 ppm N-terminal), and the larger aromatic tryptophan caused greater effects in the N-terminal position (0.15 ppm vs. 0.10 C-terminal). Proline affected both significant upfield (0.06 ppm, N-terminal) and downfield (0.25 ppm, C-terminal) chemical shifts. These new Ala correction factors detail the magnitude and range of variation in environmental chemical shift effects, in addition to providing insight into the molecular level interactions that govern protein folding. PMID:17054116

  8. Methyl jasmonate as an allelopathic agent: sagebrush inhibits germination of a neighboring tobacco, Nicotiana attenuata.

    PubMed

    Preston, Catherine A; Betts, Hazel; Baldwi, Ian T

    2002-11-01

    Artemisia tridentata ssp. tridentata is the dominant and defining shrub in the Great Basin Desert, with well-documented allelopathic tendencies that have generally been ascribed to its most abundantly released secondary metabolites. However, as a minor component, sagebrush releases a highly biologically active substance, methyljasmonate (MeJA), which is known to function as both a germination inhibitor and promoter in laboratory studies. Nicotiana attenuata is a tobacco species native to the Great Basin Desert and grows in newly burned juniper-sagebrush habitats for 2-3 yr following a fire. With a combination of field and laboratory studies, we examined the role of MeJA release from sagebrush by both air and water transport in inhibiting N. attenuata seed germination. We demonstrated that sagebrush interacts allelopathically with the seed bank of N. attenuata through its release of MeJA. In the field, seeds buried 0-40 cm from sagebrush plants for 4 months in net bags had significantly reduced germination compared to seeds buried similarly but protected in plastic bags. Moreover, germination on soils collected from underneath sagebrush plants was reduced by 60% compared to seeds placed on soils collected between sagebrush plants or outside of the sagebrush population. Exposure to A. tridentata seeds and seedlings did not affect N. attenuata germination, suggesting that established sagebrush plants only influence the tobacco's seed bank. In the laboratory, exposure of seeds to sagebrush emissions resulted in germination delays of up to 6 d. Exposure to volatile and aqueous MeJA also inhibited germination of N. attenuata seeds at quantities that are released naturally by sagebrush: 3.5 microg/hr and 1.12 microg/seed cup (56 ng/seed), respectively. A. tridentata seeds were significantly more resistant to MeJA, being inhibited at 336 microg MeJA (16.8 microg/seed), 300 times greater than the level of aqueous MeJA required to inhibit N. attenuata seeds. MeJA inhibited N

  9. [Population education].

    PubMed

    1977-01-01

    Goal of population education is to raise knowledge and comprehension of causes and consequences, either personal or social, of excessive population growth. These days it is possible to plan the growth and evolution of the population to reach a level of balance and harmony between number of inhabitants of a country, and the country's natural resoruces. general objectives of population education are: 1) knowledge of basic demographic processes; 2) knowledge of effects of evolution and growth of population on social and economic life inside the family and inside society; 3) family size as related to nutrition, health, education, and job; and, 4) knowledge of population dynamics which the individual can influence through personal behavior, i.e. age at marriage, and spacing and number of children. PMID:12309627

  10. Additive Manufacturing Infrared Inspection

    NASA Technical Reports Server (NTRS)

    Gaddy, Darrell

    2014-01-01

    Additive manufacturing is a rapid prototyping technology that allows parts to be built in a series of thin layers from plastic, ceramics, and metallics. Metallic additive manufacturing is an emerging form of rapid prototyping that allows complex structures to be built using various metallic powders. Significant time and cost savings have also been observed using the metallic additive manufacturing compared with traditional techniques. Development of the metallic additive manufacturing technology has advanced significantly over the last decade, although many of the techniques to inspect parts made from these processes have not advanced significantly or have limitations. Several external geometry inspection techniques exist such as Coordinate Measurement Machines (CMM), Laser Scanners, Structured Light Scanning Systems, or even traditional calipers and gages. All of the aforementioned techniques are limited to external geometry and contours or must use a contact probe to inspect limited internal dimensions. This presentation will document the development of a process for real-time dimensional inspection technique and digital quality record of the additive manufacturing process using Infrared camera imaging and processing techniques.

  11. The New Neighbors: A User's Guide to Data on Immigrants in U.S. Communities.

    ERIC Educational Resources Information Center

    Capps, Randy; Passel, Jeffrey S.; Perez-Lopez, Daniel; Fix, Michael

    This guidebook is designed to help local policy makers, program implementers, and advocates use U.S. Census and other data sources to identify immigrant populations in their local communities (their characteristics, contributions, and needs). It lists relevant data sources, the information contained in each, where they can be located, and software…

  12. Plant defense phenotypes determine the consequences of volatile emission for individuals and neighbors

    PubMed Central

    Schuman, Meredith C; Allmann, Silke; Baldwin, Ian T

    2015-01-01

    Plants are at the trophic base of terrestrial ecosystems, and the diversity of plant species in an ecosystem is a principle determinant of community structure. This may arise from diverse functional traits among species. In fact, genetic diversity within species can have similarly large effects. However, studies of intraspecific genetic diversity have used genotypes varying in several complex traits, obscuring the specific phenotypic variation responsible for community-level effects. Using lines of the wild tobacco Nicotiana attenuata genetically altered in specific well-characterized defense traits and planted into experimental populations in their native habitat, we investigated community-level effects of trait diversity in populations of otherwise isogenic plants. We conclude that the frequency of defense traits in a population can determine the outcomes of these traits for individuals. Furthermore, our results suggest that some ecosystem-level services afforded by genetically diverse plant populations could be recaptured in intensive monocultures engineered to be functionally diverse. DOI: http://dx.doi.org/10.7554/eLife.04490.001 PMID:25873033

  13. Bond additivity corrections for quantum chemistry methods

    SciTech Connect

    Melius, C.F.; Allendorf, M.D.

    2000-03-23

    New bond additivity correction (BAC) methods have been developed for the G2 method, BAC-G2, as well as for a hybrid density functional theory (DFT) Moller-Plesset (MP)2 method, BAC-hybrid. These BAC methods use a new form of BAC corrections, involving atomic, molecular, and bond-wise additive terms. These terms enable one to treat positive and negative ions as well as neutrals. The BAC-G2 method reduces errors in the G2 method due to nearest-neighbor bonds. The parameters within the BAC-G2 method only depend on atom types. Thus the BAC-G2 method can be used to determine the parameters needed by BAC methods involving lower levels of theory, such as BAC-hybrid and BAC-MP4. The BAC-hybrid method is expected to scale well for large molecules. The BAC-hybrid method uses the differences between the DFT and MP2 predictions as an indication of the method's accuracy, whereas the BAC-G2 method uses its internal methods (G1 and G2MP2) to accomplish this. A statistical analysis of the error in each of the methods is presented on the basis of calculations performed for large sets (more than 120) of molecules.

  14. Phenylethynyl Containing Reactive Additives

    NASA Technical Reports Server (NTRS)

    Connell, John W. (Inventor); Smith, Joseph G., Jr. (Inventor); Hergenrother, Paul M. (Inventor)

    2002-01-01

    Phenylethynyl containing reactive additives were prepared from aromatic diamine, containing phenylethvnvl groups and various ratios of phthalic anhydride and 4-phenylethynviphthalic anhydride in glacial acetic acid to form the imide in one step or in N-methyl-2-pvrrolidinone to form the amide acid intermediate. The reactive additives were mixed in various amounts (10% to 90%) with oligomers containing either terminal or pendent phenylethynyl groups (or both) to reduce the melt viscosity and thereby enhance processability. Upon thermal cure, the additives react and become chemically incorporated into the matrix and effect an increase in crosslink density relative to that of the host resin. This resultant increase in crosslink density has advantageous consequences on the cured resin properties such as higher glass transition temperature and higher modulus as compared to that of the host resin.

  15. Additives in plastics.

    PubMed Central

    Deanin, R D

    1975-01-01

    The polymers used in plastics are generally harmless. However, they are rarely used in pure form. In almost all commercial plastics, they are "compounded" with monomeric ingredients to improve their processing and end-use performance. In order of total volume used, these monomeric additives may be classified as follows: reinforcing fibers, fillers, and coupling agents; plasticizers; colorants; stabilizers (halogen stabilizers, antioxidants, ultraviolet absorbers, and biological preservatives); processing aids (lubricants, others, and flow controls); flame retardants, peroxides; and antistats. Some information is already available, and much more is needed, on potential toxicity and safe handling of these additives during processing and manufacture of plastics products. PMID:1175566

  16. A color image watermarking scheme based on hybrid classification method: Particle swarm optimization and k-nearest neighbor algorithm

    NASA Astrophysics Data System (ADS)

    Fındık, Oğuz; Babaoğlu, İsmail; Ülker, Erkan

    2010-12-01

    In this paper, a novel robust watermarking technique using particle swarm optimization and k-nearest neighbor algorithm is introduced to protect the intellectual property rights of color images in the spatial domain. In the embedding process, the color image is separated into non-overlapping blocks and each bit of the binary watermark is embedded into the individual blocks. Then, in order to extract the embedded watermark, features are obtained from watermark embedded blocks using the symmetric cross-shape kernel. These features are used to generate two centroids belonging to each binary (1 and 0) value of the watermark implementing particle swarm optimization. Subsequently, the embedded watermark is extracted by evaluating these centroids utilizing k-nearest neighbor algorithm. According to the test results, embedded watermark is extracted successfully even if the watermarked image is exposed to various image processing attacks.

  17. Phase transition in the spin- 3 / 2 Blume-Emery-Griffiths model with antiferromagnetic second neighbor interactions

    NASA Astrophysics Data System (ADS)

    Yezli, M.; Bekhechi, S.; Hontinfinde, F.; EZ-Zahraouy, H.

    2016-04-01

    Two nonperturbative methods such as Monte-Carlo simulation (MC) and Transfer-Matrix Finite-Size-Scaling calculations (TMFSS) have been used to study the phase transition of the spin- 3 / 2 ​Blume-Emery-Griffiths model (BEG) with quadrupolar and antiferromagnetic next-nearest-neighbor exchange interactions. Ground state and finite temperature phase diagrams are obtained by means of these two methods. New degenerate phases are found and only second order phase transitions occur for all values of the parameter interactions. No sign of the intermediate phase is found from both methods. Critical exponents are also obtained from TMFSS calculations. Ising criticality and nonuniversal behaviors are observed depending on the strength of the second neighbor interaction.

  18. Modified Voronoi Diagram And Relative Neighbors On A Digitized Picture And Their Applications To Tissue Image Analysis

    NASA Astrophysics Data System (ADS)

    Toriwaki, Jun-Ichiro; Mase, Kenji; Yashima, Yoshiyuki; Fukumura, Teruo

    1982-11-01

    The Dirichlet tessellation (DT), the Voronoi diagram (VD) and the relative neighbor (RN) on a digitized picture plane are presented with their applications to image processing. In the past the DT and the VD were defined for a finite point set in the continuous space. Here the modified digital Dirichlet tessellation (MDDT), the modified digital Voronoi diagram (MDVD) and the modified digital relative neighbor (MDRN) are newly introduced as the counterparts of the DT, the VD and the RN defined for a finite set of connected components in a digitized binary picture. Two algorithms - a sequential type and a parallel type are given to obtain the MDDT and the MDVD. Experimental results are shown concerning applications of the MDDT, the MDVD, and the MDRN to image processing, which include texture analysis of microscopic images of pathological samples and region devision of chest x-ray images.

  19. Exactly solvable spin-1 Ising-Heisenberg diamond chain with the second-neighbor interaction between nodal spins.

    PubMed

    Hovhannisyan, V V; Strečka, J; Ananikian, N S

    2016-03-01

    The spin-1 Ising-Heisenberg diamond chain with the second-neighbor interaction between nodal spins is rigorously solved using the transfer-matrix method. In particular, exact results for the ground state, magnetization process and specific heat are presented and discussed. It is shown that further-neighbor interaction between nodal spins gives rise to three novel ground states with a translationally broken symmetry, but at the same time, does not increases the total number of intermediate plateaus in a zero-temperature magnetization curve compared with the simplified model without this interaction term. The zero-field specific heat displays interesting thermal dependencies with a single- or double-peak structure. PMID:26836749

  20. Exactly solvable spin-1 Ising-Heisenberg diamond chain with the second-neighbor interaction between nodal spins

    NASA Astrophysics Data System (ADS)

    Hovhannisyan, V. V.; Strečka, J.; Ananikian, N. S.

    2016-03-01

    The spin-1 Ising-Heisenberg diamond chain with the second-neighbor interaction between nodal spins is rigorously solved using the transfer-matrix method. In particular, exact results for the ground state, magnetization process and specific heat are presented and discussed. It is shown that further-neighbor interaction between nodal spins gives rise to three novel ground states with a translationally broken symmetry, but at the same time, does not increases the total number of intermediate plateaus in a zero-temperature magnetization curve compared with the simplified model without this interaction term. The zero-field specific heat displays interesting thermal dependencies with a single- or double-peak structure.