Highly similar prokaryotic communities of sunken wood at shallow and deep-sea sites across the oceans.

Science.gov (United States)

Palacios, Carmen; Zbinden, Magali; Pailleret, Marie; Gaill, Françoise; Lebaron, Philippe

2009-11-01

With an increased appreciation of the frequency of their occurrence, large organic falls such as sunken wood and whale carcasses have become important to consider in the ecology of the oceans. Organic-rich deep-sea falls may play a major role in the dispersal and evolution of chemoautotrophic communities at the ocean floor, and chemosynthetic symbiotic, free-living, and attached microorganisms may drive the primary production at these communities. However, little is known about the microbiota thriving in and around organic falls. Our aim was to investigate and compare free-living and attached communities of bacteria and archaea from artificially immersed and naturally sunken wood logs with varying characteristics at several sites in the deep sea and in shallow water to address basic questions on the microbial ecology of sunken wood. Multivariate indirect ordination analyses of capillary electrophoresis single-stranded conformation polymorphisms (CE-SSCP) fingerprinting profiles demonstrated high similarity of bacterial and archaeal assemblages present in timbers and logs situated at geographically distant sites and at different depths of immersion. This similarity implies that wood falls harbor a specialized microbiota as observed in other ecosystems when the same environmental conditions reoccur. Scanning and transmission electron microscopy observations combined with multivariate direct gradient analysis of Bacteria CE-SSCP profiles demonstrate that type of wood (hard vs. softwood), and time of immersion are important in structuring sunken wood bacterial communities. Archaeal populations were present only in samples with substantial signs of decay, which were also more similar in their bacterial assemblages, providing indirect evidence of temporal succession in the microbial communities that develop in and around wood falls.

Ulysses transposable element of Drosophila shows high structural similarities to functional domains of retroviruses.

Science.gov (United States)

Evgen'ev, M B; Corces, V G; Lankenau, D H

1992-06-05

We have determined the DNA structure of the Ulysses transposable element of Drosophila virilis and found that this transposon is 10,653 bp and is flanked by two unusually large direct repeats 2136 bp long. Ulysses shows the characteristic organization of LTR-containing retrotransposons, with matrix and capsid protein domains encoded in the first open reading frame. In addition, Ulysses contains protease, reverse transcriptase, RNase H and integrase domains encoded in the second open reading frame. Ulysses lacks a third open reading frame present in some retrotransposons that could encode an env-like protein. A dendrogram analysis based on multiple alignments of the protease, reverse transcriptase, RNase H, integrase and tRNA primer binding site of all known Drosophila LTR-containing retrotransposon sequences establishes a phylogenetic relationship of Ulysses to other retrotransposons and suggests that Ulysses belongs to a new family of this type of elements.

Activity/inactivity circadian rhythm shows high similarities between young obesity-induced rats and old rats.

Science.gov (United States)

Bravo Santos, R; Delgado, J; Cubero, J; Franco, L; Ruiz-Moyano, S; Mesa, M; Rodríguez, A B; Uguz, C; Barriga, C

2016-03-01

The objective of the present study was to compare differences between elderly rats and young obesity-induced rats in their activity/inactivity circadian rhythm. The investigation was motivated by the differences reported previously for the circadian rhythms of both obese and elderly humans (and other animals), and those of healthy, young or mature individuals. Three groups of rats were formed: a young control group which was fed a standard chow for rodents; a young obesity-induced group which was fed a high-fat diet for four months; and an elderly control group with rats aged 2.5 years that was fed a standard chow for rodents. Activity/inactivity data were registered through actimetry using infrared actimeter systems in each cage to detect activity. Data were logged on a computer and chronobiological analysis were performed. The results showed diurnal activity (sleep time), nocturnal activity (awake time), amplitude, acrophase, and interdaily stability to be similar between the young obesity-induced group and the elderly control group, but different in the young control group. We have concluded that obesity leads to a chronodisruption status in the body similar to the circadian rhythm degradation observed in the elderly.

ProBiS-2012: web server and web services for detection of structurally similar binding sites in proteins.

Science.gov (United States)

Konc, Janez; Janezic, Dusanka

2012-07-01

The ProBiS web server is a web server for detection of structurally similar binding sites in the PDB and for local pairwise alignment of protein structures. In this article, we present a new version of the ProBiS web server that is 10 times faster than earlier versions, due to the efficient parallelization of the ProBiS algorithm, which now allows significantly faster comparison of a protein query against the PDB and reduces the calculation time for scanning the entire PDB from hours to minutes. It also features new web services, and an improved user interface. In addition, the new web server is united with the ProBiS-Database and thus provides instant access to pre-calculated protein similarity profiles for over 29 000 non-redundant protein structures. The ProBiS web server is particularly adept at detection of secondary binding sites in proteins. It is freely available at http://probis.cmm.ki.si/old-version, and the new ProBiS web server is at http://probis.cmm.ki.si.

Plant defenses against parasitic plants show similarities to those induced by herbivores and pathogens

Science.gov (United States)

Runyon, Justin B; Mescher, Mark C

2010-01-01

Herbivores and pathogens come quickly to mind when one thinks of the biotic challenges faced by plants. Important but less appreciated enemies are parasitic plants, which can have important consequences for the fitness and survival of their hosts. Our knowledge of plant perception, signaling and response to herbivores and pathogens has expanded rapidly in recent years, but information is generally lacking for parasitic species. In a recent paper we reported that some of the same defense responses induced by herbivores and pathogens—notably increases in jasmonic acid (JA), salicylic acid (SA), and a hypersensitive-like response (HLR)—also occur in tomato plants upon attack by the parasitic plant Cuscuta pentagona (field dodder). Parasitism induced a distinct pattern of JA and SA accumulation, and growth trials using genetically-altered tomato hosts suggested that both JA and SA govern effective defenses against the parasite, though the extent of the response varied with host plant age. Here we discuss similarities between the induced responses we observed in response to Cuscuta parasitism to those previously described for herbivores and pathogens and present new data showing that trichomes should be added to the list of plant defenses that act against multiple enemies and across kingdoms. PMID:20495380

3ircular dichroism simulation shows a site-II-to-site-I displacement of human serum albumin-bound diclofenac by ibuprofen

OpenAIRE

Yamasaki, Keishi; Rahman, Mohammed Hablbur; Tsutsumi, Yasuhiro; Maruyama, Toru; Ahmed, Shamim; Kragh-Hansen; Otagiri, Masaki

2000-01-01

Purpose: The purpose of this study was to confirm the hypothesis that a site-II-to-site-I displacement takes place when some nonsteroidal anti-inflammatory drugs are displaced by another drug from their high-affinity binding site to a site of lower affinity on human serum albumin (HSA).Methods: Diclofenac, sodium salt, was used as a representative example because of its prominent reversal of the Cotton effect. Effects of site-specific drugs on the free fraction of diclofenac were determined b...

Immature rats show ovulatory defects similar to those in adult rats lacking prostaglandin and progesterone actions

Directory of Open Access Journals (Sweden)

Sanchez-Criado Jose E

2004-09-01

Full Text Available Abstract Gonadotropin-primed immature rats (GPIR constitute a widely used model for the study of ovulation. Although the equivalence between the ovulatory process in immature and adult rats is generally assumed, the morphological and functional characteristics of ovulation in immature rats have been scarcely considered. We describe herein the morphological aspects of the ovulatory process in GPIR and their response to classical ovulation inhibitors, such as the inhibitor of prostaglandin (PG synthesis indomethacin (INDO and a progesterone (P receptor (PR antagonist (RU486. Immature Wistar rats were primed with equine chorionic gonadotropin (eCG at 21, 23 or 25 days of age, injected with human chorionic gonadotropin (hCG 48 h later, and sacrificed 16 h after hCG treatment, to assess follicle rupture and ovulation. Surprisingly, GPIR showed age-related ovulatory defects close similar to those in adult rats lacking P and PG actions. Rats primed with eCG at 21 or 23 days of age showed abnormally ruptured corpora lutea in which the cumulus-oocyte complex (COC was trapped or had been released to the ovarian interstitum, invading the ovarian stroma and blood and lymphatic vessels. Supplementation of immature rats with exogenous P and/or PG of the E series did not significantly inhibit abnormal follicle rupture. Otherwise, ovulatory defects were practically absent in rats primed with eCG at 25 days of age. GPIR treated with INDO showed the same ovulatory alterations than vehicle-treated ones, although affecting to a higher proportion of follicles. Blocking P actions with RU486 increased the number of COC trapped inside corpora lutea and decreased ovulation. The presence of ovulatory defects in GPIR, suggests that the capacity of the immature ovary to undergo the coordinate changes leading to effective ovulation is not fully established in Wistar rats primed with eCG before 25 days of age.

Does cross-taxon analysis show similarity in diversity patterns between vascular plants and bryophytes? Some answers from a literature review.

Science.gov (United States)

Bagella, Simonetta

2014-04-01

The objective of this study was to clarify the taxon surrogacy hypothesis relative to vascular plants and bryophytes. A literature review was conducted to obtain papers that met the following criteria: (i) they examined species richness values; or (ii) they evaluated the species richness within the same study sites, or under the same spatial variation conditions. Twenty-seven papers were accessed. The richness of the two taxa, compared in 32 cases, positively co-varied in about half of the comparisons. The response to the spatial variation in environmental or human-induced factors of the two taxa in terms of species richness was rather variable. Based on current knowledge, the main documented findings regard forest habitats and nival gradients. In forest habitats, co-variation in species richness is likely when similar environments are analysed and seems to be strengthened for boreal forests. Along the nival gradient, a different response in terms of richness of the two taxa suggests that vascular plants cannot be considered good surrogates for bryophytes. Copyright © 2014 Académie des sciences. Published by Elsevier SAS. All rights reserved.

American coot (Fulica americana) on the Hanford Site. Part 1. Nesting biology

International Nuclear Information System (INIS)

Fitzner, R.E.; Schreckhise, R.G.

1979-05-01

The nesting biology of the American coot was studied on low-level radioactive waste ponds located on the Hanford DOE Site and on control ponds located in the Columbia National Wildlife Refuge in southeastern Washington from 1974 through 1976. The objective was to discover any differences in the nesting biology of the birds which could be attributed to the low-level radioactive wastes present in the Hanford DOE Site ponds. Coots nesting on the Hanford ponds and those nesting on the wildlife refuge were found to have similar nesting habits. Nesting habitats were also similar. There were no apparent differences in nesting chronology between birds from the different study sites. Clutch size also showed no significant differences. The average number of eggs per nest for all ponds was 6.7. Egg and chick weights and percent hatching success were similar among coots from both study sites. Feeding habits of the coots from the two sites did show some differences. However, this is probably related to the availability of food items in each pond

New Similarity Functions

DEFF Research Database (Denmark)

Yazdani, Hossein; Ortiz-Arroyo, Daniel; Kwasnicka, Halina

2016-01-01

spaces, in addition to their similarity in the vector space. Prioritized Weighted Feature Distance (PWFD) works similarly as WFD, but provides the ability to give priorities to desirable features. The accuracy of the proposed functions are compared with other similarity functions on several data sets....... Our results show that the proposed functions work better than other methods proposed in the literature....

Emergent self-similarity of cluster coagulation

Science.gov (United States)

Pushkin, Dmtiri O.

A wide variety of nonequilibrium processes, such as coagulation of colloidal particles, aggregation of bacteria into colonies, coalescence of rain drops, bond formation between polymerization sites, and formation of planetesimals, fall under the rubric of cluster coagulation. We predict emergence of self-similar behavior in such systems when they are 'forced' by an external source of the smallest particles. The corresponding self-similar coagulation spectra prove to be power laws. Starting from the classical Smoluchowski coagulation equation, we identify the conditions required for emergence of self-similarity and show that the power-law exponent value for a particular coagulation mechanism depends on the homogeneity index of the corresponding coagulation kernel only. Next, we consider the current wave of mergers of large American banks as an 'unorthodox' application of coagulation theory. We predict that the bank size distribution has propensity to become a power law, and verify our prediction in a statistical study of the available economical data. We conclude this chapter by discussing economically significant phenomenon of capital condensation and predicting emergence of power-law distributions in other economical and social data. Finally, we turn to apparent semblance between cluster coagulation and turbulence and conclude that it is not accidental: both of these processes are instances of nonlinear cascades. This class of processes also includes river network formation models, certain force-chain models in granular mechanics, fragmentation due to collisional cascades, percolation, and growing random networks. We characterize a particular cascade by three indicies and show that the resulting power-law spectrum exponent depends on the indicies values only. The ensuing algebraic formula is remarkable for its simplicity.

Myalgic encephalomyelitis/chronic fatigue syndrome and encephalomyelitis disseminata/multiple sclerosis show remarkable levels of similarity in phenomenology and neuroimmune characteristics

Science.gov (United States)

2013-01-01

Background ‘Encephalomyelitis disseminata’ (multiple sclerosis) and myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) are both classified as diseases of the central nervous system by the World Health Organization. This review aims to compare the phenomenological and neuroimmune characteristics of MS with those of ME/CFS. Discussion There are remarkable phenomenological and neuroimmune overlaps between both disorders. Patients with ME/CFS and MS both experience severe levels of disabling fatigue and a worsening of symptoms following exercise and resort to energy conservation strategies in an attempt to meet the energy demands of day-to-day living. Debilitating autonomic symptoms, diminished cardiac responses to exercise, orthostatic intolerance and postural hypotension are experienced by patients with both illnesses. Both disorders show a relapsing-remitting or progressive course, while infections and psychosocial stress play a large part in worsening of fatigue symptoms. Activated immunoinflammatory, oxidative and nitrosative (O+NS) pathways and autoimmunity occur in both illnesses. The consequences of O+NS damage to self-epitopes is evidenced by the almost bewildering and almost identical array of autoantibodies formed against damaged epitopes seen in both illnesses. Mitochondrial dysfunctions, including lowered levels of ATP, decreased phosphocreatine synthesis and impaired oxidative phosphorylation, are heavily involved in the pathophysiology of both MS and ME/CFS. The findings produced by neuroimaging techniques are quite similar in both illnesses and show decreased cerebral blood flow, atrophy, gray matter reduction, white matter hyperintensities, increased cerebral lactate and choline signaling and lowered acetyl-aspartate levels. Summary This review shows that there are neuroimmune similarities between MS and ME/CFS. This further substantiates the view that ME/CFS is a neuroimmune illness and that patients with MS are immunologically primed to

Methanol extract of grain dust shows complement fixing activity and other characteristics similar to tannic acid.

Science.gov (United States)

Skea, D; Broder, I

1986-01-01

We have found several similarities between tannic acid and grain dust extract prepared with methanol. Both formed a precipitate with IgG, and these interactions were inhibited by albumin. In addition, both preparations fixed complement; this activity was heat stable and was removed by prior adsorption of the preparations with hide powder. Adsorption with polyvinyl polypyrrolidone reduced the complement-fixing activity of tannic acid but not that of the methanol grain dust extract. The similarities between tannic acid and the methanol grain dust extract are consistent with the presence of a tannin or tanninlike material in grain dust. Images FIGURE 1. PMID:3709479

Meta-Analysis of Quantification Methods Shows that Archaea and Bacteria Have Similar Abundances in the Subseafloor

Science.gov (United States)

May, Megan K.; Kevorkian, Richard T.; Steen, Andrew D.

2013-01-01

There is no universally accepted method to quantify bacteria and archaea in seawater and marine sediments, and different methods have produced conflicting results with the same samples. To identify best practices, we compiled data from 65 studies, plus our own measurements, in which bacteria and archaea were quantified with fluorescent in situ hybridization (FISH), catalyzed reporter deposition FISH (CARD-FISH), polyribonucleotide FISH, or quantitative PCR (qPCR). To estimate efficiency, we defined “yield” to be the sum of bacteria and archaea counted by these techniques divided by the total number of cells. In seawater, the yield was high (median, 71%) and was similar for FISH, CARD-FISH, and polyribonucleotide FISH. In sediments, only measurements by CARD-FISH in which archaeal cells were permeabilized with proteinase K showed high yields (median, 84%). Therefore, the majority of cells in both environments appear to be alive, since they contain intact ribosomes. In sediments, the sum of bacterial and archaeal 16S rRNA gene qPCR counts was not closely related to cell counts, even after accounting for variations in copy numbers per genome. However, qPCR measurements were precise relative to other qPCR measurements made on the same samples. qPCR is therefore a reliable relative quantification method. Inconsistent results for the relative abundance of bacteria versus archaea in deep subsurface sediments were resolved by the removal of CARD-FISH measurements in which lysozyme was used to permeabilize archaeal cells and qPCR measurements which used ARCH516 as an archaeal primer or TaqMan probe. Data from best-practice methods showed that archaea and bacteria decreased as the depth in seawater and marine sediments increased, although archaea decreased more slowly. PMID:24096423

Intrinsic atopic dermatitis shows similar TH2 and higher TH17 immune activation compared with extrinsic atopic dermatitis.

Science.gov (United States)

Suárez-Fariñas, Mayte; Dhingra, Nikhil; Gittler, Julia; Shemer, Avner; Cardinale, Irma; de Guzman Strong, Cristina; Krueger, James G; Guttman-Yassky, Emma

2013-08-01

Atopic dermatitis (AD) is classified as extrinsic and intrinsic, representing approximately 80% and 20% of patients with the disease, respectively. Although sharing a similar clinical phenotype, only extrinsic AD is characterized by high serum IgE levels. Because most patients with AD exhibit high IgE levels, an "allergic"/IgE-mediated disease pathogenesis was hypothesized. However, current models associate AD with T-cell activation, particularly TH2/TH22 polarization, and epidermal barrier defects. We sought to define whether both variants share a common pathogenesis. We stratified 51 patients with severe AD into extrinsic AD (n = 42) and intrinsic AD (n = 9) groups (with similar mean disease activity/SCORAD scores) and analyzed the molecular and cellular skin pathology of lesional and nonlesional intrinsic AD and extrinsic AD by using gene expression (real-time PCR) and immunohistochemistry. A significant correlation between IgE levels and SCORAD scores (r = 0.76, P extrinsic AD. Marked infiltrates of T cells and dendritic cells and corresponding epidermal alterations (keratin 16, Mki67, and S100A7/A8/A9) defined lesional skin of patients with both variants. However, higher activation of all inflammatory axes (including TH2) was detected in patients with intrinsic AD, particularly TH17 and TH22 cytokines. Positive correlations between TH17-related molecules and SCORAD scores were only found in patients with intrinsic AD, whereas only patients with extrinsic AD showed positive correlations between SCORAD scores and TH2 cytokine (IL-4 and IL-5) levels and negative correlations with differentiation products (loricrin and periplakin). Although differences in TH17 and TH22 activation exist between patients with intrinsic AD and those with extrinsic AD, we identified common disease-defining features of T-cell activation, production of polarized cytokines, and keratinocyte responses to immune products. Our data indicate that a TH2 bias is not the sole cause of high Ig

Streptococcus pneumonia YlxR at 1.35 A shows a putative new fold.

Science.gov (United States)

Osipiuk, J; Górnicki, P; Maj, L; Dementieva, I; Laskowski, R; Joachimiak, A

2001-11-01

The structure of the YlxR protein of unknown function from Streptococcus pneumonia was determined to 1.35 A. YlxR is expressed from the nusA/infB operon in bacteria and belongs to a small protein family (COG2740) that shares a conserved sequence motif GRGA(Y/W). The family shows no significant amino-acid sequence similarity with other proteins. Three-wavelength diffraction MAD data were collected to 1.7 A from orthorhombic crystals using synchrotron radiation and the structure was determined using a semi-automated approach. The YlxR structure resembles a two-layer alpha/beta sandwich with the overall shape of a cylinder and shows no structural homology to proteins of known structure. Structural analysis revealed that the YlxR structure represents a new protein fold that belongs to the alpha-beta plait superfamily. The distribution of the electrostatic surface potential shows a large positively charged patch on one side of the protein, a feature often found in nucleic acid-binding proteins. Three sulfate ions bind to this positively charged surface. Analysis of potential binding sites uncovered several substantial clefts, with the largest spanning 3/4 of the protein. A similar distribution of binding sites and a large sharply bent cleft are observed in RNA-binding proteins that are unrelated in sequence and structure. It is proposed that YlxR is an RNA-binding protein.

Similarity increases altruistic punishment in humans.

Science.gov (United States)

Mussweiler, Thomas; Ockenfels, Axel

2013-11-26

Humans are attracted to similar others. As a consequence, social networks are homogeneous in sociodemographic, intrapersonal, and other characteristics--a principle called homophily. Despite abundant evidence showing the importance of interpersonal similarity and homophily for human relationships, their behavioral correlates and cognitive foundations are poorly understood. Here, we show that perceived similarity substantially increases altruistic punishment, a key mechanism underlying human cooperation. We induced (dis)similarity perception by manipulating basic cognitive mechanisms in an economic cooperation game that included a punishment phase. We found that similarity-focused participants were more willing to punish others' uncooperative behavior. This influence of similarity is not explained by group identity, which has the opposite effect on altruistic punishment. Our findings demonstrate that pure similarity promotes reciprocity in ways known to encourage cooperation. At the same time, the increased willingness to punish norm violations among similarity-focused participants provides a rationale for why similar people are more likely to build stable social relationships. Finally, our findings show that altruistic punishment is differentially involved in encouraging cooperation under pure similarity vs. in-group conditions.

Opioid binding site in EL-4 thymoma cell line

International Nuclear Information System (INIS)

Fiorica, E.; Spector, S.

1988-01-01

Using EL-4 thymoma cell-line we found a binding site similar to the k opioid receptor of the nervous system. The Scatchard analysis of the binding of [ 3 H] bremazocine indicated a single site with a K/sub D/ = 60 +/- 17 nM and Bmax = 2.7 +/- 0.8 pmols/10 6 cells. To characterize this binding site, competition studies were performed using selective compounds for the various opioid receptors. The k agonist U-50,488H was the most potent displacer of [ 3 H] bremazocine with an IC 50 value = 0.57μM. The two steroisomers levorphanol and dextrorphan showed the same affinity for this site. While morphine, [D-Pen 2 , D-Pen 5 ] enkephalin and β-endorphin failed to displace, except at very high concentrations, codeine demonstrated a IC 50 = 60μM, that was similar to naloxone. 32 references, 3 figures, 2 tables

Recognition of functional sites in protein structures.

Science.gov (United States)

Shulman-Peleg, Alexandra; Nussinov, Ruth; Wolfson, Haim J

2004-06-04

Recognition of regions on the surface of one protein, that are similar to a binding site of another is crucial for the prediction of molecular interactions and for functional classifications. We first describe a novel method, SiteEngine, that assumes no sequence or fold similarities and is able to recognize proteins that have similar binding sites and may perform similar functions. We achieve high efficiency and speed by introducing a low-resolution surface representation via chemically important surface points, by hashing triangles of physico-chemical properties and by application of hierarchical scoring schemes for a thorough exploration of global and local similarities. We proceed to rigorously apply this method to functional site recognition in three possible ways: first, we search a given functional site on a large set of complete protein structures. Second, a potential functional site on a protein of interest is compared with known binding sites, to recognize similar features. Third, a complete protein structure is searched for the presence of an a priori unknown functional site, similar to known sites. Our method is robust and efficient enough to allow computationally demanding applications such as the first and the third. From the biological standpoint, the first application may identify secondary binding sites of drugs that may lead to side-effects. The third application finds new potential sites on the protein that may provide targets for drug design. Each of the three applications may aid in assigning a function and in classification of binding patterns. We highlight the advantages and disadvantages of each type of search, provide examples of large-scale searches of the entire Protein Data Base and make functional predictions.

Budesonide/formoterol and formoterol provide similar rapid relief in patients with acute asthma showing refractoriness to salbutamol

Directory of Open Access Journals (Sweden)

Lombardi DM

2006-01-01

Full Text Available Abstract Background To compare the efficacy and safety of budesonide/formoterol (Symbicort® with formoterol (Oxis® in the treatment of patients with acute asthma who showed evidence of refractoriness to short-acting β2-agonist therapy. Methods In a 3 hour, randomized, double-blind study, a total of 115 patients with acute asthma (mean FEV1 40% of predicted normal and a refractory response to salbutamol (mean reversibility 2% of predicted normal after inhalation of 400 μg, were randomized to receive either budesonide/formoterol (320/9 μg, 2 inhalations at t = -5 minutes and 2 inhalations at 0 minutes [total dose 1280/36 μg] or formoterol (9 μg, 2 inhalations at t = -5 minutes and 2 inhalations at 0 minutes [total dose 36 μg]. The primary efficacy variable was the average FEV1 from the first intake of study medication to the measurement at 90 minutes. Secondary endpoints included changes in FEV1 at other timepoints and change in respiratory rate at 180 minutes. Treatment success, treatment failure and patient assessment of the effectiveness of the study medication were also measured. Results FEV1 increased after administration of the study medication in both treatment groups. No statistically significant difference between the treatment groups was apparent for the primary outcome variable, or for any of the other efficacy endpoints. There were no statistically significant between-group differences for treatment success, treatment failure or patient assessment of medication effectiveness. Both treatments were well tolerated. Conclusion Budesonide/formoterol and formoterol provided similarly rapid relief of acute bronchoconstriction in patients with asthma who showed evidence of refractoriness to a short-acting β2-agonist.

Opioid binding site in EL-4 thymoma cell line

Energy Technology Data Exchange (ETDEWEB)

Fiorica, E.; Spector, S.

1988-01-01

Using EL-4 thymoma cell-line we found a binding site similar to the k opioid receptor of the nervous system. The Scatchard analysis of the binding of (/sup 3/H) bremazocine indicated a single site with a K/sub D/ = 60 +/- 17 nM and Bmax = 2.7 +/- 0.8 pmols/10/sup 6/ cells. To characterize this binding site, competition studies were performed using selective compounds for the various opioid receptors. The k agonist U-50,488H was the most potent displacer of (/sup 3/H) bremazocine with an IC/sub 50/ value = 0.57..mu..M. The two steroisomers levorphanol and dextrorphan showed the same affinity for this site. While morphine, (D-Pen/sup 2/, D-Pen/sup 5/) enkephalin and ..beta..-endorphin failed to displace, except at very high concentrations, codeine demonstrated a IC/sub 50/ = 60..mu..M, that was similar to naloxone. 32 references, 3 figures, 2 tables.

Men and women show similar survival outcome in stage IV breast cancer.

Science.gov (United States)

Wu, San-Gang; Zhang, Wen-Wen; Liao, Xu-Lin; Sun, Jia-Yuan; Li, Feng-Yan; Su, Jing-Jun; He, Zhen-Yu

2017-08-01

To evaluate the clinicopathological features, patterns of distant metastases, and survival outcome between stage IV male breast cancer (MBC) and female breast cancer (FBC). Patients diagnosed with stage IV MBC and FBC between 2010 and 2013 were included using the Surveillance, Epidemiology, and End Results program. Univariate and multivariate Cox regression analyses were used to analyze risk factors for overall survival (OS). A total of 4997 patients were identified, including 60 MBC and 4937 FBC. Compared with FBC, patients with MBC were associated with a significantly higher rate of estrogen receptor-positive, progesterone receptor-positive, unmarried, lung metastases, and a lower frequency of liver metastases. Univariate and multivariate analyses showed no significant difference in OS between MBC and FBC. In the propensity score-matched population, there was also no difference in survival between MBC and FBC. Multivariate analysis of MBC showed that OS was longer for patients aged 50-69 years and with estrogen receptor-positive disease. There was no significant difference in survival outcome between stage IV MBC and FBC, but significant differences in clinicopathological features and patterns of metastases between the genders. Copyright © 2017 Elsevier Ltd. All rights reserved.

Similar net ecosystem exchange of beech stands located in France and Denmark

DEFF Research Database (Denmark)

Granier, A.; Pilegaard, K.; Jensen, N.O.

2002-01-01

Net ecosystem exchange (NEE), as measured with eddy covariance was compared for two European beech stands for the years 1996-1999: a young beech forest (32 year-old) growing in east France, and a mature beech stand (80 year-old) located in Denmark. Those sites are included in the Carboeuroflux....../Carbodata European networks. Except for some short-term differences (1-5 days), the temporal variation of NEE followed similar patterns in both sites. This similarity followed from similar values of. (i) dates of bud break and of leaf fall; (ii) ecosystem respiration rates during winter; (iii) diurnal NEE during...

Preferential occupation of pyroxene sites by iron in diogenite meteorites

International Nuclear Information System (INIS)

Verma, H. C.; Tewari, V. C.; Paliwal, B. S.; Tripathi, R. P.

2008-01-01

Three diogenite meteorites ALHA77256-121, Tatahounie and Bilanga are studied using Moessbauer spectroscopy to look at the iron occupancy in the two inequivalent pyroxene sites. Though the three meteorites belong to three different conditions, one is an Antarctica find, one is 75 years old fall and one is a recent fall, the iron occupancy in pyroxene sites is very similar. Fe 2+ occupies only the less distorted site and hence a single sharp doublet is observed in the Moessbauer spectra of all these samples. In contrast eucrites show a distribution of iron ions in the two sites of pyroxenes.

Two Genetically Similar H9N2 Influenza A Viruses Show Different Pathogenicity in Mice

Directory of Open Access Journals (Sweden)

Qingtao Liu

2016-11-01

Full Text Available H9N2 Avian influenza virus has repeatedly infected humans and other mammals, which highlights the need to determine the pathogenicity and the corresponding mechanism of this virus for mammals. In this study, we found two H9N2 viruses with similar genetic background but with different pathogenicity in mice. The A/duck/Nanjing/06/2003 (NJ06 virus was highly pathogenic for mice, with a 50% mouse lethal dose of 102.83 50% egg infectious dose, whereas the A/duck/Nanjing/01/1999 (NJ01 virus was low pathogenic for mice, with a 50% mouse lethal dose of >106.81 50% egg infectious dose. Further studies showed that the NJ06 virus grew faster and reached significantly higher titers than NJ01 in vivo and in vitro. Moreover, the NJ06 virus induced more severe lung lesions, and higher levels of inflammatory cellular infiltration and cytokine response in lungs than NJ01 did. However, only twelve different amino acid residues (HA-K157E, NA-A9T, NA-R435K, PB2-T149P, PB2-K627E, PB1-R187K, PA-L548M, PA-M550L, NP-G127E, NP-P277H, NP-D340N, NS1-D171N were found between the two viruses, and all these residues except for NA-R435K were located in the known functional regions involved in interaction of viral proteins or between the virus and host factors. Summary, our results suggest that multiple amino acid differences may be responsible for the higher pathogenicity of the NJ06 virus for mice, resulting in lethal infection, enhanced viral replication, severe lung lesions, and excessive inflammatory cellular infiltration and cytokine response in lungs. These observations will be helpful for better understanding the pathogenic potential and the corresponding molecular basis of H9N2 viruses that might pose threats to human health in the future.

Bioavailability of particulate metal to zebra mussels: Biodynamic modelling shows that assimilation efficiencies are site-specific

Energy Technology Data Exchange (ETDEWEB)

Bourgeault, Adeline, E-mail: bourgeault@ensil.unilim.fr [Cemagref, Unite de Recherche Hydrosystemes et Bioprocedes, 1 rue Pierre-Gilles de Gennes, 92761 Antony (France); FIRE, FR-3020, 4 place Jussieu, 75005 Paris (France); Gourlay-France, Catherine, E-mail: catherine.gourlay@cemagref.fr [Cemagref, Unite de Recherche Hydrosystemes et Bioprocedes, 1 rue Pierre-Gilles de Gennes, 92761 Antony (France); FIRE, FR-3020, 4 place Jussieu, 75005 Paris (France); Priadi, Cindy, E-mail: cindy.priadi@eng.ui.ac.id [LSCE/IPSL CEA-CNRS-UVSQ, Avenue de la Terrasse, 91198 Gif-sur-Yvette (France); Ayrault, Sophie, E-mail: Sophie.Ayrault@lsce.ipsl.fr [LSCE/IPSL CEA-CNRS-UVSQ, Avenue de la Terrasse, 91198 Gif-sur-Yvette (France); Tusseau-Vuillemin, Marie-Helene, E-mail: Marie-helene.tusseau@ifremer.fr [IFREMER Technopolis 40, 155 rue Jean-Jacques Rousseau, 92138 Issy-Les-Moulineaux (France)

2011-12-15

This study investigates the ability of the biodynamic model to predict the trophic bioaccumulation of cadmium (Cd), chromium (Cr), copper (Cu), nickel (Ni) and zinc (Zn) in a freshwater bivalve. Zebra mussels were transplanted to three sites along the Seine River (France) and collected monthly for 11 months. Measurements of the metal body burdens in mussels were compared with the predictions from the biodynamic model. The exchangeable fraction of metal particles did not account for the bioavailability of particulate metals, since it did not capture the differences between sites. The assimilation efficiency (AE) parameter is necessary to take into account biotic factors influencing particulate metal bioavailability. The biodynamic model, applied with AEs from the literature, overestimated the measured concentrations in zebra mussels, the extent of overestimation being site-specific. Therefore, an original methodology was proposed for in situ AE measurements for each site and metal. - Highlights: > Exchangeable fraction of metal particles did not account for the bioavailability of particulate metals. > Need for site-specific biodynamic parameters. > Field-determined AE provide a good fit between the biodynamic model predictions and bioaccumulation measurements. - The interpretation of metal bioaccumulation in transplanted zebra mussels with biodynamic modelling highlights the need for site-specific assimilation efficiencies of particulate metals.

Geomfinder: a multi-feature identifier of similar three-dimensional protein patterns: a ligand-independent approach.

Science.gov (United States)

Núñez-Vivanco, Gabriel; Valdés-Jiménez, Alejandro; Besoaín, Felipe; Reyes-Parada, Miguel

2016-01-01

Since the structure of proteins is more conserved than the sequence, the identification of conserved three-dimensional (3D) patterns among a set of proteins, can be important for protein function prediction, protein clustering, drug discovery and the establishment of evolutionary relationships. Thus, several computational applications to identify, describe and compare 3D patterns (or motifs) have been developed. Often, these tools consider a 3D pattern as that described by the residues surrounding co-crystallized/docked ligands available from X-ray crystal structures or homology models. Nevertheless, many of the protein structures stored in public databases do not provide information about the location and characteristics of ligand binding sites and/or other important 3D patterns such as allosteric sites, enzyme-cofactor interaction motifs, etc. This makes necessary the development of new ligand-independent methods to search and compare 3D patterns in all available protein structures. Here we introduce Geomfinder, an intuitive, flexible, alignment-free and ligand-independent web server for detailed estimation of similarities between all pairs of 3D patterns detected in any two given protein structures. We used around 1100 protein structures to form pairs of proteins which were assessed with Geomfinder. In these analyses each protein was considered in only one pair (e.g. in a subset of 100 different proteins, 50 pairs of proteins can be defined). Thus: (a) Geomfinder detected identical pairs of 3D patterns in a series of monoamine oxidase-B structures, which corresponded to the effectively similar ligand binding sites at these proteins; (b) we identified structural similarities among pairs of protein structures which are targets of compounds such as acarbose, benzamidine, adenosine triphosphate and pyridoxal phosphate; these similar 3D patterns are not detected using sequence-based methods; (c) the detailed evaluation of three specific cases showed the versatility

A ChIP-Seq benchmark shows that sequence conservation mainly improves detection of strong transcription factor binding sites.

Directory of Open Access Journals (Sweden)

Tony Håndstad

Full Text Available BACKGROUND: Transcription factors are important controllers of gene expression and mapping transcription factor binding sites (TFBS is key to inferring transcription factor regulatory networks. Several methods for predicting TFBS exist, but there are no standard genome-wide datasets on which to assess the performance of these prediction methods. Also, it is believed that information about sequence conservation across different genomes can generally improve accuracy of motif-based predictors, but it is not clear under what circumstances use of conservation is most beneficial. RESULTS: Here we use published ChIP-seq data and an improved peak detection method to create comprehensive benchmark datasets for prediction methods which use known descriptors or binding motifs to detect TFBS in genomic sequences. We use this benchmark to assess the performance of five different prediction methods and find that the methods that use information about sequence conservation generally perform better than simpler motif-scanning methods. The difference is greater on high-affinity peaks and when using short and information-poor motifs. However, if the motifs are specific and information-rich, we find that simple motif-scanning methods can perform better than conservation-based methods. CONCLUSIONS: Our benchmark provides a comprehensive test that can be used to rank the relative performance of transcription factor binding site prediction methods. Moreover, our results show that, contrary to previous reports, sequence conservation is better suited for predicting strong than weak transcription factor binding sites.

Site directed mutagenesis of amino acid residues at the active site of mouse aldehyde oxidase AOX1.

Directory of Open Access Journals (Sweden)

Silvia Schumann

Full Text Available Mouse aldehyde oxidase (mAOX1 forms a homodimer and belongs to the xanthine oxidase family of molybdoenzymes which are characterized by an essential equatorial sulfur ligand coordinated to the molybdenum atom. In general, mammalian AOs are characterized by broad substrate specificity and an yet obscure physiological function. To define the physiological substrates and the enzymatic characteristics of mAOX1, we established a system for the heterologous expression of the enzyme in Escherichia coli. The recombinant protein showed spectral features and a range of substrate specificity similar to the native protein purified from mouse liver. The EPR data of recombinant mAOX1 were similar to those of AO from rabbit liver, but differed from the homologous xanthine oxidoreductase enzymes. Site-directed mutagenesis of amino acids Val806, Met884 and Glu1265 at the active site resulted in a drastic decrease in the oxidation of aldehydes with no increase in the oxidation of purine substrates. The double mutant V806E/M884R and the single mutant E1265Q were catalytically inactive enzymes regardless of the aldehyde or purine substrates tested. Our results show that only Glu1265 is essential for the catalytic activity by initiating the base-catalyzed mechanism of substrate oxidation. In addition, it is concluded that the substrate specificity of molybdo-flavoenzymes is more complex and not only defined by the three characterized amino acids in the active site.

Surf similarity and solitary wave runup

DEFF Research Database (Denmark)

Fuhrman, David R.; Madsen, Per A.

2008-01-01

The notion of surf similarity in the runup of solitary waves is revisited. We show that the surf similarity parameter for solitary waves may be effectively reduced to the beach slope divided by the offshore wave height to depth ratio. This clarifies its physical interpretation relative to a previ...... functional dependence on their respective surf similarity parameters. Important equivalencies in the runup of sinusoidal and solitary waves are thus revealed.......The notion of surf similarity in the runup of solitary waves is revisited. We show that the surf similarity parameter for solitary waves may be effectively reduced to the beach slope divided by the offshore wave height to depth ratio. This clarifies its physical interpretation relative...... to a previous parameterization, which was not given in an explicit form. Good coherency with experimental (breaking) runup data is preserved with this simpler parameter. A recasting of analytical (nonbreaking) runup expressions for sinusoidal and solitary waves additionally shows that they contain identical...

Cancer mortality around nuclear sites

International Nuclear Information System (INIS)

Hill, C.; LaPlanche, A.

1991-01-01

Studies (including that of Gardner) of cancer mortality around individual nuclear sites in Britain show an excess of childhood leukemia near such sites. These have been attributed to radioactive discharges, increased radiation doses and radiation doses to the fathers of affected children. However, no such excess has been found in studies in other countries including France, Canada and the USA where similar radiation doses could have been received. Several explanations of this discrepancy are reviewed. It is possible that results from the small UK samples may be due to chance. A difference in external and internal doses for reprocessing plant workers may also be a factor. The possibility of a viral infection for leukemia spreading in new town populations is also mentioned. Whilst the studies in other countries are reassuring, the childhood leukemia excesses found in Britain round nuclear sites are still unexplained. (UK)

The apo structure of sucrose hydrolase from Xanthomonas campestris pv. campestris shows an open active-site groove

DEFF Research Database (Denmark)

Champion, Elise; Remaud-Simeon, Magali; Skov, Lars Kobberøe

2009-01-01

Glycoside hydrolase family 13 (GH-13) mainly contains starch-degrading or starch-modifying enzymes. Sucrose hydrolases utilize sucrose instead of amylose as the primary glucosyl donor. Here, the catalytic properties and X-ray structure of sucrose hydrolase from Xanthomonas campestris pv. campestris...... of GH-13. Comparisons with structures of the highly similar sucrose hydrolase from X. axonopodis pv. glycines most notably showed that residues Arg516 and Asp138, which form a salt bridge in the X. axonopodis sucrose complex and define part of the subsite -1 glucosyl-binding determinants...

Site selective excitation of Eu 3+ ions in the lanthanum squarate

International Nuclear Information System (INIS)

Piriou, B.; Petit, J.F.; Trombe, J.C.; Gleizes, A.

1989-01-01

Microcrystalline powder of La 2 (H 2 0) 11 (C 4 0 4 ) 3 . 2H 2 0 doped with 2.5 % Eu 3+ was studied at 77K. The site selective excitation in the 5 D 2 sub-levels and the time resolved spectroscopy were needed to distinguish very similar sites, in the structure with very closely spaced (2 cm -1 ) 5 D 0 levels. Two sites without symmetry were characterized in agreement with the structure. The presence of a minority third one is supposed to be due to the large concentration of the doping europium. The energy of all the Stark components of 7 F 1 7 F 2 5 D 0 and 5 D 2 are given. The sets of the energy levels of each site are very similar. This corresponds to the accidental identity of the coordination polyedron of inequivalent sites and shows the weak contribution to the crystalline field due to the second and farther neighbours. The spectra are correlated to the sites on the criterion of the 5 D 0 life time, 142 and 130 μs for the sites having respectively five and six water molecules [fr

The similarity of river evolution at the initial stage of channel erosion

Science.gov (United States)

Lin, Jiun-Chuan

2014-05-01

The study deals with a comparison study of two types of rocks at the initial stage of channel erosion in Taiwan. It is interesting that channel erosion at different types of rocks shows some similarity. There are two types of rocks: sandstone at Ta-an River, central Taiwan where river channel erosion from the nick point because of earthquake uplifting and mud rock at Tainan, southern Taiwan where rill erosion on a flat surface after artificial engineering. These two situations are both at the beginning stage of channel erosion, there are some similar landform appeared on channels. However the rate of erosion and magnitude of erosion are different. According to the using of photogrammetry method to reconstruct archive imageries and field surveying by total station and 3D scanner at different stages. The incision rate is high both at the Ta-an River and the bank erosion and it is even more obvious at mud rock area because of erodibility of mud rock. The results show that bank erosion and incision both are obvious processes. Bank erosion made channel into meander. The bank erosion cause slope in a asymmetric channel profile. The incision process will start at the site where land is relatively uplifted. This paper demonstrates such similarity and landform characters.

Quantitative mass spectrometry analysis reveals similar substrate consensus motif for human Mps1 kinase and Plk1.

Directory of Open Access Journals (Sweden)

Zhen Dou

Full Text Available BACKGROUND: Members of the Mps1 kinase family play an essential and evolutionarily conserved role in the spindle assembly checkpoint (SAC, a surveillance mechanism that ensures accurate chromosome segregation during mitosis. Human Mps1 (hMps1 is highly phosphorylated during mitosis and many phosphorylation sites have been identified. However, the upstream kinases responsible for these phosphorylations are not presently known. METHODOLOGY/PRINCIPAL FINDINGS: Here, we identify 29 in vivo phosphorylation sites in hMps1. While in vivo analyses indicate that Aurora B and hMps1 activity are required for mitotic hyper-phosphorylation of hMps1, in vitro kinase assays show that Cdk1, MAPK, Plk1 and hMps1 itself can directly phosphorylate hMps1. Although Aurora B poorly phosphorylates hMps1 in vitro, it positively regulates the localization of Mps1 to kinetochores in vivo. Most importantly, quantitative mass spectrometry analysis demonstrates that at least 12 sites within hMps1 can be attributed to autophosphorylation. Remarkably, these hMps1 autophosphorylation sites closely resemble the consensus motif of Plk1, demonstrating that these two mitotic kinases share a similar substrate consensus. CONCLUSIONS/SIGNIFICANCE: hMps1 kinase is regulated by Aurora B kinase and its autophosphorylation. Analysis on hMps1 autophosphorylation sites demonstrates that hMps1 has a substrate preference similar to Plk1 kinase.

Hanford Site Environmental Management Specification

International Nuclear Information System (INIS)

DAILY, J.L.

2001-01-01

The US Department of Energy, Richland Operations Office (RL) has established a document hierarchy as part of its integrated management system. The Strategic Plan defines the vision, values, missions, strategic goals, high-level outcomes, and the basic strategies in achieving those outcomes. As shown in Figure 1-1, the Site Specification derives requirements from the Strategic Plan and documents the top-level mission technical requirements for the work involved in the RL Hanford Site cleanup and infrastructure activities under the responsibility of the U.S. Department of Energy, Office of Environmental Management (EM). It also provides the basis for all contract technical requirements. Since this is limited to the EM work, neither the Fast Flux Test Facility (FFTF) nor the Pacific Northwest National Laboratory (PNNL) non-EM science activities are included. Figure 1-1 also shows the relationship between this Site Specification and the other Site management and planning documents. Similarly, the documents, orders, and laws referenced in this document represent only the most salient sources of requirements. Current and contractual reference data contain a complete set of source documents

Enriching consumer health vocabulary through mining a social Q&A site: A similarity-based approach.

Science.gov (United States)

He, Zhe; Chen, Zhiwei; Oh, Sanghee; Hou, Jinghui; Bian, Jiang

2017-05-01

The widely known vocabulary gap between health consumers and healthcare professionals hinders information seeking and health dialogue of consumers on end-user health applications. The Open Access and Collaborative Consumer Health Vocabulary (OAC CHV), which contains health-related terms used by lay consumers, has been created to bridge such a gap. Specifically, the OAC CHV facilitates consumers' health information retrieval by enabling consumer-facing health applications to translate between professional language and consumer friendly language. To keep up with the constantly evolving medical knowledge and language use, new terms need to be identified and added to the OAC CHV. User-generated content on social media, including social question and answer (social Q&A) sites, afford us an enormous opportunity in mining consumer health terms. Existing methods of identifying new consumer terms from text typically use ad-hoc lexical syntactic patterns and human review. Our study extends an existing method by extracting n-grams from a social Q&A textual corpus and representing them with a rich set of contextual and syntactic features. Using K-means clustering, our method, simiTerm, was able to identify terms that are both contextually and syntactically similar to the existing OAC CHV terms. We tested our method on social Q&A corpora on two disease domains: diabetes and cancer. Our method outperformed three baseline ranking methods. A post-hoc qualitative evaluation by human experts further validated that our method can effectively identify meaningful new consumer terms on social Q&A. Copyright © 2017 Elsevier Inc. All rights reserved.

Bioavailability of particulate metal to zebra mussels: biodynamic modelling shows that assimilation efficiencies are site-specific.

Science.gov (United States)

Bourgeault, Adeline; Gourlay-Francé, Catherine; Priadi, Cindy; Ayrault, Sophie; Tusseau-Vuillemin, Marie-Hélène

2011-12-01

This study investigates the ability of the biodynamic model to predict the trophic bioaccumulation of cadmium (Cd), chromium (Cr), copper (Cu), nickel (Ni) and zinc (Zn) in a freshwater bivalve. Zebra mussels were transplanted to three sites along the Seine River (France) and collected monthly for 11 months. Measurements of the metal body burdens in mussels were compared with the predictions from the biodynamic model. The exchangeable fraction of metal particles did not account for the bioavailability of particulate metals, since it did not capture the differences between sites. The assimilation efficiency (AE) parameter is necessary to take into account biotic factors influencing particulate metal bioavailability. The biodynamic model, applied with AEs from the literature, overestimated the measured concentrations in zebra mussels, the extent of overestimation being site-specific. Therefore, an original methodology was proposed for in situ AE measurements for each site and metal. Copyright © 2011 Elsevier Ltd. All rights reserved.

Species B adenovirus serotypes 3, 7, 11 and 35 share similar binding sites on the membrane cofactor protein CD46 receptor.

Science.gov (United States)

Fleischli, Christoph; Sirena, Dominique; Lesage, Guillaume; Havenga, Menzo J E; Cattaneo, Roberto; Greber, Urs F; Hemmi, Silvio

2007-11-01

We recently characterized the domains of the human cofactor protein CD46 involved in binding species B2 adenovirus (Ad) serotype 35. Here, the CD46 binding determinants are mapped for the species B1 Ad serotypes 3 and 7 and for the species B2 Ad11. Ad3, 7 and 11 bound and transduced CD46-positive rodent BHK cells at levels similar to Ad35. By using antibody-blocking experiments, hybrid CD46-CD4 receptor constructs and CD46 single point mutants, it is shown that Ad3, 7 and 11 share many of the Ad35-binding features on CD46. Both CD46 short consensus repeat domains SCR I and SCR II were necessary and sufficient for optimal binding and transgene expression, provided that they were positioned at an appropriate distance from the cell membrane. Similar to Ad35, most of the putative binding residues of Ad3, 7 and 11 were located on the same glycan-free, solvent-exposed face of the SCR I or SCR II domains, largely overlapping with the binding surface of the recently solved fiber knob Ad11-SCR I-II three-dimensional structure. Differences between species B1 and B2 Ads were documented with competition experiments based on anti-CD46 antibodies directed against epitopes flanking the putative Ad-binding sites, and with competition experiments based on soluble CD46 protein. It is concluded that the B1 and B2 species of Ad engage CD46 through similar binding surfaces.

Making Benefit Transfers Work: Deriving and Testing Principles for Value Transfers for Similar and Dissimilar Sites Using a Case Study of the Non-Market Benefits of Water Quality Improvements Across Europe

DEFF Research Database (Denmark)

Bateman, Ian; Brouwer, Roy; Ferreri, Silvia

2011-01-01

We implement a controlled, multi-site experiment to develop and test guidance principles for benefits transfers. These argue that when transferring across relatively similar sites, simple mean value transfers are to be preferred but that when sites are relatively dissimilar then value function...... transfers will yield lower errors. The paper also provides guidance on the appropriate specification of transferable value functions arguing that these should be developed from theoretical rather than ad-hoc statistical approaches. These principles are tested via a common format valuation study of water...... quality improvements across five countries. While this provides an idealised tested, results support the above principles and suggest directions for future transfer studies....

Age-related changes in vertebral and iliac crest 3D bone microstructure--differences and similarities.

Science.gov (United States)

Thomsen, J S; Jensen, M V; Niklassen, A S; Ebbesen, E N; Brüel, A

2015-01-01

Age-related changes of vertebra and iliac crest 3D microstructure were investigated, and we showed that they were in general similar. The 95th percentile of vertebral trabecular thickness distribution increased with age for women. Surprisingly, vertebral and iliac crest bone microstructure was only weakly correlated (r = 0.38 to 0.75), despite the overall similar age-related changes. The purposes of the study were to determine the age-related changes in iliac and vertebral bone microstructure for women and men over a large age range and to investigate the relationship between the bone microstructure at these skeletal sites. Matched sets of transiliac crest bone biopsies and lumbar vertebral body (L2) specimens from 41 women (19-96 years) and 39 men (23-95 years) were micro-computed tomography (μCT) scanned, and the 3D microstructure was quantified. For both women and men, bone volume per total volume (BV/TV), connectivity density (CD), and trabecular number (Tb.N) decreased significantly, while structure model index (SMI) and trabecular separation (Tb.Sp) increased significantly with age at either skeletal site. Vertebral trabecular thickness (Tb.Th) was independent of age for both women and men, while iliac Tb.Th decreased significantly with age for men, but not for women. In general, the vertebral and iliac age-related changes were similar. The 95th percentile of the Tb.Th distribution increased significantly with age for women but was independent of age for men at the vertebral body, while it was independent of age for either sex at the iliac crest. The Tb.Th probability density functions at the two skeletal sites became significantly more similar with age for women, but not for men. The microstructural parameters at the iliac crest and the vertebral bodies were only moderately correlated from r = 0.38 for SMI in women to r = 0.75 for Tb.Sp in men. Age-related changes in vertebral and iliac bone microstructure were in general similar. The iliac

Autoradiographic localization of peptide YY and neuropeptide Y binding sites in the medulla oblongata

International Nuclear Information System (INIS)

Leslie, R.A.; McDonald, T.J.; Robertson, H.A.

1988-01-01

Peptide YY is a highly potent emetic when given intravenously in dogs. We hypothesized that the area postrema, a small brain stem nucleus that acts as a chemoreceptive trigger zone for vomiting and lies outside the blood-brain barrier, might have receptors that PYY would bind to, in order to mediate the emetic response. We prepared [ 125 I]PYY and used autoradiography to show that high affinity binding sites for this ligand were highly localized in the area postrema and related nuclei of the dog medulla oblongata. Furthermore, the distribution of [ 125 I]PYY binding sites in the rat medulla oblongata was very similar to that in the dog; the distribution of [ 125 I]PYY binding sites throughout the rat brain was seen to be similar to the distribution of [ 125 I]NPY binding sites

Personalized recommendation with corrected similarity

International Nuclear Information System (INIS)

Zhu, Xuzhen; Tian, Hui; Cai, Shimin

2014-01-01

Personalized recommendation has attracted a surge of interdisciplinary research. Especially, similarity-based methods in applications of real recommendation systems have achieved great success. However, the computations of similarities are overestimated or underestimated, in particular because of the defective strategy of unidirectional similarity estimation. In this paper, we solve this drawback by leveraging mutual correction of forward and backward similarity estimations, and propose a new personalized recommendation index, i.e., corrected similarity based inference (CSI). Through extensive experiments on four benchmark datasets, the results show a greater improvement of CSI in comparison with these mainstream baselines. And a detailed analysis is presented to unveil and understand the origin of such difference between CSI and mainstream indices. (paper)

Alignment-independent comparison of binding sites based on DrugScore potential fields encoded by 3D Zernike descriptors.

Science.gov (United States)

Nisius, Britta; Gohlke, Holger

2012-09-24

Analyzing protein binding sites provides detailed insights into the biological processes proteins are involved in, e.g., into drug-target interactions, and so is of crucial importance in drug discovery. Herein, we present novel alignment-independent binding site descriptors based on DrugScore potential fields. The potential fields are transformed to a set of information-rich descriptors using a series expansion in 3D Zernike polynomials. The resulting Zernike descriptors show a promising performance in detecting similarities among proteins with low pairwise sequence identities that bind identical ligands, as well as within subfamilies of one target class. Furthermore, the Zernike descriptors are robust against structural variations among protein binding sites. Finally, the Zernike descriptors show a high data compression power, and computing similarities between binding sites based on these descriptors is highly efficient. Consequently, the Zernike descriptors are a useful tool for computational binding site analysis, e.g., to predict the function of novel proteins, off-targets for drug candidates, or novel targets for known drugs.

Revisiting Inter-Genre Similarity

DEFF Research Database (Denmark)

Sturm, Bob L.; Gouyon, Fabien

2013-01-01

We revisit the idea of ``inter-genre similarity'' (IGS) for machine learning in general, and music genre recognition in particular. We show analytically that the probability of error for IGS is higher than naive Bayes classification with zero-one loss (NB). We show empirically that IGS does...... not perform well, even for data that satisfies all its assumptions....

Self-similar factor approximants

International Nuclear Information System (INIS)

Gluzman, S.; Yukalov, V.I.; Sornette, D.

2003-01-01

The problem of reconstructing functions from their asymptotic expansions in powers of a small variable is addressed by deriving an improved type of approximants. The derivation is based on the self-similar approximation theory, which presents the passage from one approximant to another as the motion realized by a dynamical system with the property of group self-similarity. The derived approximants, because of their form, are called self-similar factor approximants. These complement the obtained earlier self-similar exponential approximants and self-similar root approximants. The specific feature of self-similar factor approximants is that their control functions, providing convergence of the computational algorithm, are completely defined from the accuracy-through-order conditions. These approximants contain the Pade approximants as a particular case, and in some limit they can be reduced to the self-similar exponential approximants previously introduced by two of us. It is proved that the self-similar factor approximants are able to reproduce exactly a wide class of functions, which include a variety of nonalgebraic functions. For other functions, not pertaining to this exactly reproducible class, the factor approximants provide very accurate approximations, whose accuracy surpasses significantly that of the most accurate Pade approximants. This is illustrated by a number of examples showing the generality and accuracy of the factor approximants even when conventional techniques meet serious difficulties

Thyroid hyperfunctioning adenomas with and without Gsp/TSH receptor mutations show similar clinical features.

Science.gov (United States)

Arturi, F; Capula, C; Chiefari, E; Filetti, S; Russo, D

1998-01-01

Activating mutations of Gs alpha protein (gsp) and TSH receptor (TSH-R) identified in autonomously hyperfunctioning thyroid adenomas have been proposed as the primary event responsible for this disease. Since mutations have not been detected in 100% (ranging from less than 10% to 90%) of the patients, we evaluated whether the presence of gsp and TSH-R mutations cause differences in the clinical and biochemical parameters of the affected patients. Fifteen consecutive patients (11 women and 4 men) with autonomously hyperfunctioning thyroid adenomas who underwent thyroidectomy, previously examined for the presence of gsp or TSH-R mutations, were investigated. In all of the patients we examined plasma free T3, free T4, TSH levels and ultrasound volume of the nodules. The patients with mutations in gsp or TSH-R were similar to the patients without mutations for clinical presentation, sex distribution and mean age. Furthermore, basal serum FT3, TSH and tumor volume in the patients with mutations were not significantly different from the group without mutations. Our preliminary data demonstrate that no significant differences are present in the two groups of patients examined, suggesting that factors other than gsp or TSH-R mutations play a role in the clinical presentation of the disease.

Self-similar pattern formation and continuous mechanics of self-similar systems

Directory of Open Access Journals (Sweden)

A. V. Dyskin

2007-01-01

Full Text Available In many cases, the critical state of systems that reached the threshold is characterised by self-similar pattern formation. We produce an example of pattern formation of this kind – formation of self-similar distribution of interacting fractures. Their formation starts with the crack growth due to the action of stress fluctuations. It is shown that even when the fluctuations have zero average the cracks generated by them could grow far beyond the scale of stress fluctuations. Further development of the fracture system is controlled by crack interaction leading to the emergence of self-similar crack distributions. As a result, the medium with fractures becomes discontinuous at any scale. We develop a continuum fractal mechanics to model its physical behaviour. We introduce a continuous sequence of continua of increasing scales covering this range of scales. The continuum of each scale is specified by the representative averaging volume elements of the corresponding size. These elements determine the resolution of the continuum. Each continuum hides the cracks of scales smaller than the volume element size while larger fractures are modelled explicitly. Using the developed formalism we investigate the stability of self-similar crack distributions with respect to crack growth and show that while the self-similar distribution of isotropically oriented cracks is stable, the distribution of parallel cracks is not. For the isotropically oriented cracks scaling of permeability is determined. For permeable materials (rocks with self-similar crack distributions permeability scales as cube of crack radius. This property could be used for detecting this specific mechanism of formation of self-similar crack distributions.

Hydrogeological Site Descriptive Model - a strategy for its development during Site Investigations

Energy Technology Data Exchange (ETDEWEB)

Rhen, Ingvar [SWECO VIAK AB, Goeteborg (Sweden); Follin, Sven [SF GeoLogic AB, Stockholm (Sweden); Hermanson, Jan [Golder Associates, Stockholm (Sweden)

2003-04-01

The report is to present a strategy for the development of the Site Descriptive Hydrogeological Model within the SKB Site Investigation Programme. The report, and similar reports from the Geology, Rock Mechanics, Thermal properties, Hydrogeochemistry, Transport Properties and Surface Ecosystem disciplines are intended to guide SKB Site Descriptive Modelling but also to provide the authorities with an overview of how the modelling should be performed. Thus the objectives of this report are to: provide guidelines for the modelling of different sites resulting in consistent handling of modelling issues during the Site Investigations, provide a structure for the modelling sequence that is suitable for the establishment of a Site Descriptive model and provide some necessary details that should be considered in a Site Descriptive model.

Hydrogeological Site Descriptive Model - a strategy for its development during Site Investigations

International Nuclear Information System (INIS)

Rhen, Ingvar; Follin, Sven; Hermanson, Jan

2003-04-01

The report is to present a strategy for the development of the Site Descriptive Hydrogeological Model within the SKB Site Investigation Programme. The report, and similar reports from the Geology, Rock Mechanics, Thermal properties, Hydrogeochemistry, Transport Properties and Surface Ecosystem disciplines are intended to guide SKB Site Descriptive Modelling but also to provide the authorities with an overview of how the modelling should be performed. Thus the objectives of this report are to: provide guidelines for the modelling of different sites resulting in consistent handling of modelling issues during the Site Investigations, provide a structure for the modelling sequence that is suitable for the establishment of a Site Descriptive model and provide some necessary details that should be considered in a Site Descriptive model

Similarity Measure of Graphs

Directory of Open Access Journals (Sweden)

Amine Labriji

2017-07-01

Full Text Available The topic of identifying the similarity of graphs was considered as highly recommended research field in the Web semantic, artificial intelligence, the shape recognition and information research. One of the fundamental problems of graph databases is finding similar graphs to a graph query. Existing approaches dealing with this problem are usually based on the nodes and arcs of the two graphs, regardless of parental semantic links. For instance, a common connection is not identified as being part of the similarity of two graphs in cases like two graphs without common concepts, the measure of similarity based on the union of two graphs, or the one based on the notion of maximum common sub-graph (SCM, or the distance of edition of graphs. This leads to an inadequate situation in the context of information research. To overcome this problem, we suggest a new measure of similarity between graphs, based on the similarity measure of Wu and Palmer. We have shown that this new measure satisfies the properties of a measure of similarities and we applied this new measure on examples. The results show that our measure provides a run time with a gain of time compared to existing approaches. In addition, we compared the relevance of the similarity values obtained, it appears that this new graphs measure is advantageous and  offers a contribution to solving the problem mentioned above.

One-site versus two-site phacotrabeculectomy: a prospective randomized study

Directory of Open Access Journals (Sweden)

Moschos MM

2015-08-01

Full Text Available Marilita M Moschos,1 Irini P Chatziralli,2 Michael Tsatsos3 1First Department of Ophthalmology, University of Athens, 2Second Department of Ophthalmology, Ophthalmiatrion Athinon, Athens, Greece; 3Department of Ophthalmology, Cambridge University Hospital NHS, Cambridge, UK Purpose: The purpose of this study is to compare the efficacy and safety of one-site and two-site combined phacotrabeculectomy with foldable posterior chamber intraocular lens implantation.Methods: Thirty-four patients (41 eyes with glaucoma and cataract were randomly assigned to undergo either a one-site (22 eyes or a two-site (19 eyes combined procedure. One-site approach consisted of a standard superior phacotrabeculectomy with a limbus-based conjunctival flap, while two-site approach consisted of a clear cornea phacoemulsification and a separate superior trabeculectomy with a limbus-based conjunctival flap.Results: Mean follow-up period was 54 months (standard deviation [SD] 2.3. Mean preoperative intraocular pressure (IOP in the one-site group was 21.3 mmHg (SD 2.8 and in the two-site group was 21.8 mmHg (SD 3.0 (P>0.1. Mean postoperative IOP significantly decreased in both groups compared to the preoperative level and was 15.6 mmHg (SD 3.5 in the one-site group and 14.9 mmHg (SD 2.7 in the two-site group. Three months later, the difference between the two groups was not statistically significant (P=0.058. The one-site group required significantly more medications than the two-site group (P=0.03. Best-corrected visual acuity (BCVA improved similarly in both groups, but there was less postoperative (induced astigmatism in the two-site group in a marginal statistical level (P=0.058. Intra- and postoperative complications were comparable in the two groups.Conclusion: Both techniques yielded similar results concerning final BCVA and IOP reduction. However, the two-site group had less induced astigmatism and a better postoperative IOP control with less required

Does computer-synthesized speech manifest personality? Experimental tests of recognition, similarity-attraction, and consistency-attraction.

Science.gov (United States)

Nass, C; Lee, K M

2001-09-01

Would people exhibit similarity-attraction and consistency-attraction toward unambiguously computer-generated speech even when personality is clearly not relevant? In Experiment 1, participants (extrovert or introvert) heard a synthesized voice (extrovert or introvert) on a book-buying Web site. Participants accurately recognized personality cues in text to speech and showed similarity-attraction in their evaluation of the computer voice, the book reviews, and the reviewer. Experiment 2, in a Web auction context, added personality of the text to the previous design. The results replicated Experiment 1 and demonstrated consistency (voice and text personality)-attraction. To maximize liking and trust, designers should set parameters, for example, words per minute or frequency range, that create a personality that is consistent with the user and the content being presented.

Similarity of nutrient uptake and root dimensions of Engelmann spruce and subalpine fir at two contrasting sites in Colorado

Energy Technology Data Exchange (ETDEWEB)

Yanai, R; McFarlane, K; Lucash, M; Kulpa, S; Wood, D

2009-10-09

were indistinguishable in specific root length and diameter distribution, while most of the other ten species had statistically distinct diameter distributions across five diameter classes < 2 mm. Based on specific root length, subalpine fir and Engelmann spruce had significantly coarser roots than red pine (Pinus resinosa Soland), yellow birch (Betula allegheniensis Britt.), sugar maple (Acer saccharum Marsh.), chestnut oak (Quercus prinus L.), black cherry (Prunus serotina Ehrh.), and red spruce (Picea rubens Sarg.). White oak (Quercus alba L.), balsam fir (Abies balsamea (L.) Mill.), American beech (Fagus grandifolia Ehrh.) and loblolly pine (Pinus taeda L.) were intermediate in SRL (indistinguishable from Engelmann spruce and subalpine fir by ANOVA). Species that differ more in physiology and morphology than the two species we compared would likely show dissimilar uptake characteristics even at the same site.

Intrinsic atopic dermatitis (AD) shows similar Th2 and higher Th17 immune activation compared to extrinsic AD

Science.gov (United States)

Suárez-Fariñas, M; Dhingra, N; Gittler, J; Shemer, A; Cardinale, I; de Guzman Strong, C; Krueger, JG; Guttman-Yassky, E

2013-01-01

Background Atopic dermatitis (AD) is classified as extrinsic (ADe) and intrinsic (ADi), representing approximately 80% and 20% of patients, respectively. While sharing a similar clinical phenotype, only ADe is characterized by high serum IgE. Since most AD patients exhibit high IgE, an “allergic”/IgE-mediated disease pathogenesis was hypothesized. However, current models associate AD with T-cell activation, particularly Th2/Th22 polarization, and epidermal barrier defects. Objective To define if both variants share a common pathogenesis. Methods We stratified 51 severe AD patients as ADe (42) and ADi (9) (with similar mean disease activity/SCORAD), and analyzed the molecular and cellular skin pathology of lesional and non-lesional ADi and ADe using gene-expression (RT-PCR) and immunohistochemistry. Results A significant correlation between IgE levels and SCORAD (r=0.76, pextrinsic and intrinsic AD variants might be treated with T-cell targeted therapeutics or agents that modify keratinocyte responses. PMID:23777851

Retinoid-binding proteins: similar protein architectures bind similar ligands via completely different ways.

Directory of Open Access Journals (Sweden)

Yu-Ru Zhang

Full Text Available BACKGROUND: Retinoids are a class of compounds that are chemically related to vitamin A, which is an essential nutrient that plays a key role in vision, cell growth and differentiation. In vivo, retinoids must bind with specific proteins to perform their necessary functions. Plasma retinol-binding protein (RBP and epididymal retinoic acid binding protein (ERABP carry retinoids in bodily fluids, while cellular retinol-binding proteins (CRBPs and cellular retinoic acid-binding proteins (CRABPs carry retinoids within cells. Interestingly, although all of these transport proteins possess similar structures, the modes of binding for the different retinoid ligands with their carrier proteins are different. METHODOLOGY/PRINCIPAL FINDINGS: In this work, we analyzed the various retinoid transport mechanisms using structure and sequence comparisons, binding site analyses and molecular dynamics simulations. Our results show that in the same family of proteins and subcellular location, the orientation of a retinoid molecule within a binding protein is same, whereas when different families of proteins are considered, the orientation of the bound retinoid is completely different. In addition, none of the amino acid residues involved in ligand binding is conserved between the transport proteins. However, for each specific binding protein, the amino acids involved in the ligand binding are conserved. The results of this study allow us to propose a possible transport model for retinoids. CONCLUSIONS/SIGNIFICANCE: Our results reveal the differences in the binding modes between the different retinoid-binding proteins.

Hyperfine field calculations: search for muon stopping sites in Fe3O4

International Nuclear Information System (INIS)

Boekema, C.; Denison, A.B.; Cooke, D.W.; Heffner, R.H.; Hutson, R.L.; Leon, M.; Schillaci, M.E.

1983-01-01

Muon Spin Rotation (μSR) results for magnetite (Fe 3 O 4 ) are analyzed and discussed. At room temperature, a μSR signal is observed due to the presence of an internal magnetic field (Bsub(int)) at the muon site. External transverse field measurements show that Bsub(int) is parallel to the magnetic spin direction, the direction in zero applied field. Calculations of the hyperfine field to pinpoint muon stopping sites in magnetite show that the local field contains supertransfer (covalent) and dipolar field contributions. The implanted muons appear to stop at sites structurally similar to those reported for hematite (α-Fe 2 O 3 ), where muon-oxygen bond formation was strongly indicated. (Auth.)

Survey of siting practices for selected management projects in seven countries

International Nuclear Information System (INIS)

Hardin, E.; Aahagen, H.

1992-06-01

This paper surveys siting practices for deep geologic disposal in seven countries, and attempts to formulate generalizations which could be useful for the upcoming review of the Swedish plan for siting the SFL repository (R and D 92). Comparison of projects in different countries is done with full appreciation of the technical, legal, and cultural differences. The seven countries were selected for experience with siting in crystalline rock, similarity of siting practices to Sweden, and the availability of published information. Local governments have demonstrated effective veto power in each of the seven countries surveyed, although this power is exercised in different ways. This paper shows how the siting strategy itself affects the ability and the inclination of localities to block the project. It shows by example that public involvement, parallel vs. sequential characterization, schedule for siting activities, and the existence of interim waste storage capability have an impact on the success of siting. The focus of this paper is deep geologic disposal. Shallow land disposal and non-radioactive wastes are not discussed in detail, with three exceptions: LLW disposal siting in the U.S. and Canada, and the SAKAB incinerator projects in Sweden. These provide insight into siting approaches and demonstrate that conclusions regarding deep geologic disposal are supported by other experience. (114 refs.) (au)

Similar speaker recognition using nonlinear analysis

International Nuclear Information System (INIS)

Seo, J.P.; Kim, M.S.; Baek, I.C.; Kwon, Y.H.; Lee, K.S.; Chang, S.W.; Yang, S.I.

2004-01-01

Speech features of the conventional speaker identification system, are usually obtained by linear methods in spectral space. However, these methods have the drawback that speakers with similar voices cannot be distinguished, because the characteristics of their voices are also similar in spectral space. To overcome the difficulty in linear methods, we propose to use the correlation exponent in the nonlinear space as a new feature vector for speaker identification among persons with similar voices. We show that our proposed method surprisingly reduces the error rate of speaker identification system to speakers with similar voices

Species composition and similarities among anuran assemblages of forest sites in southeastern Brazil Composição de espécies e similaridades entre taxocenoses de anuros de áreas florestais do sudeste do Brasil

Directory of Open Access Journals (Sweden)

Jaime Bertoluci

2007-08-01

Full Text Available Neotropical forests show high anuran species richness, but some Brazilian forest formations, like cerradão, semideciduous forests and restingas, remain poorly known. The composition of anuran species were determined for four forest sites belonging to different biomes in southeastern Brazil, based on two complementary techniques (visual encounter survey and survey on breeding sites, both applied simultaneously. A total of 60 anuran species belonging to eight families was recorded. Species richness and levels of endemism were higher in the Atlantic rainforest site. Sites located in the Cerrado domain were more alike than those located in the Atlantic Forest Domain. Similarity in anuran species composition was negatively correlated to the geographical distance among sites, which explains part of similarities in species composition. Factors affecting these occurrence patterns are discussed. One species (if its identity is confirmed is considered Data Deficient by IUCN (The World Conservation Union, though it is not included in the Brazilian list of threatened amphibians. The presence of certain species with special habitats and microclimate requirements (bioindicators suggests well-preserved ecosystems.As florestas neotropicais apresentam altas riquezas de espécies de anuros, mas algumas formações florestais brasileiras, como o cerradão, as florestas semidecíduas e as restingas, permanecem pouco conhecidas. A composição de espécies de anuros de quatro áreas florestais pertencentes a diferentes biomas do sudeste do Brasil foi determinada com base em duas técnicas complementares (procura visual e investigação nos sítios reprodutivos, aplicadas de forma simultânea. Registramos um total de 60 espécies de anuros, incluídas em oito famílias. A riqueza de espécies e o nível de endemismo foram maiores na área coberta por floresta pluvial atlântica. As áreas localizadas no domínio do Cerrado foram mais similares entre si do que as �

Hanford Site environmental management specification

Energy Technology Data Exchange (ETDEWEB)

Grygiel, M.L.

1998-06-10

The US Department of Energy, Richland Operations Office (RL) uses this Hanford Site Environmental Management Specification (Specification) to document top-level mission requirements and planning assumptions for the prime contractors involved in Hanford Site cleanup and infrastructure activities under the responsibility of the US Department of Energy, Office of Environmental Management. This Specification describes at a top level the activities, facilities, and infrastructure necessary to accomplish the cleanup of the Hanford Site and assigns this scope to Site contractors and their respective projects. This Specification also references the key National Environmental Policy Act of 1969 (NEPA), Comprehensive Environmental Response, Compensation, and Liability Act of 1980 (CERCLA), and safety documentation necessary to accurately describe the cleanup at a summary level. The information contained in this document reflects RL`s application of values, priorities, and critical success factors expressed by those involved with and affected by the Hanford Site project. The prime contractors and their projects develop complete baselines and work plans to implement this Specification. These lower-level documents and the data that support them, together with this Specification, represent the full set of requirements applicable to the contractors and their projects. Figure 1-1 shows the relationship of this Specification to the other basic Site documents. Similarly, the documents, orders, and laws referenced in this specification represent only the most salient sources of requirements. Current and contractual reference data contain a complete set of source documents.

Hanford Site environmental management specification

International Nuclear Information System (INIS)

Grygiel, M.L.

1998-01-01

The US Department of Energy, Richland Operations Office (RL) uses this Hanford Site Environmental Management Specification (Specification) to document top-level mission requirements and planning assumptions for the prime contractors involved in Hanford Site cleanup and infrastructure activities under the responsibility of the US Department of Energy, Office of Environmental Management. This Specification describes at a top level the activities, facilities, and infrastructure necessary to accomplish the cleanup of the Hanford Site and assigns this scope to Site contractors and their respective projects. This Specification also references the key National Environmental Policy Act of 1969 (NEPA), Comprehensive Environmental Response, Compensation, and Liability Act of 1980 (CERCLA), and safety documentation necessary to accurately describe the cleanup at a summary level. The information contained in this document reflects RL's application of values, priorities, and critical success factors expressed by those involved with and affected by the Hanford Site project. The prime contractors and their projects develop complete baselines and work plans to implement this Specification. These lower-level documents and the data that support them, together with this Specification, represent the full set of requirements applicable to the contractors and their projects. Figure 1-1 shows the relationship of this Specification to the other basic Site documents. Similarly, the documents, orders, and laws referenced in this specification represent only the most salient sources of requirements. Current and contractual reference data contain a complete set of source documents

Personality similarity and life satisfaction in couples

OpenAIRE

Furler Katrin; Gomez Veronica; Grob Alexander

2013-01-01

The present study examined the association between personality similarity and life satisfaction in a large nationally representative sample of 1608 romantic couples. Similarity effects were computed for the Big Five personality traits as well as for personality profiles with global and differentiated indices of similarity. Results showed substantial actor and partner effects indicating that both partners' personality traits were related to both partners' life satisfaction. Personality similar...

Measuring structural similarity in large online networks.

Science.gov (United States)

Shi, Yongren; Macy, Michael

2016-09-01

Structural similarity based on bipartite graphs can be used to detect meaningful communities, but the networks have been tiny compared to massive online networks. Scalability is important in applications involving tens of millions of individuals with highly skewed degree distributions. Simulation analysis holding underlying similarity constant shows that two widely used measures - Jaccard index and cosine similarity - are biased by the distribution of out-degree in web-scale networks. However, an alternative measure, the Standardized Co-incident Ratio (SCR), is unbiased. We apply SCR to members of Congress, musical artists, and professional sports teams to show how massive co-following on Twitter can be used to map meaningful affiliations among cultural entities, even in the absence of direct connections to one another. Our results show how structural similarity can be used to map cultural alignments and demonstrate the potential usefulness of social media data in the study of culture, politics, and organizations across the social and behavioral sciences. Copyright © 2016 Elsevier Inc. All rights reserved.

Detection of secondary binding sites in proteins using fragment screening.

Science.gov (United States)

Ludlow, R Frederick; Verdonk, Marcel L; Saini, Harpreet K; Tickle, Ian J; Jhoti, Harren

2015-12-29

Proteins need to be tightly regulated as they control biological processes in most normal cellular functions. The precise mechanisms of regulation are rarely completely understood but can involve binding of endogenous ligands and/or partner proteins at specific locations on a protein that can modulate function. Often, these additional secondary binding sites appear separate to the primary binding site, which, for example for an enzyme, may bind a substrate. In previous work, we have uncovered several examples in which secondary binding sites were discovered on proteins using fragment screening approaches. In each case, we were able to establish that the newly identified secondary binding site was biologically relevant as it was able to modulate function by the binding of a small molecule. In this study, we investigate how often secondary binding sites are located on proteins by analyzing 24 protein targets for which we have performed a fragment screen using X-ray crystallography. Our analysis shows that, surprisingly, the majority of proteins contain secondary binding sites based on their ability to bind fragments. Furthermore, sequence analysis of these previously unknown sites indicate high conservation, which suggests that they may have a biological function, perhaps via an allosteric mechanism. Comparing the physicochemical properties of the secondary sites with known primary ligand binding sites also shows broad similarities indicating that many of the secondary sites may be druggable in nature with small molecules that could provide new opportunities to modulate potential therapeutic targets.

A resolvase-like protein is requered for the site-specific integration of the temperate lactococcal bacteriophage TP901-1

DEFF Research Database (Denmark)

Christiansen, Bettina; Brøndsted, Lone; Vogensen, Finn K.

1996-01-01

upstream of attP. The N-terminal 150 to 1180 amino acids of Orf1 showed 38 to 44% similarity to the resolvase group of site-specific integrases, while no similarity to know proteins was found in the C-terminal end. Bacteriophage 'TP901-1 therefore contains a unique integration system that does not resemble...... the Int class of site-specific integrases usually found in temperate bacteriophages. The constructed integration vector, pBC170, integrates into the chromosomal attachment site very efficiently and forms stable transformants with a frequency corresponding to 20% of the transformation efficiency....

Diversity patterns and freshwater molluscs similarities in small water reservoirs

Directory of Open Access Journals (Sweden)

Tomáš Čejka

2011-02-01

Full Text Available The survey presents the molluscan fauna from six impoundment systems of two sides (NW and SE of the Small Carpathians. Altogether 25 species (15 gastropod and 10 bivalve species were identified in reservoirs and their subsystems (inflows and outlets. The number of species per site ranged from 2 to 12, the mean number of species per site was 7. The mean number of individuals per site ranged from 15 to 905 (mean 174 ind/m2. Radix auricularia, R. ovata, Gyraulus albus, Gyraulus parvus/laevis, Hippeutis complanatus and Pisidium casertanum were present in more than 50% of reservoirs. The most abundant and frequent species in the entire area and all subsystems were Pisidium casertanum, Pisidium subtruncatum and Gyraulus parvus/laevis. Faunistic similarity indices indicate moderate degree of beta diversity i.e., differentiation among the sites; good separation of sites by cluster analysis indicates a different composition among inflows/outlets and littoral molluscan faunas of reservoirs.

Searching for the IRA "disappeared": ground-penetrating radar investigation of a churchyard burial site, Northern Ireland.

Science.gov (United States)

Ruffell, Alastair

2005-11-01

A search for the body of a victim of terrorist abduction and murder was made in a graveyard on the periphery of a major conurbation in Northern Ireland. The area is politically sensitive and the case of high profile. This required non-invasive, completely non-destructive and rapid assessment of the scene. A MALA RAMAC ground-penetrating radar system was used to achieve these objectives. Unprocessed and processed 400 MHz data show the presence of a collapse feature above and around a known 1970s burial with no similar collapse above the suspect location. In the saturated, clay-rich sediments of the site, 200 MHz data offered no advantage over 400 MHz data. Unprocessed 100 MHz data shows a series of multiples in the known burial with no similar features in the suspect location. Processed 100 MHz lines defined the shape of the collapse around the known burial to 2 m depth, together with the geometry of the platform (1 m depth) the gravedigger used in the 1970s to construct the site. In addition, processed 100 MHz data showed both the dielectric contrast in and internal reflection geometry of the soil imported above the known grave. Thus the sequence, geometry, difference in infill and infill direction of the grave was reconstructed 30 years after burial. The suspect site showed no evidence of shallow or deep inhumation. Subsequently, the missing person's body was found some distance from this site, vindicating the results and interpretation from ground-penetrating radar. The acquisition, processing, collapse feature and sequence stratigraphic interpretation of the known burial and empty (suspect) burial site may be useful proxies for other, similar investigations. GPR was used to evaluate this site within 3 h of the survey commencing, using unprocessed data. An additional day of processing established that the suspect body did not reside here, which was counter to police and community intelligence.

Using a Similarity Matrix Approach to Evaluate the Accuracy of Rescaled Maps

Directory of Open Access Journals (Sweden)

Peijun Sun

2018-03-01

Full Text Available Rescaled maps have been extensively utilized to provide data at the appropriate spatial resolution for use in various Earth science models. However, a simple and easy way to evaluate these rescaled maps has not been developed. We propose a similarity matrix approach using a contingency table to compute three measures: overall similarity (OS, omission error (OE, and commission error (CE to evaluate the rescaled maps. The Majority Rule Based aggregation (MRB method was employed to produce the upscaled maps to demonstrate this approach. In addition, previously created, coarser resolution land cover maps from other research projects were also available for comparison. The question of which is better, a map initially produced at coarse resolution or a fine resolution map rescaled to a coarse resolution, has not been quantitatively investigated. To address these issues, we selected study sites at three different extent levels. First, we selected twelve regions covering the continental USA, then we selected nine states (from the whole continental USA, and finally we selected nine Agriculture Statistical Districts (ASDs (from within the nine selected states as study sites. Crop/non-crop maps derived from the USDA Crop Data Layer (CDL at 30 m as base maps were used for the upscaling and existing maps at 250 m and 1 km were utilized for the comparison. The results showed that a similarity matrix can effectively provide the map user with the information needed to assess the rescaling. Additionally, the upscaled maps can provide higher accuracy and better represent landscape pattern compared to the existing coarser maps. Therefore, we strongly recommend that an evaluation of the upscaled map and the existing coarser resolution map using a similarity matrix should be conducted before deciding which dataset to use for the modelling. Overall, extending our understanding on how to perform an evaluation of the rescaled map and investigation of the applicability

DNA methylation patterns in tissues from mid-gestation bovine foetuses produced by somatic cell nuclear transfer show subtle abnormalities in nuclear reprogramming

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Lee Rita SF

2010-03-01

Full Text Available Abstract Background Cloning of cattle by somatic cell nuclear transfer (SCNT is associated with a high incidence of pregnancy failure characterized by abnormal placental and foetal development. These abnormalities are thought to be due, in part, to incomplete re-setting of the epigenetic state of DNA in the donor somatic cell nucleus to a state that is capable of driving embryonic and foetal development to completion. Here, we tested the hypothesis that DNA methylation patterns were not appropriately established during nuclear reprogramming following SCNT. A panel of imprinted, non-imprinted genes and satellite repeat sequences was examined in tissues collected from viable and failing mid-gestation SCNT foetuses and compared with similar tissues from gestation-matched normal foetuses generated by artificial insemination (AI. Results Most of the genomic regions examined in tissues from viable and failing SCNT foetuses had DNA methylation patterns similar to those in comparable tissues from AI controls. However, statistically significant differences were found between SCNT and AI at specific CpG sites in some regions of the genome, particularly those associated with SNRPN and KCNQ1OT1, which tended to be hypomethylated in SCNT tissues. There was a high degree of variation between individuals in methylation levels at almost every CpG site in these two regions, even in AI controls. In other genomic regions, methylation levels at specific CpG sites were tightly controlled with little variation between individuals. Only one site (HAND1 showed a tissue-specific pattern of DNA methylation. Overall, DNA methylation patterns in tissues of failing foetuses were similar to apparently viable SCNT foetuses, although there were individuals showing extreme deviant patterns. Conclusion These results show that SCNT foetuses that had developed to mid-gestation had largely undergone nuclear reprogramming and that the epigenetic signature at this stage was not a

AutoSite: an automated approach for pseudo-ligands prediction—from ligand-binding sites identification to predicting key ligand atoms

Science.gov (United States)

Ravindranath, Pradeep Anand; Sanner, Michel F.

2016-01-01

Motivation: The identification of ligand-binding sites from a protein structure facilitates computational drug design and optimization, and protein function assignment. We introduce AutoSite: an efficient software tool for identifying ligand-binding sites and predicting pseudo ligand corresponding to each binding site identified. Binding sites are reported as clusters of 3D points called fills in which every point is labelled as hydrophobic or as hydrogen bond donor or acceptor. From these fills AutoSite derives feature points: a set of putative positions of hydrophobic-, and hydrogen-bond forming ligand atoms. Results: We show that AutoSite identifies ligand-binding sites with higher accuracy than other leading methods, and produces fills that better matches the ligand shape and properties, than the fills obtained with a software program with similar capabilities, AutoLigand. In addition, we demonstrate that for the Astex Diverse Set, the feature points identify 79% of hydrophobic ligand atoms, and 81% and 62% of the hydrogen acceptor and donor hydrogen ligand atoms interacting with the receptor, and predict 81.2% of water molecules mediating interactions between ligand and receptor. Finally, we illustrate potential uses of the predicted feature points in the context of lead optimization in drug discovery projects. Availability and Implementation: http://adfr.scripps.edu/AutoDockFR/autosite.html Contact: sanner@scripps.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:27354702

Structural Fingerprints of Transcription Factor Binding Site Regions

Directory of Open Access Journals (Sweden)

Peter Willett

2009-03-01

Full Text Available Fourier transforms are a powerful tool in the prediction of DNA sequence properties, such as the presence/absence of codons. We have previously compiled a database of the structural properties of all 32,896 unique DNA octamers. In this work we apply Fourier techniques to the analysis of the structural properties of human chromosomes 21 and 22 and also to three sets of transcription factor binding sites within these chromosomes. We find that, for a given structural property, the structural property power spectra of chromosomes 21 and 22 are strikingly similar. We find common peaks in their power spectra for both Sp1 and p53 transcription factor binding sites. We use the power spectra as a structural fingerprint and perform similarity searching in order to find transcription factor binding site regions. This approach provides a new strategy for searching the genome data for information. Although it is difficult to understand the relationship between specific functional properties and the set of structural parameters in our database, our structural fingerprints nevertheless provide a useful tool for searching for function information in sequence data. The power spectrum fingerprints provide a simple, fast method for comparing a set of functional sequences, in this case transcription factor binding site regions, with the sequences of whole chromosomes. On its own, the power spectrum fingerprint does not find all transcription factor binding sites in a chromosome, but the results presented here show that in combination with other approaches, this technique will improve the chances of identifying functional sequences hidden in genomic data.

A Minimum Spanning Tree Representation of Anime Similarities

OpenAIRE

Wibowo, Canggih Puspo

2016-01-01

In this work, a new way to represent Japanese animation (anime) is presented. We applied a minimum spanning tree to show the relation between anime. The distance between anime is calculated through three similarity measurements, namely crew, score histogram, and topic similarities. Finally, the centralities are also computed to reveal the most significance anime. The result shows that the minimum spanning tree can be used to determine the similarity anime. Furthermore, by using centralities c...

Glyceraldehyde-3-phosphate dehydrogenase from Chironomidae showed differential activity towards metals.

Science.gov (United States)

Chong, Isaac K W; Ho, Wing S

2013-09-01

Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is known to interact with different biomolecules and was implicated in many novel cellular activities including programmed cell death, nuclear RNA transport unrelated to the commonly known carbohydrate metabolism. We reported here the purification of GAPDH from Chironomidae larvae (Insecta, Diptera) that showed different biologic activity towards heavy metals. It was inhibited by copper, cobalt nickel, iron and lead but was activated by zinc. The GAPDH was purified by ammonium sulphate fractionation and Chelating Sepharose CL-6B chromatography followed by Blue Sepharose CL-6B chromatography. The 150-kDa tetrameric GAPDH showed optimal activity at pH 8.5 and 37°C. The multiple alignment of sequence of the Chironomidae GAPDH with other known species showed 78 - 88% identity to the conserved regions of the GADPH. Bioinformatic analysis unveils substantial N-terminal sequence similarity of GAPDH of Chironomidae larvae to mammalian GADPHs. However, the GADPH of Chironomidae larvae showed different biologic activities and cytotoxicity towards heavy metals. The GAPDH enzyme would undergo adaptive molecular changes through binding at the active site leading to higher tolerance to heavy metals.

Meta-analysis shows similar re-bleeding rates among Western and Eastern populations after index video capsule endoscopy.

Science.gov (United States)

Tziatzios, Georgios; Gkolfakis, Paraskevas; Hassan, Cesare; Toth, Ervin; Zullo, Angelo; Koulaouzidis, Anastasios; Dimitriadis, George D; Triantafyllou, Konstantinos

2018-03-01

Video capsule endoscopy (VCE) is the first-line diagnostic procedure for investigating obscure gastrointestinal bleeding (OGIB). Different re-bleeding rates following index VCE have been reported among Western and Eastern studies. We conducted a comprehensive literature search to identify studies examining re-bleeding rates after VCE for OGIB. Meta-analysis assessed the pooled proportion of re-bleeding events after VCE for OGIB according to study's origin (Western vs. Eastern) and according to the length of follow-up (≥24 months vs. Western and 16 Eastern) studies with 5796 patients. Significant heterogeneity was detected among meta-analyzed studies. Overall, the pooled re-bleeding rate was similar between Western (29%; 95% CI: 23-34) and Eastern (21%; 95% CI: 15-27) populations, irrespective of the length of follow-up. The odds of re-bleeding was significantly higher after positive as compared to negative index VCE in Eastern studies (OR: 1.77; 95% CI: 1.07-2.94). Application of specific treatment after positive index VCE was associated with lower re-bleeding odds in both Western (OR: 0.37; 95% CI: 0.16-0.87) and Eastern (OR: 0.39; 95% CI: 0.21-0.72) populations. Patients undergoing VCE for OGIB have similar re-bleeding rates in the East and the West, regardless of the length of follow-up. However, increased re-bleeding odds after positive index VCE is observed in Eastern studies. Copyright © 2018 Editrice Gastroenterologica Italiana S.r.l. Published by Elsevier Ltd. All rights reserved.

Feline bone marrow-derived mesenchymal stromal cells (MSCs) show similar phenotype and functions with regards to neuronal differentiation as human MSCs.

Science.gov (United States)

Munoz, Jessian L; Greco, Steven J; Patel, Shyam A; Sherman, Lauren S; Bhatt, Suresh; Bhatt, Rekha S; Shrensel, Jeffrey A; Guan, Yan-Zhong; Xie, Guiqin; Ye, Jiang-Hong; Rameshwar, Pranela; Siegel, Allan

2012-09-01

Mesenchymal stromal cells (MSCs) show promise for treatment of a variety of neurological and other disorders. Cat has a high degree of linkage with the human genome and has been used as a model for analysis of neurological disorders such as stroke, Alzheimer's disease and motor disorders. The present study was designed to characterize bone marrow-derived MSCs from cats and to investigate the capacity to generate functional peptidergic neurons. MSCs were expanded with cells from the femurs of cats and then characterized by phenotype and function. Phenotypically, feline and human MSCs shared surface markers, and lacked hematopoietic markers, with similar morphology. As compared to a subset of human MSCs, feline MSCs showed no evidence of the major histocompatibility class II. Since the literature suggested Stro-1 as an indicator of pluripotency, we compared early and late passages feline MSCs and found its expression in >90% of the cells. However, the early passage cells showed two distinct populations of Stro-1-expressing cells. At passage 5, the MSCs were more homogeneous with regards to Stro-1 expression. The passage 5 MSCs differentiated to osteogenic and adipogenic cells, and generated neurons with electrophysiological properties. This correlated with the expression of mature neuronal markers with concomitant decrease in stem cell-associated genes. At day 12 induction, the cells were positive for MAP2, Neuronal Nuclei, tubulin βIII, Tau and synaptophysin. This correlated with electrophysiological maturity as presented by excitatory postsynaptic potentials (EPSPs). The findings indicate that the cat may constitute a promising biomedical model for evaluation of novel therapies such as stem cell therapy in such neurological disorders as Alzheimer's disease and stroke. Copyright © 2012 International Society of Differentiation. Published by Elsevier B.V. All rights reserved.

ASD Is Not DLI: Individuals With Autism and Individuals With Syntactic DLI Show Similar Performance Level in Syntactic Tasks, but Different Error Patterns

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Nufar Sukenik

2018-04-01

Full Text Available Do individuals with autism have a developmental syntactic impairment, DLI (formerly known as SLI? In this study we directly compared the performance of 18 individuals with Autism Spectrum Disorder (ASD aged 9;0–18;0 years with that of 93 individuals with Syntactic-Developmental Language Impairment (SyDLI aged 8;8–14;6 (and with 166 typically-developing children aged 5;2–18;1. We tested them using three syntactic tests assessing the comprehension and production of syntactic structures that are known to be sensitive to syntactic impairment: elicitation of subject and object relative clauses, reading and paraphrasing of object relatives, and repetition of complex syntactic structures including Wh questions, relative clauses, topicalized sentences, sentences with verb movement, sentences with A-movement, and embedded sentences. The results were consistent across the three tasks: the overall rate of correct performance on the syntactic tasks is similar for the children with ASD and those with SyDLI. However, once we look closer, they are very different. The types of errors of the ASD group differ from those of the SyDLI group—the children with ASD provide various types of pragmatically infelicitous responses that are not evinced in the SyDLI or in the age equivalent typically-developing groups. The two groups (ASD and SyDLI also differ in the pattern of performance—the children with SyDLI show a syntactically-principled pattern of impairment, with selective difficulty in specific sentence types (such as sentences derived by movement of the object across the subject, and normal performance on other structures (such as simple sentences. In contrast, the ASD participants showed generalized low performance on the various sentence structures. Syntactic performance was far from consistent within the ASD group. Whereas all ASD participants had errors that can originate in pragmatic/discourse difficulties, seven of them had completely normal syntax

ASD Is Not DLI: Individuals With Autism and Individuals With Syntactic DLI Show Similar Performance Level in Syntactic Tasks, but Different Error Patterns.

Science.gov (United States)

Sukenik, Nufar; Friedmann, Naama

2018-01-01

Do individuals with autism have a developmental syntactic impairment, DLI (formerly known as SLI)? In this study we directly compared the performance of 18 individuals with Autism Spectrum Disorder (ASD) aged 9;0-18;0 years with that of 93 individuals with Syntactic-Developmental Language Impairment (SyDLI) aged 8;8-14;6 (and with 166 typically-developing children aged 5;2-18;1). We tested them using three syntactic tests assessing the comprehension and production of syntactic structures that are known to be sensitive to syntactic impairment: elicitation of subject and object relative clauses, reading and paraphrasing of object relatives, and repetition of complex syntactic structures including Wh questions, relative clauses, topicalized sentences, sentences with verb movement, sentences with A-movement, and embedded sentences. The results were consistent across the three tasks: the overall rate of correct performance on the syntactic tasks is similar for the children with ASD and those with SyDLI. However, once we look closer, they are very different. The types of errors of the ASD group differ from those of the SyDLI group-the children with ASD provide various types of pragmatically infelicitous responses that are not evinced in the SyDLI or in the age equivalent typically-developing groups. The two groups (ASD and SyDLI) also differ in the pattern of performance-the children with SyDLI show a syntactically-principled pattern of impairment, with selective difficulty in specific sentence types (such as sentences derived by movement of the object across the subject), and normal performance on other structures (such as simple sentences). In contrast, the ASD participants showed generalized low performance on the various sentence structures. Syntactic performance was far from consistent within the ASD group. Whereas all ASD participants had errors that can originate in pragmatic/discourse difficulties, seven of them had completely normal syntax in the structures we

Ethnic Similarity, Therapist Adherence, and Long-Term Multisystemic Therapy Outcomes

Science.gov (United States)

Chapman, Jason E.; Schoenwald, Sonja K.

2011-01-01

The current study investigated relations among ethnic similarity in caregiver-therapist pairs of youth participating in Multisystemic Therapy, therapist adherence, and youth long-term behavioral and criminal outcomes. Participants were 1,979 youth and families treated by 429 therapists across provider organizations in 45 sites. Relations were…

Effective stochastic generator with site-dependent interactions

Science.gov (United States)

Khamehchi, Masoumeh; Jafarpour, Farhad H.

2017-11-01

It is known that the stochastic generators of effective processes associated with the unconditioned dynamics of rare events might consist of non-local interactions; however, it can be shown that there are special cases for which these generators can include local interactions. In this paper, we investigate this possibility by considering systems of classical particles moving on a one-dimensional lattice with open boundaries. The particles might have hard-core interactions similar to the particles in an exclusion process, or there can be many arbitrary particles at a single site in a zero-range process. Assuming that the interactions in the original process are local and site-independent, we will show that under certain constraints on the microscopic reaction rules, the stochastic generator of an unconditioned process can be local but site-dependent. As two examples, the asymmetric zero-temperature Glauber model and the A-model with diffusion are presented and studied under the above-mentioned constraints.

Similarity analysis between chromosomes of Homo sapiens and monkeys with correlation coefficient, rank correlation coefficient and cosine similarity measures

OpenAIRE

Someswara Rao, Chinta; Viswanadha Raju, S.

2016-01-01

In this paper, we consider correlation coefficient, rank correlation coefficient and cosine similarity measures for evaluating similarity between Homo sapiens and monkeys. We used DNA chromosomes of genome wide genes to determine the correlation between the chromosomal content and evolutionary relationship. The similarity among the H. sapiens and monkeys is measured for a total of 210 chromosomes related to 10 species. The similarity measures of these different species show the relationship b...

Determination of subjective similarity for pairs of masses and pairs of clustered microcalcifications on mammograms: Comparison of similarity ranking scores and absolute similarity ratings

International Nuclear Information System (INIS)

Muramatsu, Chisako; Li Qiang; Schmidt, Robert A.; Shiraishi, Junji; Suzuki, Kenji; Newstead, Gillian M.; Doi, Kunio

2007-01-01

The presentation of images that are similar to that of an unknown lesion seen on a mammogram may be helpful for radiologists to correctly diagnose that lesion. For similar images to be useful, they must be quite similar from the radiologists' point of view. We have been trying to quantify the radiologists' impression of similarity for pairs of lesions and to establish a ''gold standard'' for development and evaluation of a computerized scheme for selecting such similar images. However, it is considered difficult to reliably and accurately determine similarity ratings, because they are subjective. In this study, we compared the subjective similarities obtained by two different methods, an absolute rating method and a 2-alternative forced-choice (2AFC) method, to demonstrate that reliable similarity ratings can be determined by the responses of a group of radiologists. The absolute similarity ratings were previously obtained for pairs of masses and pairs of microcalcifications from five and nine radiologists, respectively. In this study, similarity ranking scores for eight pairs of masses and eight pairs of microcalcifications were determined by use of the 2AFC method. In the first session, the eight pairs of masses and eight pairs of microcalcifications were grouped and compared separately for determining the similarity ranking scores. In the second session, another similarity ranking score was determined by use of mixed pairs, i.e., by comparison of the similarity of a mass pair with that of a calcification pair. Four pairs of masses and four pairs of microcalcifications were grouped together to create two sets of eight pairs. The average absolute similarity ratings and the average similarity ranking scores showed very good correlations in the first study (Pearson's correlation coefficients: 0.94 and 0.98 for masses and microcalcifications, respectively). Moreover, in the second study, the correlations between the absolute ratings and the ranking scores were also

Being similar while judging right and wrong: The effects of personal and situational similarity on moral judgements.

Science.gov (United States)

Pascal, Emilia

2017-07-20

This study investigated the effects of similarity with the transgressor and the victim on the perceived immorality of the transgression. Participants read two stories describing a person that cheated on their partner and a police officer that mistreated somebody. In the first story we manipulated participants' personal similarity to the transgressor and in the second their personal similarity to the victim. In each story, participants' past situational similarity to the target character was assessed according to their previous experiences of being in the same position. Results show that both personal and past situational similarity to the transgressor determine less severe moral judgements, while personal and past situational similarity with the victim have the opposite effect. We also tested several potential mediators of these effects, derived from competing theoretical accounts of the influence of similarity on perceived responsibility. Empathy emerged as mediating most of the effects of similarity on moral judgements, except those induced by past situational similarity with the victim. The foreseen probability of being in a similar situation mediated only the effects of similarity to the transgressor, and not those of similarity to the victim. Overall, results highlight the complex mechanisms of the influences of similarity on moral judgements. © 2017 International Union of Psychological Science.

Identifying mechanistic similarities in drug responses

KAUST Repository

Zhao, C.

2012-05-15

Motivation: In early drug development, it would be beneficial to be able to identify those dynamic patterns of gene response that indicate that drugs targeting a particular gene will be likely or not to elicit the desired response. One approach would be to quantitate the degree of similarity between the responses that cells show when exposed to drugs, so that consistencies in the regulation of cellular response processes that produce success or failure can be more readily identified.Results: We track drug response using fluorescent proteins as transcription activity reporters. Our basic assumption is that drugs inducing very similar alteration in transcriptional regulation will produce similar temporal trajectories on many of the reporter proteins and hence be identified as having similarities in their mechanisms of action (MOA). The main body of this work is devoted to characterizing similarity in temporal trajectories/signals. To do so, we must first identify the key points that determine mechanistic similarity between two drug responses. Directly comparing points on the two signals is unrealistic, as it cannot handle delays and speed variations on the time axis. Hence, to capture the similarities between reporter responses, we develop an alignment algorithm that is robust to noise, time delays and is able to find all the contiguous parts of signals centered about a core alignment (reflecting a core mechanism in drug response). Applying the proposed algorithm to a range of real drug experiments shows that the result agrees well with the prior drug MOA knowledge. © The Author 2012. Published by Oxford University Press. All rights reserved.

Multi-Site Project Management A Program for Reducing the Cost of Technology Deployment at Department of Energy Sites

International Nuclear Information System (INIS)

Davis, N.R.; Selden, E.R.; Little, D.B.; Coleman, M.C.; Bennett, J.T.

2009-01-01

Retrieval and processing of High Level Waste (HLW) stored in Department of Energy (DOE) waste tanks is performed to support closure of the tanks as required by site specific regulatory agreements. Currently, there are four sites in the DOE Complex that have HLW tanks and must process and disposition HLW. As such, there is an opportunity to achieve an economy of scale and reduce duplication of efforts. Two or more sites typically have similar technology development and deployment needs. Technology development is already executed at the national level. As the technology is matured, the next step is to commission a design/build project. Typically each site performs this separately due to differences in waste type, tank design, site specific considerations such as proximity to the water table or to the site boundary. The focus of the individual sites tends to be on the differences between sites versus on the similarities thus there is an opportunity to minimize the cost for similar deployments. A team of engineers and project management professionals from the Savannah River Site has evaluated technology needs at the four HLW sites and determined that there is an economy of scale that can be achieved by specific technology deployments in the area of waste retrieval, waste pretreatment and waste disposition. As an example, the Waste on Wheels tank retrieval system (presented in the 2006 Waste Management Symposium) was designed and fabricated in portable modules that could be installed in HLW tanks at Hanford, Savannah River or Idaho. This same concept could be used for modular in-tank cesium removal process and equipment, tank cleaning mechanical equipment, and chemical tank cleaning process and equipment. The purpose of this paper is to present a multi-site project management approach that will reduce deployment costs and be consistent with DOE Order 413.3 project management principles. The approach will describe how projects can be managed by a lead site with

MRI of Mouse Models for Gliomas Shows Similarities to Humans and Can Be Used to Identify Mice for Preclinical Trials

Directory of Open Access Journals (Sweden)

Jason A. Koutcher

2002-01-01

Full Text Available Magnetic resonance imaging (MRI has been utilized for screening and detecting brain tumors in mice based upon their imaging characteristics appearance and their pattern of enhancement. Imaging of these tumors reveals many similarities to those observed in humans with identical pathology. Specifically, high-grade murine gliomas have histologic characteristics of glioblastoma multiforme (GBM with contrast enhancement after intravenous administration of gadolinium diethylenetriamine pentaacetic acid (Gd-DTPA, implying disruption of the blood-brain barrier in these tumors. In contrast, low-grade murine oligodendrogliomas do not reveal contrast enhancement, similar to human tumors. MRI can be used to identify mice with brain neoplasms as inclusion criteria in preclinical trials.

Hybrid pine for tough sites

International Nuclear Information System (INIS)

Davidson, W.H.

1994-01-01

A test planting of 30 first- and second-generation pitch x loblolly pine (pinus rigida x P. taeda) hybrids was established on a West Virginia minesoil in 1985. The site was considered orphaned because earlier attempts at revegetation were unsuccessful. The soil was acid (pH 4.6), lacking in nutrients, and compacted. Vegetation present at the time of planting consisted of a sparse cover of tall fescue (Festuca arundinacea) and poverty grass (Danthonia spicata) and a few sourwood (Oxydendrum arboreum) and mountain laurel (Kalmia latifolia) seedlings. In the planting trial, 30 different hybrids were set out in 4 tree linear plots replicated 5 times. The seedlings had been grown in containers for 1 yr before outplanting. Evaluations made after 6 growing seasons showed overall plantation survival was 93%; six hybrids and one open-pollinated cross survived 100%. Individual tree heights ranged from 50 to 425 cm with a plantation average of 235 cm (7.7 ft). Eleven of the hybrids had average heights that exceeded the plantation average. Another test planting of tree and shrub species on this site has very poor survival. Therefore, pitch x loblolly hybrid pine can be recommended for reclaiming this and similar sites

Similarity analysis between chromosomes of Homo sapiens and monkeys with correlation coefficient, rank correlation coefficient and cosine similarity measures.

Science.gov (United States)

Someswara Rao, Chinta; Viswanadha Raju, S

2016-03-01

In this paper, we consider correlation coefficient, rank correlation coefficient and cosine similarity measures for evaluating similarity between Homo sapiens and monkeys. We used DNA chromosomes of genome wide genes to determine the correlation between the chromosomal content and evolutionary relationship. The similarity among the H. sapiens and monkeys is measured for a total of 210 chromosomes related to 10 species. The similarity measures of these different species show the relationship between the H. sapiens and monkey. This similarity will be helpful at theft identification, maternity identification, disease identification, etc.

Mortality risk factors show similar trends in modern and historic populations exposed to plague.

Science.gov (United States)

Rubini, Mauro; Gualdi-Russo, Emanuela; Manzon, Vanessa S; Rinaldo, Natascia; Bianucci, Raffaella

2016-05-31

Plague has been responsible for two major historic pandemics (6th-8th century CE; 14th-19th century CE) and a modern one. The recent Malagasy plague outbreaks raised new concerns on the deadly potential of the plague-causing bacteria Yersinia pestis. Between September 2014 and April 2015, outbreaks of bubonic and pneumonic plague hit the Malagasy population. Two hundred and sixty-three cases, including 71 deaths, have been reported in 16 different districts with a case fatality rate of 27%. The scope of our study was to ascertain whether the risk factors for health in modern-day populations exposed to plague and in ancient populations that faced the two historic pandemics varied or remained substantially unaltered. The risk of mortality of the Malagasy population with those obtained from the reconstruction of three samples of European populations exposed to the historic pandemics was contrasted. The evidence shows that the risks of death are not uniform across age neither in modern nor in historic populations exposed to plague and shows precise concentrations in specific age groups (children between five and nine years of age and young adults). Although in the post-antibiotic era, the fatality rates have drastically reduced, both modern and historic populations were exposed to the same risk factors that are essentially represented by a low standard of environmental hygiene, poor nutrition, and weak health systems.

Transcriptional similarity in couples reveals the impact of shared environment and lifestyle on gene regulation through modified cytosines

Directory of Open Access Journals (Sweden)

Ke Tang

2016-06-01

Full Text Available Gene expression is a complex and quantitative trait that is influenced by both genetic and non-genetic regulators including environmental factors. Evaluating the contribution of environment to gene expression regulation and identifying which genes are more likely to be influenced by environmental factors are important for understanding human complex traits. We hypothesize that by living together as couples, there can be commonly co-regulated genes that may reflect the shared living environment (e.g., diet, indoor air pollutants, behavioral lifestyle. The lymphoblastoid cell lines (LCLs derived from unrelated couples of African ancestry (YRI, Yoruba people from Ibadan, Nigeria from the International HapMap Project provided a unique model for us to characterize gene expression pattern in couples by comparing gene expression levels between husbands and wives. Strikingly, 778 genes were found to show much smaller variances in couples than random pairs of individuals at a false discovery rate (FDR of 5%. Since genetic variation between unrelated family members in a general population is expected to be the same assuming a random-mating society, non-genetic factors (e.g., epigenetic systems are more likely to be the mediators for the observed transcriptional similarity in couples. We thus evaluated the contribution of modified cytosines to those genes showing transcriptional similarity in couples as well as the relationships these CpG sites with other gene regulatory elements, such as transcription factor binding sites (TFBS. Our findings suggested that transcriptional similarity in couples likely reflected shared common environment partially mediated through cytosine modifications.

Siting Conflicts in Renewable Energy Projects in Sweden: Experiences From the Siting of a Biogas Plant

Energy Technology Data Exchange (ETDEWEB)

Khan, Jamil

2001-05-01

This paper seeks to contribute to an increased understanding of what characterises conflicts regarding the siting of renewable energy facilities. The paper starts out with a brief introduction to different types of renewable energy and the conflicts they might generate as well as a discussion about the differences and similarities in comparison with conflicts over more controversial issues, such as nuclear plants, chemical factories and the construction of roads. The main part of the paper discusses the results from a case study on a failed attempt to site a biogas plant in southern Sweden. The results show that there was a lack of public participation in the early stages of planning, and that peoples negative perceptions of the possibilities to influence the decision-making and of the attitude of the developer, contributed to the development of a public opposition and a polarisation of the conflict. There is also a discussion about the reasons for a shift in the political support for the project and about the role of the legislation in shaping planning processes that either handle conflicts or make them worse. The paper concludes with the observation that the biogas case, in many ways, resembled traditional siting conflicts and that further research is needed to explore the nature of different renewable energy siting conflicts.

Hyperfine field calculations: search for muon stopping sites in Fe/sub 3/O/sub 4/

Energy Technology Data Exchange (ETDEWEB)

Boekema, C. (Texas Tech Univ., Lubbock (USA)); Denison, A.B. (Wyoming Univ., Laramie (USA)); Cooke, D.W.; Heffner, R.H.; Hutson, R.L.; Leon, M.; Schillaci, M.E. (Los Alamos National Lab., NM (USA))

1983-12-01

Muon Spin Rotation (..mu..SR) results for magnetite (Fe/sub 3/O/sub 4/) are analyzed and discussed. At room temperature, a ..mu..SR signal is observed due to the presence of an internal magnetic field (Bsub(int)) at the muon site. External transverse field measurements show that Bsub(int) is parallel to the magnetic spin direction, the <111> direction in zero applied field. Calculations of the hyperfine field to pinpoint muon stopping sites in magnetite show that the local field contains supertransfer (covalent) and dipolar field contributions. The implanted muons appear to stop at sites structurally similar to those reported for hematite (..cap alpha..-Fe/sub 2/O/sub 3/), where muon-oxygen bond formation was strongly indicated.

Single-provenance mature conifers show higher non-structural carbohydrate storage and reduced growth in a drier location.

Science.gov (United States)

Piper, Frida I; Fajardo, Alex; Hoch, Günter

2017-08-01

Since growth is more sensitive to drought than photosynthesis, trees inhabiting dry regions are expected to exhibit higher carbohydrate storage and less growth than their conspecifics from more humid regions. However, the same pattern can be the result of different genotypes inhabiting contrasting humidity conditions. To test if reduced growth and high carbohydrate storage are environmentally driven by drought, we examined the growth and non-structural carbohydrate (NSC) concentrations in single-provenance stands of mature trees of Pinus contorta Douglas and Pinus ponderosa Douglas ex C. Lawson planted at contrasting humidity conditions (900 versus 300 mm of annual precipitation) in Patagonia, Chile. Individual tree growth was measured for each species and at each location as mean basal area increment of the last 10 years (BAI10), annual shoot elongation for the period 2011-14, and needle length for 2013 and 2014 cohorts. Additionally, needle, branch, stem sapwood and roots were collected from each sampled tree to determine soluble sugars, starch and total NSC concentrations. The two species showed lower mean BAI10 and 2013 needle length in the dry site; P. ponderosa also had lower annual shoot extension for 2011 and 2014, and lower 2014 needle length, in the dry than in the mesic site. By contrast, NSC concentrations of all woody tissues for both species were either similar or higher in the dry site when compared with the mesic site. Patterns of starch and sugars were substantially different: starch concentrations were similar between sites except for roots of P. ponderosa, which were higher in the dry site, while sugar concentrations of all woody tissues in both species were higher in the dry site. Overall, our study provides evidence that reduced growth along with carbon (C) accumulation is an environmentally driven response to drought. Furthermore, the significant accumulation of low-molecular weight sugars in the dry site is compatible with a prioritized C

Hilar cholangiocarcinoma is pathologically similar to pancreatic duct adenocarcinoma: suggestions of similar background and development.

Science.gov (United States)

Nakanuma, Yasuni; Sato, Yasunori

2014-07-01

Routine experiences suggest that cholangiocarcinomas (CCAs) show different clinicopathological behaviors along the biliary tree, and hilar CCA apparently resembles pancreatic duct adenocarcinoma (PDAC). Herein, the backgrounds for these similarities were reviewed. While all cases of PDAC, hilar CCA, intrahepatic CCA (ICCA) and CCA components of combined hepatocellular-cholangiocarcinoma (cHC-CCA) were adenocarcinomas, micropapillary patterns and columnar carcinoma cells were common in PDAC and hilar CCA, and trabecular components and cuboidal carcinoma cells were common in ICCA and CCA components of cHC-CCA. Anterior gradient protein-2 and S100P were frequently expressed in perihilar CCA and PDAC, while neural cell adhesion molecule and luminal epithelial membrane antigen were common in CCA components of c-HC-CCA. Pdx1 and Hes1 were frequently and markedly expressed aberrantly in PDAC and perihilar CCA, although their expression was rare and mild in CCA components in cHC-CCA and ICCA. Hilar CCA showed a similar postoperative prognosis to PDAC but differed from ICCA and cHC-CCA. Taken together, hilar CCA may differ from ICCA and CCA components of cHC-CCA but have a similar development to PDAC. These similarities may be explained by the unique anatomical, embryological and reactive nature of the pancreatobiliary tract. Further studies of these intractable malignancies are warranted. © 2014 Japanese Society of Hepato-Biliary-Pancreatic Surgery.

Similar or different? The role of the ventrolateral prefrontal cortex in similarity detection.

Directory of Open Access Journals (Sweden)

Béatrice Garcin

Full Text Available Patients with frontal lobe syndrome can exhibit two types of abnormal behaviour when asked to place a banana and an orange in a single category: some patients categorize them at a concrete level (e.g., "both have peel", while others continue to look for differences between these objects (e.g., "one is yellow, the other is orange". These observations raise the question of whether abstraction and similarity detection are distinct processes involved in abstract categorization, and that depend on separate areas of the prefrontal cortex (PFC. We designed an original experimental paradigm for a functional magnetic resonance imaging (fMRI study involving healthy subjects, confirming the existence of two distinct processes relying on different prefrontal areas, and thus explaining the behavioural dissociation in frontal lesion patients. We showed that: 1 Similarity detection involves the anterior ventrolateral PFC bilaterally with a right-left asymmetry: the right anterior ventrolateral PFC is only engaged in detecting physical similarities; 2 Abstraction per se activates the left dorsolateral PFC.

Macrophage inflammatory protein-1α shows predictive value as a risk marker for subjects and sites vulnerable to bone loss in a longitudinal model of aggressive periodontitis.

Science.gov (United States)

Fine, Daniel H; Markowitz, Kenneth; Fairlie, Karen; Tischio-Bereski, Debbie; Ferrandiz, Javier; Godboley, Dipti; Furgang, David; Gunsolley, John; Best, Al

2014-01-01

Improved diagnostics remains a fundamental goal of biomedical research. This study was designed to assess cytokine biomarkers that could predict bone loss (BL) in localized aggressive periodontitis. 2,058 adolescents were screened. Two groups of 50 periodontally healthy adolescents were enrolled in the longitudinal study. One group had Aggregatibacter actinomycetemcomitans (Aa), the putative pathogen, while the matched cohort did not. Cytokine levels were assessed in saliva and gingival crevicular fluid (GCF). Participants were sampled, examined, and radiographed every 6 months for 2-3 years. Disease was defined as radiographic evidence of BL. Saliva and GCF was collected at each visit, frozen, and then tested retrospectively after detection of BL. Sixteen subjects with Aa developed BL. Saliva from Aa-positive and Aa-negative healthy subjects was compared to subjects who developed BL. GCF was collected from 16 subjects with BL and from another 38 subjects who remained healthy. GCF from BL sites in the 16 subjects was compared to healthy sites in these same subjects and to healthy sites in subjects who remained healthy. Results showed that cytokines in saliva associated with acute inflammation were elevated in subjects who developed BL (i.e., MIP-1α MIP-1β IL-α, IL-1β and IL-8; p<0.01). MIP-1α was elevated 13-fold, 6 months prior to BL. When MIP-1α levels were set at 40 pg/ml, 98% of healthy sites were below that level (Specificity); whereas, 93% of sites with BL were higher (Sensitivity), with comparable Predictive Values of 98%; p<0.0001; 95% C.I. = 42.5-52.7). MIP-1α consistently showed elevated levels as a biomarker for BL in both saliva and GCF, 6 months prior to BL. MIP-1α continues to demonstrate its strong candidacy as a diagnostic biomarker for both subject and site vulnerability to BL.

The effects of familiarity and similarity on compliance in social networks

NARCIS (Netherlands)

Kaptein, M.C.; Nass, C.; Markopoulos, P.

2014-01-01

Advertisers on social network sites often use recommendations by others in a user's networks to endorse products. While these familiar others are hypothesised to be more effective in influencing users than unfamiliar others, there is a catch: familiarity does not necessarily ensure similarity to the

Site Response in Las Vegas Valley, Nevada from NTS Explosions and Earthquake Data

Science.gov (United States)

Rodgers, Arthur; Tkalcic, Hrvoje; McCallen, David; Larsen, Shawn; Snelson, Catherine

2006-01-01

We report site response in Las Vegas Valley (LVV) from historical recordings of Nevada Test Site (NTS) nuclear explosions and earthquake recordings from permanent and temporary seismic stations. Our data set significantly improves the spatial coverage of LVV over previous studies, especially in the northern, deeper parts of the basin. Site response at stations in LVV was measured for frequencies in the range 0.2 5.0 Hz using Standard Spectral Ratios (SSR) and Horizontal-Vertical Spectral Ratios (HVR). For the SSR measurements we used a reference site (approximately NEHRP B ``rock'' classification) located on Frenchman Mountain outside the basin. Site response at sedimentary sites is variable in LVV with average amplifications approaching a factor of 10 at some frequencies. We observed peaks in the site response curves at frequencies clustered near 0.6, 1.2 and 2.0 Hz, with some sites showing additional lower amplitude peaks at higher frequencies. The spatial pattern of site response is strongly correlated with the reported depth to basement for frequencies between 0.2 and 3.0 Hz, although the frequency of peak amplification does not show a similar correlation. For a few sites where we have geotechnical shear velocities, the amplification shows a correlation with the average upper 30-meter shear velocities, V 30. We performed two-dimensional finite difference simulations and reproduced the observed peak site amplifications at 0.6 and 1.2 Hz with a low velocity near-surface layer with shear velocities 600 750 m/s and a thickness of 100 200 m. These modeling results indicate that the amplitude and frequencies of site response peaks in LVV are strongly controlled by shallow velocity structure.

Revegetation of flue gas desulfurization sludge pond disposal sites

International Nuclear Information System (INIS)

Artiola, J.F.

1994-12-01

A comprehensive search of published literature was conducted to summarize research undertaken to date on revegetation of flue gas desulfurization (FGD) waste disposal ponds. A review of the physical and chemical properties of FGD sludges and wastes with similar characteristics is also included in order to determine the advantages and limitations of FGD sludge for plant growth. No specific guidelines have been developed for the revegetation of FGD sludge disposal sites. Survey studies showed that the wide-ranging composition of FGD wastes was determined primarily by the sulfur dioxide and other flue gas scrubbing processes used at powerplants. Sulfate rich (>90%CaSO 4 ) FGD sludges are physically and chemically more stable, and thus more amenable to revegetation. Because of lack of macronutrients and extremely limited microbial activity, FBD sludge ponds presented a poor plant growth environment without amendment. Studies showed the natural process of inoculation of the FGD sludge with soil microbes that promote plant growth be can after disposal but proceeded slowly. Revegetation studies reviewed showed that FGD sludges amended with soils supported a wider variety of plant species better and longer than abandoned FGD ponds. Two major types of plants have been successful in revegetation of FGD waste ponds and similar wastes: salt-tolerant plants and aquatic plants. A comprehensive list of plant species with potential for regetation of FGD sludge disposal pond sites is presented along with successful revegetation techniques

Post-cranial skeletons of hypothyroid cretins show a similar anatomical mosaic as Homo floresiensis.

Science.gov (United States)

Oxnard, Charles; Obendorf, Peter J; Kefford, Ben J

2010-09-27

Human remains, some as recent as 15 thousand years, from Liang Bua (LB) on the Indonesian island of Flores have been attributed to a new species, Homo floresiensis. The definition includes a mosaic of features, some like modern humans (hence derived: genus Homo), some like modern apes and australopithecines (hence primitive: not species sapiens), and some unique (hence new species: floresiensis). Conversely, because only modern humans (H. sapiens) are known in this region in the last 40 thousand years, these individuals have also been suggested to be genetic human dwarfs. Such dwarfs resemble small humans and do not show the mosaic combination of the most complete individuals, LB1 and LB6, so this idea has been largely dismissed. We have previously shown that some features of the cranium of hypothyroid cretins are like those of LB1. Here we examine cretin postcrania to see if they show anatomical mosaics like H. floresiensis. We find that hypothyroid cretins share at least 10 postcranial features with Homo floresiensis and unaffected humans not found in apes (or australopithecines when materials permit). They share with H. floresiensis, modern apes and australopithecines at least 11 postcranial features not found in unaffected humans. They share with H. floresiensis, at least 8 features not found in apes, australopithecines or unaffected humans. Sixteen features can be rendered metrically and multivariate analyses demonstrate that H. floresiensis co-locates with cretins, both being markedly separate from humans and chimpanzees (P0.999). We therefore conclude that LB1 and LB6, at least, are, most likely, endemic cretins from a population of unaffected Homo sapiens. This is consistent with recent hypothyroid endemic cretinism throughout Indonesia, including the nearby island of Bali.

Post-cranial skeletons of hypothyroid cretins show a similar anatomical mosaic as Homo floresiensis.

Directory of Open Access Journals (Sweden)

Charles Oxnard

Full Text Available Human remains, some as recent as 15 thousand years, from Liang Bua (LB on the Indonesian island of Flores have been attributed to a new species, Homo floresiensis. The definition includes a mosaic of features, some like modern humans (hence derived: genus Homo, some like modern apes and australopithecines (hence primitive: not species sapiens, and some unique (hence new species: floresiensis. Conversely, because only modern humans (H. sapiens are known in this region in the last 40 thousand years, these individuals have also been suggested to be genetic human dwarfs. Such dwarfs resemble small humans and do not show the mosaic combination of the most complete individuals, LB1 and LB6, so this idea has been largely dismissed. We have previously shown that some features of the cranium of hypothyroid cretins are like those of LB1. Here we examine cretin postcrania to see if they show anatomical mosaics like H. floresiensis. We find that hypothyroid cretins share at least 10 postcranial features with Homo floresiensis and unaffected humans not found in apes (or australopithecines when materials permit. They share with H. floresiensis, modern apes and australopithecines at least 11 postcranial features not found in unaffected humans. They share with H. floresiensis, at least 8 features not found in apes, australopithecines or unaffected humans. Sixteen features can be rendered metrically and multivariate analyses demonstrate that H. floresiensis co-locates with cretins, both being markedly separate from humans and chimpanzees (P0.999. We therefore conclude that LB1 and LB6, at least, are, most likely, endemic cretins from a population of unaffected Homo sapiens. This is consistent with recent hypothyroid endemic cretinism throughout Indonesia, including the nearby island of Bali.

Geohydrology of industrial waste disposal site

International Nuclear Information System (INIS)

Gaynor, R.K.

1984-01-01

An existing desert site for hazardous chemical and low-level radioactive waste disposal is evaluated for suitability. This site is characterized using geologic, geohydrologic, geochemical, and other considerations. Design and operation of the disposal facility is considered. Site characteristics are also evaluated with respect to new and proposed regulatory requirements under the Resource Conservation and Recovery Act (1976) regulations, 40 CFR Part 264, and the ''Licensing Requirements for Landfill Disposal of Radioactive Waste,'' 10 CRF Part 61. The advantages and disadvantages of siting new disposal facilities in similar desert areas are reviewed and contrasted to siting in humid locations

Site development

International Nuclear Information System (INIS)

Gaynor, R.K.

1989-01-01

Development of a low-level radioactive waste land disposal facility is little different than any industrial development of similar scope. Consideration must be made for normal business and operations management, security, facility maintenance, traffic control and necessary amenities for personnel. The item specific to the low-level waste site is the handling of radioactive waste materials and the regulatory and environmental protection procedures that must be planned for and accomodated in the site design and development. Each of these elements and the facility as a whole must be designed to be compatible with local land use plans, available transportation and support services, and the social and economic goals of the local community. Plans should also be made for quality control and orderly construction. This chapter deals with those aspects of the facility, its design and construction which are integral parts to the overall performance of the site

SITE-2, Power Plant Siting, Cost, Environment, Seismic and Meteorological Effects

International Nuclear Information System (INIS)

Frigerio, N.A.; Habegger, L.J.; King, R.F.; Hoover, L.J.; Clark, N.A.; Cobian, J.M.

1977-01-01

1 - Description of problem or function: SITE2 is designed to (1) screen candidate energy facility sites or areas within an electric utility region, based on the region's physical and socioeconomic attributes, the planned facility's characteristics, and impact assessments, and (2) evaluate the cumulative regional impacts associated with alternate energy supply options and inter-regional energy import/export practices, specifically, comparison of different energy technologies and their regional distribution in clustered or dispersed patterns. 2 - Method of solution: The SITE2 methodology is based on the quantification of three major site-related vectors. A cost vector is determined which identifies site-specific costs, such as transmission costs, cooling costs as related to water availability, and costs of specific controls needed to protect the surrounding environment. An impact vector is also computed for each potential site, using models of health and environmental impacts incurred in areas adjacent to the site. Finally, a site attribute vector is developed which reflects such characteristics as population, seismic conditions, meteorology, land use, and local ecological systems. This vector can be used to eliminate certain sites because of their inability to satisfy specific constraints. These three vectors can be displayed as density maps and combined in a simple overlay approach, similar to that developed by I. L. McHarg in reference 2, to identify candidate sites. Alternatively, the vector elements can be computationally combined into a weighted sum to obtain quantitative indicators of site suitability

SITE-2, Power Plant Siting, Cost, Environment, Seismic and Meteorological Effects

Energy Technology Data Exchange (ETDEWEB)

Frigerio, N A [Environmental Impact Studies, Argonne National Laboratory 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Habegger, L J; King, R F; Hoover, L J [Energy and Environmental Systems Division, Argonne National Laboratory 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Clark, N A [Applied Mathematics Division, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439 (United States); Cobian, J M [Northwestern University, Evanston, Illinois 60201 (United States)

1977-08-01

1 - Description of problem or function: SITE2 is designed to (1) screen candidate energy facility sites or areas within an electric utility region, based on the region's physical and socioeconomic attributes, the planned facility's characteristics, and impact assessments, and (2) evaluate the cumulative regional impacts associated with alternate energy supply options and inter-regional energy import/export practices, specifically, comparison of different energy technologies and their regional distribution in clustered or dispersed patterns. 2 - Method of solution: The SITE2 methodology is based on the quantification of three major site-related vectors. A cost vector is determined which identifies site-specific costs, such as transmission costs, cooling costs as related to water availability, and costs of specific controls needed to protect the surrounding environment. An impact vector is also computed for each potential site, using models of health and environmental impacts incurred in areas adjacent to the site. Finally, a site attribute vector is developed which reflects such characteristics as population, seismic conditions, meteorology, land use, and local ecological systems. This vector can be used to eliminate certain sites because of their inability to satisfy specific constraints. These three vectors can be displayed as density maps and combined in a simple overlay approach, similar to that developed by I. L. McHarg in reference 2, to identify candidate sites. Alternatively, the vector elements can be computationally combined into a weighted sum to obtain quantitative indicators of site suitability.

Contaminant migration at two low-level radioactive waste sites in arid western United States - a review

International Nuclear Information System (INIS)

Wilshire, H.G.; Friedman, I.

1999-01-01

Contamination of the unsaturated zone and ground water at the Beatty, Nevada and Richland, Washington low-level radioactive waste sites shows that pathways exist for rapid lateral and vertical migration of contaminants through unconsolidated clastic sediments that comprise the 100 m-thick unsaturated zones of those arid disposal sites. Disposal of liquid wastes at the Beatty site until 1975 may have contributed to rapid migration of contaminants, but negligible amounts of liquid wastes reportedly were disposed at the Richland LLRW site and similar problems of contaminant migration exist. Pathways for vertical migration in the unsaturated zone include fractures and, at Richland, clastic dikes; lateral migration pathways likely are facies-controlled. Disturbance of the disposal sites contributed to increased infiltration of the unlined waste trenches after closure; simulations that used Beatty sample data show dramatic increases in recharge with disturbances necessary to develop the site. Because neither and arid climate nor presence of a thick unsaturated zone offer effective barriers to ground-water contamination, reliance on those factors at proposed sites such as Ward Valley, California and elsewhere is unwarranted. (orig.)

Macrophage inflammatory protein-1α shows predictive value as a risk marker for subjects and sites vulnerable to bone loss in a longitudinal model of aggressive periodontitis.

Directory of Open Access Journals (Sweden)

Daniel H Fine

Full Text Available Improved diagnostics remains a fundamental goal of biomedical research. This study was designed to assess cytokine biomarkers that could predict bone loss (BL in localized aggressive periodontitis. 2,058 adolescents were screened. Two groups of 50 periodontally healthy adolescents were enrolled in the longitudinal study. One group had Aggregatibacter actinomycetemcomitans (Aa, the putative pathogen, while the matched cohort did not. Cytokine levels were assessed in saliva and gingival crevicular fluid (GCF. Participants were sampled, examined, and radiographed every 6 months for 2-3 years. Disease was defined as radiographic evidence of BL. Saliva and GCF was collected at each visit, frozen, and then tested retrospectively after detection of BL. Sixteen subjects with Aa developed BL. Saliva from Aa-positive and Aa-negative healthy subjects was compared to subjects who developed BL. GCF was collected from 16 subjects with BL and from another 38 subjects who remained healthy. GCF from BL sites in the 16 subjects was compared to healthy sites in these same subjects and to healthy sites in subjects who remained healthy. Results showed that cytokines in saliva associated with acute inflammation were elevated in subjects who developed BL (i.e., MIP-1α MIP-1β IL-α, IL-1β and IL-8; p<0.01. MIP-1α was elevated 13-fold, 6 months prior to BL. When MIP-1α levels were set at 40 pg/ml, 98% of healthy sites were below that level (Specificity; whereas, 93% of sites with BL were higher (Sensitivity, with comparable Predictive Values of 98%; p<0.0001; 95% C.I. = 42.5-52.7. MIP-1α consistently showed elevated levels as a biomarker for BL in both saliva and GCF, 6 months prior to BL. MIP-1α continues to demonstrate its strong candidacy as a diagnostic biomarker for both subject and site vulnerability to BL.

SITE INDEX CURVES AND HYPSOMETRIC RELATIONSHIP FOR Eucalyptus grandis PLANTATIONS FOR THE CAMPOS GERAIS REGION, PARANA STATE

Directory of Open Access Journals (Sweden)

Fabiane Aparecida de Souza Retslaff

2015-06-01

Full Text Available The study aimed to fit mathematical models for the construction of Site Index curves and to estimate heights at different ages for Eucalyptus grandis in the Campos Gerais region, Parana State. The data used to fit the models came from permanent, temporary plots and pre-harvesting inventory, covering ages from 2.5 to 26.5 years. Several models were tested to represent the sites and the hypsometric relationship. The Site Index curves were constructed by the guide-curve method. For the Site Index, the Chapman-Richards model showed the best fit and precision statistics, generating 5 Site Index curves (range of 5 m with the Chapman-Richards model. The four hypsometric models tested showed satisfactory performance and similar statistics and the inclusion of the variables dominant height or site index did not substantially improve the goodness of fit statistics, but the residues were more homogeneous and closer to zero.

99mTc-HM-PAO SPECT of epileptic patients showing focal paroxysm on electroencephalography

International Nuclear Information System (INIS)

Takaishi, Yasuko; Hashimoto, Kiyoshi; Fujino, Osamu; Kamayachi, Satoshi; Fujita, Takehisa; Enokido, Hisashi; Komatsuzaki, Hideki; Kawakami, Yasuhiko; Hirayama, Tsunenori

1995-01-01

The usefulness of 99m Tc-HM-PAO SPECT in diagnosing epilepsy was studied. The subjects were 33 epileptic patients, ranging in age from 5 years and 5 months to 28 years and 3 months, who showed focal paroxysm on electroencephalograms. Lowered accumulation site was found on SPECT in 19 patients. Four patients with abnormal findings on X-ray CT or MRI showed lowered accumulation and focal paroxysm at the same site. Of 29 patients with normal X-ray CT or MRI findings, 15 (52%) showed lowered accumulation. Five patients showed a focal paroxysm at the site of lowered accumulation. In 8 patients the focal paroxysm site was partly coincided with the accumulation site. In some patients the focal site predicted by the findings of clinical symptoms and the lowered accumulation site coincided. SPECT is therefore a useful method in diagnosing a focal site in epilepsy and considered to reflect the severity of disease. (Y.S.)

Perceptions of Ideal and Former Partners’ Personality and Similarity

Directory of Open Access Journals (Sweden)

Pieternel Dijkstra

2010-12-01

Full Text Available The present study aimed to test predictions based on both the ‗similarity-attraction‘ hypothesis and the ‗attraction-similarity‘ hypothesis, by studying perceptions of ideal and former partners. Based on the ‗similarity-attraction‘ hypothesis, we expected individuals to desire ideal partners who are similar to the self in personality. In addition, based on the ‗attraction-similarity hypothesis‘, we expected individuals to perceive former partners as dissimilar to them in terms of personality. Findings showed that, whereas the ideal partner was seen as similar to and more positive than the self, the former partner was seen as dissimilar to and more negative than the self. In addition, our study showed that individuals did not rate similarity in personality as very important when seeking a mate. Our findings may help understand why so many relationships end in divorce due to mismatches in personality.

Engaging narratives evoke similar neural activity and lead to similar time perception.

Science.gov (United States)

Cohen, Samantha S; Henin, Simon; Parra, Lucas C

2017-07-04

It is said that we lose track of time - that "time flies" - when we are engrossed in a story. How does engagement with the story cause this distorted perception of time, and what are its neural correlates? People commit both time and attentional resources to an engaging stimulus. For narrative videos, attentional engagement can be represented as the level of similarity between the electroencephalographic responses of different viewers. Here we show that this measure of neural engagement predicted the duration of time that viewers were willing to commit to narrative videos. Contrary to popular wisdom, engagement did not distort the average perception of time duration. Rather, more similar brain responses resulted in a more uniform perception of time across viewers. These findings suggest that by capturing the attention of an audience, narrative videos bring both neural processing and the subjective perception of time into synchrony.

Potential sites for a spent unreprocessed fuel facility (SURFF), southwesten part of the Nevada Test Site

International Nuclear Information System (INIS)

Hoover, D.L.; Eckel, E.B.; Ohl, J.P.

1978-01-01

In the absence of specific criteria, the topography, geomorphology, and geology of Jackass Flats and vicinity in the southwestern part of the Nevada Test Site are evaluated by arbitrary guidelines for a Spent Unreprocessed Fuel Facility. The guidelines include requirements for surface slopes of less than 5%, 61 m of alluvium beneath the site, an area free of active erosion or deposition, lack of faults, a minimum area of 5 km 2 , no potential for flooding, and as many logistical support facilities as possible. The geology of the Jackass Flats area is similar to the rest of the Nevada Test Site in topographic relief (305-1,200 m), stratigraphy (complexly folded and faulted Paleozoic sediments overlain by Tertiary ash-flow tuffs and lavas overlain in turn by younger alluvium), and structure (Paleozoic thrust faults and folds, strike-slip faults, proximity to volcanic centers, and Basin and Range normal faults). Of the stratigraphic units at the potential Spent Unreprocessed Fuel Facility site in Jackass Flats, only the thickness and stability of the alluvium are of immediate importance. Basin and Range faults and a possible extension of the Mine Mountain fault need further investigation. The combination of a slope map and a simplified geologic and physiographic map into one map shows several potential sites for a Spent Unreprocessed Fuel Facility in Jackass Flats. The potential areas have slopes of less than 5% and contain only desert pavement or segmented pavement--the two physiographic categories having the greatest geomorphic and hydraulic stability. Before further work can be done, specific criteria for a Spent Unreprocessed Fuel Facility site must be defined. Following criteria definition, potential sites will require detailed topographic and geologic studies, subsurface investigations (including geophysical methods, trenching, and perhaps shallow drilling for faults in alluvium), detailed surface hydrologic studies, and possibly subsurface hydrologic studies

Human Splice-Site Prediction with Deep Neural Networks.

Science.gov (United States)

Naito, Tatsuhiko

2018-04-18

Accurate splice-site prediction is essential to delineate gene structures from sequence data. Several computational techniques have been applied to create a system to predict canonical splice sites. For classification tasks, deep neural networks (DNNs) have achieved record-breaking results and often outperformed other supervised learning techniques. In this study, a new method of splice-site prediction using DNNs was proposed. The proposed system receives an input sequence data and returns an answer as to whether it is splice site. The length of input is 140 nucleotides, with the consensus sequence (i.e., "GT" and "AG" for the donor and acceptor sites, respectively) in the middle. Each input sequence model is applied to the pretrained DNN model that determines the probability that an input is a splice site. The model consists of convolutional layers and bidirectional long short-term memory network layers. The pretraining and validation were conducted using the data set tested in previously reported methods. The performance evaluation results showed that the proposed method can outperform the previous methods. In addition, the pattern learned by the DNNs was visualized as position frequency matrices (PFMs). Some of PFMs were very similar to the consensus sequence. The trained DNN model and the brief source code for the prediction system are uploaded. Further improvement will be achieved following the further development of DNNs.

Biodiversity sampling using a global acoustic approach: contrasting sites with microendemics in New Caledonia.

Directory of Open Access Journals (Sweden)

Amandine Gasc

Full Text Available New Caledonia is a Pacific island with a unique biodiversity showing an extreme microendemism. Many species distributions observed on this island are extremely restricted, localized to mountains or rivers making biodiversity evaluation and conservation a difficult task. A rapid biodiversity assessment method based on acoustics was recently proposed. This method could help to document the unique spatial structure observed in New Caledonia. Here, this method was applied in an attempt to reveal differences among three mountain sites (Mandjélia, Koghis and Aoupinié with similar ecological features and species richness level, but with high beta diversity according to different microendemic assemblages. In each site, several local acoustic communities were sampled with audio recorders. An automatic acoustic sampling was run on these three sites for a period of 82 successive days. Acoustic properties of animal communities were analysed without any species identification. A frequency spectral complexity index (NP was used as an estimate of the level of acoustic activity and a frequency spectral dissimilarity index (Df assessed acoustic differences between pairs of recordings. As expected, the index NP did not reveal significant differences in the acoustic activity level between the three sites. However, the acoustic variability estimated by the index Df , could first be explained by changes in the acoustic communities along the 24-hour cycle and second by acoustic dissimilarities between the three sites. The results support the hypothesis that global acoustic analyses can detect acoustic differences between sites with similar species richness and similar ecological context, but with different species assemblages. This study also demonstrates that global acoustic methods applied at broad spatial and temporal scales could help to assess local biodiversity in the challenging context of microendemism. The method could be deployed over large areas, and

Mercury concentrations and pools in four Sierra Nevada forest sites, and relationships to organic carbon and nitrogen

Directory of Open Access Journals (Sweden)

D. Obrist

2009-05-01

Full Text Available This study presents data on mercury (Hg concentrations, stochiometric relations to carbon (C and nitrogen (N, and Hg pool sizes in four Sierra Nevada forest sites of similar exposure and precipitation regimes, and hence similar atmospheric deposition, to evaluate how ecosystem parameters control Hg retention in ecosystems. In all four sites, the largest amounts of Hg reside in soils which account for 94–98% of ecosystem pools. Hg concentrations and Hg/C ratios increase in the following order: Green Needles/Leavesshow negative correlations between Hg and C (r²=0.58 and N and C (r²=0.64 in decomposing litter, but a positive correlation between litter Hg and N (r²=0.70. These inverse relations may reflect preferential retention of N and Hg over C during decomposition, or may be due to older age of decomposed litter layers which are exposed to longer-term atmospheric Hg deposition in the field. The results indicate that litter Hg levels depend on decomposition stage and may not follow generally observed positive relationships between Hg and organic C.

Mineral soil layers show strong positive correlations of Hg to C across all sites and soil horizons (r²=0.83, but Hg concentrations are even more closely related to N with a similar slope to that observed in litter (r²=0.92. Soil N levels alone explain over 90% of Hg pool sizes across the four Sierra Nevada forest sites. This suggests that soil organic N and C groups provide sorption sites for Hg to retain atmospheric deposition. However, the patterns could be due to indirect relationships where high soil N and C levels reflect high ecosystem productivity which leads to corresponding high atmospheric Hg deposition inputs via leaf litterfall and plant senescence. Our results also show that two of the sites previously affected by

Age-related changes in vertebral and iliac crest 3D bone microstructure-differences and similarities

DEFF Research Database (Denmark)

Thomsen, Jesper Skovhus; Jensen, Michael Vinkel; Niklassen, Andreas Steenholt

2015-01-01

Summary Age-related changes of vertebra and iliac crest 3D microstructure were investigated, and we showed that they were in general similar. The 95th percentile of vertebral trabecular thickness distribution increased with age for women. Surprisingly, vertebral and iliac crest bone microstructure...... was only weakly correlated (r = 0.38 to 0.75), despite the overall similar age-related changes.Introduction The purposes of the study were to determine the age-related changes in iliac and vertebral bone microstructure for women and men over a large age range and to investigate the relationship between...... the bone microstructure at these skeletal sites.Methods Matched sets of transiliac crest bone biopsies and lumbar vertebral body (L2) specimens from 41 women (19–96 years) and 39 men (23–95 years) were micro-computed tomography (μCT) scanned, and the 3D microstructure was quantified.Results For both women...

New similarity of triangular fuzzy number and its application.

Science.gov (United States)

Zhang, Xixiang; Ma, Weimin; Chen, Liping

2014-01-01

The similarity of triangular fuzzy numbers is an important metric for application of it. There exist several approaches to measure similarity of triangular fuzzy numbers. However, some of them are opt to be large. To make the similarity well distributed, a new method SIAM (Shape's Indifferent Area and Midpoint) to measure triangular fuzzy number is put forward, which takes the shape's indifferent area and midpoint of two triangular fuzzy numbers into consideration. Comparison with other similarity measurements shows the effectiveness of the proposed method. Then, it is applied to collaborative filtering recommendation to measure users' similarity. A collaborative filtering case is used to illustrate users' similarity based on cloud model and triangular fuzzy number; the result indicates that users' similarity based on triangular fuzzy number can obtain better discrimination. Finally, a simulated collaborative filtering recommendation system is developed which uses cloud model and triangular fuzzy number to express users' comprehensive evaluation on items, and result shows that the accuracy of collaborative filtering recommendation based on triangular fuzzy number is higher.

Woodlouse locomotor behavior in the assessment of clean and contaminated field sites

Energy Technology Data Exchange (ETDEWEB)

Bayley, M.; Baatrup, E. [Aarhus Univ. (Denmark). Inst. of Biological Sciences; Bjerregaard, P. [Odense Univ. (Denmark). Inst. of Biology

1997-11-01

Specimens of the woodlouse Oniscus asellus were collected at four clean field sites and from a recently closed iron foundry heavily contaminated with zinc, lead, chromium, and nickel. Each of the 30 woodlice per group was housed individually and acclimatized to laboratory conditions for 2 d on a humid plaster of paris substrate. Thereafter, the locomotor behavior of each animal was measured for 4 h employing automated computer-aided video tracking. Linear discriminant analysis of five locomotor parameters revealed average velocity and path length as the principle components separating the polluted site and control animals. Post hoc analysis of the discriminant variable for animals from all five sites showed that the animals from the polluted site where significantly hyperactive when compared to all controls. Further, control animals collected from sites separated by several hundred kilometers were remarkably similar in their locomotor behavior. This preliminary study highlights the potential utility of quantitative analysis of animal locomotor behavior in environmental monitoring.

iPads and LCDs show similar performance in the detection of pulmonary nodules

Science.gov (United States)

McEntee, Mark F.; Lowe, Joanna; Butler, Marie Louise; Pietrzyk, Mariusz; Evanoff, Michael G.; Ryan, John; Brennan, Patrick C.; Rainford, Louise A.

2012-02-01

In February 2011 the University of Chicago Medical School distributed iPads to its trainee doctors for use when reviewing clinical information and images on the ward or clinics. The use of tablet computing devices is becoming widespread in medicine with Apple™ heralding them as "revolutionary" in medicine. The question arises, just because it is technical achievable to use iPads for clinical evaluation of images, should we do so? The current work assesses the diagnostic efficacy of iPads when compared with LCD secondary display monitors for identifying lung nodules on chest x-rays. Eight examining radiologists of the American Board of Radiology were involved in the assessment, reading chest images on both the iPad and the an off-the-shelf LCD monitor. Thirty chest images were shown to each observer, of which 15 had one or more lung nodules. Radiologists were asked to locate the nodules and score how confident they were with their decision on a scale of 1-5. An ROC and JAFROC analysis was performed and modalities were compared using DBM MRMC. The results demonstrate no significant differences in performance between the iPad and the LCD for the ROC AUC (p<0.075) or JAFROC FOM (p<0.059) for random readers and random cases. Sample size estimation showed that this result is significant at a power of 0.8 and an effect size of 0.05 for ROC and 0.07 for JAFROC. This work demonstrates that for the task of identifying pulmonary nodules, the use of the iPad does not significantly change performance compared to an off-the-shelf LCD.

LHRH-pituitary plasma membrane binding: the presence of specific binding sites in other tissues.

Science.gov (United States)

Marshall, J C; Shakespear, R A; Odell, W D

1976-11-01

Two specific binding sites for LHRH are present on plasma membranes prepared from rat and bovine anterior pituitary glands. One site is of high affinity (K = 2X108 1/MOL) and the second is of lower affinity (8-5X105 1/mol) and much greater capacity. Studies on membrane fractions prepared from other tissues showed the presence of a single specific site for LHRH. The kinetics and specificity of this site were similar to those of the lower affinity pituitary receptor. These results indicate that only pituitary membranes possess the higher affinity binding site and suggest that the low affinity site is not of physiological importance in the regulation of gonadotrophin secretion. After dissociation from membranes of non-pituitary tissues 125I-LHRH rebound to pituitary membrane preparations. Thus receptor binding per se does not result in degradation of LHRH and the function of these peripheral receptors remains obscure.

Semantic similarity between ontologies at different scales

Energy Technology Data Exchange (ETDEWEB)

Zhang, Qingpeng; Haglin, David J.

2016-04-01

In the past decade, existing and new knowledge and datasets has been encoded in different ontologies for semantic web and biomedical research. The size of ontologies is often very large in terms of number of concepts and relationships, which makes the analysis of ontologies and the represented knowledge graph computational and time consuming. As the ontologies of various semantic web and biomedical applications usually show explicit hierarchical structures, it is interesting to explore the trade-offs between ontological scales and preservation/precision of results when we analyze ontologies. This paper presents the first effort of examining the capability of this idea via studying the relationship between scaling biomedical ontologies at different levels and the semantic similarity values. We evaluate the semantic similarity between three Gene Ontology slims (Plant, Yeast, and Candida, among which the latter two belong to the same kingdom—Fungi) using four popular measures commonly applied to biomedical ontologies (Resnik, Lin, Jiang-Conrath, and SimRel). The results of this study demonstrate that with proper selection of scaling levels and similarity measures, we can significantly reduce the size of ontologies without losing substantial detail. In particular, the performance of Jiang-Conrath and Lin are more reliable and stable than that of the other two in this experiment, as proven by (a) consistently showing that Yeast and Candida are more similar (as compared to Plant) at different scales, and (b) small deviations of the similarity values after excluding a majority of nodes from several lower scales. This study provides a deeper understanding of the application of semantic similarity to biomedical ontologies, and shed light on how to choose appropriate semantic similarity measures for biomedical engineering.

GABAA [gamma-aminobutyric acid] type binding sites on membranes of spermatozoa

International Nuclear Information System (INIS)

Erdoe, S.L.; Wekerle, L.

1990-01-01

The binding of [ 3 H] gamma-aminobutyric acid (GABA) to seminal membranes of swines and rams was examined. Specific, GABA binding was demonstrated in both species, which showed the features of GABA A type receptors. The affinity of binding was similar in both species, whereas the density of seminal GABA binding sites was 5 times higher in swine. Our findings suggest that GABA may have a direct effect on spermatozoa

Use of DOE site selection criteria for screening low-level waste disposal sites on the Oak Ridge Reservation

International Nuclear Information System (INIS)

Lee, D.W.; Ketelle, R.H.; Stinton, L.H.

1983-09-01

The proposed Department of Energy (DOE) site selection criteria were applied to the Oak Ridge Reservation, and the application was evaluated to determine the criteria's usefulness in the selection of a low-level waste disposal site. The application of the criteria required the development of a methodology to provide a framework for evaluation. The methodology is composed of site screening and site characterization stages. The site screening stage relies on reconnaissance data to identify a preferred site capable of satisfying the site selection criteria. The site characterization stage relies on a detailed site investigation to determine site acceptability. The site selection criteria were applied to the DOE Oak Ridge Reservation through the site screening stage. Results of this application were similar to those of a previous siting study on the Oak Ridge Reservation. The DOE site selection criteria when coupled with the methodology that was developed were easily applied and would be adaptable to any region of interest

Free Recall Shows Similar Reactivation Behavior as Recognition & Cued Recall

OpenAIRE

Tarnow, Eugen

2016-01-01

I find that the total retrieval time in word free recall increases linearly with the total number of items recalled. Measured slopes, the time to retrieve an additional item, vary from 1.4-4.5 seconds per item depending upon presentation rate, subject age and whether there is a delay after list presentation or not. These times to retrieve an additional item obey a second linear relationship as a function of the recall probability averaged over the experiment, explicitly independent of subject...

Scalar Similarity for Relaxed Eddy Accumulation Methods

Science.gov (United States)

Ruppert, Johannes; Thomas, Christoph; Foken, Thomas

2006-07-01

The relaxed eddy accumulation (REA) method allows the measurement of trace gas fluxes when no fast sensors are available for eddy covariance measurements. The flux parameterisation used in REA is based on the assumption of scalar similarity, i.e., similarity of the turbulent exchange of two scalar quantities. In this study changes in scalar similarity between carbon dioxide, sonic temperature and water vapour were assessed using scalar correlation coefficients and spectral analysis. The influence on REA measurements was assessed by simulation. The evaluation is based on observations over grassland, irrigated cotton plantation and spruce forest. Scalar similarity between carbon dioxide, sonic temperature and water vapour showed a distinct diurnal pattern and change within the day. Poor scalar similarity was found to be linked to dissimilarities in the energy contained in the low frequency part of the turbulent spectra ( definition.

A novel representation of inter-site tumour heterogeneity from pre-treatment computed tomography textures classifies ovarian cancers by clinical outcome

Energy Technology Data Exchange (ETDEWEB)

Vargas, Hebert Alberto; Micco, Maura; Lakhman, Yulia; Meier, Andreas A.; Sosa, Ramon; Hricak, Hedvig; Sala, Evis [Memorial Sloan Kettering Cancer Center, Department of Radiology, New York, NY (United States); Veeraraghavan, Harini; Deasy, Joseph [Memorial Sloan Kettering Cancer Center, Department of Medical Physics, New York, NY (United States); Nougaret, Stephanie [Memorial Sloan Kettering Cancer Center, Department of Radiology, New York, NY (United States); Service de Radiologie, Institut Regional du Cancer de Montpellier, Montpellier (France); INSERM, U1194, Institut de Recherche en Cancerologie de Montpellier (IRCM), Montpellier (France); Soslow, Robert A.; Weigelt, Britta [Memorial Sloan Kettering Cancer Center, Department of Pathology, New York, NY (United States); Levine, Douglas A. [Memorial Sloan Kettering Cancer Center, Department of Surgery, New York, NY (United States); Aghajanian, Carol; Snyder, Alexandra [Memorial Sloan Kettering Cancer Center, Department of Medicine, New York, NY (United States)

2017-09-15

To evaluate the associations between clinical outcomes and radiomics-derived inter-site spatial heterogeneity metrics across multiple metastatic lesions on CT in patients with high-grade serous ovarian cancer (HGSOC). IRB-approved retrospective study of 38 HGSOC patients. All sites of suspected HGSOC involvement on preoperative CT were manually segmented. Gray-level correlation matrix-based textures were computed from each tumour site, and grouped into five clusters using a Gaussian Mixture Model. Pairwise inter-site similarities were computed, generating an inter-site similarity matrix (ISM). Inter-site texture heterogeneity metrics were computed from the ISM and compared to clinical outcomes. Of the 12 inter-site texture heterogeneity metrics evaluated, those capturing the differences in texture similarities across sites were associated with shorter overall survival (inter-site similarity entropy, similarity level cluster shade, and inter-site similarity level cluster prominence; p ≤ 0.05) and incomplete surgical resection (similarity level cluster shade, inter-site similarity level cluster prominence and inter-site cluster variance; p ≤ 0.05). Neither the total number of disease sites per patient nor the overall tumour volume per patient was associated with overall survival. Amplification of 19q12 involving cyclin E1 gene (CCNE1) predominantly occurred in patients with more heterogeneous inter-site textures. Quantitative metrics non-invasively capturing spatial inter-site heterogeneity may predict outcomes in patients with HGSOC. (orig.)

Congenital anomalies and proximity to landfill sites.

LENUS (Irish Health Repository)

Boyle, E

2004-01-01

The occurrence of congenital anomalies in proximity to municipal landfill sites in the Eastern Region (counties Dublin, Kildare, Wicklow) was examined by small area (district electoral division), distance and clustering tendancies in relation to 83 landfills, five of which were major sites. The study included 2136 cases of congenital anomaly, 37,487 births and 1423 controls between 1986 and 1990. For the more populous areas of the region 50% of the population lived within 2-3 km of a landfill and within 4-5 km for more rural areas. In the area-level analysis, the standardised prevalence ratios, empirical and full Bayesian modelling, and Kulldorff\\'s spatial scan statistic found no association between the residential area of cases and location of landfills. In the case control analysis, the mean distance of cases and controls from the nearest landfill was similar. The odds ratios of cases compared to controls for increasing distances from all landfills and major landfills showed no significant difference from the baseline value of 1. The kernel and K methods showed no tendency of cases to cluster in relationship to landfills. In conclusion, congenital anomalies were not found to occur more commonly in proximity to municipal landfills.

Research in the selection of very low level radioactive waste disposal site in southwest China

International Nuclear Information System (INIS)

Tuo, Xianguo; Long, Qiong; Zhong, Hongmei; Xu, Zhengqi; Mu, Keliang; Gao, Lan

2008-01-01

The ultimate goal of Chinese Radioactive Nuclear Waste Management and Disposal Security is that must use proper and optimized ways to manage radioactive waste and make sure human beings and the environment either at the present or in the future can be free from any unacceptable risks. According to the goal, this paper presents an overview of comprehensive site characterization work that comprises investigations of physical geography, climatology, geology and hydrogeology, as well as geological hazard on two candidate Very Low Level Radioactive Waste (VLLW) disposal sites (Site 1 and Site 2) which are both located in the south west of China. The results showed that there are many similarities in the regional extent of the two sites, but many distinct differences are found in terrain and topographic features, granule stratum, hydraulic gradient, and so on. On the whole, the two alternative sites are in line with the requirements for very low level radioactive waste disposal, and Site 1 is superior to Site 2. (author)

Domain similarity based orthology detection.

Science.gov (United States)

Bitard-Feildel, Tristan; Kemena, Carsten; Greenwood, Jenny M; Bornberg-Bauer, Erich

2015-05-13

Orthologous protein detection software mostly uses pairwise comparisons of amino-acid sequences to assert whether two proteins are orthologous or not. Accordingly, when the number of sequences for comparison increases, the number of comparisons to compute grows in a quadratic order. A current challenge of bioinformatic research, especially when taking into account the increasing number of sequenced organisms available, is to make this ever-growing number of comparisons computationally feasible in a reasonable amount of time. We propose to speed up the detection of orthologous proteins by using strings of domains to characterize the proteins. We present two new protein similarity measures, a cosine and a maximal weight matching score based on domain content similarity, and new software, named porthoDom. The qualities of the cosine and the maximal weight matching similarity measures are compared against curated datasets. The measures show that domain content similarities are able to correctly group proteins into their families. Accordingly, the cosine similarity measure is used inside porthoDom, the wrapper developed for proteinortho. porthoDom makes use of domain content similarity measures to group proteins together before searching for orthologs. By using domains instead of amino acid sequences, the reduction of the search space decreases the computational complexity of an all-against-all sequence comparison. We demonstrate that representing and comparing proteins as strings of discrete domains, i.e. as a concatenation of their unique identifiers, allows a drastic simplification of search space. porthoDom has the advantage of speeding up orthology detection while maintaining a degree of accuracy similar to proteinortho. The implementation of porthoDom is released using python and C++ languages and is available under the GNU GPL licence 3 at http://www.bornberglab.org/pages/porthoda .

Phonological similarity and orthographic similarity affect probed serial recall of Chinese characters.

Science.gov (United States)

Lin, Yi-Chen; Chen, Hsiang-Yu; Lai, Yvonne C; Wu, Denise H

2015-04-01

The previous literature on working memory (WM) has indicated that verbal materials are dominantly retained in phonological representations, whereas other linguistic information (e.g., orthography, semantics) only contributes to verbal WM minimally, if not negligibly. Although accumulating evidence has suggested that multiple linguistic components jointly support verbal WM, the visual/orthographic contribution has rarely been addressed in alphabetic languages, possibly due to the difficulty of dissociating the effects of word forms from the effects of their pronunciations in relatively shallow orthography. In the present study, we examined whether the orthographic representations of Chinese characters support the retention of verbal materials in this language of deep orthography. In Experiments 1a and 2, we independently manipulated the phonological and orthographic similarity of horizontal and vertical characters, respectively, and found that participants' accuracy of probed serial recall was reduced by both similar pronunciations and shared phonetic radicals in the to-be-remembered stimuli. Moreover, Experiment 1b showed that only the effect of phonological, but not that of orthographic, similarity was affected by concurrent articulatory suppression. Taken together, the present results indicate the indispensable contribution of orthographic representations to verbal WM of Chinese characters, and suggest that the linguistic characteristics of a specific language not only determine long-term linguistic-processing mechanisms, but also delineate the organization of verbal WM for that language.

Nonintrusive field experiments show different plant responses to warming and drought among sites, seasons, and species in a north-south European gradient

DEFF Research Database (Denmark)

Penuelas, J.; Gordon, C.; Llorens, L.

2004-01-01

-limited. In the water-stressed southern site, there was no increase in total aboveground plant biomass growth as expected since warming increases water loss, and temperatures in those ecosystems are already close to the optimum for photosynthesis. The southern site presented instead the most negative response...... a 15% increase in total aboveground plant biomass growth in the UK site. Both direct and indirect effects of warming, such as longer growth season and increased nutrient availability, are likely to be particularly important in this and the other northern sites which tend to be temperature...... to the drought treatment consisting of a soil moisture reduction at the peak of the growing season ranging from 33% in the Spanish site to 82% in The Netherlands site. In the Spanish site there was a 14% decrease in total aboveground plant biomass growth relative to control. Flowering was decreased by drought...

Similarity Analysis of Cable Insulations by Chemical Test

Energy Technology Data Exchange (ETDEWEB)

Kim, Jong Seog [Central Research Institute of Korea Hydro and Nuclear Power Co., Daejeon (Korea, Republic of)

2013-10-15

As result of this experiment, it was found that FT-IR test for material composition, TGA test for aging trend are applicable for similarity analysis of cable materials. OIT is recommended as option if TGA doesn't show good trend. Qualification of new insulation by EQ report of old insulation should be based on higher activation energy of new insulation than that of old one in the consideration of conservatism. In old nuclear power plant, it is easy to find black cable which has no marking of cable information such as manufacturer, material name and voltage. If a type test is required for qualification of these cables, how could I select representative cable? How could I determine the similarity of these cables? If manufacturer has qualified a cable for nuclear power plant more than a decade ago and composition of cable material is changed with similar one, is it acceptable to use the old EQ report for recently manufactured cable? It is well known to use FT-IR method to determine the similarity of cable materials. Infrared ray is easy tool to compare compositions of each material. But, it is not proper to compare aging trend of these materials. Study for similarity analysis of cable insulation by chemical test is described herein. To study a similarity evaluation method for polymer materials, FT-IR, TGA and OIT tests were performed for two cable insulation(old and new) which were supplied from same manufacturer. FT-IR shows good result to compare material compositions while TGA and OIT show good result to compare aging character of materials.

Similarity Analysis of Cable Insulations by Chemical Test

International Nuclear Information System (INIS)

Kim, Jong Seog

2013-01-01

As result of this experiment, it was found that FT-IR test for material composition, TGA test for aging trend are applicable for similarity analysis of cable materials. OIT is recommended as option if TGA doesn't show good trend. Qualification of new insulation by EQ report of old insulation should be based on higher activation energy of new insulation than that of old one in the consideration of conservatism. In old nuclear power plant, it is easy to find black cable which has no marking of cable information such as manufacturer, material name and voltage. If a type test is required for qualification of these cables, how could I select representative cable? How could I determine the similarity of these cables? If manufacturer has qualified a cable for nuclear power plant more than a decade ago and composition of cable material is changed with similar one, is it acceptable to use the old EQ report for recently manufactured cable? It is well known to use FT-IR method to determine the similarity of cable materials. Infrared ray is easy tool to compare compositions of each material. But, it is not proper to compare aging trend of these materials. Study for similarity analysis of cable insulation by chemical test is described herein. To study a similarity evaluation method for polymer materials, FT-IR, TGA and OIT tests were performed for two cable insulation(old and new) which were supplied from same manufacturer. FT-IR shows good result to compare material compositions while TGA and OIT show good result to compare aging character of materials

How similar are recognition memory and inductive reasoning?

Science.gov (United States)

Hayes, Brett K; Heit, Evan

2013-07-01

Conventionally, memory and reasoning are seen as different types of cognitive activities driven by different processes. In two experiments, we challenged this view by examining the relationship between recognition memory and inductive reasoning involving multiple forms of similarity. A common study set (members of a conjunctive category) was followed by a test set containing old and new category members, as well as items that matched the study set on only one dimension. The study and test sets were presented under recognition or induction instructions. In Experiments 1 and 2, the inductive property being generalized was varied in order to direct attention to different dimensions of similarity. When there was no time pressure on decisions, patterns of positive responding were strongly affected by property type, indicating that different types of similarity were driving recognition and induction. By comparison, speeded judgments showed weaker property effects and could be explained by generalization based on overall similarity. An exemplar model, GEN-EX (GENeralization from EXamples), could account for both the induction and recognition data. These findings show that induction and recognition share core component processes, even when the tasks involve flexible forms of similarity.

The voluntary siting process: The solution to siting in the Northeast Compact

International Nuclear Information System (INIS)

Deshais, J.B.

1995-01-01

The date: June 10, 1991. The decision: the announcement of three 'candidate sites' for a low-level radioactive waste (LLRW) facility in Connecticut following statewide screening. The debate: the right of the citizens of the state to refuse to have this type of facility in their 'backyard' versus the State's responsibility to provide for the safe management of LLRW generated within its borders. The debacle: vigorous opposition, political involvement, no opportunity for effective dialogue with the candidate towns. The end: a legislative mandate to terminate the siting process. This series of events, familiar to those in the business of attempting to site and develop unwanted and unwelcome facilities, would have thwarted efforts to provide for disposal capacity in the Northeast Compact region. Connecticut's efforts to site a LLRW disposal facility pursuant to a traditional 'decide-announce-defend' approach had apparently failed. New Jersey, its partner in the Compact, was also ready to proceed with a similar process that would lead to the naming of several candidate sites, but suspended its efforts to review other siting alternatives. The problem: a new approach was needed. The answer: both states would pursue voluntary siting for the LLRW facilities. The result: the best chance for successful development of LLRW disposal capacity in the Northeast Compact region

68Ga/177Lu-labeled DOTA-TATE shows similar imaging and biodistribution in neuroendocrine tumor model.

Science.gov (United States)

Liu, Fei; Zhu, Hua; Yu, Jiangyuan; Han, Xuedi; Xie, Qinghua; Liu, Teli; Xia, Chuanqin; Li, Nan; Yang, Zhi

2017-06-01

Somatostatin receptors are overexpressed in neuroendocrine tumors, whose endogenous ligands are somatostatin. DOTA-TATE is an analogue of somatostatin, which shows high binding affinity to somatostatin receptors. We aim to evaluate the 68 Ga/ 177 Lu-labeling DOTA-TATE kit in neuroendocrine tumor model for molecular imaging and to try human-positron emission tomography/computed tomography imaging of 68 Ga-DOTA-TATE in neuroendocrine tumor patients. DOTA-TATE kits were formulated and radiolabeled with 68 Ga/ 177 Lu for 68 Ga/ 177 Lu-DOTA-TATE (M-DOTA-TATE). In vitro and in vivo stability of 177 Lu-DOTA-TATE were performed. Nude mice bearing human tumors were injected with 68 Ga-DOTA-TATE or 177 Lu-DOTA-TATE for micro-positron emission tomography and micro-single-photon emission computed tomography/computed tomography imaging separately, and clinical positron emission tomography/computed tomography images of 68 Ga-DOTA-TATE were obtained at 1 h post-intravenous injection from patients with neuroendocrine tumors. Micro-positron emission tomography and micro-single-photon emission computed tomography/computed tomography imaging of 68 Ga-DOTA-TATE and 177 Lu-DOTA-TATE both showed clear tumor uptake which could be blocked by excess DOTA-TATE. In addition, 68 Ga-DOTA-TATE-positron emission tomography/computed tomography imaging in neuroendocrine tumor patients could show primary and metastatic lesions. 68 Ga-DOTA-TATE and 177 Lu-DOTA-TATE could accumulate in tumors in animal models, paving the way for better clinical peptide receptor radionuclide therapy for neuroendocrine tumor patients in Asian population.

Ice-volume-forced erosion of the Chinese Loess Plateau global Quaternary stratotype site

DEFF Research Database (Denmark)

Stevens, T.; Buylaert, J.-P.; Thiel, C.

2018-01-01

propose a new independent age model and reconstruct monsoon climate and desert expansion/contraction for the last similar to 250 ka. Our record demonstrates the dominant influence of ice volume on desert expansion, dust dynamics and sediment preservation, and further shows that East Asian Summer Monsoon...... chronology for the Quaternary terrestrial type section at Jingbian, desert marginal Chinese Loess Plateau, is inaccurate. There are large hiatuses and depositional changes expressed across a dynamic gully landform at the site, which demonstrates rapid environmental shifts at the East Asian desert margin. We...... (EASM) variation closely matches that of ice volume, but lags insolation by similar to 5 ka. These observations show that the EASM at the monsoon margin does not respond directly to precessional forcing....

Site characterization plan overview: Yucca Mountain Site, Nevada Research and Development Area, Nevada: Consultation Draft

International Nuclear Information System (INIS)

1988-01-01

The consultation draft of the site characterization plan is a lengthy document that describes in considerable detail the program that will be conducted to characterize the geologic, hydrologic, and other conditions relevant to the suitability of the site for a repository. The overview presented here consists of brief summaries of important topics covered in the consultation draft of the site-characterization plan; it is not a substitute for the site-characterization plan. The arrangement of the overview is similar to that of the plan itself, with brief descriptions of the disposal system -- the site, the repository, and the waste package -- preceding the discussion of the characterization program to be carried out at the Yucca Mountain site. It is intended primarily for the management staff of organizations involved in the DOE's repository program -- staff who might wish to understand the general scope of the site-characterization program, the activities to be conducted, and the facilities to be constructed rather than the technical details of site characterization. 22 figs., 1 tab

Quantitative and Qualitative Responses to Topical Cold in Healthy Caucasians Show Variance between Individuals but High Test-Retest Reliability.

Directory of Open Access Journals (Sweden)

Penny Moss

Full Text Available Increased sensitivity to cold may be a predictor of persistent pain, but cold pain threshold is often viewed as unreliable. This study aimed to determine the within-subject reliability and between-subject variance of cold response, measured comprehensively as cold pain threshold plus pain intensity and sensation quality at threshold. A test-retest design was used over three sessions, one day apart. Response to cold was assessed at four sites (thenar eminence, volar forearm, tibialis anterior, plantar foot. Cold pain threshold was measured using a Medoc thermode and standard method of limits. Intensity of pain at threshold was rated using a 10cm visual analogue scale. Quality of sensation at threshold was quantified with indices calculated from subjects' selection of descriptors from a standard McGill Pain Questionnaire. Within-subject reliability for each measure was calculated with intra-class correlation coefficients and between-subject variance was evaluated as group coefficient of variation percentage (CV%. Gender and site comparisons were also made. Forty-five healthy adults participated: 20 male, 25 female; mean age 29 (range 18-56 years. All measures at all four test sites showed high within-subject reliability: cold pain thresholds r = 0.92-0.95; pain rating r = 0.93-0.97; McGill pain quality indices r = 0.87-0.85. In contrast, all measures showed wide between-subject variance (CV% between 51.4% and 92.5%. Upper limb sites were consistently more sensitive than lower limb sites, but equally reliable. Females showed elevated cold pain thresholds, although similar pain intensity and quality to males. Females were also more reliable and showed lower variance for all measures. Thus, although there was clear population variation, response to cold for healthy individuals was found to be highly reliable, whether measured as pain threshold, pain intensity or sensation quality. A comprehensive approach to cold response testing therefore may add

Quantitative and Qualitative Responses to Topical Cold in Healthy Caucasians Show Variance between Individuals but High Test-Retest Reliability.

Science.gov (United States)

Moss, Penny; Whitnell, Jasmine; Wright, Anthony

2016-01-01

Increased sensitivity to cold may be a predictor of persistent pain, but cold pain threshold is often viewed as unreliable. This study aimed to determine the within-subject reliability and between-subject variance of cold response, measured comprehensively as cold pain threshold plus pain intensity and sensation quality at threshold. A test-retest design was used over three sessions, one day apart. Response to cold was assessed at four sites (thenar eminence, volar forearm, tibialis anterior, plantar foot). Cold pain threshold was measured using a Medoc thermode and standard method of limits. Intensity of pain at threshold was rated using a 10cm visual analogue scale. Quality of sensation at threshold was quantified with indices calculated from subjects' selection of descriptors from a standard McGill Pain Questionnaire. Within-subject reliability for each measure was calculated with intra-class correlation coefficients and between-subject variance was evaluated as group coefficient of variation percentage (CV%). Gender and site comparisons were also made. Forty-five healthy adults participated: 20 male, 25 female; mean age 29 (range 18-56) years. All measures at all four test sites showed high within-subject reliability: cold pain thresholds r = 0.92-0.95; pain rating r = 0.93-0.97; McGill pain quality indices r = 0.87-0.85. In contrast, all measures showed wide between-subject variance (CV% between 51.4% and 92.5%). Upper limb sites were consistently more sensitive than lower limb sites, but equally reliable. Females showed elevated cold pain thresholds, although similar pain intensity and quality to males. Females were also more reliable and showed lower variance for all measures. Thus, although there was clear population variation, response to cold for healthy individuals was found to be highly reliable, whether measured as pain threshold, pain intensity or sensation quality. A comprehensive approach to cold response testing therefore may add validity and

A Novel Hybrid Similarity Calculation Model

Directory of Open Access Journals (Sweden)

Xiaoping Fan

2017-01-01

Full Text Available This paper addresses the problems of similarity calculation in the traditional recommendation algorithms of nearest neighbor collaborative filtering, especially the failure in describing dynamic user preference. Proceeding from the perspective of solving the problem of user interest drift, a new hybrid similarity calculation model is proposed in this paper. This model consists of two parts, on the one hand the model uses the function fitting to describe users’ rating behaviors and their rating preferences, and on the other hand it employs the Random Forest algorithm to take user attribute features into account. Furthermore, the paper combines the two parts to build a new hybrid similarity calculation model for user recommendation. Experimental results show that, for data sets of different size, the model’s prediction precision is higher than the traditional recommendation algorithms.

Remaining Sites Verification Package for the 128-B-3 Burn Pit Site, Waste Site Reclassification Form 2006-058

Energy Technology Data Exchange (ETDEWEB)

L. M. Dittmer

2006-11-17

The 128-B-3 waste site is a former burn and disposal site for the 100-B/C Area, located adjacent to the Columbia River. The 128-B-3 waste site has been remediated to meet the remedial action objectives specified in the Remaining Sites ROD. The results of verification sampling demonstrated that residual contaminant concentrations do not preclude any future uses and allow for unrestricted use of shallow zone soils. The results of sampling at upland areas of the site also showed that residual contaminant concentrations are protective of groundwater and the Columbia River.

Exploring functionally related enzymes using radially distributed properties of active sites around the reacting points of bound ligands

Directory of Open Access Journals (Sweden)

Ueno Keisuke

2012-04-01

Full Text Available Abstract Background Structural genomics approaches, particularly those solving the 3D structures of many proteins with unknown functions, have increased the desire for structure-based function predictions. However, prediction of enzyme function is difficult because one member of a superfamily may catalyze a different reaction than other members, whereas members of different superfamilies can catalyze the same reaction. In addition, conformational changes, mutations or the absence of a particular catalytic residue can prevent inference of the mechanism by which catalytic residues stabilize and promote the elementary reaction. A major hurdle for alignment-based methods for prediction of function is the absence (despite its importance of a measure of similarity of the physicochemical properties of catalytic sites. To solve this problem, the physicochemical features radially distributed around catalytic sites should be considered in addition to structural and sequence similarities. Results We showed that radial distribution functions (RDFs, which are associated with the local structural and physicochemical properties of catalytic active sites, are capable of clustering oxidoreductases and transferases by function. The catalytic sites of these enzymes were also characterized using the RDFs. The RDFs provided a measure of the similarity among the catalytic sites, detecting conformational changes caused by mutation of catalytic residues. Furthermore, the RDFs reinforced the classification of enzyme functions based on conventional sequence and structural alignments. Conclusions Our results demonstrate that the application of RDFs provides advantages in the functional classification of enzymes by providing information about catalytic sites.

Matching species and sites for biomass plantations in Hawaii

International Nuclear Information System (INIS)

Phillips, V.D.; Takahashi, P.K.; Singh, D.; Khan, M.A.

1991-01-01

Two methods for matching species and sites for biomass plantations in Hawaii were utilized to estimate biomass yields and production costs for Eucalyptus grandis, Eucalyptus saligna, and Leucaena leucocephala. The 'analogous site' method matches the environmental conditions, including soil, rainfall, temperature, and insolation parameters, of well-characterized experimental biomass research sites which produce known yields of these species with similar land areas, or with those areas that can be made similar through soil amendments and improvement, where no field trials exist. The result is the identification of sites with biomass growth, yield, and cost performances which are analogous to the experimental site. The 'regression model' method relates known site-specific biomass productivity with environmental and soil conditions and management practices developed from sites featuring widely different and distinct environmental conditions. Equations then enable the prediction of biomass performance and production costs for each species at any location statewide. The analytical results, using a geographical information system database and the above methods, are presented in map form to expedite the site selection process which indicates expected biomass yield and cost for several fast-growing tropical hardwood species in Hawaii

The baryonic self similarity of dark matter

International Nuclear Information System (INIS)

Alard, C.

2014-01-01

The cosmological simulations indicates that dark matter halos have specific self-similar properties. However, the halo similarity is affected by the baryonic feedback. By using momentum-driven winds as a model to represent the baryon feedback, an equilibrium condition is derived which directly implies the emergence of a new type of similarity. The new self-similar solution has constant acceleration at a reference radius for both dark matter and baryons. This model receives strong support from the observations of galaxies. The new self-similar properties imply that the total acceleration at larger distances is scale-free, the transition between the dark matter and baryons dominated regime occurs at a constant acceleration, and the maximum amplitude of the velocity curve at larger distances is proportional to M 1/4 . These results demonstrate that this self-similar model is consistent with the basics of modified Newtonian dynamics (MOND) phenomenology. In agreement with the observations, the coincidence between the self-similar model and MOND breaks at the scale of clusters of galaxies. Some numerical experiments show that the behavior of the density near the origin is closely approximated by a Einasto profile.

PocketMatch: A new algorithm to compare binding sites in protein structures

Directory of Open Access Journals (Sweden)

Chandra Nagasuma

2008-12-01

Full Text Available Abstract Background Recognizing similarities and deriving relationships among protein molecules is a fundamental requirement in present-day biology. Similarities can be present at various levels which can be detected through comparison of protein sequences or their structural folds. In some cases similarities obscure at these levels could be present merely in the substructures at their binding sites. Inferring functional similarities between protein molecules by comparing their binding sites is still largely exploratory and not as yet a routine protocol. One of the main reasons for this is the limitation in the choice of appropriate analytical tools that can compare binding sites with high sensitivity. To benefit from the enormous amount of structural data that is being rapidly accumulated, it is essential to have high throughput tools that enable large scale binding site comparison. Results Here we present a new algorithm PocketMatch for comparison of binding sites in a frame invariant manner. Each binding site is represented by 90 lists of sorted distances capturing shape and chemical nature of the site. The sorted arrays are then aligned using an incremental alignment method and scored to obtain PMScores for pairs of sites. A comprehensive sensitivity analysis and an extensive validation of the algorithm have been carried out. A comparison with other site matching algorithms is also presented. Perturbation studies where the geometry of a given site was retained but the residue types were changed randomly, indicated that chance similarities were virtually non-existent. Our analysis also demonstrates that shape information alone is insufficient to discriminate between diverse binding sites, unless combined with chemical nature of amino acids. Conclusion A new algorithm has been developed to compare binding sites in accurate, efficient and high-throughput manner. Though the representation used is conceptually simplistic, we demonstrate that

A Similarity Search Using Molecular Topological Graphs

Directory of Open Access Journals (Sweden)

Yoshifumi Fukunishi

2009-01-01

Full Text Available A molecular similarity measure has been developed using molecular topological graphs and atomic partial charges. Two kinds of topological graphs were used. One is the ordinary adjacency matrix and the other is a matrix which represents the minimum path length between two atoms of the molecule. The ordinary adjacency matrix is suitable to compare the local structures of molecules such as functional groups, and the other matrix is suitable to compare the global structures of molecules. The combination of these two matrices gave a similarity measure. This method was applied to in silico drug screening, and the results showed that it was effective as a similarity measure.

Inflammatory myofibroblastic tumor of maxilla showing sarcomatous change in an edentulous site with a history of tooth extraction following periodontitis: A case report with discussion.

Science.gov (United States)

Biniraj, K R; Janardhanan, Mahija

2014-05-01

Inflammatory myofibroblastic tumor (IMT) is a rare tumor of uncertain origin with variable biological behavior ranging from reactive lesions to highly aggressive malignancy. Oral IMTs are extremely rare and only 25 cases had been reported so far. A case of IMT with sarcomatous transformation in an extraction site with a history of tooth extraction following tooth mobility of an upper left molar tooth is presented here. The tooth was extracted following a complaint of gingival swelling and mobility of tooth. Though malignant transformation in IMTs had been documented in the extra oral sites, wide search of associated literature suggests, this is the first case of oral IMT showing malignant change associated with gingiva. The case report attempts to highlight the variant possibilities of tooth mobility other than periodontitis and the importance of assessing the primary cause of such conditions.

Correlation between social proximity and mobility similarity.

Science.gov (United States)

Fan, Chao; Liu, Yiding; Huang, Junming; Rong, Zhihai; Zhou, Tao

2017-09-20

Human behaviors exhibit ubiquitous correlations in many aspects, such as individual and collective levels, temporal and spatial dimensions, content, social and geographical layers. With rich Internet data of online behaviors becoming available, it attracts academic interests to explore human mobility similarity from the perspective of social network proximity. Existent analysis shows a strong correlation between online social proximity and offline mobility similarity, namely, mobile records between friends are significantly more similar than between strangers, and those between friends with common neighbors are even more similar. We argue the importance of the number and diversity of common friends, with a counter intuitive finding that the number of common friends has no positive impact on mobility similarity while the diversity plays a key role, disagreeing with previous studies. Our analysis provides a novel view for better understanding the coupling between human online and offline behaviors, and will help model and predict human behaviors based on social proximity.

Phenobarbital and propiconazole toxicogenomic profiles in mice show major similarities consistent with the key role that constitutive androstane receptor (CAR) activation plays in their mode of action

Science.gov (United States)

Currie, Richard A.; Peffer, Richard C.; Goetz, Amber K.; Omiecinski, Curtis J.; Goodman, Jay I.

2014-01-01

Toxicogenomics (TGx) is employed frequently to investigate underlying molecular mechanisms of the compound of interest and, thus, has become an aid to mode of action determination. However, the results and interpretation of a TGx dataset are influenced by the experimental design and methods of analysis employed. This article describes an evaluation and reanalysis, by two independent laboratories, of previously published TGx mouse liver microarray data for a triazole fungicide, propiconazole (PPZ), and the anticonvulsant drug phenobarbital (PB). Propiconazole produced an increase incidence of liver tumors in male CD-1 mice only at a dose that exceeded the maximum tolerated dose (2500 ppm). Firstly, we illustrate how experimental design differences between two in vivo studies with PPZ and PB may impact the comparisons of TGx results. Secondly, we demonstrate that different researchers using different pathway analysis tools can come to different conclusions on specific mechanistic pathways, even when using the same datasets. Finally, despite these differences the results across three different analyses also show a striking degree of similarity observed for PPZ and PB treated livers when the expression data are viewed as major signaling pathways and cell processes affected. Additional studies described here show that the postulated key event of hepatocellular proliferation was observed in CD-1 mice for both PPZ and PB, and that PPZ is also a potent activator of the mouse CAR nuclear receptor. Thus, with regard to the events which are hallmarks of CAR-induced effects that are key events in the mode of action (MOA) of mouse liver carcinogenesis with PB, PPZ-induced tumors can be viewed as being promoted by a similar PB-like CAR-dependent MOA. PMID:24675475

Phenobarbital and propiconazole toxicogenomic profiles in mice show major similarities consistent with the key role that constitutive androstane receptor (CAR) activation plays in their mode of action

International Nuclear Information System (INIS)

Currie, Richard A.; Peffer, Richard C.; Goetz, Amber K.; Omiecinski, Curtis J.; Goodman, Jay I.

2014-01-01

Toxicogenomics (TGx) is employed frequently to investigate underlying molecular mechanisms of the compound of interest and, thus, has become an aid to mode of action determination. However, the results and interpretation of a TGx dataset are influenced by the experimental design and methods of analysis employed. This article describes an evaluation and reanalysis, by two independent laboratories, of previously published TGx mouse liver microarray data for a triazole fungicide, propiconazole (PPZ), and the anticonvulsant drug phenobarbital (PB). Propiconazole produced an increase incidence of liver tumors in male CD-1 mice only at a dose that exceeded the maximum tolerated dose (2500 ppm). Firstly, we illustrate how experimental design differences between two in vivo studies with PPZ and PB may impact the comparisons of TGx results. Secondly, we demonstrate that different researchers using different pathway analysis tools can come to different conclusions on specific mechanistic pathways, even when using the same datasets. Finally, despite these differences the results across three different analyses also show a striking degree of similarity observed for PPZ and PB treated livers when the expression data are viewed as major signaling pathways and cell processes affected. Additional studies described here show that the postulated key event of hepatocellular proliferation was observed in CD-1 mice for both PPZ and PB, and that PPZ is also a potent activator of the mouse CAR nuclear receptor. Thus, with regard to the events which are hallmarks of CAR-induced effects that are key events in the mode of action (MOA) of mouse liver carcinogenesis with PB, PPZ-induced tumors can be viewed as being promoted by a similar PB-like CAR-dependent MOA

Criteria of site assessment

International Nuclear Information System (INIS)

Gibbs, P.; Fuchs, H.

1975-01-01

The criteria which lead to the choice of a particular site for a nuclear power station are in general very similar to those which would apply to any other type of power station. The principal differences derive from the simpler transport problems for the fuel compared with, say, solid fuel and the special safety considerations which attach to nuclear reactors. The search for a suitable site obviously starts by considering where the power is needed, i.e. where the load centers are and also the existing transmission network which may help to bring the power from a more remote site to the load centers. This economic incentive to put the plant close to loads conflicts directly with the nuclear safety argument which favours more remote siting, and part of the problem of site selection is to reconcile these two matters. In addition, there are many other important matters which will be considered later concerning the adequacy of cooling water supplies, foundation conditions, etc., all of which must be examined in considerable detail. (orig./TK) [de

Brønsted acid sites based on penta-coordinated aluminum species

Science.gov (United States)

Wang, Zichun; Jiang, Yijiao; Lafon, Olivier; Trébosc, Julien; Duk Kim, Kyung; Stampfl, Catherine; Baiker, Alfons; Amoureux, Jean-Paul; Huang, Jun

2016-12-01

Zeolites and amorphous silica-alumina (ASA), which both provide Brønsted acid sites (BASs), are the most extensively used solid acid catalysts in the chemical industry. It is widely believed that BASs consist only of tetra-coordinated aluminum sites (AlIV) with bridging OH groups in zeolites or nearby silanols on ASA surfaces. Here we report the direct observation in ASA of a new type of BAS based on penta-coordinated aluminum species (AlV) by 27Al-{1H} dipolar-mediated correlation two-dimensional NMR experiments at high magnetic field under magic-angle spinning. Both BAS-AlIV and -AlV show a similar acidity to protonate probe molecular ammonia. The quantitative evaluation of 1H and 27Al sites demonstrates that BAS-AlV co-exists with BAS-AlIV rather than replaces it, which opens new avenues for strongly enhancing the acidity of these popular solid acids.

Safe-Site Effects on Rhizosphere Bacterial Communities in a High-Altitude Alpine Environment

Directory of Open Access Journals (Sweden)

Sonia Ciccazzo

2014-01-01

Full Text Available The rhizosphere effect on bacterial communities associated with three floristic communities (RW, FI, and M sites which differed for the developmental stages was studied in a high-altitude alpine ecosystem. RW site was an early developmental stage, FI was an intermediate stage, M was a later more matured stage. The N and C contents in the soils confirmed a different developmental stage with a kind of gradient from the unvegetated bare soil (BS site through RW, FI up to M site. The floristic communities were composed of 21 pioneer plants belonging to 14 species. Automated ribosomal intergenic spacer analysis showed different bacterial genetic structures per each floristic consortium which differed also from the BS site. When plants of the same species occurred within the same site, almost all their bacterial communities clustered together exhibiting a plant species effect. Unifrac significance value (P<0.05 on 16S rRNA gene diversity revealed significant differences (P<0.05 between BS site and the vegetated sites with a weak similarity to the RW site. The intermediate plant colonization stage FI did not differ significantly from the RW and the M vegetated sites. These results pointed out the effect of different floristic communities rhizospheres on their soil bacterial communities.

Oskarshamn site investigation. Monitoring of shallow groundwater chemistry 2009

International Nuclear Information System (INIS)

Ericsson, Ulf

2010-06-01

In 2009 sampling of shallow ground water in water wells in soil has been performed in a regular programme at eight sites within the site investigation area at Oskarshamn. The purpose of the activity is to monitor (long term observation) and characterise the shallow ground water in the site investigation area. Some physical and chemical parameters were measured directly in the field but most parameters were analysed at different laboratories. The ground water sampling activity consisted of one programme, chemical programme class 5 (reduced). The large number of sites and parameters analysed have generated a large amount of data, which will later be used for advanced analysis and modelling. In this report the evaluation aims to give a simple overview of the results and to describe the quality of the data sampled 2009. As an addition radon activity was measured at fourteen sites in the area. Seven of these sites were the same as in the regular programme. The results showed a large variation between the wells. The concentrations of major ions and conductivity ranged from low to high or very high values. The concentration of HCO 3 also varied extensively throughout the investigation area, but since the concentrations were above 60 mg/l in most wells the results indicate a good ground water quality with respect to acidification. The concentration of heavy metals and trace elements also varied. High concentration of Pb in some of the wells indicated pollution. Since Pb had a similar relation to Al as most other elements it was argued that high concentrations of lead probably can be explained by the natural composition of minerals within the site investigation area. The ratio of δ 18 O showed a good relationship with the conductivity. The activity of tritium ( 3 H) was markedly lower in two of the wells. This might be an indication of older groundwater in these wells. The average hydrogen isotope ratio of deuterium (δ 2 H) varied with similar values in most wells. The �

Oskarshamn site investigation. Monitoring of shallow groundwater chemistry 2009

Energy Technology Data Exchange (ETDEWEB)

Ericsson, Ulf (Medins Biologi AB, Moelnlycke (Sweden))

2010-06-15

In 2009 sampling of shallow ground water in water wells in soil has been performed in a regular programme at eight sites within the site investigation area at Oskarshamn. The purpose of the activity is to monitor (long term observation) and characterise the shallow ground water in the site investigation area. Some physical and chemical parameters were measured directly in the field but most parameters were analysed at different laboratories. The ground water sampling activity consisted of one programme, chemical programme class 5 (reduced). The large number of sites and parameters analysed have generated a large amount of data, which will later be used for advanced analysis and modelling. In this report the evaluation aims to give a simple overview of the results and to describe the quality of the data sampled 2009. As an addition radon activity was measured at fourteen sites in the area. Seven of these sites were the same as in the regular programme. The results showed a large variation between the wells. The concentrations of major ions and conductivity ranged from low to high or very high values. The concentration of HCO{sub 3} also varied extensively throughout the investigation area, but since the concentrations were above 60 mg/l in most wells the results indicate a good ground water quality with respect to acidification. The concentration of heavy metals and trace elements also varied. High concentration of Pb in some of the wells indicated pollution. Since Pb had a similar relation to Al as most other elements it was argued that high concentrations of lead probably can be explained by the natural composition of minerals within the site investigation area. The ratio of delta18O showed a good relationship with the conductivity. The activity of tritium (3H) was markedly lower in two of the wells. This might be an indication of older groundwater in these wells. The average hydrogen isotope ratio of deuterium (delta2H) varied with similar values in most wells

A COMPARISON OF SEMANTIC SIMILARITY MODELS IN EVALUATING CONCEPT SIMILARITY

Directory of Open Access Journals (Sweden)

Q. X. Xu

2012-08-01

Full Text Available The semantic similarities are important in concept definition, recognition, categorization, interpretation, and integration. Many semantic similarity models have been established to evaluate semantic similarities of objects or/and concepts. To find out the suitability and performance of different models in evaluating concept similarities, we make a comparison of four main types of models in this paper: the geometric model, the feature model, the network model, and the transformational model. Fundamental principles and main characteristics of these models are introduced and compared firstly. Land use and land cover concepts of NLCD92 are employed as examples in the case study. The results demonstrate that correlations between these models are very high for a possible reason that all these models are designed to simulate the similarity judgement of human mind.

Non-native western tubenose gobies Proterorhinus semilunaris show distinct site, sex and age-related differences in diet

Czech Academy of Sciences Publication Activity Database

Všetičková, Lucie; Janáč, Michal; Vašek, Mojmír; Roche, Kevin Francis; Jurajda, Pavel

2014-01-01

Roč. 414, č. 10 (2014), s. 1-19 ISSN 1961-9502 R&D Projects: GA ČR(CZ) GAP505/11/1768 Institutional support: RVO:68081766 Keywords : invasive species * Gobiidae * Proterorhinus semilunaris * diet * site-effect * sex-differences Subject RIV: EG - Zoology Impact factor: 0.928, year: 2014

An Investigation of Equine Mesenchymal Stem Cell Characteristics from Different Harvest Sites: More Similar Than Not

Directory of Open Access Journals (Sweden)

Karla eLombana

2015-12-01

Full Text Available Diseases of the musculoskeletal system are a major cause of loss of use and retirement in sport horses. The use of bone marrow derived mesenchymal stem cells (BMDMSCs for healing of traumatized tissue has gained substantial favor in clinical settings and can assist healing and tissue regeneration in orthopaedic injuries. There are two common sites of harvest of BMDMSCs, the sternum and ilium. Our objective was to determine if any differences exist in BMDMSCs acquired from the sternum and the ilium. We compared the two harvest sites in their propensity to undergo multilineage differentiation, differences in cell surface markers or gene transduction efficiencies.BMDMSCs were isolated and culture-expanded from five mL aspirates of bone marrow from sternum and ilium. The cells were then plated and cultured with appropriate differentiation medium to result in multi-lineage differentiation and cell characteristics were compared between sternal and ilial samples. Cell surface antibody expression of CD11a/18, CD34, CD44 and CD90 were evaluated using flow cytometry and gene transduction efficiencies were evaluated using GFP scAAV. There were no statistically significant differences in cell characteristics between MSCs cultured from sternum and ilium under any circumstances.

Self-similar potential in the near wake

International Nuclear Information System (INIS)

Diebold, D.; Hershkowitz, N.; Intrator, T.; Bailey, A.

1987-01-01

The plasma potential is measured near the edge of an electrically floating obstacle placed in a steady-state, supersonic, unmagnetized, neutral plasma flow. Equipotential contours show the sheath of the upstream side of the obstacle wrapping around the edge of the obstacle and fanning out into the near wake. Both fluid theory and the data find the near-wake plasma potential to be self-similar when ionization, charge exchange, and magnetic field can be neglected. The theory also finds that fluid velocity is self-similar, the near wake is nonneutral, and plasma density is not self-similar. Strong electric fields are found near the obstacle and equipotential contours are found to conform to all boundaries

Towards Personalized Medicine: Leveraging Patient Similarity and Drug Similarity Analytics

Science.gov (United States)

Zhang, Ping; Wang, Fei; Hu, Jianying; Sorrentino, Robert

2014-01-01

The rapid adoption of electronic health records (EHR) provides a comprehensive source for exploratory and predictive analytic to support clinical decision-making. In this paper, we investigate how to utilize EHR to tailor treatments to individual patients based on their likelihood to respond to a therapy. We construct a heterogeneous graph which includes two domains (patients and drugs) and encodes three relationships (patient similarity, drug similarity, and patient-drug prior associations). We describe a novel approach for performing a label propagation procedure to spread the label information representing the effectiveness of different drugs for different patients over this heterogeneous graph. The proposed method has been applied on a real-world EHR dataset to help identify personalized treatments for hypercholesterolemia. The experimental results demonstrate the effectiveness of the approach and suggest that the combination of appropriate patient similarity and drug similarity analytics could lead to actionable insights for personalized medicine. Particularly, by leveraging drug similarity in combination with patient similarity, our method could perform well even on new or rarely used drugs for which there are few records of known past performance. PMID:25717413

Interpersonal Similarity and Knowledge Sharing within Multinational Organizations

DEFF Research Database (Denmark)

Mäkelä, Kristiina; Andersson, Ulf; Seppälä, Tomi

2012-01-01

Previous research has established that interpersonal similarity can influence knowledge sharing in such a way that similar people are more likely to share knowledge than those who are dissimilar. We contribute to the literature by showing that in the MNC context, cultural and functional similarit....... These microfoundations of inter-unit knowledge exchange point to important theoretical and practical implications for international management....

Genome Compositional Organization in Gars Shows More Similarities to Mammals than to Other Ray-Finned Fish.

Science.gov (United States)

Symonová, Radka; Majtánová, Zuzana; Arias-Rodriguez, Lenin; Mořkovský, Libor; Kořínková, Tereza; Cavin, Lionel; Pokorná, Martina Johnson; Doležálková, Marie; Flajšhans, Martin; Normandeau, Eric; Ráb, Petr; Meyer, Axel; Bernatchez, Louis

2017-11-01

Genomic GC content can vary locally, and GC-rich regions are usually associated with increased DNA thermostability in thermophilic prokaryotes and warm-blooded eukaryotes. Among vertebrates, fish and amphibians appeared to possess a distinctly less heterogeneous AT/GC organization in their genomes, whereas cytogenetically detectable GC heterogeneity has so far only been documented in mammals and birds. The subject of our study is the gar, an ancient "living fossil" of a basal ray-finned fish lineage, known from the Cretaceous period. We carried out cytogenomic analysis in two gar genera (Atractosteus and Lepisosteus) uncovering a GC chromosomal pattern uncharacteristic for fish. Bioinformatic analysis of the spotted gar (Lepisosteus oculatus) confirmed a GC compartmentalization on GC profiles of linkage groups. This indicates a rather mammalian mode of compositional organization on gar chromosomes. Gars are thus the only analyzed extant ray-finned fishes with a GC compartmentalized genome. Since gars are cold-blooded anamniotes, our results contradict the generally accepted hypothesis that the phylogenomic onset of GC compartmentalization occurred near the origin of amniotes. Ecophysiological findings of other authors indicate a metabolic similarity of gars with mammals. We hypothesize that gars might have undergone convergent evolution with the tetrapod lineages leading to mammals on both metabolic and genomic levels. Their metabolic adaptations might have left footprints in their compositional genome evolution, as proposed by the metabolic rate hypothesis. The genome organization described here in gars sheds new light on the compositional genome evolution in vertebrates generally and contributes to better understanding of the complexities of the mechanisms involved in this process. © 2016 Wiley Periodicals, Inc.

Remaining Sites Verification Package for 100-F-38 Stained Soil Site. Attachment to Waste Site Reclassification Form 2004-093

International Nuclear Information System (INIS)

Carlson, R.A.

2006-01-01

The 100-F-38 Stained Soil site was an area of yellow stained soil that was discovered while excavating a trench for the placement of electrical conduit. The 100-F-38 Stained Soil site meets the remedial action objectives specified in the Remaining Sites ROD. The results of verification sampling show demonstrate that residual contaminant concentrations support future unrestricted land uses that can be represented by a rural-residential scenario. The results also show that residual contaminant concentrations do not preclude any future uses and allow for unrestricted use of shallow zone soils and the contaminant concentrations remaining in the soil are protective of groundwater and the Columbia River

Comparison of site descriptive models for Olkiluoto, Finland and Forsmark, Sweden

Energy Technology Data Exchange (ETDEWEB)

Geier, J.; Bath, A.; Stephansson, O.; Luukkonen, A.

2012-08-15

The proposed high-level radioactive waste repository sites at Olkiluoto and Forsmark share broadly similar geologic histories and regional settings. Despite differences in lithology, rock strength and patterns of brittle deformation, the sites show similarities in terms of hydrogeochemistry and hydrogeology. These similarities reflect a dominating influence of saline and brackish water intrusion during inundation by the postglacial Littorina Sea and Baltic Sea, followed by exposure to meteoric waters following postglacial uplift and transition to a Baltic coastal setting. Both sites also contain deep bedrock saline groundwater, though this is more evident at Olkiluoto than at Forsmark. A comparative study of site descriptive models for the two sites identifies the following key differences that could potentially impact safety of a repository: (1) Redox controls, buffering and biogeochemistry at proposed repository depths; (2) Salinity gradients at and below proposed repository depths; (3) Methane concentrations at and below proposed repository depths; (4) Depths to which glacial water and Littorina water penetrated; (5) Cation hydrogeochemistry and water-rock reaction; (6) Pore water compositions in rock matrix; (7) Rock fabric, secondary minerals and alteration with respect to radionuclide retention; (8) Brittle deformation fabric differences on multiple scales that affect vertical hydraulic conductivity; (9) Differences in apparent frequency of encountering water-conducting networks at proposed repository depths; (10) Shallow bedrock hydraulic properties; (11) Unique intrusive or dissolution features; (12) Connectivity of site-scale models to regional-scale features; (13) Mesoproterozoic rocks in vicinity and possibilities for human-intrusion scenarios; (14) Rock stresses and bedrock strength and deformability at proposed repository depths; (15) Thermal anisotropy. These differences are all potentially significant to safety functions, but none are so severe that

Easier operation and similar power of 10 g monofilament test for screening diabetic peripheral neuropathy.

Science.gov (United States)

Zhang, Qi; Yi, Na; Liu, Siying; Zheng, Hangping; Qiao, Xiaona; Xiong, Qian; Liu, Xiaoxia; Zhang, Shuo; Wen, Jie; Ye, Hongying; Zhou, Linuo; Li, Yiming; Hu, Renming; Lu, Bin

2018-01-01

Objective The 10 g Semmes-Weinstein monofilament evaluation (SWME) of 4 sites on each foot is recommended for distal symmetric polyneuropathy screening and diagnosis. A similar method has been proposed to diagnose 'high-risk' (for ulceration) feet, using 3 sites per foot. This study compared the effectiveness of SWME for testing 3, 4 and 10 sites per foot to identify patients with diabetic neuropathy. Methods We included 3497 subjects in a SWME of 10 sites; records from the 10-site SWME were used for a SWME of 3 and 4 sites. Neuropathy symptom scores and neuropathy deficit scores were evaluated to identify patients with diabetic peripheral neuropathy. Results The sensitivities of the 10 g SWME for 3, 4 and 10 sites were 17.8%, 19.0% and 22.4%, respectively. The Kappa coefficients for the SWME tests of 3, 4 and 10 sites were high (range: 0.78-0.93). Conclusions There were no significant differences in the effectiveness of 3-, 4- and 10-site SWME testing for diabetic peripheral neuropathy screening. SWME testing of 3 sites on each foot may be sufficient to screen for diabetic neuropathy.

Crystal structure of equine serum albumin in complex with cetirizine reveals a novel drug binding site.

Science.gov (United States)

Handing, Katarzyna B; Shabalin, Ivan G; Szlachta, Karol; Majorek, Karolina A; Minor, Wladek

2016-03-01

Serum albumin (SA) is the main transporter of drugs in mammalian blood plasma. Here, we report the first crystal structure of equine serum albumin (ESA) in complex with antihistamine drug cetirizine at a resolution of 2.1Å. Cetirizine is bound in two sites--a novel drug binding site (CBS1) and the fatty acid binding site 6 (CBS2). Both sites differ from those that have been proposed in multiple reports based on equilibrium dialysis and fluorescence studies for mammalian albumins as cetirizine binding sites. We show that the residues forming the binding pockets in ESA are highly conserved in human serum albumin (HSA), and suggest that binding of cetirizine to HSA will be similar. In support of that hypothesis, we show that the dissociation constants for cetirizine binding to CBS2 in ESA and HSA are identical using tryptophan fluorescence quenching. Presence of lysine and arginine residues that have been previously reported to undergo nonenzymatic glycosylation in CBS1 and CBS2 suggests that cetirizine transport in patients with diabetes could be altered. A review of all available SA structures from the PDB shows that in addition to the novel drug binding site we present here (CBS1), there are two pockets on SA capable of binding drugs that do not overlap with fatty acid binding sites and have not been discussed in published reviews. Copyright © 2016 Elsevier Ltd. All rights reserved.

SITE-94. Discrete-feature modelling of the Aespoe site: 2. Development of the integrated site-scale model

International Nuclear Information System (INIS)

Geier, J.E.

1996-12-01

A 3-dimensional, discrete-feature hydrological model is developed. The model integrates structural and hydrologic data for the Aespoe site, on scales ranging from semi regional fracture zones to individual fractures in the vicinity of the nuclear waste canisters. Hydrologic properties of the large-scale structures are initially estimated from cross-hole hydrologic test data, and automatically calibrated by numerical simulation of network flow, and comparison with undisturbed heads and observed drawdown in selected cross-hole tests. The calibrated model is combined with a separately derived fracture network model, to yield the integrated model. This model is partly validated by simulation of transient responses to a long-term pumping test and a convergent tracer test, based on the LPT2 experiment at Aespoe. The integrated model predicts that discharge from the SITE-94 repository is predominantly via fracture zones along the eastern shore of Aespoe. Similar discharge loci are produced by numerous model variants that explore uncertainty with regard to effective semi regional boundary conditions, hydrologic properties of the site-scale structures, and alternative structural/hydrological interpretations. 32 refs

SITE-94. Discrete-feature modelling of the Aespoe site: 2. Development of the integrated site-scale model

Energy Technology Data Exchange (ETDEWEB)

Geier, J.E. [Golder Associates AB, Uppsala (Sweden)

1996-12-01

A 3-dimensional, discrete-feature hydrological model is developed. The model integrates structural and hydrologic data for the Aespoe site, on scales ranging from semi regional fracture zones to individual fractures in the vicinity of the nuclear waste canisters. Hydrologic properties of the large-scale structures are initially estimated from cross-hole hydrologic test data, and automatically calibrated by numerical simulation of network flow, and comparison with undisturbed heads and observed drawdown in selected cross-hole tests. The calibrated model is combined with a separately derived fracture network model, to yield the integrated model. This model is partly validated by simulation of transient responses to a long-term pumping test and a convergent tracer test, based on the LPT2 experiment at Aespoe. The integrated model predicts that discharge from the SITE-94 repository is predominantly via fracture zones along the eastern shore of Aespoe. Similar discharge loci are produced by numerous model variants that explore uncertainty with regard to effective semi regional boundary conditions, hydrologic properties of the site-scale structures, and alternative structural/hydrological interpretations. 32 refs.

Western gorilla diet: a synthesis from six sites.

Science.gov (United States)

Rogers, M Elizabeth; Abernethy, Kate; Bermejo, Magdalena; Cipolletta, Chloe; Doran, Diane; McFarland, Kelley; Nishihara, Tomoaki; Remis, Melissa; Tutin, Caroline E G

2004-10-01

The objective of this paper is to collate information on western gorilla diet from six study sites throughout much of their current range, including preliminary information from two sites (Afi and Lossi), where studies of diet have begun only recently. Food lists were available from each site, derived from indirect signs of gorilla feeding (such as feces), with some observational data. Important staple, seasonal, and fallback foods have been identified, and a number of striking similarities across sites have been revealed based on a much larger data set than was previously available. It was confirmed that the western gorilla diet is always eclectic, including up to 230 items and 180 species. The greatest diversity is found among the fruit species eaten, fruit being included in western gorilla diets from all sites and throughout most or all of the year. Eight plant families provide important foods at five, or all six, sites, suggesting that it may be possible in the future to predict which habitats are the most suitable for gorillas. Gorillas exploit both rare and common forest species. Similarities and differences among sites can be explained superficially on the basis of geography and the past history of the forest. Gorilla density across sites appears to be most affected by the density of monocotyledonous bulk food plants, but its relationship to the density of important tree food species has yet to be tested.

The GridSite Web/Grid security system

International Nuclear Information System (INIS)

McNab, Andrew; Li Yibiao

2010-01-01

We present an overview of the current status of the GridSite toolkit, describing the security model for interactive and programmatic uses introduced in the last year. We discuss our experiences of implementing these internal changes and how they and previous rounds of improvements have been prompted by requirements from users and wider security trends in Grids (such as CSRF). Finally, we explain how these have improved the user experience of GridSite-based websites, and wider implications for portals and similar web/grid sites.

Molecular similarity measures.

Science.gov (United States)

Maggiora, Gerald M; Shanmugasundaram, Veerabahu

2011-01-01

Molecular similarity is a pervasive concept in chemistry. It is essential to many aspects of chemical reasoning and analysis and is perhaps the fundamental assumption underlying medicinal chemistry. Dissimilarity, the complement of similarity, also plays a major role in a growing number of applications of molecular diversity in combinatorial chemistry, high-throughput screening, and related fields. How molecular information is represented, called the representation problem, is important to the type of molecular similarity analysis (MSA) that can be carried out in any given situation. In this work, four types of mathematical structure are used to represent molecular information: sets, graphs, vectors, and functions. Molecular similarity is a pairwise relationship that induces structure into sets of molecules, giving rise to the concept of chemical space. Although all three concepts - molecular similarity, molecular representation, and chemical space - are treated in this chapter, the emphasis is on molecular similarity measures. Similarity measures, also called similarity coefficients or indices, are functions that map pairs of compatible molecular representations that are of the same mathematical form into real numbers usually, but not always, lying on the unit interval. This chapter presents a somewhat pedagogical discussion of many types of molecular similarity measures, their strengths and limitations, and their relationship to one another. An expanded account of the material on chemical spaces presented in the first edition of this book is also provided. It includes a discussion of the topography of activity landscapes and the role that activity cliffs in these landscapes play in structure-activity studies.

BLAST and FASTA similarity searching for multiple sequence alignment.

Science.gov (United States)

Pearson, William R

2014-01-01

BLAST, FASTA, and other similarity searching programs seek to identify homologous proteins and DNA sequences based on excess sequence similarity. If two sequences share much more similarity than expected by chance, the simplest explanation for the excess similarity is common ancestry-homology. The most effective similarity searches compare protein sequences, rather than DNA sequences, for sequences that encode proteins, and use expectation values, rather than percent identity, to infer homology. The BLAST and FASTA packages of sequence comparison programs provide programs for comparing protein and DNA sequences to protein databases (the most sensitive searches). Protein and translated-DNA comparisons to protein databases routinely allow evolutionary look back times from 1 to 2 billion years; DNA:DNA searches are 5-10-fold less sensitive. BLAST and FASTA can be run on popular web sites, but can also be downloaded and installed on local computers. With local installation, target databases can be customized for the sequence data being characterized. With today's very large protein databases, search sensitivity can also be improved by searching smaller comprehensive databases, for example, a complete protein set from an evolutionarily neighboring model organism. By default, BLAST and FASTA use scoring strategies target for distant evolutionary relationships; for comparisons involving short domains or queries, or searches that seek relatively close homologs (e.g. mouse-human), shallower scoring matrices will be more effective. Both BLAST and FASTA provide very accurate statistical estimates, which can be used to reliably identify protein sequences that diverged more than 2 billion years ago.

Phonological similarity in working memory span tasks.

Science.gov (United States)

Chow, Michael; Macnamara, Brooke N; Conway, Andrew R A

2016-08-01

In a series of four experiments, we explored what conditions are sufficient to produce a phonological similarity facilitation effect in working memory span tasks. By using the same set of memoranda, but differing the secondary-task requirements across experiments, we showed that a phonological similarity facilitation effect is dependent upon the semantic relationship between the memoranda and the secondary-task stimuli, and is robust to changes in the representation, ordering, and pool size of the secondary-task stimuli. These findings are consistent with interference accounts of memory (Brown, Neath, & Chater, Psychological Review, 114, 539-576, 2007; Oberauer, Lewandowsky, Farrell, Jarrold, & Greaves, Psychonomic Bulletin & Review, 19, 779-819, 2012), whereby rhyming stimuli provide a form of categorical similarity that allows distractors to be excluded from retrieval at recall.

Distinct roles of beta1 metal ion-dependent adhesion site (MIDAS), adjacent to MIDAS (ADMIDAS), and ligand-associated metal-binding site (LIMBS) cation-binding sites in ligand recognition by integrin alpha2beta1.

Science.gov (United States)

Valdramidou, Dimitra; Humphries, Martin J; Mould, A Paul

2008-11-21

Integrin-ligand interactions are regulated in a complex manner by divalent cations, and previous studies have identified ligand-competent, stimulatory, and inhibitory cation-binding sites. In collagen-binding integrins, such as alpha2beta1, ligand recognition takes place exclusively at the alpha subunit I domain. However, activation of the alphaI domain depends on its interaction with a structurally similar domain in the beta subunit known as the I-like or betaI domain. The top face of the betaI domain contains three cation-binding sites: the metal-ion dependent adhesion site (MIDAS), the ADMIDAS (adjacent to MIDAS), and LIMBS (ligand-associated metal-binding site). The role of these sites in controlling ligand binding to the alphaI domain has yet to be elucidated. Mutation of the MIDAS or LIMBS completely blocked collagen binding to alpha2beta1; in contrast mutation of the ADMIDAS reduced ligand recognition but this effect could be overcome by the activating monoclonal antibody TS2/16. Hence, the MIDAS and LIMBS appear to be essential for the interaction between alphaI and betaI, whereas occupancy of the ADMIDAS has an allosteric effect on the conformation of betaI. An activating mutation in the alpha2 I domain partially restored ligand binding to the MIDAS and LIMBS mutants. Analysis of the effects of Ca(2+), Mg(2+), and Mn(2+) on ligand binding to these mutants showed that the MIDAS is a ligand-competent site through which Mn(2+) stimulates ligand binding, whereas the LIMBS is a stimulatory Ca(2+)-binding site, occupancy of which increases the affinity of Mg(2+) for the MIDAS.

The crystal structure of Erwinia amylovora AmyR, a member of the YbjN protein family, shows similarity to type III secretion chaperones but suggests different cellular functions.

Science.gov (United States)

Bartho, Joseph D; Bellini, Dom; Wuerges, Jochen; Demitri, Nicola; Toccafondi, Mirco; Schmitt, Armin O; Zhao, Youfu; Walsh, Martin A; Benini, Stefano

2017-01-01

AmyR is a stress and virulence associated protein from the plant pathogenic Enterobacteriaceae species Erwinia amylovora, and is a functionally conserved ortholog of YbjN from Escherichia coli. The crystal structure of E. amylovora AmyR reveals a class I type III secretion chaperone-like fold, despite the lack of sequence similarity between these two classes of protein and lacking any evidence of a secretion-associated role. The results indicate that AmyR, and YbjN proteins in general, function through protein-protein interactions without any enzymatic action. The YbjN proteins of Enterobacteriaceae show remarkably low sequence similarity with other members of the YbjN protein family in Eubacteria, yet a high level of structural conservation is observed. Across the YbjN protein family sequence conservation is limited to residues stabilising the protein core and dimerization interface, while interacting regions are only conserved between closely related species. This study presents the first structure of a YbjN protein from Enterobacteriaceae, the most highly divergent and well-studied subgroup of YbjN proteins, and an in-depth sequence and structural analysis of this important but poorly understood protein family.

The analysis of distribution of meteorological over China in astronomical site selection

Science.gov (United States)

Zhang, Cai-yun; Weng, Ning-quan

2014-02-01

The distribution of parameters such as sunshine hours, precipitation, and visibility were obtained by analyzing the meteorological data in 906 stations of China during 1981~2012. And the month and annual variations of the parameters in some typical stations were discussed. The results show that: (1) the distribution of clear days is similar to that of sunshine hours, the values of which decrease from north to south and from west to east. The distributions of cloud, precipitation and vapor pressure are opposite. (2) The northwest areas in China have the characteristic such as low precipitation and vapor pressure, small cloud clever, and good visibility, which are the general conditions of astronomical site selection. (3) The parameters have obvious month variation. There are large precipitation, long sunshine hours and strong radiation in the mid months of one year, which are opposite in beginning and ending of one year. (4) In the selected stations, the value of vapor pressure decreases year by year, and the optical depth is similar or invariable. All the above results provided for astronomical site selection.

The capsule biosynthesis locus of Haemophilus influenzae show conspicuous similarity to the corresponding locus in Haemophilus sputorum and may have been recruited from this species by horizontal gene transfer

DEFF Research Database (Denmark)

Nielsen, Signe Maria; de Gier, Camilla; Dimopoulou, Chrysoula

2015-01-01

in export and processing of the capsular material, show high similarity to the corresponding genes in capsulate lineages of the pathogenic species Haemophilus influenzae; indeed, standard bexA and bexB PCRs for detection of capsulated strains of H. influenzae give positive results with strains of H....... sputorum was only distantly related to H. influenzae. In contrast to H. influenzae, the capsule locus in H. sputorum is not associated with transposases or other transposable elements. Our data suggest that the capsule locus of capsulate lineages of H. influenzae may relatively recently have been recruited...

Artificially regenerating longleaf pine on wet sites: preliminary analysis of effects of site preparation treatments on early survival and growth

Science.gov (United States)

Benjamin O. Knapp; G. Geoff Wang; Joan L. Walker

2010-01-01

Our study, conducted over two years on poorly drained, sandy sites in Onslow County, NC, compared the effects of eight common site preparation treatments on early survival and growth of planted longleaf pine seedlings. Through two growing seasons, we found survival to be similar across all treatments (p = 0.8806), but root collar diameter was greatest with combinations...

Site investigations: Strategy for rock mechanics site descriptive model

International Nuclear Information System (INIS)

Andersson, Johan; Christiansson, Rolf; Hudson, John

2002-05-01

As a part of the planning work for the Site Investigations, SKB has developed a Rock Mechanics Site Descriptive Modelling Strategy. Similar strategies are being developed for other disciplines. The objective of the strategy is that it should guide the practical implementation of evaluating site specific data during the Site Investigations. It is also understood that further development may be needed. This methodology enables the crystalline rock mass to be characterised in terms of the quality at different sites, for considering rock engineering constructability, and for providing the input to numerical models and performance assessment calculations. The model describes the initial stresses and the distribution of deformation and strength properties of the intact rock, of fractures and fracture zones, and of the rock mass. The rock mass mechanical properties are estimated by empirical relations and by numerical simulations. The methodology is based on estimation of mechanical properties using both empirical and heroretical/numerical approaches; and estimation of in situ rock stress using judgement and numerical modelling, including the influence of fracture zones. These approaches are initially used separately, and then combined to produce the required characterisation estimates. The methodology was evaluated with a Test Case at the Aespoe Hard Rock Laboratory in Sweden. The quality control aspects are an important feature of the methodology: these include Protocols to ensure the structure and coherence of the procedures used, regular meetings to enhance communication, feedback from internal and external reviewing, plus the recording of an audit trail of the development steps and decisions made. The strategy will be reviewed and, if required, updated as appropriate

Site investigations: Strategy for rock mechanics site descriptive model

Energy Technology Data Exchange (ETDEWEB)

Andersson, Johan [JA Streamflow AB, Aelvsjoe (Sweden); Christiansson, Rolf [Swedish Nuclear Fuel and Waste Management Co., Stockholm (Sweden); Hudson, John [Rock Engineering Consultants, Welwyn Garden City (United Kingdom)

2002-05-01

As a part of the planning work for the Site Investigations, SKB has developed a Rock Mechanics Site Descriptive Modelling Strategy. Similar strategies are being developed for other disciplines. The objective of the strategy is that it should guide the practical implementation of evaluating site specific data during the Site Investigations. It is also understood that further development may be needed. This methodology enables the crystalline rock mass to be characterised in terms of the quality at different sites, for considering rock engineering constructability, and for providing the input to numerical models and performance assessment calculations. The model describes the initial stresses and the distribution of deformation and strength properties of the intact rock, of fractures and fracture zones, and of the rock mass. The rock mass mechanical properties are estimated by empirical relations and by numerical simulations. The methodology is based on estimation of mechanical properties using both empirical and heroretical/numerical approaches; and estimation of in situ rock stress using judgement and numerical modelling, including the influence of fracture zones. These approaches are initially used separately, and then combined to produce the required characterisation estimates. The methodology was evaluated with a Test Case at the Aespoe Hard Rock Laboratory in Sweden. The quality control aspects are an important feature of the methodology: these include Protocols to ensure the structure and coherence of the procedures used, regular meetings to enhance communication, feedback from internal and external reviewing, plus the recording of an audit trail of the development steps and decisions made. The strategy will be reviewed and, if required, updated as appropriate.

A thermophilic alkalophilic α-amylase from Bacillus sp. AAH-31 shows a novel domain organization among glycoside hydrolase family 13 enzymes.

Science.gov (United States)

Saburi, Wataru; Morimoto, Naoki; Mukai, Atsushi; Kim, Dae Hoon; Takehana, Toshihiko; Koike, Seiji; Matsui, Hirokazu; Mori, Haruhide

2013-01-01

α-Amylases (EC 3.2.1.1) hydrolyze internal α-1,4-glucosidic linkages of starch and related glucans. Bacillus sp. AAH-31 produces an alkalophilic thermophilic α-amylase (AmyL) of higher molecular mass, 91 kDa, than typical bacterial α-amylases. In this study, the AmyL gene was cloned to determine its primary structure, and the recombinant enzyme, produced in Escherichia coli, was characterized. AmyL shows no hydrolytic activity towards pullulan, but the central region of AmyL (Gly395-Asp684) was similar to neopullulanase-like α-amylases. In contrast to known neopullulanase-like α-amylases, the N-terminal region (Gln29-Phe102) of AmyL was similar to carbohydrate-binding module family 20 (CBM20), which is involved in the binding of enzymes to starch granules. Recombinant AmyL showed more than 95% of its maximum activity in a pH range of 8.2-10.5, and was stable below 65 °C and from pH 6.4 to 11.9. The kcat values for soluble starch, γ-cyclodextrin, and maltotriose were 103 s(-1), 67.6 s(-1), and 5.33 s(-1), respectively, and the Km values were 0.100 mg/mL, 0.348 mM, and 2.06 mM, respectively. Recombinant AmyL did not bind to starch granules. But the substitution of Trp45 and Trp84, conserved in site 1 of CBM20, with Ala reduced affinity to soluble starch, while the mutations did not affect affinity for oligosaccharides. Substitution of Trp61, conserved in site 2 of CBM20, with Ala enhanced hydrolytic activity towards soluble starch, indicating that site 2 of AmyL does not contribute to binding to soluble long-chain substrates.

Site-Specific Atmospheric Dispersion Characteristics of Korean Nuclear Power Plant Sites

International Nuclear Information System (INIS)

Han, M. H.; Kim, E. H.; Suh, K. S.; Hwang, W. T.; Choi, Y. G.

2001-01-01

Site-specific atmospheric dispersion characteristics have been analyzed. The northwest and the southwest wind prevail on nuclear sites of Korea. The annual isobaric surface averaged for twenty years around Korean peninsula shows that west wind prevails. The prevailing west wind is profitable in the viewpoint of radiation protection because three of four nuclear sites are located in the east side. Large scale field tracer experiments over nuclear sites have been conducted for the purpose of analyzing the atmospheric dispersion characteristics and validating a real-time atmospheric dispersion and dose assessment system FADAS. To analyze the site-specific atmospheric dispersion characteristics is essential for making effective countermeasures against a nuclear emergency

Autoradiographic localization of benzomorphan binding sites in rat brain

Energy Technology Data Exchange (ETDEWEB)

Crain, B.J.; Kwenjen Chang; McNamara, J.O.; Valdes, F.

1985-07-17

The benzomorphan subpopulation of opiate binding sites was labeled by (TH)diprenorphine in the presence of unlabeled ligands selected to quench and delta opiate binding sites. The distribution of benzomorphan binding sites was then localized autoradiographically. The distribution differs from the distributions of , delta and kappa opiate binding and is quite similar to the distribution of US -endorphin immunoreactivity. These observations support the hypothesis, based on biochemical studies in brain membranes, that benzomorphan binding sites may represent the ligand recognition sites of putative epsilon receptors. (Auth.). 34 refs.; 3 figs.

Experimental inoculation of calves with atypical Hobi-like pestivirus shows pattern similar to BVDV-1

DEFF Research Database (Denmark)

Larska, Magdalena; Polak, Mirosław P.; Uttenthal, Åse

of experimental inoculation of European cattle with atypical pestivirus. The experiment included 4 groups of 5 calves each inoculated with: BVDV-1 (Ho916), Hobi-like pestivirus (Th/04_KhonKaen), a mixture of both viruses or EaglesMEM (control animals). Th/04_KhonKaen induced milder clinical signs than observed......, lymphocytes and granulocytes in blood on PID 2 correlated to the onset of viraemia. Animals started to seroconvert on PID 14, however the level of anti- Th/04_KhonKaen antibodies was significantly lower that the level of anti-BVDV-1 antibodies, probably due to the specificity of the test used. The experiment...... studies show that the viruses which were thought to be restricted to South America and Southeast Asia, may have reached other continents, including Europe. The pathogenesis of the infection with Hobi-like viruses has not yet been fully elucidated. The purpose of our study was to investigate the course...

Similarity-based Polymorphic Shellcode Detection

Directory of Open Access Journals (Sweden)

Denis Yurievich Gamayunov

2013-02-01

Full Text Available In the work the method for polymorphic shellcode dedection based on the set of known shellcodes is proposed. The method’s main idea is in sequential applying of deobfuscating transformations to a data analyzed and then recognizing similarity with malware samples. The method has been tested on the sets of shellcodes generated using Metasploit Framework v.4.1.0 and PELock Obfuscator and shows 87 % precision with zero false positives rate.

Cultural similarity and adjustment of expatriate academics

DEFF Research Database (Denmark)

Selmer, Jan; Lauring, Jakob

2009-01-01

The findings of a number of recent empirical studies of business expatriates, using different samples and methodologies, seem to support the counter-intuitive proposition that cultural similarity may be as difficult to adjust to as cultural dissimilarity. However, it is not obvious...... and non-EU countries. Results showed that although the perceived cultural similarity between host and home country for the two groups of investigated respondents was different, there was neither any difference in their adjustment nor in the time it took for them to become proficient. Implications...

Personality similarity in negotiations: Testing the dyadic effects of similarity in interpersonal traits and the use of emotional displays on negotiation outcomes.

Science.gov (United States)

Wilson, Kelly Schwind; DeRue, D Scott; Matta, Fadel K; Howe, Michael; Conlon, Donald E

2016-10-01

We build on the small but growing literature documenting personality influences on negotiation by examining how the joint disposition of both negotiators with respect to the interpersonal traits of agreeableness and extraversion influences important negotiation processes and outcomes. Building on similarity-attraction theory, we articulate and demonstrate how being similarly high or similarly low on agreeableness and extraversion leads dyad members to express more positive emotional displays during negotiation. Moreover, because of increased positive emotional displays, we show that dyads with such compositions also tend to reach agreements faster, perceive less relationship conflict, and have more positive impressions of their negotiation partner. Interestingly, these results hold regardless of whether negotiating dyads are similar in normatively positive (i.e., similarly agreeable and similarly extraverted) or normatively negative (i.e., similarly disagreeable and similarly introverted) ways. Overall, these findings demonstrate the importance of considering the dyad's personality configuration when attempting to understand the affective experience as well as the downstream outcomes of a negotiation. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

Sellafield Site (including Drigg) emergency scheme manual

International Nuclear Information System (INIS)

1987-02-01

This Scheme defines the organisation and procedures available should there be an accident at the Sellafield Site which results in, or may result in, the release of radioactive material, or the generation of a high radiation field, which might present a hazard to employees and/or the general public. Several categories of emergencies on the Sellafield Site are mentioned; a building emergency which is confined to one building, a Site emergency standby when the effects of a building emergency go outside that building, a Site emergency alert (District Emergency Standby) when a release of activity affects Site operations and could have serious Site effects and a District Emergency Alert when a radioactivity release may interfere with the normal activity of the General Public. A Drigg Emergency Standby situation would operate similarly at the Drigg Site. The detailed arrangements and responsibilities of appointed personnel are set out in this manual. (UK)

Random walk-based similarity measure method for patterns in complex object

Directory of Open Access Journals (Sweden)

Liu Shihu

2017-04-01

Full Text Available This paper discusses the similarity of the patterns in complex objects. The complex object is composed both of the attribute information of patterns and the relational information between patterns. Bearing in mind the specificity of complex object, a random walk-based similarity measurement method for patterns is constructed. In this method, the reachability of any two patterns with respect to the relational information is fully studied, and in the case of similarity of patterns with respect to the relational information can be calculated. On this bases, an integrated similarity measurement method is proposed, and algorithms 1 and 2 show the performed calculation procedure. One can find that this method makes full use of the attribute information and relational information. Finally, a synthetic example shows that our proposed similarity measurement method is validated.

Similarly shaped letters evoke similar colors in grapheme-color synesthesia.

Science.gov (United States)

Brang, David; Rouw, Romke; Ramachandran, V S; Coulson, Seana

2011-04-01

Grapheme-color synesthesia is a neurological condition in which viewing numbers or letters (graphemes) results in the concurrent sensation of color. While the anatomical substrates underlying this experience are well understood, little research to date has investigated factors influencing the particular colors associated with particular graphemes or how synesthesia occurs developmentally. A recent suggestion of such an interaction has been proposed in the cascaded cross-tuning (CCT) model of synesthesia, which posits that in synesthetes connections between grapheme regions and color area V4 participate in a competitive activation process, with synesthetic colors arising during the component-stage of grapheme processing. This model more directly suggests that graphemes sharing similar component features (lines, curves, etc.) should accordingly activate more similar synesthetic colors. To test this proposal, we created and regressed synesthetic color-similarity matrices for each of 52 synesthetes against a letter-confusability matrix, an unbiased measure of visual similarity among graphemes. Results of synesthetes' grapheme-color correspondences indeed revealed that more similarly shaped graphemes corresponded with more similar synesthetic colors, with stronger effects observed in individuals with more intense synesthetic experiences (projector synesthetes). These results support the CCT model of synesthesia, implicate early perceptual mechanisms as driving factors in the elicitation of synesthetic hues, and further highlight the relationship between conceptual and perceptual factors in this phenomenon. Copyright © 2011 Elsevier Ltd. All rights reserved.

IsoCleft Finder – a web-based tool for the detection and analysis of protein binding-site geometric and chemical similarities [v2; ref status: indexed, http://f1000r.es/13y

Directory of Open Access Journals (Sweden)

Natalja Kurbatova

2013-05-01

Full Text Available IsoCleft Finder is a web-based tool for the detection of local geometric and chemical similarities between potential small-molecule binding cavities and a non-redundant dataset of ligand-bound known small-molecule binding-sites. The non-redundant dataset developed as part of this study is composed of 7339 entries representing unique Pfam/PDB-ligand (hetero group code combinations with known levels of cognate ligand similarity. The query cavity can be uploaded by the user or detected automatically by the system using existing PDB entries as well as user-provided structures in PDB format. In all cases, the user can refine the definition of the cavity interactively via a browser-based Jmol 3D molecular visualization interface. Furthermore, users can restrict the search to a subset of the dataset using a cognate-similarity threshold. Local structural similarities are detected using the IsoCleft software and ranked according to two criteria (number of atoms in common and Tanimoto score of local structural similarity and the associated Z-score and p-value measures of statistical significance. The results, including predicted ligands, target proteins, similarity scores, number of atoms in common, etc., are shown in a powerful interactive graphical interface. This interface permits the visualization of target ligands superimposed on the query cavity and additionally provides a table of pairwise ligand topological similarities. Similarities between top scoring ligands serve as an additional tool to judge the quality of the results obtained. We present several examples where IsoCleft Finder provides useful functional information. IsoCleft Finder results are complementary to existing approaches for the prediction of protein function from structure, rational drug design and x-ray crystallography. IsoCleft Finder can be found at: http://bcb.med.usherbrooke.ca/isocleftfinder.

Crystallographic Analysis Reveals a Novel Second Binding Site for Trimethoprim in Active Site Double Mutants of Human Dihydrofolate Reductase†,‡

Science.gov (United States)

Cody, Vivian; Pace, Jim; Piraino, Jennifer; Queener, Sherry F.

2011-01-01

In order to produce a more potent replacement for trimethoprim (TMP) used as a therapy for Pneumocystis pneumonia and targets dihydrofolate reductase from Pneumocystis jirovecii (pjDHFR), it is necessary to understand the determinants of potency and selectivity against DHFR from the mammalian host and fungal pathogen cells. To this end, active site residues in human (h)DHFR were replaced with those from pjDHFR. Structural data are reported for two complexes of TMP with the double mutants Gln35Ser/Asn64Phe (Q35S/N64F) and Gln35Lys/Asn64Phe (Q35K/N64F) of hDHFR that unexpectedly show evidence for the binding of two molecules of TMP: one molecule that binds in the normal folate binding site and the second molecule that binds in a novel subpocket site such that the mutated residue Phe64 is involved in van der Waals contacts to the trimethoxyphenyl ring of the second TMP molecule. Kinetic data for the binding of TMP to hDHFR and pjDHFR reveal an 84-fold selectivity of TMP against pjDHFR (Ki 49 nM) compared to hDHFR (Ki 4093 nM). Two mutants that contain one substitution from pj- and one from the closely related Pneumocystis carinii DHFR (pcDHFR) (Q35K/N64F and Q35S/N64F) show Ki values of 593 and 617 nM, respectively; these Ki values are well above both the Ki for pjDHFR and are similar to pcDHFR (Q35K/N64F) and Q35S/N64F) (305 nM). These results suggest that active site residues 35 and 64 play key roles in determining selectivity for pneumocystis DHFR, but that other residues contribute to the unique binding of inhibitors to these enzymes. PMID:21684339

Investigating Correlation between Protein Sequence Similarity and Semantic Similarity Using Gene Ontology Annotations.

Science.gov (United States)

Ikram, Najmul; Qadir, Muhammad Abdul; Afzal, Muhammad Tanvir

2018-01-01

Sequence similarity is a commonly used measure to compare proteins. With the increasing use of ontologies, semantic (function) similarity is getting importance. The correlation between these measures has been applied in the evaluation of new semantic similarity methods, and in protein function prediction. In this research, we investigate the relationship between the two similarity methods. The results suggest absence of a strong correlation between sequence and semantic similarities. There is a large number of proteins with low sequence similarity and high semantic similarity. We observe that Pearson's correlation coefficient is not sufficient to explain the nature of this relationship. Interestingly, the term semantic similarity values above 0 and below 1 do not seem to play a role in improving the correlation. That is, the correlation coefficient depends only on the number of common GO terms in proteins under comparison, and the semantic similarity measurement method does not influence it. Semantic similarity and sequence similarity have a distinct behavior. These findings are of significant effect for future works on protein comparison, and will help understand the semantic similarity between proteins in a better way.

A mechanical wave system to show waveforms similar to quantum mechanical wavefunctions in a potential

International Nuclear Information System (INIS)

Faletič, Sergej

2015-01-01

Interviews with students suggest that even though they understand the formalism and the formal nature of quantum theory, they still often desire a mental picture of what the equations describe and some tangible experience with the wavefunctions. Here we discuss a mechanical wave system capable of reproducing correctly a mechanical equivalent of a quantum system in a potential, and the resulting waveforms in principle of any form. We have successfully reproduced the finite potential well, the potential barrier and the parabolic potential. We believe that these mechanical waveforms can provide a valuable experience base for introductory students to start from. We aim to show that mechanical systems that are described with the same mathematics as quantum mechanical, indeed behave in the same way. We believe that even if treated purely as a wave phenomenon, the system provides much insight into wave mechanics. This can be especially useful for physics teachers and others who often need to resort to concepts and experience rather than mathematics when explaining physical phenomena. (paper)

Finding Similarities in Ancient Ceramics by EDXRF and Multivariate Methods

International Nuclear Information System (INIS)

Civici, N.; Stamati, F.

1999-01-01

We have studied 39 samples of fragments from ceramic roof tiles with different stamps(Diamalas and Heraion), dated between 330 to 170 BC and found at the archaeological site of Dimales, some 30 km from the Adriatic coast. The data from these samples were compared with those obtained from 7 samples of similar objects and period with the stamp H eraion , found at the archaeological site of APOLLONIA. The samples were analyzed by energy-dispersive X -ray fluorescence(EDXRF), using of the x-ray lines of the elements to the intensity of the Compton peak. The results have been treated with diverse multivariate methods. The application of hierarchical cluster analysis and factor analysis permitted the identification of two main clusters. The first cluster is composed from the ''Heraion'' samples discovered in Apollonia, while the second comprises all the samples discovered in Dimale independent of their stamp. (authors)

Spousal similarity in life satisfaction before and after divorce.

Science.gov (United States)

Wortman, Jessica; Lucas, Richard E

2016-04-01

Previous research has explored possible origins of individual differences in subjective well-being, focusing largely on stable, internal characteristics of traits as predictors of life satisfaction (Diener & Lucas, 1999). Although past work has demonstrated that life satisfaction is largely stable over the life span, other evidence has also demonstrated the lasting impact of life events. In this study, we use married couples as a test of the impact of life circumstances on life satisfaction, focusing on similarity in life satisfaction before and after divorce. If life satisfaction is impacted by shared life circumstances, married couples (who share life circumstances) should show greater similarity in life satisfaction before divorce than after. We tested this possibility using a dyadic latent-state-trait model that examined cross-spouse similarity in the stable and changing components of life satisfaction. Using a nationally representative panel study from Germany (Wagner, Frick & Schupp, 2007), we showed that similarity declined substantially following divorce. This suggests that life satisfaction is related to shared life circumstances. (c) 2016 APA, all rights reserved).

Archaeometric studies of ceramics from the Sao Paulo II archaeological site

International Nuclear Information System (INIS)

Rogerio Baria; Munita, C.S.; Cano, N.F.; Tatumi, S.H.; Silva-Carrera, B.N.; Shigueo Watanabe; Neves, E.G.

2015-01-01

This paper aims at studying the elementary chemical composition of 70 ceramic fragments from the Sao Paulo II archaeological site by instrumental neutron activation analysis. The concentration data was studied next using multivariate statistical methods, such as cluster analysis, principal component analysis and discriminant analysis. The results showed three different chemical groups of samples regarding the similarity/dissimilarity between the samples. Ceramics from each group have been selected and dated using thermoluminescence. The firing temperature of the ceramics was determined by electron paramagnetic resonance. (author)

Improved collaborative filtering recommendation algorithm of similarity measure

Science.gov (United States)

Zhang, Baofu; Yuan, Baoping

2017-05-01

The Collaborative filtering recommendation algorithm is one of the most widely used recommendation algorithm in personalized recommender systems. The key is to find the nearest neighbor set of the active user by using similarity measure. However, the methods of traditional similarity measure mainly focus on the similarity of user common rating items, but ignore the relationship between the user common rating items and all items the user rates. And because rating matrix is very sparse, traditional collaborative filtering recommendation algorithm is not high efficiency. In order to obtain better accuracy, based on the consideration of common preference between users, the difference of rating scale and score of common items, this paper presents an improved similarity measure method, and based on this method, a collaborative filtering recommendation algorithm based on similarity improvement is proposed. Experimental results show that the algorithm can effectively improve the quality of recommendation, thus alleviate the impact of data sparseness.

Implementing ‘Site BIM’

DEFF Research Database (Denmark)

Davies, Richard; Harty, Chris

2013-01-01

Numerous Building Information Modelling (BIM) tools are well established and potentially beneficial in certain uses. However, issues of adoption and implementation persist, particularly for on-site use of BIM tools in the construction phase. We describe an empirical case-study of the implementation...... of an innovative ‘Site BIM’ system on a major hospital construction project. The main contractor on the project developed BIM-enabled tools to allow site workers using mobile tablet personal computers to access design information and to capture work quality and progress data on-site. Accounts show that ‘Site BIM...

Calculating the knowledge-based similarity of functional groups using crystallographic data

Science.gov (United States)

Watson, Paul; Willett, Peter; Gillet, Valerie J.; Verdonk, Marcel L.

2001-09-01

A knowledge-based method for calculating the similarity of functional groups is described and validated. The method is based on experimental information derived from small molecule crystal structures. These data are used in the form of scatterplots that show the likelihood of a non-bonded interaction being formed between functional group A (the `central group') and functional group B (the `contact group' or `probe'). The scatterplots are converted into three-dimensional maps that show the propensity of the probe at different positions around the central group. Here we describe how to calculate the similarity of a pair of central groups based on these maps. The similarity method is validated using bioisosteric functional group pairs identified in the Bioster database and Relibase. The Bioster database is a critical compilation of thousands of bioisosteric molecule pairs, including drugs, enzyme inhibitors and agrochemicals. Relibase is an object-oriented database containing structural data about protein-ligand interactions. The distributions of the similarities of the bioisosteric functional group pairs are compared with similarities for all the possible pairs in IsoStar, and are found to be significantly different. Enrichment factors are also calculated showing the similarity method is statistically significantly better than random in predicting bioisosteric functional group pairs.

Fate of 137Cs, 90Sr and 239+240Pu in soil profiles at a water recharge site in Basel, Switzerland.

Science.gov (United States)

Abraham, Johannes; Meusburger, Katrin; Waldis, Judith Kobler; Ketterer, Michael E; Zehringer, Markus

2018-02-01

An important process in the production of drinking water is the recharge of the withdrawn ground water with river water at protected recharge fields. While it is well known that undisturbed soils are efficiently filtering and adsorbing radionuclides, the goal of this study was to investigate their behaviour in an artificial recharge site that may receive rapid and additional input of radionuclides by river water (particularly when draining a catchment including nuclear power plants (NPP)). Soil profiles of recharge sites were drilled and analysed for radionuclides, specifically radiocesium ( 137 Cs), radiostrontium ( 90 Sr) and plutonium ( 239+240 Pu). The distribution of the analysed radionuclides were compared with an uncultivated reference soil outside the recharge site. The main activity of 137 Cs was located in the top soil (4.5-7.5 cm) and reached down to a depth of 84 cm and 48 cm for the recharge and the reference site, respectively. The found activities of 239+240 Pu originate from the global fallout after 1950. 239+240 Pu appeared to be strongly adsorbed onto soil particles. The shape of the depth profile was similar to 137 Cs, but also similar between the recharge and the reference site. In contrast, 90 Sr showed a uniform distribution over the entire depth of the recharge and reference profiles indicating that 90 Sr already entered the gravel zone and the ground water. Elevated inventories of the radionuclides were observed for the recharge site. The soil of the recharge field exhibited a threefold higher activity of 137 Cs compared to the reference soil. Also for 239+240 Pu higher inventories where observed for the recharge sites (40%). 90 Sr behaved differently, showing similar inventories between reference and recharge site. We estimate that 75-89% of the total inventory of 137 Cs in the soil at the recharge site (7.000 Bq/m 2 ) originated from the fallout of the Chernobyl accident and from emissions of Swiss NPPs. This estimate is based on the

Thermoluminescence dating of Indian archaeological sites

International Nuclear Information System (INIS)

Singhvi, A.K.; Sharma, Y.P.; Agrawal, D.P.

1983-01-01

In an attempt to provide a chronology for Indian archaeological sites, an extensive pottery dating programme was initiated during 1978-1979. So far we have provided a chronology for seven important Indian archaeological sites. The dated cultures include: 1) the Ochre Colour Ware culture, 2) the Pre-Harappan culture, 3) the megalithic culture and 4) the Painted Grey Ware culture. A complete survey of recently measured TL dates are presented in a model format similar to that used in Radiocarbon. (author)

Consultation draft: Site characterization plan overview, Deaf Smith County Site, Texas: Nuclear Waste Policy Act (Section 113)

International Nuclear Information System (INIS)

1988-01-01

The Department of Energy (DOE) is preparing a site characterization plan for the candidate site in Deaf Smith County, Texas. The DOE has provided, for information and review, a consultation draft of the plan to the State of Texas and the US Nuclear Regulatory Commission. The site characterization plan is a lengthy document that describes in considerable detail the program that will be conducted to characterize the geologic, hydrologic, and other conditions relevant to the suitability of the site for a repository. The overview presented here consists of brief summaries of important topics covered in the consultation draft of the site characterization plan; it is not a substitute for the site characterization plan. The arrangement of the overview is similar to that of the plan itself, with brief descriptions of the repository system - the site, the repository, and the waste package - preceding the discussion of the characterization program to be carried out at the Deaf Smith County site. It is intended primarily for the management staff of organizations involved in the DOE's repository program or other persons who might wish to understand the general scope of the site-characterization program, the activities to be conducted, and the facilities to be constructed rather than the technical details of site characterization. 15 figs., 1 tab

Cross-National Similarities and Differences in Employee Perceptions of Issues in the Work Environment

Science.gov (United States)

Ripley, David; Hudson, Irene; Turner, Robin; Osman-Gani, AAhad

2006-01-01

This exploratory study examines cross-national similarities and differences in employee perceptions of issues in the work environment in 17 organizational work settings in seven Asia-Pacific countries; Australia, Malaysia, New Zealand, Singapore, South Korea, Taiwan, and the United States. Employees at these 17 sites indicated their degree of…

Enhanced Fuzzy-OWA model for municipal solid waste landfill site selection

Science.gov (United States)

Ahmad, Siti Zubaidah; Ahamad, Mohd Sanusi S.; Yusoff, Mohd Suffian; Abujayyab, Sohaib K. M.

2017-10-01

In Malaysia, the municipal solid waste landfill site is an essential facility that needs to be evaluated as its demand is infrequently getting higher. The increment of waste generation forces the government to cater the appropriate site for waste disposal. However, the selection process for new landfill sites is a difficult task with regard to land scarcity and time consumption. In addition, the complication will proliferate when there are various criteria to be considered. Therefore, this paper intends to show the significance of the fuzzy logic-ordered weighted average (Fuzzy-OWA) model for the landfill site suitability analysis. The model was developed to generalize the multi-criteria combination that was extended to the GIS applications as part of the decision support module. OWA has the capability to implement different combination operators through the selection of appropriate order weight that is possible in changing the form of aggregation such as minimum, intermediate and maximum types of combination. OWA give six forms of aggregation results that have their specific significance that indirectly evaluates the environmental, physical and socio-economic (EPSE) criteria respectively. Nevertheless, one of the aggregated results has shown similarity with the weighted linear combination (WLC) method.

Development of site specific response spectra

International Nuclear Information System (INIS)

Bernreuter, D.L.; Chen, J.C.; Savy, J.B.

1987-03-01

For a number of years the US Nuclear Regulatory Commission (NRC) has employed site specific spectra (SSSP) in their evaluation of the adequacy of the Safe Shutdown Earthquake (SSE). These spectra were developed only from the spectra of the horizontal components of the ground motion and from a very limited data set. As the data set has considerably increased for Eastern North America (ENA) and as more relevant data has become available from earthquakes occurring in other parts of the world (e.g., Italy), together with the fact that recent data indicated the importance of the vertical component, it became clear that an update of the SSSP's for ENA was desirable. The methodology used in this study is similar to the previous ones in that it used actual earthquake ground motion data with magnitudes within a certain range and recorded at distances and at sites similar to those that would be chosen for the definition of an SSE. An extensive analysis of the origin and size of the uncertainty is an important part of this study. The results of this analysis of the uncertainties is used to develop criteria for selecting the earthquake records to be used in the derivation of the SSSP's. We concluded that the SSSPs were not very sensitive to the distribution of the source to site distance of the earthquake records used in the analysis. That is, the variability (uncertainty) introduced by the range of distances was relatively small compared to the variability introduced by other factors. We also concluded that the SSSP are somewhat sensitive to the distribution of the magnitudes of these earthquakes, particularly at rock sites and, by inference, at shallow soil sites. We found that one important criterion in selecting records to generate SSSP is the depth of soil at the site

Storage of intermediate level waste at UKAEA sites

International Nuclear Information System (INIS)

Goodill, D.R.; Tymons, B.J.

1985-08-01

This report describes the storage of wastes at UKAEA sites and accordingly contributes to the investigations conducted by the Department of the Environment into the Best Practicable Environmental Option (BPEO) for radioactive waste storage and/or disposal. This report on the storage of ILW should be read in conjunction with a similar NII funded CTS study for Licensed Sites in the UK. (author)

Link-Based Similarity Measures Using Reachability Vectors

Directory of Open Access Journals (Sweden)

Seok-Ho Yoon

2014-01-01

Full Text Available We present a novel approach for computing link-based similarities among objects accurately by utilizing the link information pertaining to the objects involved. We discuss the problems with previous link-based similarity measures and propose a novel approach for computing link based similarities that does not suffer from these problems. In the proposed approach each target object is represented by a vector. Each element of the vector corresponds to all the objects in the given data, and the value of each element denotes the weight for the corresponding object. As for this weight value, we propose to utilize the probability of reaching from the target object to the specific object, computed using the “Random Walk with Restart” strategy. Then, we define the similarity between two objects as the cosine similarity of the two vectors. In this paper, we provide examples to show that our approach does not suffer from the aforementioned problems. We also evaluate the performance of the proposed methods in comparison with existing link-based measures, qualitatively and quantitatively, with respect to two kinds of data sets, scientific papers and Web documents. Our experimental results indicate that the proposed methods significantly outperform the existing measures.

Spatial variability in recruitment of benthos near drilling sites in the Iheya North hydrothermal field in the Okinawa Trough

Science.gov (United States)

Nakamura, Masako; Nakajima, Yuichi; Watanabe, Hiromi Kayama; Sasaki, Takenori; Yamamoto, Hiroyuki; Mitarai, Satoshi

2018-05-01

Due to increasing anthropogenic impacts on deep-sea hydrothermal vent ecosystems, it is essential to understand population structure and maintenance through larval recruitment and recovery of vent faunas after disturbances. In this study, we quantified vent animal recruitment in the Okinawa Trough, in the western Pacific Ocean. This is the first study to investigate recruitment patterns at a man-made hydrothermal vent. Colonization plates were deployed at three sites. Site 1 manifested new hydrothermal shimmering with small chimneys, white bacterial mats, and some alvinocaridid shrimp that arrived after drilling. Site 2 showed no evidence of newly arrived foundation species after drilling, and Site 3 had pre-existing animal communities in the vicinity of the new vent. Twenty-two months after deployment, colonization plates were retrieved and recruited animals were inventoried. Species composition and abundance differed among sites, but relatively high similarity in species composition was observed at Sites 1 and 3, though not at Site 2. Newly established communities on the plates at Sites 1 and 2 (no pre-existing fauna) showed lower species richness and abundance than at Site 3. Differences in abundance and size-frequency distributions of major recruits on the plates (i.e. Lepetodrilus nux, Bathymodiolus spp.) suggest the importance of reproductive and early life-history characteristics in spatial variability of recruitment. Lepetodrilus nux populations established on the plates at Site 1 showed high genetic connectivity. These results illustrate the importance of localized recruitment, which may have a significant impact on sustainability of vent faunal populations, despite the existence of regional metapopulations.

[Similarity system theory to evaluate similarity of chromatographic fingerprints of traditional Chinese medicine].

Science.gov (United States)

Liu, Yongsuo; Meng, Qinghua; Jiang, Shumin; Hu, Yuzhu

2005-03-01

The similarity evaluation of the fingerprints is one of the most important problems in the quality control of the traditional Chinese medicine (TCM). Similarity measures used to evaluate the similarity of the common peaks in the chromatogram of TCM have been discussed. Comparative studies were carried out among correlation coefficient, cosine of the angle and an improved extent similarity method using simulated data and experimental data. Correlation coefficient and cosine of the angle are not sensitive to the differences of the data set. They are still not sensitive to the differences of the data even after normalization. According to the similarity system theory, an improved extent similarity method was proposed. The improved extent similarity is more sensitive to the differences of the data sets than correlation coefficient and cosine of the angle. And the character of the data sets needs not to be changed compared with log-transformation. The improved extent similarity can be used to evaluate the similarity of the chromatographic fingerprints of TCM.

Land contamination. Technical guidance on special sites: nuclear sites

International Nuclear Information System (INIS)

Hill, M.; Steeds, J.; Slade, N.

2001-01-01

Part IIA of the Environmental Protection Act 1990 sets out a regulatory regime for the identification and remediation of land where contamination is causing unacceptable risks to defined receptors. The Environment Agency has a number of regulatory roles under this regime. Where land is designated as a Special Site, as defined in the Contaminated Land (England) Regulations 2000, the Agency will act as the enforcing authority. It is expected that a similar regime will be introduced in Wales during 2001, but the reader should check whether definitions of Special Sites in the Welsh regulations are the same as in the English ones. The Environment Agency's approach to carrying out its regulatory responsibilities is set out in its Part RA Process Documentation,, available on the Agency website (www.environment-agency. gov.uk). This documentation sets out how the Agency intends to carry out its responsibilities under Part IIA of the Environmental Protection Act 1990, which came into force in England on 1 April 2000

Distributional Similarity for Chinese: Exploiting Characters and Radicals

Directory of Open Access Journals (Sweden)

Peng Jin

2012-01-01

Full Text Available Distributional Similarity has attracted considerable attention in the field of natural language processing as an automatic means of countering the ubiquitous problem of sparse data. As a logographic language, Chinese words consist of characters and each of them is composed of one or more radicals. The meanings of characters are usually highly related to the words which contain them. Likewise, radicals often make a predictable contribution to the meaning of a character: characters that have the same components tend to have similar or related meanings. In this paper, we utilize these properties of the Chinese language to improve Chinese word similarity computation. Given a content word, we first extract similar words based on a large corpus and a similarity score for ranking. This rank is then adjusted according to the characters and components shared between the similar word and the target word. Experiments on two gold standard datasets show that the adjusted rank is superior and closer to human judgments than the original rank. In addition to quantitative evaluation, we examine the reasons behind errors drawing on linguistic phenomena for our explanations.

A little similarity goes a long way: the effects of peripheral but self-revealing similarities on improving and sustaining interracial relationships.

Science.gov (United States)

West, Tessa V; Magee, Joe C; Gordon, Sarah H; Gullett, Lindy

2014-07-01

Integrating theory on close relationships and intergroup relations, we construct a manipulation of similarity that we demonstrate can improve interracial interactions across different settings. We find that manipulating perceptions of similarity on self-revealing attributes that are peripheral to the interaction improves interactions in cross-race dyads and racially diverse task groups. In a getting-acquainted context, we demonstrate that the belief that one's different-race partner is similar to oneself on self-revealing, peripheral attributes leads to less anticipatory anxiety than the belief that one's partner is similar on peripheral, nonself-revealing attributes. In another dyadic context, we explore the range of benefits that perceptions of peripheral, self-revealing similarity can bring to different-race interaction partners and find (a) less anxiety during interaction, (b) greater interest in sustained contact with one's partner, and (c) stronger accuracy in perceptions of one's partners' relationship intentions. By contrast, participants in same-race interactions were largely unaffected by these manipulations of perceived similarity. Our final experiment shows that among small task groups composed of racially diverse individuals, those whose members perceive peripheral, self-revealing similarity perform superior to those who perceive dissimilarity. Implications for using this approach to improve interracial interactions across different goal-driven contexts are discussed.

Quercus rubra-associated ectomycorrhizal fungal communities of disturbed urban sites and mature forests.

Science.gov (United States)

Karpati, Amy S; Handel, Steven N; Dighton, John; Horton, Thomas R

2011-08-01

The presence and quality of the belowground mycorrhizal fungal community could greatly influence plant community structure and host species response. This study tests whether mycorrhizal fungal communities in areas highly impacted by anthropogenic disturbance and urbanization are less species rich or exhibit lower host root colonization rates when compared to those of less disturbed systems. Using a soil bioassay, we sampled the ectomycorrhizal fungal (EMF) communities associating with Quercus rubra (northern red oak) seedlings in soil collected from seven sites: two mature forest reference sites and five urban sites of varying levels of disturbance. Morphological and polymerase chain reaction-restriction fragment length polymorphism analyses of fungi colonizing root tips revealed that colonization rates and fungal species richness were significantly lower on root systems of seedlings grown in disturbed site soils. Analysis of similarity showed that EMF community composition was not significantly different among several urban site soils but did differ significantly between mature forest sites and all but one urban site. We identified a suite of fungal species that occurred across several urban sites. Lack of a diverse community of belowground mutualists could be a constraint on urban plant community development, especially of late-successional woodlands. Analysis of urban EMF communities can add to our understanding of urban plant community structure and should be addressed during ecological assessment before pragmatic decisions to restore habitats are framed.

Modulation of 5' splice site selection using tailed oligonucleotides carrying splicing signals

Directory of Open Access Journals (Sweden)

Elela Sherif

2006-01-01

Full Text Available Abstract Background We previously described the use of tailed oligonucleotides as a means of reprogramming alternative pre-mRNA splicing in vitro and in vivo. The tailed oligonucleotides that were used interfere with splicing because they contain a portion complementary to sequences immediately upstream of the target 5' splice site combined with a non-hybridizing 5' tail carrying binding sites for the hnRNP A1/A2 proteins. In the present study, we have tested the inhibitory activity of RNA oligonucleotides carrying different tail structures. Results We show that an oligonucleotide with a 5' tail containing the human β-globin branch site sequence inhibits the use of the 5' splice site of Bcl-xL, albeit less efficiently than a tail containing binding sites for the hnRNP A1/A2 proteins. A branch site-containing tail positioned at the 3' end of the oligonucleotide also elicited splicing inhibition but not as efficiently as a 5' tail. The interfering activity of a 3' tail was improved by adding a 5' splice site sequence next to the branch site sequence. A 3' tail carrying a Y-shaped branch structure promoted similar splicing interference. The inclusion of branch site or 5' splice site sequences in the Y-shaped 3' tail further improved splicing inhibition. Conclusion Our in vitro results indicate that a variety of tail architectures can be used to elicit splicing interference at low nanomolar concentrations, thereby broadening the scope and the potential impact of this antisense technology.

Large-scale control site selection for population monitoring: an example assessing Sage-grouse trends

Science.gov (United States)

Fedy, Bradley C.; O'Donnell, Michael; Bowen, Zachary H.

2015-01-01

Human impacts on wildlife populations are widespread and prolific and understanding wildlife responses to human impacts is a fundamental component of wildlife management. The first step to understanding wildlife responses is the documentation of changes in wildlife population parameters, such as population size. Meaningful assessment of population changes in potentially impacted sites requires the establishment of monitoring at similar, nonimpacted, control sites. However, it is often difficult to identify appropriate control sites in wildlife populations. We demonstrated use of Geographic Information System (GIS) data across large spatial scales to select biologically relevant control sites for population monitoring. Greater sage-grouse (Centrocercus urophasianus; hearafter, sage-grouse) are negatively affected by energy development, and monitoring of sage-grouse population within energy development areas is necessary to detect population-level responses. Weused population data (1995–2012) from an energy development area in Wyoming, USA, the Atlantic Rim Project Area (ARPA), and GIS data to identify control sites that were not impacted by energy development for population monitoring. Control sites were surrounded by similar habitat and were within similar climate areas to the ARPA. We developed nonlinear trend models for both the ARPA and control sites and compared long-term trends from the 2 areas. We found little difference between the ARPA and control sites trends over time. This research demonstrated an approach for control site selection across large landscapes and can be used as a template for similar impact-monitoring studies. It is important to note that identification of changes in population parameters between control and treatment sites is only the first step in understanding the mechanisms that underlie those changes. Published 2015. This article is a U.S. Government work and is in the public domain in the USA.

The interaction of substituted benzamides with brain benzodiazepine binding sites in vitro.

Science.gov (United States)

Horton, R W; Lowther, S; Chivers, J; Jenner, P; Marsden, C D; Testa, B

1988-08-01

1. The interaction of substituted benzamides with brain benzodiazepine (BDZ) binding sites was examined by their ability to displace [3H]-flunitrazepam ([3H]-FNM) from specific binding sites in bovine cortical membranes in vitro. 2. Clebopride, Delagrange 2674, Delagrange 2335 and BRL 20627 displayed concentration-dependent displacement of [3H]-FNM with IC50 values of 73 nM, 132 nM, 7.7 microM and 5.9 microM, respectively. Other substituted benzamides including metoclopramide, sulpiride, tiapride, sultopride and cisapride were inactive at 10(-5) M. 3. Inhibition by clebopride and Delagrange 2674 of [3H]-FNM binding was apparently competitive and readily reversible. 4. In the presence of gamma-aminobutyric acid (GABA), the ability of diazepam and Delagrange 2674 to displace [3H]-Ro 15-1788 binding was increased 3.6 and 1.6 fold respectively, compared to the absence of GABA, while ethyl beta-carboline-3-carboxylate (beta CCE) and clebopride were less potent in the presence of GABA. 5. Diazepam was 30 fold less potent at displacing [3H]-Ro 15-1788 in membranes that had been photoaffinity labelled with FNM than in control membranes, whereas the potency of beta CCE did not differ. Clebopride and Delagrange 2674 showed a less than two fold loss of potency in photoaffinity labelled membranes. 6. The pattern of binding of clebopride and Delagrange 2674 in these in vitro tests is similar to that found previously with partial agonists or antagonists at BDZ binding sites. 7. Clebopride and Delagrange 2674 inhibited [3H]-FNM binding with similar potency in rat cerebellar and hippocampal membranes, suggesting they have no selectivity for BDZ1 and BDZ2 binding sites. 8. Clebopride and Delagrange 2674 are structurally dissimilar to other BDZ ligands and represent another chemical structure to probe brain BDZ binding sites.

Are calanco landforms similar to river basins?

Science.gov (United States)

Caraballo-Arias, N A; Ferro, V

2017-12-15

In the past badlands have been often considered as ideal field laboratories for studying landscape evolution because of their geometrical similarity to larger fluvial systems. For a given hydrological process, no scientific proof exists that badlands can be considered a model of river basin prototypes. In this paper the measurements carried out on 45 Sicilian calanchi, a type of badlands that appears as a small-scale hydrographic unit, are used to establish their morphological similarity with river systems whose data are available in the literature. At first the geomorphological similarity is studied by identifying the dimensionless groups, which can assume the same value or a scaled one in a fixed ratio, representing drainage basin shape, stream network and relief properties. Then, for each property, the dimensionless groups are calculated for the investigated calanchi and the river basins and their corresponding scale ratio is evaluated. The applicability of Hack's, Horton's and Melton's laws for establishing similarity criteria is also tested. The developed analysis allows to conclude that a quantitative morphological similarity between calanco landforms and river basins can be established using commonly applied dimensionless groups. In particular, the analysis showed that i) calanchi and river basins have a geometrically similar shape respect to the parameters Rf and Re with a scale factor close to 1, ii) calanchi and river basins are similar respect to the bifurcation and length ratios (λ=1), iii) for the investigated calanchi the Melton number assumes values less than that (0.694) corresponding to the river case and a scale ratio ranging from 0.52 and 0.78 can be used, iv) calanchi and river basins have similar mean relief ratio values (λ=1.13) and v) calanchi present active geomorphic processes and therefore fall in a more juvenile stage with respect to river basins. Copyright © 2017 Elsevier B.V. All rights reserved.

Inclusion bodies are a site of ebolavirus replication.

Science.gov (United States)

Hoenen, Thomas; Shabman, Reed S; Groseth, Allison; Herwig, Astrid; Weber, Michaela; Schudt, Gordian; Dolnik, Olga; Basler, Christopher F; Becker, Stephan; Feldmann, Heinz

2012-11-01

Inclusion bodies are a characteristic feature of ebolavirus infections in cells. They contain large numbers of preformed nucleocapsids, but their biological significance has been debated, and they have been suggested to be aggregates of viral proteins without any further biological function. However, recent data for other viruses that produce similar structures have suggested that inclusion bodies might be involved in genome replication and transcription. In order to study filovirus inclusion bodies, we fused mCherry to the ebolavirus polymerase L, which is found in inclusion bodies. The resulting L-mCherry fusion protein was functional in minigenome assays and incorporated into virus-like particles. Importantly, L-mCherry fluorescence in transfected cells was readily detectable and distributed in a punctate pattern characteristic for inclusion bodies. A recombinant ebolavirus encoding L-mCherry instead of L was rescued and showed virtually identical growth kinetics and endpoint titers to those for wild-type virus. Using this virus, we showed that the onset of inclusion body formation corresponds to the onset of viral genome replication, but that viral transcription occurs prior to inclusion body formation. Live-cell imaging further showed that inclusion bodies are highly dynamic structures and that they can undergo dramatic reorganization during cell division. Finally, by labeling nascent RNAs using click technology we showed that inclusion bodies are indeed the site of viral RNA synthesis. Based on these data we conclude that, rather than being inert aggregates of nucleocapsids, ebolavirus inclusion bodies are in fact complex and dynamic structures and an important site at which viral RNA replication takes place.

A comparison of epicuticular wax of Pinus sylvestris needles from three sites in Ireland

International Nuclear Information System (INIS)

Donnelly, A.; Dowding, P.

1994-01-01

Three forest stands of Pinus sylvestris were chosen for comparison in Ireland. Needles from three year classes were collected. Cuticular transpiration curves showed that the rate of water loss from 1-year-old needles was faster than either 2-year-old or current-year needles at all sites. The amount of epicuticular wax extracted was similar to that reported in the literature. Needle wettability increased with needle age. Amorphous wax coverage was estimated using scanning electron microscopy (SEM) and was found to increase with needle age. Algal cells were noted on needles of all ages at one site and appeared to affect transpiration and microroughness. The presence of fungal hyphae was also noted. (orig.)

Similar words analysis based on POS-CBOW language model

Directory of Open Access Journals (Sweden)

Dongru RUAN

2015-10-01

Full Text Available Similar words analysis is one of the important aspects in the field of natural language processing, and it has important research and application values in text classification, machine translation and information recommendation. Focusing on the features of Sina Weibo's short text, this paper presents a language model named as POS-CBOW, which is a kind of continuous bag-of-words language model with the filtering layer and part-of-speech tagging layer. The proposed approach can adjust the word vectors' similarity according to the cosine similarity and the word vectors' part-of-speech metrics. It can also filter those similar words set on the base of the statistical analysis model. The experimental result shows that the similar words analysis algorithm based on the proposed POS-CBOW language model is better than that based on the traditional CBOW language model.

Average is Boring: How Similarity Kills a Meme's Success

Science.gov (United States)

Coscia, Michele

2014-09-01

Every day we are exposed to different ideas, or memes, competing with each other for our attention. Previous research explained popularity and persistence heterogeneity of memes by assuming them in competition for limited attention resources, distributed in a heterogeneous social network. Little has been said about what characteristics make a specific meme more likely to be successful. We propose a similarity-based explanation: memes with higher similarity to other memes have a significant disadvantage in their potential popularity. We employ a meme similarity measure based on semantic text analysis and computer vision to prove that a meme is more likely to be successful and to thrive if its characteristics make it unique. Our results show that indeed successful memes are located in the periphery of the meme similarity space and that our similarity measure is a promising predictor of a meme success.

Self-similar gravitational clustering

International Nuclear Information System (INIS)

Efstathiou, G.; Fall, S.M.; Hogan, C.

1979-01-01

The evolution of gravitational clustering is considered and several new scaling relations are derived for the multiplicity function. These include generalizations of the Press-Schechter theory to different densities and cosmological parameters. The theory is then tested against multiplicity function and correlation function estimates for a series of 1000-body experiments. The results are consistent with the theory and show some dependence on initial conditions and cosmological density parameter. The statistical significance of the results, however, is fairly low because of several small number effects in the experiments. There is no evidence for a non-linear bootstrap effect or a dependence of the multiplicity function on the internal dynamics of condensed groups. Empirical estimates of the multiplicity function by Gott and Turner have a feature near the characteristic luminosity predicted by the theory. The scaling relations allow the inference from estimates of the galaxy luminosity function that galaxies must have suffered considerable dissipation if they originally formed from a self-similar hierarchy. A method is also developed for relating the multiplicity function to similar measures of clustering, such as those of Bhavsar, for the distribution of galaxies on the sky. These are shown to depend on the luminosity function in a complicated way. (author)

The similar hexheimer reaction during initial treatment of pulmonary tuberculosis: CT appearances

International Nuclear Information System (INIS)

Lu Yan; Zhou Xinhua; Xie Ruming; Xu Jinping

2009-01-01

Objective: To investigate CT features of similar Hexheimer's reaction during initial treatment of active pulmonary tuberculosis. Methods: The similar Hexheimer's reaction in 44 patients diagnosed by clinic and follow-up CT scans were retrospectively reviewed by three radiologists. Results: During initial treatment of active pulmonary tuberculosis, development of radiographic progression were observed in 57 foci, including 28 pulmonary lesions increased at the site of their original lesion or new opacities elsewhere, ipsilateral or contralateral to the original lesion or both, 10 lesions related to the pleura (pleural effusion, pleural tuberculoma), 15 lymphadenectasis, 3 thymus reactions, and 1 cardiac pericardium thickening, respectively. These reactions appeared from the 20 days to 3.5 months, then with continuation of the initial chemotherapy for 1.0-3.0 months, the radiographic response was excellent with the areas of progression and the original lesions demonstrating resolution or improvement. Conclusion: The CT appearances of similar Hexheimer's reaction during initial treatment of active tuberculosis are specific to a certainty. (authors)

Ecosystem monitoring two Department of Energy sites

International Nuclear Information System (INIS)

Gray, R.

1995-01-01

The US Department of Energy's Hanford Site was established in southeastern Washington to produce plutonium during World War II. The Pantex Plant in the Texas Panhandle, originally used for loading conventional ammunition shells and bombs, was rehabilitated and enhanced in the 1950s to assemble nuclear weapons. Environmental monitoring has been ongoing at both locations for several decades. Monitoring objectives are to detect and assess potential impacts of facility operations on air, surface and ground waters, foodstuffs, fish, wildlife, soils, and vegetation. Currently, measured concentrations of airborne radionuclides around the perimeters of both sites are below applicable guidelines. Concentrations of radionuclides and nonradiological water quality in the Columbia River at Hanford, and radiological and nonradiological water quality in the Ogallala Aquifer beneath the Pantex Plant are in compliance with applicable standards. Foodstuffs irrigated with river water downstream from the Hanford Site show levels of radionuclides that are similar to those found in foodstuffs from control areas. The low levels of 137 Cs and 9O Sr in some onsite Hanford wildlife samples and concentrations of radionuclides in soils and vegetation from onsite and offsite at both locations are typical of those attributable to naturally occurring radioactivity and to worldwide fallout. The calculated dose potentially received by a maximally exposed individual (i.e., based on hypothetical, worst-case assumptions for all routes of exposure) at both sites in 1993 was ≤ 0.03 mrem. Ironically, by virtue of its size (1450 km 2 [560 mi 2 ]), restricted public access, and conservative use of undeveloped land, the Hanford Site has provided a sanctuary for plant and animal populations that have been eliminated from, or greatly reduced on, surrounding agricultural and range lands. Ongoing studies will determine if this is also true at Pantex Plant

Common neighbour structure and similarity intensity in complex networks

Science.gov (United States)

Hou, Lei; Liu, Kecheng

2017-10-01

Complex systems as networks always exhibit strong regularities, implying underlying mechanisms governing their evolution. In addition to the degree preference, the similarity has been argued to be another driver for networks. Assuming a network is randomly organised without similarity preference, the present paper studies the expected number of common neighbours between vertices. A symmetrical similarity index is accordingly developed by removing such expected number from the observed common neighbours. The developed index can not only describe the similarities between vertices, but also the dissimilarities. We further apply the proposed index to measure of the influence of similarity on the wring patterns of networks. Fifteen empirical networks as well as artificial networks are examined in terms of similarity intensity and degree heterogeneity. Results on real networks indicate that, social networks are strongly governed by the similarity as well as the degree preference, while the biological networks and infrastructure networks show no apparent similarity governance. Particularly, classical network models, such as the Barabási-Albert model, the Erdös-Rényi model and the Ring Lattice, cannot well describe the social networks in terms of the degree heterogeneity and similarity intensity. The findings may shed some light on the modelling and link prediction of different classes of networks.

LIBRA: LIgand Binding site Recognition Application.

Science.gov (United States)

Hung, Le Viet; Caprari, Silvia; Bizai, Massimiliano; Toti, Daniele; Polticelli, Fabio

2015-12-15

In recent years, structural genomics and ab initio molecular modeling activities are leading to the availability of a large number of structural models of proteins whose biochemical function is not known. The aim of this study was the development of a novel software tool that, given a protein's structural model, predicts the presence and identity of active sites and/or ligand binding sites. The algorithm implemented by ligand binding site recognition application (LIBRA) is based on a graph theory approach to find the largest subset of similar residues between an input protein and a collection of known functional sites. The algorithm makes use of two predefined databases for active sites and ligand binding sites, respectively, derived from the Catalytic Site Atlas and the Protein Data Bank. Tests indicate that LIBRA is able to identify the correct binding/active site in 90% of the cases analyzed, 90% of which feature the identified site as ranking first. As far as ligand binding site recognition is concerned, LIBRA outperforms other structure-based ligand binding sites detection tools with which it has been compared. The application, developed in Java SE 7 with a Swing GUI embedding a JMol applet, can be run on any OS equipped with a suitable Java Virtual Machine (JVM), and is available at the following URL: http://www.computationalbiology.it/software/LIBRAv1.zip. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

The role of visual similarity and memory in body model distortions.

Science.gov (United States)

Saulton, Aurelie; Longo, Matthew R; Wong, Hong Yu; Bülthoff, Heinrich H; de la Rosa, Stephan

2016-02-01

Several studies have shown that the perception of one's own hand size is distorted in proprioceptive localization tasks. It has been suggested that those distortions mirror somatosensory anisotropies. Recent research suggests that non-corporeal items also show some spatial distortions. In order to investigate the psychological processes underlying the localization task, we investigated the influences of visual similarity and memory on distortions observed on corporeal and non-corporeal items. In experiment 1, participants indicated the location of landmarks on: their own hand, a rubber hand (rated as most similar to the real hand), and a rake (rated as least similar to the real hand). Results show no significant differences between rake and rubber hand distortions but both items were significantly less distorted than the hand. Experiments 2 and 3 explored the role of memory in spatial distance judgments of the hand, the rake and the rubber hand. Spatial representations of items measured in experiments 2 and 3 were also distorted but showed the tendency to be smaller than in localization tasks. While memory and visual similarity seem to contribute to explain qualitative similarities in distortions between the hand and non-corporeal items, those factors cannot explain the larger magnitude observed in hand distortions. Copyright © 2015. Published by Elsevier B.V.

Site specific statutory compliance planning for the salt repository project at the Deaf Smith County Site, Texas: Requirements, strategy, and status: Revision 4

International Nuclear Information System (INIS)

1986-06-01

This document and the requirements and actions it presents are addressed to the Deaf Smith County Site, Texas. The proposed actions upon which the plan is based are those described in Chapters 4 and 5 of the final EA for the site. Similarly, the environmental and health and safety requirements covered in the plan are those identified in the EA as being potentially applicable to the salt repository project at the Deaf Smith site. 12 figs., 8 tabs

Distance decay of tree species similarity in protected areas on terra firme forests in Colombian Amazonia

NARCIS (Netherlands)

Duque, Á.; Phillips, J.F.; von Hildebrand, P.; Posada, C.A.; Prieto, A.; Rudas, A.; Suescún, M.; Stevenson, P.

2009-01-01

In this study, we investigated the pattern of floristic similarity as a function of geographical distances and environmental variability in well-drained uplands (terra firme) in Colombian Amazonia. The study site comprised three National Natural Parks, Tinigua, Chiribiquete, and Amacayacu, located

Similarity analysis between quantum images

Science.gov (United States)

Zhou, Ri-Gui; Liu, XingAo; Zhu, Changming; Wei, Lai; Zhang, Xiafen; Ian, Hou

2018-06-01

Similarity analyses between quantum images are so essential in quantum image processing that it provides fundamental research for the other fields, such as quantum image matching, quantum pattern recognition. In this paper, a quantum scheme based on a novel quantum image representation and quantum amplitude amplification algorithm is proposed. At the end of the paper, three examples and simulation experiments show that the measurement result must be 0 when two images are same, and the measurement result has high probability of being 1 when two images are different.

A hyper-temporal remote sensing protocol for high-resolution mapping of ecological sites.

Science.gov (United States)

Maynard, Jonathan J; Karl, Jason W

2017-01-01

Ecological site classification has emerged as a highly effective land management framework, but its utility at a regional scale has been limited due to the spatial ambiguity of ecological site locations in the U.S. or the absence of ecological site maps in other regions of the world. In response to these shortcomings, this study evaluated the use of hyper-temporal remote sensing (i.e., hundreds of images) for high spatial resolution mapping of ecological sites. We posit that hyper-temporal remote sensing can provide novel insights into the spatial variability of ecological sites by quantifying the temporal response of land surface spectral properties. This temporal response provides a spectral 'fingerprint' of the soil-vegetation-climate relationship which is central to the concept of ecological sites. Consequently, the main objective of this study was to predict the spatial distribution of ecological sites in a semi-arid rangeland using a 28-year time series of normalized difference vegetation index from Landsat TM 5 data and modeled using support vector machine classification. Results from this study show that support vector machine classification using hyper-temporal remote sensing imagery was effective in modeling ecological site classes, with a 62% correct classification. These results were compared to Gridded Soil Survey Geographic database and expert delineated maps of ecological sites which had a 51 and 89% correct classification, respectively. An analysis of the effects of ecological state on ecological site misclassifications revealed that sites in degraded states (e.g., shrub-dominated/shrubland and bare/annuals) had a higher rate of misclassification due to their close spectral similarity with other ecological sites. This study identified three important factors that need to be addressed to improve future model predictions: 1) sampling designs need to fully represent the range of both within class (i.e., states) and between class (i.e., ecological sites

Self-similarity and flow characteristics of vertical-axis wind turbine wakes: an LES study

Science.gov (United States)

Abkar, Mahdi; Dabiri, John O.

2017-04-01

Large eddy simulation (LES) is coupled with a turbine model to study the structure of the wake behind a vertical-axis wind turbine (VAWT). In the simulations, a tuning-free anisotropic minimum dissipation model is used to parameterise the subfilter stress tensor, while the turbine-induced forces are modelled with an actuator line technique. The LES framework is first validated in the simulation of the wake behind a model straight-bladed VAWT placed in the water channel and then used to study the wake structure downwind of a full-scale VAWT sited in the atmospheric boundary layer. In particular, the self-similarity of the wake is examined, and it is found that the wake velocity deficit can be well characterised by a two-dimensional multivariate Gaussian distribution. By assuming a self-similar Gaussian distribution of the velocity deficit, and applying mass and momentum conservation, an analytical model is developed and tested to predict the maximum velocity deficit downwind of the turbine. Also, a simple parameterisation of VAWTs for LES with very coarse grid resolutions is proposed, in which the turbine is modelled as a rectangular porous plate with the same thrust coefficient. The simulation results show that, after some downwind distance (x/D ≈ 6), both actuator line and rectangular porous plate models have similar predictions for the mean velocity deficit. These results are of particular importance in simulations of large wind farms where, due to the coarse spatial resolution, the flow around individual VAWTs is not resolved.

Radionuclide contaminant analysis of rodents at a waste burial site, Los Alamos National Laboratory

International Nuclear Information System (INIS)

Biggs, J.R.; Bennett, K.D.; Fresquez, P.R.

1996-01-01

Small mammals were sampled at two waste burial sites (Sites 1 and 2) at Area G, TA-54, and a control site outside Area G (Site 3) to identify radionuclides that are present within surface and subsurface soils at waste burial sites, to compare the amount of radionuclide uptake by small mammals at waste burial sites to a control site, and to identify the primary mode of contamination to small mammals, either through surface contact or ingestion/inhalation. Three composite samples of at least five animals per sample were collected at each site. Pelts and carcasses of each animal were separated and analyzed independently. Samples were analyzed for americium ( 241 Am), strontium ( 90 Sr), plutonium ( 238 Pu and 239 Pu), total uranium (U), and examined by gamma spectroscopy (including cesium [ 137 Cs]). Significantly higher (parametric t-test at p = 0.05) levels of total U, 241 Am, 238 Pu, and potassium ( 40 K) were detected in pelts as compared to the carcasses of small mammals at TA-54. Concentrations of other measured radionuclides in carcasses were nearly equal to or exceeded the mean concentrations in the pelts. The results show higher concentrations in pelts compared to carcasses which is similar to what has been found at waste burial/contaminated sites outside of Los Alamos National Laboratory. Site 1 had significantly higher (alpha = 0.05, P = 0.0095) total U concentrations in carcasses than Sites 2 and 3. Site 2 had significantly higher (alpha = 0.05, P = 0.0195) 239 Pu concentrations in carcasses than either Site 1 or Site 3

Experimental site and design

Energy Technology Data Exchange (ETDEWEB)

Guenette, C. C. [SINTEF Applied Cemistry, Trondheim (Norway)

1999-08-01

Design and site selection criteria for the Svalbard oil spill experiments are described. All three experimental sites have coarse and mixed sediment beaches of sand and pebble; within each site wave exposure is very similar; along-shore and across-shore sediment characteristics are also relatively homogeneous. Tidal range is in the order of 0.6 m at neaps, and 1.8 m at springs. All three sites are open to wave action and are ice-free during the experimental period of mid-July to mid-October. Study plots at each site were selected for different treatments from within the continuous stretch of oiled shoreline, with oiled buffer zones between plots and at either end of the oiled zone. Treatments included mixing (tilling), sediment relocation (surf washing) and bioremediation (nutrient enrichment). Measurements and observations were carried out during the summers of 1997 and 1998. The characteristics measured were: wave and wind conditions; beach topography and elevation; sediment grain size distribution; mineral fines size distribution and mineral composition; background hydrocarbons; concentration of oil within experimental plots and the rate of oil loss over time; depth of oil penetration and thickness of the oiled sediment layer; oil concentration and toxicity of near-shore benthic sediments; mineral composition of suspended particulate material captured in sub-tidal sediment traps; and oil-fines interaction in near-shore water samples. 1 fig.

Experimental site and design

Energy Technology Data Exchange (ETDEWEB)

Guenette, C. C. [SINTEF Applied Cemistry, Trondheim (Norway)

1999-07-01

Design and site selection criteria for the Svalbard oil spill experiments are described. All three experimental sites have coarse and mixed sediment beaches of sand and pebble; within each site waveexposure is very similar; along-shore and across-shore sediment characteristics are also relatively homogeneous. Tidal range is in the order of 0.6 m at neaps, and 1.8 m at springs. All three sites are open to wave action and are ice-free during the experimental period of mid-July to mid-October. Study plots at each site were selected for different treatments from within the continuous stretch of oiled shoreline, with oiled buffer zones between plots and at either end of the oiled zone. Treatments included mixing (tilling), sediment relocation (surf washing) and bioremediation (nutrient enrichment). Measurements and observations were carried out during the summers of 1997 and 1998. The characteristics measured were: wave and wind conditions; beach topography and elevation; sediment grain size distribution; mineral fines size distribution and mineral composition; background hydrocarbons; concentration of oil within experimental plots and the rate of oil loss over time; depth of oil penetration and thickness of the oiled sediment layer; oil concentration and toxicity of near-shore benthic sediments; mineral composition of suspended particulate material captured in sub-tidal sediment traps; and oil-fines interaction in near-shore water samples. 1 fig.

Gamma-aminobutyric acid-modulated benzodiazepine binding sites in bacteria

International Nuclear Information System (INIS)

Lummis, S.C.R.; Johnston, G.A.R.; Nicoletti, G.; Holan, G.

1991-01-01

Benzodiazepine binding sites, which were once considered to exist only in higher vertebrates, are here demonstrated in the bacteria E. coli. The bacterial [ 3 H]diazepam binding sites are modulated by GABA; the modulation is dose dependent and is reduced at high concentrations. The most potent competitors of E.Coli [ 3 H]diazepam binding are those that are active in displacing [ 3 H]benzodiazepines from vertebrate peripheral benzodiazepine binding sites. These vertebrate sites are not modulated by GABA, in contrast to vertebrate neuronal benzodiazepine binding sites. The E.coli benzodiazepine binding sites therefore differ from both classes of vertebrate benzodiazepine binding sites; however the ligand spectrum and GABA-modulatory properties of the E.coli sites are similar to those found in insects. This intermediate type of receptor in lower species suggests a precursor for at least one class of vertebrate benzodiazepine binding sites may have existed

The Swedish Research Infrastructure for Ecosystem Science - SITES

Science.gov (United States)

Lindroth, A.; Ahlström, M.; Augner, M.; Erefur, C.; Jansson, G.; Steen Jensen, E.; Klemedtsson, L.; Langenheder, S.; Rosqvist, G. N.; Viklund, J.

2017-12-01

The vision of SITES is to promote long-term field-based ecosystem research at a world class level by offering an infrastructure with excellent technical and scientific support and services attracting both national and international researchers. In addition, SITES will make data freely and easily available through an advanced data portal which will add value to the research. During the first funding period, three innovative joint integrating facilities were established through a researcher-driven procedure: SITES Water, SITES Spectral, and SITES AquaNet. These new facilities make it possible to study terrestrial and limnic ecosystem processes across a range of ecosystem types and climatic gradients, with common protocols and similar equipment. In addition, user-driven development at the nine individual stations has resulted in e.g. design of a long-term agricultural systems experiment, and installation of weather stations, flux systems, etc. at various stations. SITES, with its integrative approach and broad coverage of climate and ecosystem types across Sweden, constitutes an excellent platform for state-of-the-art research projects. SITES' support the development of: A better understanding of the way in which key ecosystems function and interact with each other at the landscape level and with the climate system in terms of mass and energy exchanges. A better understanding of the role of different organisms in controlling different processes and ultimately the functioning of ecosystems. New strategies for forest management to better meet the many and varied requirements from nature conservation, climate and wood, fibre, and energy supply points of view. Agricultural systems that better utilize resources and minimize adverse impacts on the environment. Collaboration with other similar infrastructures and networks is a high priority for SITES. This will enable us to make use of each others' experiences, harmonize metadata for easier exchange of data, and support each

Low Dimensional Embedding of Climate Data for Radio Astronomical Site Testing in the Colombian Andes

Science.gov (United States)

Chaparro Molano, Germán; Ramírez Suárez, Oscar Leonardo; Restrepo Gaitán, Oscar Alberto; Marcial Martínez Mercado, Alexander

2017-10-01

We set out to evaluate the potential of the Colombian Andes for millimeter-wave astronomical observations. Previous studies for astronomical site testing in this region have suggested that nighttime humidity and cloud cover conditions make most sites unsuitable for professional visible-light observations. Millimeter observations can be done during the day, but require that the precipitable water vapor column above a site stays below ˜10 mm. Due to a lack of direct radiometric or radiosonde measurements, we present a method for correlating climate data from weather stations to sites with a low precipitable water vapor column. We use unsupervised learning techniques to low dimensionally embed climate data (precipitation, rain days, relative humidity, and sunshine duration) in order to group together stations with similar long-term climate behavior. The data were taken over a period of 30 years by 2046 weather stations across the Colombian territory. We find six regions with unusually dry, clear-sky conditions, ranging in elevations from 2200 to 3800 masl. We evaluate the suitability of each region using a quality index derived from a Bayesian probabilistic analysis of the station type and elevation distributions. Two of these regions show a high probability of having an exceptionally low precipitable water vapor column. We compared our results with global precipitable water vapor maps and find a plausible geographical correlation with regions with low water vapor columns (˜10 mm) at an accuracy of ˜20 km. Our methods can be applied to similar data sets taken in other countries as a first step toward astronomical site evaluation.

Numerous Sinusoidal and Other EMF Phenomena, At Present and Former Native American Sites, May Be Superimposing Themselves onto Regional Power Grids.

Science.gov (United States)

Cadran, Lawrence R.; Mc Leod, Roger D.; Mc Leod, David M.

2003-10-01

Periodic electromagnetic field signals (EMF), sometimes noticeable as faint blue-light or other phenomena, frequently are also detected at sites associated with Native Americans. We first noticed this sort of information in the vicinity of Wendell, MA about fourteen years ago. Similar and other signals are apparent at Americas Stonehenge, AS, in North Salem, NH. Connecticut provided our first evidence of superposition of two such waves at the Gungywamp site north of Groton, CT. A Maine location first showed orthogonally oriented trajectories in neighborhoods formerly frequented by Molocket and Metallak and their relatives near Rumford and Rangeley, ME. Florida exhibits similar signals in the vicinity of Hollywood and at Miamis Tequesta instrument, as does a separate site in CT. Powerful thunderstorms in the vicinity of a stone serpent effigy in Ohio cause EMF pulsations. Such signals are possibly superimposing themselves onto power-grids, where frequency changes and system instabilities may occur, according to the elementary physics involved.

Case-based reasoning diagnostic technique based on multi-attribute similarity

Energy Technology Data Exchange (ETDEWEB)

Makoto, Takahashi [Tohoku University, Miyagi (Japan); Akio, Gofuku [Okayama University, Okayamaa (Japan)

2014-08-15

Case-based diagnostic technique has been developed based on the multi-attribute similarity. Specific feature of the developed system is to use multiple attributes of process signals for similarity evaluation to retrieve a similar case stored in a case base. The present technique has been applied to the measurement data from Monju with some simulated anomalies. The results of numerical experiments showed that the present technique can be utilizes as one of the methods for a hybrid-type diagnosis system.

Potential for effects of land contamination on human health. 2. The case of waste disposal sites.

Science.gov (United States)

Kah, Melanie; Levy, Len; Brown, Colin

2012-01-01

This review of the epidemiological literature shows that evidence for negative impacts of land contaminated by waste disposal on human health is limited. However, the potential for health impacts cannot be dismissed. The link between residence close to hazardous waste disposal sites and heightened levels of stress and anxiety is relatively well established. However, studies on self-reported outcomes generally suffer from interpretational problems, as subjective symptoms may be due to increased perception and recall. Several recent multiple-site studies support a plausible linkage between residence near waste disposal sites and reproductive effects (including congenital anomalies and low birth weight). There is some conflict in the literature investigating links between land contamination and cancers; the evidence for and against a link is equally balanced and is insufficient to make causal inferences. These are difficult to establish because of lack of data on individual exposures, and other socioeconomic and lifestyle factors that may confound a relationship with area of residence. There is no consistently occurring risk for any specific tumor across multiple studies on sites expected to contain similar contaminants. Further insights on health effects of land contamination are likely to be gained from studies that consider exposure pathways and biomarkers of exposure and effect, similar to those deployed with some success in investigating impacts of cadmium on human health.

Upper Eocene Spherules at ODP Site 1090B

Science.gov (United States)

Liu, S.; Kyte, F. T.; Glass, B. P.; Gersonde, R.

2000-01-01

Our two labs independently discovered upper Eocene microtektites and microkrystites at ODP Site 1090, a new South Atlantic locality near the Agulhus Ridge. This is a significant new data point for the strewn fields of these spherules, which were recently extended into the Atlantic sector of the Southern Ocean when they were reported at ODP Site 689 on the Maude Rise. The microtektites have been regarded as related to North American tektites and the microkrystites as belonging to the clinopyroxene-bearing (cpx) spherule strewn field. Initial reports indicate that Site 1090 contains a complete sequence of upper Eocene sediments composed of diatom and nannofossil oozes. The magneto- and bio-stratigraphy indicate that impact-age sediments should occur in core 30X of Hole 1090B. One of us (FTK) took 2 cc samples at 10 cm intervals over 600 cm of core for Ir analyses and the senior author (SL) took 3 cc samples at 20 cm intervals to search for spherules. Both studies proved successful and additional samples were obtained to confirm initial results and better define the Ir anomaly and spherule abundances. Peak Ir concentrations of 0.97 ng/g were found at 1090B-30X-5, 105-106cm and 0.78 ng/g at 115-116 cm. Anomalous Ir concentrations (greater than 0.1 ng/g) extend over about 100 cm of core. Preliminary results indicate that the excess Ir at this site is about 25 ng per sq cm. About 380 microtektites (>63 pm) and 2492 microkrystites (>63 pm) were recovered over a 1.8 m interval with a peak abundance of microtektites (106/gram) and microkrystites (562/gram) at 1090B-30X- 5, 114-115 cm. The largest microtektite is approximately 960 x 1140 micron in size. About 55 % are spherical, and the rest are disc, cylinder, dumbbell, teardrop, or fragments. Most of the microtektites are transparent colorless, but a few are transparent pale brown or green. Preliminary data indicate that the microtektites at Site 1090 have similar major oxide compositions to those at Site 689. About 50% of

Genetic similarity among commercial oil palm materials based on microsatellite markers

Directory of Open Access Journals (Sweden)

Diana Arias

2012-08-01

Full Text Available Microsatellite markers are used to determine genetic similarities among individuals and might be used in various applications in breeding programs. For example, knowing the genetic similarity relationships of commercial planting materials helps to better understand their responses to environmental, agronomic and plant health factors. This study assessed 17 microsatellite markers in 9 crosses (D x P of Elaeis guineensis Jacq. from various commercial companies in Malaysia, France, Costa Rica and Colombia, in order to find possible genetic differences and/or similarities. Seventy-seven alleles were obtained, with an average of 4.5 alleles per primer and a range of 2-8 amplified alleles. The results show a significant reduction of alleles, compared to the number of alleles reported for wild oil palm populations. The obtained dendrogram shows the formation of two groups based on their genetic similarity. Group A, with ~76% similarity, contains the commercial material of 3 codes of Deli x La Mé crosses produced in France and Colombia, and group B, with ~66% genetic similarity, includes all the materials produced by commercial companies in Malaysia, France, Costa Rica and Colombia

Nonequivalence of alpha-bungarotoxin binding sites in the native nicotinic receptor molecule

International Nuclear Information System (INIS)

Conti-Tronconi, B.M.; Tang, F.; Walgrave, S.; Gallagher, W.

1990-01-01

In the native, membrane-bound form of the nicotinic acetylcholine receptor (M-AcChR) the two sites for the cholinergic antagonist alpha-bungarotoxin (alpha-BGT) have different binding properties. One site has high affinity, and the M-AcChR/alpha-BGT complexes thus formed dissociate very slowly, similar to the complexes formed with detergent-solubilized AcChR (S-AcChR). The second site has much lower affinity (KD approximately 59 +/- 35 nM) and forms quickly reversible complexes. The nondenaturing detergent Triton X-100 is known to solubilize the AcChR in a form unable, upon binding of cholinergic ligands, to open the ion channel and to become desensitized. Solubilization of the AcChR in Triton X-100 affects the binding properties of this second site and converts it to a high-affinity, slowly reversible site. Prolonged incubation of M-AcChR at 4 degrees C converts the low-affinity site to a high-affinity site similar to those observed in the presence of Triton X-100. Although the two sites have similar properties when the AcChR is solubilized in Triton X-100, their nonequivalence can be demonstrated by the effect on alpha-BGT binding of concanavalin A, which strongly reduces the association rate of one site only. The Bmax of alpha-BGT to either Triton-solubilized AcChR or M-AcChR is not affected by the presence of concanavalin A. Occupancy of the high-affinity, slowly reversible site in M-AcChR inhibits the Triton X-100 induced conversion to irreversibility of the second site. At difference with alpha-BGT, the long alpha-neurotoxin from Naja naja siamensis venom (alpha-NTX) binds with high affinity and in a very slowly reversible fashion to two sites in the M-AcChR. We confirm here that Triton-solubilized AcChR or M-AcChR binds in a very slowly reversible fashion the same amount of alpha-NTX

Protein-protein interaction network-based detection of functionally similar proteins within species.

Science.gov (United States)

Song, Baoxing; Wang, Fen; Guo, Yang; Sang, Qing; Liu, Min; Li, Dengyun; Fang, Wei; Zhang, Deli

2012-07-01

Although functionally similar proteins across species have been widely studied, functionally similar proteins within species showing low sequence similarity have not been examined in detail. Identification of these proteins is of significant importance for understanding biological functions, evolution of protein families, progression of co-evolution, and convergent evolution and others which cannot be obtained by detection of functionally similar proteins across species. Here, we explored a method of detecting functionally similar proteins within species based on graph theory. After denoting protein-protein interaction networks using graphs, we split the graphs into subgraphs using the 1-hop method. Proteins with functional similarities in a species were detected using a method of modified shortest path to compare these subgraphs and to find the eligible optimal results. Using seven protein-protein interaction networks and this method, some functionally similar proteins with low sequence similarity that cannot detected by sequence alignment were identified. By analyzing the results, we found that, sometimes, it is difficult to separate homologous from convergent evolution. Evaluation of the performance of our method by gene ontology term overlap showed that the precision of our method was excellent. Copyright © 2012 Wiley Periodicals, Inc.

Selection of Inhibitor-Resistant Viral Potassium Channels Identifies a Selectivity Filter Site that Affects Barium and Amantadine Block

Science.gov (United States)

Fujiwara, Yuichiro; Arrigoni, Cristina; Domigan, Courtney; Ferrara, Giuseppina; Pantoja, Carlos; Thiel, Gerhard; Moroni, Anna; Minor, Daniel L.

2009-01-01

Background Understanding the interactions between ion channels and blockers remains an important goal that has implications for delineating the basic mechanisms of ion channel function and for the discovery and development of ion channel directed drugs. Methodology/Principal Findings We used genetic selection methods to probe the interaction of two ion channel blockers, barium and amantadine, with the miniature viral potassium channel Kcv. Selection for Kcv mutants that were resistant to either blocker identified a mutant bearing multiple changes that was resistant to both. Implementation of a PCR shuffling and backcrossing procedure uncovered that the blocker resistance could be attributed to a single change, T63S, at a position that is likely to form the binding site for the inner ion in the selectivity filter (site 4). A combination of electrophysiological and biochemical assays revealed a distinct difference in the ability of the mutant channel to interact with the blockers. Studies of the analogous mutation in the mammalian inward rectifier Kir2.1 show that the T→S mutation affects barium block as well as the stability of the conductive state. Comparison of the effects of similar barium resistant mutations in Kcv and Kir2.1 shows that neighboring amino acids in the Kcv selectivity filter affect blocker binding. Conclusions/Significance The data support the idea that permeant ions have an integral role in stabilizing potassium channel structure, suggest that both barium and amantadine act at a similar site, and demonstrate how genetic selections can be used to map blocker binding sites and reveal mechanistic features. PMID:19834614

Draft reclamation program plan for site characterization

International Nuclear Information System (INIS)

1989-08-01

As part of its obligations under the Nuclear Waste Policy Act, as amended, the US Department of Energy (DOE) has developed an environmental program that is to be implemented during site characterization at the Yucca Mountain site. This site is proposed for the location of the nation's first high-level radioactive waste repository. A program for the reclamation of areas disturbed by site characterization is part of the overall environmental program for that site. This Reclamation Program Plan (RPP) describes the reclamation policy of the DOE for the Yucca Mountain site and presents an overview of the reclamation program. The RPP also provides an overview of the reclamation needs relative to site characterization; a review of legislation and requirements pertinent to reclamation; and a review of previous commitments made by the DOE to certain types of reclamation activities. The objective of the DOE reclamation program at Yucca Mountain is to return land disturbed by site-characterization activities to a stable ecological state with a form and productivity similar to the predisturbance state. The DOE will take all reasonable and necessary steps to achieve this objective. 19 refs., 2 tabs

On finding similar items in a stream of transactions

DEFF Research Database (Denmark)

Campagna, Andrea; Pagh, Rasmus

2010-01-01

While there has been a lot of work on finding frequent itemsets in transaction data streams, none of these solve the problem of finding similar pairs according to standard similarity measures. This paper is a first attempt at dealing with this, arguably more important, problem. We start out with ...... in random order, and show that surprisingly, not only is small-space similarity mining possible for the most common similarity measures, but the mining accuracy {\\em improves\\/} with the length of the stream for any fixed support threshold....... with a negative result that also explains the lack of theoretical upper bounds on the space usage of data mining algorithms for finding frequent itemsets: Any algorithm that (even only approximately and with a chance of error) finds the most frequent $k$-itemset must use space $\\Omega...

Interbehavioral psychology and radical behaviorism: Some similarities and differences

Science.gov (United States)

Morris, Edward K.

1984-01-01

Both J. R. Kantor's interbehavioral psychology and B. F. Skinner's radical behaviorism represent wellarticulated approaches to a natural science of behavior. As such, they share a number of similar features, yet they also differ on a number of dimensions. Some of these similarities and differences are examined by describing their emergence in the professional literature and by comparing the respective units of analysis of the two approaches—the interbehavioral field and the three-term contingency. An evaluation of the similarities and differences shows the similarities to be largely fundamental, and the differences largely ones of emphasis. Nonetheless, the two approaches do make unique contributions to a natural science of behavior, the integration of which can facilitate the development of that science and its acceptance among other sciences and within society at large. PMID:22478612

A Measure of Similarity Between Trajectories of Vessels

Directory of Open Access Journals (Sweden)

Le QI

2016-03-01

Full Text Available The measurement of similarity between trajectories of vessels is one of the kernel problems that must be addressed to promote the development of maritime intelligent traffic system (ITS. In this study, a new model of trajectory similarity measurement was established to improve the data processing efficiency in dynamic application and to reflect actual sailing behaviors of vessels. In this model, a feature point detection algorithm was proposed to extract feature points, reduce data storage space and save computational resources. A new synthesized distance algorithm was also created to measure the similarity between trajectories by using the extracted feature points. An experiment was conducted to measure the similarity between the real trajectories of vessels. The growth of these trajectories required measurements to be conducted under different voyages. The results show that the similarity measurement between the vessel trajectories is efficient and correct. Comparison of the synthesized distance with the sailing behaviors of vessels proves that results are consistent with actual situations. The experiment results demonstrate the promising application of the proposed model in studying vessel traffic and in supplying reliable data for the development of maritime ITS.

Base substitutions at scissile bond sites are sufficient to alter RNA-binding and cleavage activity of RNase III.

Science.gov (United States)

Kim, Kyungsub; Sim, Se-Hoon; Jeon, Che Ok; Lee, Younghoon; Lee, Kangseok

2011-02-01

RNase III, a double-stranded RNA-specific endoribonuclease, degrades bdm mRNA via cleavage at specific sites. To better understand the mechanism of cleavage site selection by RNase III, we performed a genetic screen for sequences containing mutations at the bdm RNA cleavage sites that resulted in altered mRNA stability using a transcriptional bdm'-'cat fusion construct. While most of the isolated mutants showed the increased bdm'-'cat mRNA stability that resulted from the inability of RNase III to cleave the mutated sequences, one mutant sequence (wt-L) displayed in vivo RNA stability similar to that of the wild-type sequence. In vivo and in vitro analyses of the wt-L RNA substrate showed that it was cut only once on the RNA strand to the 5'-terminus by RNase III, while the binding constant of RNase III to this mutant substrate was moderately increased. A base substitution at the uncleaved RNase III cleavage site in wt-L mutant RNA found in another mutant lowered the RNA-binding affinity by 11-fold and abolished the hydrolysis of scissile bonds by RNase III. Our results show that base substitutions at sites forming the scissile bonds are sufficient to alter RNA cleavage as well as the binding activity of RNase III. © 2010 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. All rights reserved.

Vika/vox, a novel efficient and specific Cre/loxP-like site-specific recombination system

Science.gov (United States)

Karimova, Madina; Abi-Ghanem, Josephine; Berger, Nicolas; Surendranath, Vineeth; Pisabarro, Maria Teresa; Buchholz, Frank

2013-01-01

Targeted genome engineering has become an important research area for diverse disciplines, with site-specific recombinases (SSRs) being among the most popular genome engineering tools. Their ability to trigger excision, integration, inversion and translocation has made SSRs an invaluable tool to manipulate DNA in vitro and in vivo. However, sophisticated strategies that combine different SSR systems are ever increasing. Hence, the demand for additional precise and efficient recombinases is dictated by the increasing complexity of the genetic studies. Here, we describe a novel site-specific recombination system designated Vika/vox. Vika originates from a degenerate bacteriophage of Vibrio coralliilyticus and shares low sequence similarity to other tyrosine recombinases, but functionally carries out a similar type of reaction. We demonstrate that Vika is highly specific in catalyzing vox recombination without recombining target sites from other SSR systems. We also compare the recombination activity of Vika/vox with other SSR systems, providing a guideline for deciding on the most suitable enzyme for a particular application and demonstrate that Vika expression does not cause cytotoxicity in mammalian cells. Our results show that Vika/vox is a novel powerful and safe instrument in the ‘genetic toolbox’ that can be used alone or in combination with other SSRs in heterologous hosts. PMID:23143104

Filling Predictable and Unpredictable Gaps, with and without Similarity-Based Interference: Evidence for LIFG Effects of Dependency Processing.

Science.gov (United States)

Leiken, Kimberly; McElree, Brian; Pylkkänen, Liina

2015-01-01

One of the most replicated findings in neurolinguistic literature on syntax is the increase of hemodynamic activity in the left inferior frontal gyrus (LIFG) in response to object relative (OR) clauses compared to subject relative clauses. However, behavioral studies have shown that ORs are primarily only costly when similarity-based interference is involved and recently, Leiken and Pylkkänen (2014) showed with magnetoencephalography (MEG) that an LIFG increase at an OR gap is also dependent on such interference. However, since ORs always involve a cue indicating an upcoming dependency formation, OR dependencies could be processed already prior to the gap-site and thus show no sheer dependency effects at the gap itself. To investigate the role of gap predictability in LIFG dependency effects, this MEG study compared ORs to verb phrase ellipsis (VPE), which was used as an example of a non-predictable dependency. Additionally, we explored LIFG sensitivity to filler-gap order by including right node raising structures, in which the order of filler and gap is reverse to that of ORs and VPE. Half of the stimuli invoked similarity-based interference and half did not. Our results demonstrate that LIFG effects of dependency can be elicited regardless of whether the dependency is predictable, the stimulus materials evoke similarity-based interference, or the filler precedes the gap. Thus, contrary to our own prior data, the current findings suggest a highly general role for the LIFG in dependency interpretation that is not limited to environments involving similarity-based interference. Additionally, the millisecond time-resolution of MEG allowed for a detailed characterization of the temporal profiles of LIFG dependency effects across our three constructions, revealing that the timing of these effects is somewhat construction-specific.

Site characterization plan overview: reference repository location, Hanford Site, Washington: Consultation draft: Nuclear Waste Policy Act (Section 113)

International Nuclear Information System (INIS)

1988-01-01

As part of the process for siting the nation's first geologic repository for radioactive waste, the Department of Energy (DOE) is preparing a site characterization plan for the Hanford site in Benton County, Washington. As a step in the preparation of that plan, the DOE has provided, for information and review, a consultation draft of the plan to the State of Washington, the affected Indian Tribes - the Confederated Tribes of the Umatilla Indian Reservation, the Nez Perce Indian Tribe, and the Yakima Indian Nation - and the US Nuclear Regulatory Commission. The Hanford site is one of three sites that the DOE currently plans to characterize;the other sites are the Deaf Smith County site in Texas and the Yucca Mountain site in Nevada. After site characterization has been completed and its results evaluated, the DOE will identify from among the three characterized sites the site that is preferred for the repository. The overview presented here consists of brief summaries of important topics covered in the consulation draft of the site characterization plan;it is not a substitute for the site characterization plan. The arrangement of the overview is similar to that of the plan itself, with breif descriptions of the dispoal system - the site, the repository, and the waste package - preceding the discussion of the characterization program to be carried out at the Hanford site. It is intended primarily for the management staff of organizations involved in the DOE's repository program or other persons who might wish to understand the general scope of the site-characterization program, the activities to be conducted, and the facilities to be constructed rather than the technical details of site characterization

Phoneme Similarity and Confusability

Science.gov (United States)

Bailey, T.M.; Hahn, U.

2005-01-01

Similarity between component speech sounds influences language processing in numerous ways. Explanation and detailed prediction of linguistic performance consequently requires an understanding of these basic similarities. The research reported in this paper contrasts two broad classes of approach to the issue of phoneme similarity-theoretically…

The possibility of distance methods application for snow dump sites monitoring

Directory of Open Access Journals (Sweden)

Pasko Olga

2016-01-01

Full Text Available In this article the results of remote sensing of the Earth for monitoring of four snow dump sites in Tomsk are described. Their compliance with permitted type of the territory use was evaluated. Earlier unknown time of the operation start was identified. The spatial-temporal variability of areas was defined. The temperature profiles of snow dump and background sites were analyzed. Use of remote sensing data allowed easy identification of snow dump sites creation time. The fact that the sites are located out of zones of permitted type of the territory use was revealed, that is violation of the law. For the first time the cartographic material was collected and showed that in the recent years their areas increased in average in 18%. The fore-cast for the nearest years was made. The article contains satellite images indicting the degradation of soil-vegetative cover of snow dumps. The reasons are contamination and overcooling of the soil in the beginning of vegetation period. The research results became the initial material for perfection of snow dumps territories management and will be applied in the work of environmental protecting service. Approaches proposed by authors may be used in solving similar problems in any region.

Mechanism of adenylate kinase. Dose adenosine 5'-triphosphate bind to the adenosine 5'-monophosphate site

Energy Technology Data Exchange (ETDEWEB)

Shyy, Y.J.; Tian, G.; Tsai, M.D.

1987-10-06

Although the subtrate binding properties of adenylate kinase (AK) have been studied extensively by various biochemical and biophysical techniques, it remains controversial whether uncomplexed adenosine 5'-triphosphate (ATP) binds to the adenosine 5'-monophosphate (AMP) site of AK. The authors present two sets of experiments which argue against binding of ATP to the AMP site. (a) /sup 31/P nuclear magnetic resonance titration of ATP with AK indicated a 1:1 stoichiometry on the basis of changes in coupling constants and line widths. This ruled out binding of ATP to both sites. (b) ATP and MgATP were found to behave similarly by protecting AK from spontaneous inactivation while AMP showed only a small degree of protection. Such inactivation could also be protected or reversed by dithioerythritol and is most likely due to oxidation of sulfhydryl groups, one of which (cysteine-25) is located near the MgATP site. The results support binding of ATP to the MgATP site predominantly, instead of the AMP site, in the absence of Mg/sup 2 +/.

Pretreatment evaluation of distant-site status in patients with nasopharyngeal carcinoma: accuracy of whole-body MRI at 3-Tesla and FDG-PET-CT

International Nuclear Information System (INIS)

Ng, Shu-Hang; Chan, Sheng-Chieh; Yen, Tzu-Chen; Chang, Joseph Tung-Chieh; Liao, Chun-Ta; Ko, Sheung-Fat; Wai, Yau-Yau; Wang, Hung-Ming; Wang, Jiun-Jie; Chen, Min-Chi

2009-01-01

We sought to prospectively evaluate the accuracy of 3.0-Tesla whole-body magnetic resonance imaging (WB-MRI) and integrated fluorodeoxyglucose (FDG) positron emission tomography (PET)/computed tomography (CT) (FDG-PET-CT), and their combined interpretation for the assessment of distant-site status in 150 patients with untreated nasopharyngeal carcinoma (NPC). Eighteen (12%) patients were diagnosed as having distant malignancies (15 patients had distant metastases, and three distant synchronous tumours). On a patient-based analysis, WB-MRI and FDG-PET-CT showed similar sensitivity (77.8% vs 72.2%, P > 0.999), specificity (98.5% vs 97.7%, P > 0.999) and diagnostic capability (0.905 vs 0.878, P = 0.669). Combined interpretation of WB-MRI and FDG-PET-CT showed no significant benefit over either technique alone. In conclusion, 3.0-Tesla WB-MRI is a feasible, non-ionising technique that showed similar diagnostic capacity to FDG-PET-CT in assessing distant-site status in patients with untreated NPC and can be recommended as the first-line imaging technique for comprehensive evaluation of such patients. (orig.)

Case studies of community relations on DOE's Formerly Utilized Sites Remedial Action Program as models for Superfund sites

International Nuclear Information System (INIS)

Plant, S.W.; Adler, D.G.

1995-01-01

Ever since the US Department of Energy (DOE) created its Formerly Utilized Sites Remedial Action Program (FUSRAP) in 1974, there has been a community relations program. The community relations effort has grown as FUSRAP has grown. With 20 of 46 sites now cleaned up, considerable experience in working with FUSRAP stakeholders has been gained. Why not share that experience with others who labor on the Superfund sites? Many similarities exist between the Superfund sites and FUSRAP. FUSRAP is a large, multiple-site environmental restoration program. The challenges range from small sites requiring remedial actions measurable in weeks to major sites requiring the full remedial investigation/feasibility study process. The numerous Superfund sites throughout the United States offer the same diversity, both geographically and technically. But before DOE offers FUSRAP's community relations experience as a model, it needs to make clear that this will be a realistic model. As experiences are shared, DOE will certainly speak of the efforts that achieved its goals. But many of the problems that DOE encountered along the way will also be related. FUSRAP relies on a variety of one- and two-way communication techniques for involving stakeholders in the DOE decision-making process. Some of the techniques and experiences from the case studies are presented

A vertex similarity index for better personalized recommendation

Science.gov (United States)

Chen, Ling-Jiao; Zhang, Zi-Ke; Liu, Jin-Hu; Gao, Jian; Zhou, Tao

2017-01-01

Recommender systems benefit us in tackling the problem of information overload by predicting our potential choices among diverse niche objects. So far, a variety of personalized recommendation algorithms have been proposed and most of them are based on similarities, such as collaborative filtering and mass diffusion. Here, we propose a novel vertex similarity index named CosRA, which combines advantages of both the cosine index and the resource-allocation (RA) index. By applying the CosRA index to real recommender systems including MovieLens, Netflix and RYM, we show that the CosRA-based method has better performance in accuracy, diversity and novelty than some benchmark methods. Moreover, the CosRA index is free of parameters, which is a significant advantage in real applications. Further experiments show that the introduction of two turnable parameters cannot remarkably improve the overall performance of the CosRA index.

Evidence for deep regulatory similarities in early developmental programs across highly diverged insects.

Science.gov (United States)

Kazemian, Majid; Suryamohan, Kushal; Chen, Jia-Yu; Zhang, Yinan; Samee, Md Abul Hassan; Halfon, Marc S; Sinha, Saurabh

2014-09-01

Many genes familiar from Drosophila development, such as the so-called gap, pair-rule, and segment polarity genes, play important roles in the development of other insects and in many cases appear to be deployed in a similar fashion, despite the fact that Drosophila-like "long germband" development is highly derived and confined to a subset of insect families. Whether or not these similarities extend to the regulatory level is unknown. Identification of regulatory regions beyond the well-studied Drosophila has been challenging as even within the Diptera (flies, including mosquitoes) regulatory sequences have diverged past the point of recognition by standard alignment methods. Here, we demonstrate that methods we previously developed for computational cis-regulatory module (CRM) discovery in Drosophila can be used effectively in highly diverged (250-350 Myr) insect species including Anopheles gambiae, Tribolium castaneum, Apis mellifera, and Nasonia vitripennis. In Drosophila, we have successfully used small sets of known CRMs as "training data" to guide the search for other CRMs with related function. We show here that although species-specific CRM training data do not exist, training sets from Drosophila can facilitate CRM discovery in diverged insects. We validate in vivo over a dozen new CRMs, roughly doubling the number of known CRMs in the four non-Drosophila species. Given the growing wealth of Drosophila CRM annotation, these results suggest that extensive regulatory sequence annotation will be possible in newly sequenced insects without recourse to costly and labor-intensive genome-scale experiments. We develop a new method, Regulus, which computes a probabilistic score of similarity based on binding site composition (despite the absence of nucleotide-level sequence alignment), and demonstrate similarity between functionally related CRMs from orthologous loci. Our work represents an important step toward being able to trace the evolutionary history of gene

Evidence for Deep Regulatory Similarities in Early Developmental Programs across Highly Diverged Insects

Science.gov (United States)

Zhang, Yinan; Samee, Md. Abul Hassan; Halfon, Marc S.; Sinha, Saurabh

2014-01-01

Many genes familiar from Drosophila development, such as the so-called gap, pair-rule, and segment polarity genes, play important roles in the development of other insects and in many cases appear to be deployed in a similar fashion, despite the fact that Drosophila-like “long germband” development is highly derived and confined to a subset of insect families. Whether or not these similarities extend to the regulatory level is unknown. Identification of regulatory regions beyond the well-studied Drosophila has been challenging as even within the Diptera (flies, including mosquitoes) regulatory sequences have diverged past the point of recognition by standard alignment methods. Here, we demonstrate that methods we previously developed for computational cis-regulatory module (CRM) discovery in Drosophila can be used effectively in highly diverged (250–350 Myr) insect species including Anopheles gambiae, Tribolium castaneum, Apis mellifera, and Nasonia vitripennis. In Drosophila, we have successfully used small sets of known CRMs as “training data” to guide the search for other CRMs with related function. We show here that although species-specific CRM training data do not exist, training sets from Drosophila can facilitate CRM discovery in diverged insects. We validate in vivo over a dozen new CRMs, roughly doubling the number of known CRMs in the four non-Drosophila species. Given the growing wealth of Drosophila CRM annotation, these results suggest that extensive regulatory sequence annotation will be possible in newly sequenced insects without recourse to costly and labor-intensive genome-scale experiments. We develop a new method, Regulus, which computes a probabilistic score of similarity based on binding site composition (despite the absence of nucleotide-level sequence alignment), and demonstrate similarity between functionally related CRMs from orthologous loci. Our work represents an important step toward being able to trace the evolutionary

Nuclear markers reveal that inter-lake cichlids' similar morphologies do not reflect similar genealogy.

Science.gov (United States)

Kassam, Daud; Seki, Shingo; Horic, Michio; Yamaoka, Kosaku

2006-08-01

The apparent inter-lake morphological similarity among East African Great Lakes' cichlid species/genera has left evolutionary biologists asking whether such similarity is due to sharing of common ancestor or mere convergent evolution. In order to answer such question, we first used Geometric Morphometrics, GM, to quantify morphological similarity and then subsequently used Amplified Fragment Length Polymorphism, AFLP, to determine if similar morphologies imply shared ancestry or convergent evolution. GM revealed that not all presumed morphological similar pairs were indeed similar, and the dendrogram generated from AFLP data indicated distinct clusters corresponding to each lake and not inter-lake morphological similar pairs. Such results imply that the morphological similarity is due to convergent evolution and not shared ancestry. The congruency of GM and AFLP generated dendrograms imply that GM is capable of picking up phylogenetic signal, and thus GM can be potential tool in phylogenetic systematics.

Communication between the Zinc and Nickel Sites in Dimeric HypA: Metal Recognition and pH Sensing

Energy Technology Data Exchange (ETDEWEB)

Herbst, R.; Perovic, I; Martin-Diaconescu, V; O’Brien, K; Chivers, P; Sondej Pochapsky, S; Pochapsky, T; Maroney, M

2010-01-01

Helicobacter pylori, a pathogen that colonizes the human stomach, requires the nickel-containing metalloenzymes urease and NiFe-hydrogenase to survive this low pH environment. The maturation of both enzymes depends on the metallochaperone, HypA. HypA contains two metal sites, an intrinsic zinc site and a low-affinity nickel binding site. X-ray absorption spectroscopy (XAS) shows that the structure of the intrinsic zinc site of HypA is dynamic and able to sense both nickel loading and pH changes. At pH 6.3, an internal pH that occurs during acid shock, the zinc site undergoes unprecedented ligand substitutions to convert from a Zn(Cys){sub 4} site to a Zn(His){sub 2}(Cys){sub 2} site. NMR spectroscopy shows that binding of Ni(II) to HypA results in paramagnetic broadening of resonances near the N-terminus. NOEs between the {beta}-CH{sub 2} protons of Zn cysteinyl ligands are consistent with a strand-swapped HypA dimer. Addition of nickel causes resonances from the zinc binding motif and other regions to double, indicating more than one conformation can exist in solution. Although the structure of the high-spin, 5-6 coordinate Ni(II) site is relatively unaffected by pH, the nickel binding stoichiometry is decreased from one per monomer to one per dimer at pH = 6.3. Mutation of any cysteine residue in the zinc binding motif results in a zinc site structure similar to that found for holo-WT-HypA at low pH and is unperturbed by the addition of nickel. Mutation of the histidines that flank the CXXC motifs results in a zinc site structure that is similar to holo-WT-HypA at neutral pH (Zn(Cys){sub 4}) and is no longer responsive to nickel binding or pH changes. Using an in vitro urease activity assay, it is shown that the recombinant protein is sufficient for recovery of urease activity in cell lysate from a HypA deletion mutant, and that mutations in the zinc-binding motif result in a decrease in recovered urease activity. The results are interpreted in terms of a model

Communication between the Zinc and Nickel Sites in Dimeric HypA: Metal Recognition and pH Sensing

International Nuclear Information System (INIS)

Herbst, R.; Perovic, I.; Martin-Diaconescu, V.; O'Brien, K.; Chivers, P.; Sondej Pochapsky, S.; Pochapsky, T.; Maroney, M.

2010-01-01

Helicobacter pylori, a pathogen that colonizes the human stomach, requires the nickel-containing metalloenzymes urease and NiFe-hydrogenase to survive this low pH environment. The maturation of both enzymes depends on the metallochaperone, HypA. HypA contains two metal sites, an intrinsic zinc site and a low-affinity nickel binding site. X-ray absorption spectroscopy (XAS) shows that the structure of the intrinsic zinc site of HypA is dynamic and able to sense both nickel loading and pH changes. At pH 6.3, an internal pH that occurs during acid shock, the zinc site undergoes unprecedented ligand substitutions to convert from a Zn(Cys) 4 site to a Zn(His) 2 (Cys) 2 site. NMR spectroscopy shows that binding of Ni(II) to HypA results in paramagnetic broadening of resonances near the N-terminus. NOEs between the β-CH 2 protons of Zn cysteinyl ligands are consistent with a strand-swapped HypA dimer. Addition of nickel causes resonances from the zinc binding motif and other regions to double, indicating more than one conformation can exist in solution. Although the structure of the high-spin, 5-6 coordinate Ni(II) site is relatively unaffected by pH, the nickel binding stoichiometry is decreased from one per monomer to one per dimer at pH = 6.3. Mutation of any cysteine residue in the zinc binding motif results in a zinc site structure similar to that found for holo-WT-HypA at low pH and is unperturbed by the addition of nickel. Mutation of the histidines that flank the CXXC motifs results in a zinc site structure that is similar to holo-WT-HypA at neutral pH (Zn(Cys) 4 ) and is no longer responsive to nickel binding or pH changes. Using an in vitro urease activity assay, it is shown that the recombinant protein is sufficient for recovery of urease activity in cell lysate from a HypA deletion mutant, and that mutations in the zinc-binding motif result in a decrease in recovered urease activity. The results are interpreted in terms of a model wherein HypA controls the

Hunted woolly monkeys (Lagothrix poeppigii show threat-sensitive responses to human presence.

Directory of Open Access Journals (Sweden)

Sarah Papworth

Full Text Available Responding only to individuals of a predator species which display threatening behaviour allows prey species to minimise energy expenditure and other costs of predator avoidance, such as disruption of feeding. The threat sensitivity hypothesis predicts such behaviour in prey species. If hunted animals are unable to distinguish dangerous humans from non-dangerous humans, human hunting is likely to have a greater effect on prey populations as all human encounters should lead to predator avoidance, increasing stress and creating opportunity costs for exploited populations. We test the threat sensitivity hypothesis in wild Poeppigi's woolly monkeys (Lagothrix poeppigii in Yasuní National Park, Ecuador, by presenting human models engaging in one of three behaviours "hunting", "gathering" or "researching". These experiments were conducted at two sites with differing hunting pressures. Visibility, movement and vocalisations were recorded and results from two sites showed that groups changed their behaviours after being exposed to humans, and did so in different ways depending on the behaviour of the human model. Results at the site with higher hunting pressure were consistent with predictions based on the threat sensitivity hypothesis. Although results at the site with lower hunting pressure were not consistent with the results at the site with higher hunting pressure, groups at this site also showed differential responses to different human behaviours. These results provide evidence of threat-sensitive predator avoidance in hunted primates, which may allow them to conserve both time and energy when encountering humans which pose no threat.

Radiocarbon dating of the Peruvian Chachapoya/Inca site at the Laguna de los Condores

International Nuclear Information System (INIS)

Wild, Eva Maria; Guillen, Sonia; Kutschera, Walter; Seidler, Horst; Steier, Peter

2007-01-01

In 1997 a new archaeological site was discovered in the Peruvian tropical rain forest. The site is located in an area which has been occupied by the Chachapoya, a pre-Incan people, from about 800AD on. The site comprises a large funerary place with several mausoleums built in the cliffs next to the Laguna de los Condores. More than 200 human mummies and funerary bone-bundles together with numerous grave artefacts have been found there. Although the site has been ascribed to the Chachapoya, the mummification method used is very similar to the one applied by the Inca. As part of an ongoing multidisciplinary project to explore the history of this site and of the Chachapoya people, twenty-seven (27) 14 C-AMS age determinations were performed. Samples, bones and textile wrappings as well as samples from a funerary bone bundle plus associated grave artefacts were dated. The 14 C data show that the site originates from the Chachapoya pre-Inca period and that in addition, it was used as a funerary place during the subsequent Inca occupation era. The radiocarbon results indicate that the Chachapoya may have changed their burial tradition due to the colonization by the Inca

The first Neanderthal remains from an open-air Middle Palaeolithic site in the Levant.

Science.gov (United States)

Been, Ella; Hovers, Erella; Ekshtain, Ravid; Malinski-Buller, Ariel; Agha, Nuha; Barash, Alon; Mayer, Daniella E Bar-Yosef; Benazzi, Stefano; Hublin, Jean-Jacques; Levin, Lihi; Greenbaum, Noam; Mitki, Netta; Oxilia, Gregorio; Porat, Naomi; Roskin, Joel; Soudack, Michalle; Yeshurun, Reuven; Shahack-Gross, Ruth; Nir, Nadav; Stahlschmidt, Mareike C; Rak, Yoel; Barzilai, Omry

2017-06-07

The late Middle Palaeolithic (MP) settlement patterns in the Levant included the repeated use of caves and open landscape sites. The fossil record shows that two types of hominins occupied the region during this period-Neandertals and Homo sapiens. Until recently, diagnostic fossil remains were found only at cave sites. Because the two populations in this region left similar material cultural remains, it was impossible to attribute any open-air site to either species. In this study, we present newly discovered fossil remains from intact archaeological layers of the open-air site 'Ein Qashish, in northern Israel. The hominin remains represent three individuals: EQH1, a nondiagnostic skull fragment; EQH2, an upper right third molar (RM 3 ); and EQH3, lower limb bones of a young Neandertal male. EQH2 and EQH3 constitute the first diagnostic anatomical remains of Neandertals at an open-air site in the Levant. The optically stimulated luminescence ages suggest that Neandertals repeatedly visited 'Ein Qashish between 70 and 60 ka. The discovery of Neandertals at open-air sites during the late MP reinforces the view that Neandertals were a resilient population in the Levant shortly before Upper Palaeolithic Homo sapiens populated the region.

Extending the Similarity-Attraction Effect : The effects of When-Similarity in mediated communication

NARCIS (Netherlands)

Kaptein, M.C.; Castaneda, D.; Fernandez, N.; Nass, C.

2014-01-01

The feeling of connectedness experienced in computer-mediated relationships can be explained by the similarity-attraction effect (SAE). Though SAE is well established in psychology, the effects of some types of similarity have not yet been explored. In 2 studies, we demonstrate similarity-attraction

Similar local and landscape processes affect both a common and a rare newt species.

Science.gov (United States)

Denoël, Mathieu; Perez, Amélie; Cornet, Yves; Ficetola, Gentile Francesco

2013-01-01

Although rare species are often the focus of conservation measures, more common species may experience similar decline and suffer from the same threatening processes. We tested this hypothesis by examining, through an information-theoretic approach, the importance of ecological processes at multiple scales in the great crested newt Triturus cristatus, regionally endangered and protected in Europe, and the more common smooth newt, Lissotriton vulgaris. Both species were similarly affected by the same processes, i.e. suitability of aquatic and terrestrial components of their habitat at different scales, connectivity among breeding sites, and the presence of introduced fish. T. cristatus depended more on water depth and aquatic vegetation than L. vulgaris. The results show that environmental pressures threaten both common and rare species, and therefore the more widespread species should not be neglected in conservation programs. Because environmental trends are leading to a deterioration of aquatic and terrestrial habitat features required by newt populations, populations of the common species may follow the fate of the rarest species. This could have substantial conservation implications because of the numerical importance of common species in ecosystems and because commonness could be a transient state moving towards rarity. On the other hand, in agreement with the umbrella species concept, targeting conservation efforts on the most demanding species would also protect part of the populations of the most common species.

Craniometric examination of Longxian and Qi Li Cun archaeological sites to assess population continuity in ancient northern China.

Science.gov (United States)

Gibbon, Victoria E; Porter, Tarun A; Wu, Xiujie; Liu, Wu

2016-10-01

In this paper, population continuity and discontinuity in northern China are explored using craniometric analyses from two archaeological sites, Longxian (Warring States) and Qi Li Cun (Han Dynasty). Neither population has been previously studied. Artefactual evidence shows the individuals from Qi Li Cun were Xianbei, descendants from Mongolia. Longxian is from further south in the central plains at an earlier time, thus, we expect to observe variability between these groups. In total, 24 cranial measurements were obtained on 66 crania from these sites. Howells's cranial measurements on Anyang (42 crania) and Hainan (83 crania) Chinese samples were included for comparative purposes. Less variability is expected between Longxian and Howells's Chinese data due to geographic and temporal similarity. With closer geographic and temporal affinity with Anyang, the expectation is for Longxian and Anyang to be similar. Few statistical differences exist between Longxian and Qi Li Cun; this was supported by the similarity found through principal components analysis (PCA). Regardless of sex, canonical discriminant analysis shows clustering of Longxian and Qi Li Cun separate from those of Anyang and Hainan. Their similarity indicates the people from Longxian and Qi Li Cun likely share Mongolian ancestry. Our results, supported by other studies, suggest that despite temporal differences, Mongolians living in China during the Warring States and Han dynasty retained their cultural and genetic Mongolian identity. These data add valuable bioarchaeological information regarding the peopling of northern China during a crucial period of cultural and political change in the Early Bronze Age and Iron Age. Copyright © 2016 Elsevier GmbH. All rights reserved.

The semantic similarity ensemble

Directory of Open Access Journals (Sweden)

Andrea Ballatore

2013-12-01

Full Text Available Computational measures of semantic similarity between geographic terms provide valuable support across geographic information retrieval, data mining, and information integration. To date, a wide variety of approaches to geo-semantic similarity have been devised. A judgment of similarity is not intrinsically right or wrong, but obtains a certain degree of cognitive plausibility, depending on how closely it mimics human behavior. Thus selecting the most appropriate measure for a specific task is a significant challenge. To address this issue, we make an analogy between computational similarity measures and soliciting domain expert opinions, which incorporate a subjective set of beliefs, perceptions, hypotheses, and epistemic biases. Following this analogy, we define the semantic similarity ensemble (SSE as a composition of different similarity measures, acting as a panel of experts having to reach a decision on the semantic similarity of a set of geographic terms. The approach is evaluated in comparison to human judgments, and results indicate that an SSE performs better than the average of its parts. Although the best member tends to outperform the ensemble, all ensembles outperform the average performance of each ensemble's member. Hence, in contexts where the best measure is unknown, the ensemble provides a more cognitively plausible approach.

Brazilian N2 laser similar to imported models

International Nuclear Information System (INIS)

Santos, P.A.M. dos; Tavares Junior, A.D.; Silva Reis, H. da; Tagliaferri, A.A.; Massone, C.A.

1981-09-01

The development of a high power N 2 Laser, similar to imported models but built enterely with Brazilian materials is described. The prototype shows pulse repetitivity that varies from 1 to 50 per second and has a peak power of 500 kW. (Author) [pt

APPROACHES TO ANALYZE THE QUALITY OF ROMANIAN TOURISM WEB SITES

Directory of Open Access Journals (Sweden)

Lacurezeanu Ramona

2013-07-01

The purpose of our work is to analyze travel web-sites, more exactly, whether the criteria used to analyze virtual stores are also adequate for the Romanian tourism product. Following the study, we concluded that the Romanian online tourism web-sites for the Romanian market have the features that we found listed on similar web-sites of France, England, Germany, etc. In conclusion, online Romanian tourism can be considered one of the factors of economic growth.

Site characterization plan overview: Yucca Mountain site, Nevada Research and Development Area, Nevada

Energy Technology Data Exchange (ETDEWEB)

NONE

1988-12-01

To help the public better understand both the SCP and the site characterization program, the DOE has prepared this overview and the SCP Public Handbook. The overview presents summaries of selected topics covered in the SCP; it is not a substitute for the SCP. The organization of the overview is similar to that of the SCP itself, with brief descriptions of the Yucca Mountain site, the repository, and the containers in which the waste would be packaged, followed by a discussion of the characterization program to be carried out at the Yucca Mountain site. This overview is intended primarily for those persons who want to understand the general scope and basis of the site-characterization program, the activities to be conducted, and the facilities to be constructed without spending the time necessary to become familiar with all of the technical details presented in the SCP. For the readers of the SCP, the overview will be useful as a general guide to the plan. The SCP Public Handbook is a short document that contains brief descriptions of the SCP process and the contents of the SCP. It also explains how the public can submit comments on the SCP and lists the libraries and reading rooms at which the SCP is available. 9 refs., 18 tabs.

Site characterization plan overview: Yucca Mountain site, Nevada Reserch and Development Area, Nevada

International Nuclear Information System (INIS)

1988-12-01

To help the public better understand both the SCP and the site characterization program, the DOE has prepared this overview and the SCP Public Handbook. The overview presents summaries of selected topics covered in the SCP; it is not a substitute for the SCP. The organization of the overview is similar to that of the SCP itself, with brief descriptions of the Yucca Mountain site, the repository, and the containers in which the waste would be packaged, followed by a discussion of the characterization program to be carried out at the Yucca Mountain site. This overview is intended primarily for those persons who want to understand the general scope and basis of the site-characterization program, the activities to be conducted, and the facilities to be constructed without spending the time necessary to become familiar with all of the technical details presented in the SCP. For the readers of the SCP, the overview will be useful as a general guide to the plan. The SCP Public Handbook is a short document that contains brief descriptions of the SCP process and the contents of the SCP. It also explains how the public can submit comments on the SCP and lists the libraries and reading rooms at which the SCP is available. 9 refs., 18 tabs

In vitro site selection of a consensus binding site for the Drosophila melanogaster Tbx20 homolog midline.

Directory of Open Access Journals (Sweden)

Nima Najand

Full Text Available We employed in vitro site selection to identify a consensus binding sequence for the Drosophila melanogaster Tbx20 T-box transcription factor homolog Midline. We purified a bacterially expressed T-box DNA binding domain of Midline, and used it in four rounds of precipitation and polymerase-chain-reaction based amplification. We cloned and sequenced 54 random oligonucleotides selected by Midline. Electromobility shift-assays confirmed that 27 of these could bind the Midline T-box. Sequence alignment of these 27 clones suggests that Midline binds as a monomer to a consensus sequence that contains an AGGTGT core. Thus, the Midline consensus binding site we define in this study is similar to that defined for vertebrate Tbx20, but differs from a previously reported Midline binding sequence derived through site selection.

SFR site investigation. Bedrock Hydrogeochemistry

International Nuclear Information System (INIS)

Nilsson, Ann-Chatrin; Tullborg, Eva-Lena; Smellie, John; Gimeno, Maria J.; Gomez, Javier B.; Auque, Luis F.; Sandstroem, Bjoern; Pedersen, Karsten

2011-11-01

-SMOW) similar to that reported from the Forsmark site investigations (Laaksoharju et al. 2008). At the SFR, marine indicators such as Mg/Cl, K/Cl and Br/Cl also show relatively large variations considering the limited salinity range. This information together with palaeoclimatic considerations were used to differentiate the groundwaters into four major types; 1) local Baltic Seawater type, 2) Littorina type water with a glacial component, 3) brackish-glacial water type, and 4) mixed brackish water (transition type). Based on these types, explorative analyses using traditional geochemical approaches have been performed initially to describe groundwater conditions (origin and evolution) followed by further detailed evaluation using different modelling approaches such as mixing modelling, geochemical equilibrium modelling and redox modelling. From measured Eh values, and in accordance with the chemistry of Fe, Mn, S and U, it is concluded that mildly reduced conditions (-140 to -190 mV) generally prevail in the investigated groundwaters and, importantly, also for the youngest Baltic Sea type groundwaters. In terms of redox buffer capacity, the most important fracture minerals available are the Fe(II)-bearing minerals coating the water conductive fractures, which at SFR comprise mainly chlorite, clay minerals and pyrite. Calcite coatings are also frequent, which results in a rapid response to changes in pH by dissolution or precipitation and thereby provides an important buffering capacity against acidification. The division into different groundwater types has facilitated interaction and integration with the geological and hydrogeological models making it possible to construct a hydrogeochemical site descriptive model for the SFR site. The distribution of the different groundwater types shows that the major deformation zones have served as important groundwater flow pathways over long periods of geological time while single discrete fractures in rock volumes between zones

SFR site investigation. Bedrock Hydrogeochemistry

Energy Technology Data Exchange (ETDEWEB)

Nilsson, Ann-Chatrin [Geosigma AB, Uppsala (Sweden); Tullborg, Eva-Lena [Terralogica AB, Graabo (Sweden); Smellie, John [Conterra AB, Uppsala (Sweden); Gimeno, Maria J.; Gomez, Javier B.; Auque, Luis F. [Univ. of Zaragoza, Zaragoza (Spain); Sandstroem, Bjoern [WSP Sverige AB, Goeteborg (Sweden); Pedersen, Karsten [Micans AB, Moelnlycke (Sweden)

2011-11-15

-SMOW) similar to that reported from the Forsmark site investigations (Laaksoharju et al. 2008). At the SFR, marine indicators such as Mg/Cl, K/Cl and Br/Cl also show relatively large variations considering the limited salinity range. This information together with palaeoclimatic considerations were used to differentiate the groundwaters into four major types; 1) local Baltic Seawater type, 2) Littorina type water with a glacial component, 3) brackish-glacial water type, and 4) mixed brackish water (transition type). Based on these types, explorative analyses using traditional geochemical approaches have been performed initially to describe groundwater conditions (origin and evolution) followed by further detailed evaluation using different modelling approaches such as mixing modelling, geochemical equilibrium modelling and redox modelling. From measured Eh values, and in accordance with the chemistry of Fe, Mn, S and U, it is concluded that mildly reduced conditions (-140 to -190 mV) generally prevail in the investigated groundwaters and, importantly, also for the youngest Baltic Sea type groundwaters. In terms of redox buffer capacity, the most important fracture minerals available are the Fe(II)-bearing minerals coating the water conductive fractures, which at SFR comprise mainly chlorite, clay minerals and pyrite. Calcite coatings are also frequent, which results in a rapid response to changes in pH by dissolution or precipitation and thereby provides an important buffering capacity against acidification. The division into different groundwater types has facilitated interaction and integration with the geological and hydrogeological models making it possible to construct a hydrogeochemical site descriptive model for the SFR site. The distribution of the different groundwater types shows that the major deformation zones have served as important groundwater flow pathways over long periods of geological time while single discrete fractures in rock volumes between zones

Summary report of the experiences from TVO's site investigations

International Nuclear Information System (INIS)

Oehberg, A.; Saksa, P.; Ahokas, H.; Ruotsalainen, P.; Snellman, M.

1994-09-01

In 1992 Teollisuuden Voima Oy (TVO) completed preliminary site investigations for radioactive waste disposal at five sites in Finland. The aim of this report was the compilation of the experiences from TVO's site investigations. The main interest was focused on investigation strategies and the most important investigation methods for the conceptual modelling. The objective of the preliminary site investigations was to obtain data on the bedrock properties in order to evaluate the areas. The programme was divided into four stages, each stage having its own subobjective. The site-specific investigation programme for each site included a large common part and a small site-specific part. The strategies (objectives) and experiences from different disciplines, geology, hydrogeochemistry, geophysics and geohydrology, are presented in the report. The conceptual modelling work procedure including both bedrock and groundwater modelling is described briefly using the Olkiluoto site as an example. Each of the other areas has undergone similar phases of work. (52 refs., 45 figs., 5 tabs.)

Morphological similarities between DBM and a microeconomic model of sprawl

Science.gov (United States)

Caruso, Geoffrey; Vuidel, Gilles; Cavailhès, Jean; Frankhauser, Pierre; Peeters, Dominique; Thomas, Isabelle

2011-03-01

We present a model that simulates the growth of a metropolitan area on a 2D lattice. The model is dynamic and based on microeconomics. Households show preferences for nearby open spaces and neighbourhood density. They compete on the land market. They travel along a road network to access the CBD. A planner ensures the connectedness and maintenance of the road network. The spatial pattern of houses, green spaces and road network self-organises, emerging from agents individualistic decisions. We perform several simulations and vary residential preferences. Our results show morphologies and transition phases that are similar to Dieletric Breakdown Models (DBM). Such similarities were observed earlier by other authors, but we show here that it can be deducted from the functioning of the land market and thus explicitly connected to urban economic theory.

Similar Symmetries: The Role of Wallpaper Groups in Perceptual Texture Similarity

Directory of Open Access Journals (Sweden)

Fraser Halley

2011-05-01

Full Text Available Periodic patterns and symmetries are striking visual properties that have been used decoratively around the world throughout human history. Periodic patterns can be mathematically classified into one of 17 different Wallpaper groups, and while computational models have been developed which can extract an image's symmetry group, very little work has been done on how humans perceive these patterns. This study presents the results from a grouping experiment using stimuli from the different wallpaper groups. We find that while different images from the same wallpaper group are perceived as similar to one another, not all groups have the same degree of self-similarity. The similarity relationships between wallpaper groups appear to be dominated by rotations.

Biometric identification of capillariid eggs from archaeological sites in Patagonia.

Science.gov (United States)

Taglioretti, V; Fugassa, M H; Beltrame, M O; Sardella, N H

2014-06-01

Numerous eggs of capillariid nematodes have been found in coprolites from a wide range of hosts and in raptor pellets in archaeological samples from Patagonia. The structure and sculpture of the eggshell of these nematodes and their biometry are commonly used for identification. The aim of this study was to determine whether eggs of the genus Calodium with similar morphology, found in different archaeological samples from Patagonia, belong to the same species. For this purpose, capillariid eggs (N= 843) with thick walls and radial striations were studied by permutational multivariate analysis of variance (PERMANOVA). Eggs exhibiting similar shape and structure also showed similar biometry, regardless of the zoological origin of coprolites (P= 0.84), host diet (P= 0.19), character of the archaeological sites (P= 0.67) and chronology (P= 0.66). Thus, they were attributed to the same species. We suggest that an unidentified zoonotic species of the genus Calodium occurred in the digestive tract of a wide range of hosts in Patagonia during the Holocene and that both human and animal populations were exposed to this parasite during the Holocene in the study area.

Rubiaceae in Brazilian Atlantic Forest remnants: floristic similarity and implications for conservation.

Science.gov (United States)

de Paiva, Alessandra Marques; Barberena, Felipe Fajardo Villela Antolin; Lopes, Rosana Conrado

2016-06-01

Brazil holds most of the Atlantic Forest Domain and is also one of the Rubiaceae diversity centers in the Neotropics. Despite the urban expansion in the state of Rio de Janeiro, large areas of continuous vegetation with high connectivity degree can still be found. Recently, new Rubiaceae species have been described in the Rio de Janeiro flora, which present small populations and very particular distribution. The current paper analyzed the similarity in the floristic composition of the Rubiaceae in eight Atlantic Forest remnants of Rio de Janeiro state protected by Conservation Units. We also surveyed and set guidelines for conservation of microendemic species. The similarity analysis were based on previously published studies in Área de Proteção Ambiental de Grumari, Área de Proteção Ambiental Palmares, Parque Estadual da Serra da Tiririca, Parque Nacional do Itatiaia, Parque Nacional de Jurubatiba, Reserva Biológica de Poço das Antas, Reserva Biológica do Tinguá and Reserva Ecológica de Macaé de Cima - using the PAST software (“Paleontological Statistics”) with Sørensen coefficient. The floristic similarity analysis revealed two groups with distinct physiographic characteristics and different vegetation types. Group A consisted in two Restinga areas, Área de Proteção Ambiental de Grumari and Parque Nacional de Jurubatiba, which showed strong bootstrap support (98 %). Group B included forest remnants with distinct phytophisiognomies or altitudes, but with moderate bootstrap support. Low similarity levels among the eight areas were found due to the habitats’ heterogeneity. The current study pointed out 19 microendemic species from the Atlantic Forest, they present a single-site distribution or a distribution restricted to Mountain and Metropolitan regions of Rio de Janeiro state. Concerning the conservation status of microendemic species, discrepancies between the Catalogue of Flora of Rio de Janeiro and the Red Book of Brazilian Flora (two of

Popularity versus similarity in growing networks

Science.gov (United States)

Krioukov, Dmitri; Papadopoulos, Fragkiskos; Kitsak, Maksim; Serrano, Mariangeles; Boguna, Marian

2012-02-01

Preferential attachment is a powerful mechanism explaining the emergence of scaling in growing networks. If new connections are established preferentially to more popular nodes in a network, then the network is scale-free. Here we show that not only popularity but also similarity is a strong force shaping the network structure and dynamics. We develop a framework where new connections, instead of preferring popular nodes, optimize certain trade-offs between popularity and similarity. The framework admits a geometric interpretation, in which preferential attachment emerges from local optimization processes. As opposed to preferential attachment, the optimization framework accurately describes large-scale evolution of technological (Internet), social (web of trust), and biological (E.coli metabolic) networks, predicting the probability of new links in them with a remarkable precision. The developed framework can thus be used for predicting new links in evolving networks, and provides a different perspective on preferential attachment as an emergent phenomenon.

Pro-eating disorder communities on social networking sites: a content analysis.

Science.gov (United States)

Juarascio, Adrienne S; Shoaib, Amber; Timko, C Alix

2010-01-01

The purpose of this study was to assess the number of pro-ana groups on social networking sites and to analyze their content. A general inductive approach was used to analyze the content. Two main themes emerged from the content analysis: social support and eating disorder specific content. Themes were similar across all groups; however, a linguistic analysis indicated differences between groups on the two different networking sites. There was an absence of content typically found on Internet sites. Pro-ana groups on social networking sites are focused on social interactions, and lack eating disorder specific content found on Internet sites.

ITER plant layout and site services

International Nuclear Information System (INIS)

Chuyanov, V.A.

2000-01-01

The ITER site has not yet been determined. Nevertheless, to develop a construction plan and a cost estimate, it is necessary to have a detailed layout of the buildings, structures and outdoor equipment integrated with the balance of plant service systems prototypical of large fusion power plants. These services include electrical power for magnet feeds and plasma heating systems, cryogenic and conventional cooling systems, compressed air, gas supplies, demineralized water, steam and drainage. Nuclear grade facilities are provided to handle tritium fuel and activated waste, as well as to prevent radiation exposure of workers and the public. To prevent interference between services of different types and for efficient arrangement of buildings, structures and equipment within the site area, a plan was developed which segregated different classes of services to four quadrants surrounding the tokamak building, placed at the approximate geographical centre of the site. The locations of the buildings on the generic site were selected to meet all design requirements at minimum total project cost. A similar approach was used to determine the locations of services above, at and below grade. The generic site plan can be adapted to the site selected for ITER without significant changes to the buildings or equipment. Some rearrangements may be required by site topography, resulting primarily in changes to the length of services that link the buildings and equipment. (author)

Open dumping of municipal solid waste and its hazardous impacts on soil and vegetation diversity at waste dumping sites of Islamabad city

Directory of Open Access Journals (Sweden)

Syeda Maria Ali

2014-01-01

Full Text Available Deteriorating soil quality and decrease in vegetation abundance are grave consequences of open waste dumping which have resulted in growing public concern. The focus of this study is to assess the contribution of open waste dumping in soil contamination and its effect on plant diversity in one of the renowned green cities of Pakistan. Surface soil samples (n = 12 + 12 were collected from both the open waste dumping areas allocated by Capital Development Authority (CDA and sub- sectors of H-belt of Islamabad city (representative of control site. The diversity of vegetation was studied at both sampling sites. Significant modifications were observed in the soil properties of the dumping sites. Soils at the disposal sites showed high pH, TDS and EC regime in comparison to control sites. Various heavy metal concentrations i.e., Lead (Pb, Copper (Cu, Nickel (Ni, Chromium (Cr and Zinc (Zn were also found to be higher at the dumping sites except for Cadmium (Cd which had a higher value in control site. A similar trend was observed in plant diversity. Control sites showed diversified variety of plants i.e., 44 plant species while this number reduced to only 32 plant species at the disposal sites. This is attributed to changes in soil characteristics at disposal sites and in its vicinity areas.

Remaining Sites Verification Package for the 600-233 Waste Site, Vertical Pipe Near 100-B Electrical Laydown Area. Attachment to Waste Site Reclassification Form 2005-041

International Nuclear Information System (INIS)

Carlson, R.A.

2005-01-01

The 600-233 waste site consisted of three small-diameter pipelines within the 600-232 waste site, including previously unknown diesel fuel supply lines discovered during site remediation. The 600-233 waste site has been remediated to achieve the remedial action objectives specified in the Remaining Sites ROD. The results of verification sampling show that residual contaminant concentrations do not preclude any future uses and allow for unrestricted use of shallow zone soils. The results also demonstrate that residual contaminant concentrations are protective of groundwater and the Columbia River

Mapping the heparin-binding site of the BMP antagonist gremlin by site-directed mutagenesis based on predictive modelling.

Science.gov (United States)

Tatsinkam, Arnold Junior; Mulloy, Barbara; Rider, Christopher C

2015-08-15

Gremlin is a member of the CAN (cerberus and DAN) family of secreted BMP (bone morphogenetic protein) antagonists and also an agonist of VEGF (vascular endothelial growth factor) receptor-2. It is critical in limb skeleton and kidney development and is re-expressed during tissue fibrosis. Gremlin binds strongly to heparin and heparan sulfate and, in the present study, we sought to investigate its heparin-binding site. In order to explore a putative non-contiguous binding site predicted by computational molecular modelling, we substituted a total of 11 key arginines and lysines located in three basic residue sequence clusters with homologous sequences from cerberus and DAN (differential screening selected gene abberative in neuroblastoma), CAN proteins which lack basic residues in these positions. A panel of six Myc-tagged gremlin mutants, MGR-1-MGR-6 (MGR, mutant gremlin), each containing different combinations of targeted substitutions, all showed markedly reduced affinity for heparin as demonstrated by their NaCl elution on heparin affinity chromatography, thus verifying our predictions. Both MGR-5 and MGR-6 retained BMP-4-binding activity comparable to that of wild-type gremlin. Low-molecular-mass heparin neither promoted nor inhibited BMP-4 binding. Finally, glutaraldehyde cross-linking demonstrated that gremlin forms non-covalent dimers, similar behaviour to that of DAN and also PRDC (protein related to cerberus and DAN), another CAN protein. The resulting dimer would possess two heparin-binding sites, each running along an exposed surface on the second β-strand finger loop of one of the monomers. © 2015 Authors; published by Portland Press Limited.

Distribution of chemical warfare agent, energetics, and metals in sediments at a deep-water discarded military munitions site

Science.gov (United States)

Briggs, Christian; Shjegstad, Sonia M.; Silva, Jeff A. K.; Edwards, Margo H.

2016-06-01

There is a strong need to understand the behavior of chemical warfare agent (CWA) at underwater discarded military munitions (DMM) sites to determine the potential threat to human health or the environment, yet few studies have been conducted at sites in excess of 250 m, the depth at which most U.S. chemical munitions were disposed. As part of the Hawai'i Undersea Military Munitions Assessment (HUMMA), sediments adjacent to chemical and conventional DMM at depths of 400-650 m were sampled using human occupied vehicles (HOVs) in order to quantify the distribution of CWA, energetics, and select metals. Sites in the same general area, with no munitions within 50 m in any direction were sampled as a control. Sulfur mustard (HD) and its degradation product 1,4-dithiane were detected at each CWA DMM site, as well as a single sample with the HD degradation product 1,4-thioxane. An energetic compound was detected in sediment to a limited extent at one CWA DMM site. Metals common in munitions casings (i.e., Fe, Cu, and Pb) showed similar trends at the regional and site-wide scales, likely reflecting changes in marine sediment deposition and composition. This study shows HD and its degradation products can persist in the deep-marine environment for decades following munitions disposal.

Wind resource modelling for micro-siting - Validation at a 60-MW wind farm site

Energy Technology Data Exchange (ETDEWEB)

Hansen, J C; Gylling Mortensen, N [Risoe National Lab., Wind Energy and Atmospheric Physics Dept., Roskilde (Denmark); Said, U S [New and Renewable Energy Authority, Cairo (Egypt)

1999-03-01

This paper investigates and validates the applicability of the WAsP-model for layout optimization and micro-siting of wind turbines at a given site for a 60-MW wind farm at Zafarana at the Gulf of Suez in Egypt. Previous investigations show large gradients in the wind climate within the area. For the design and optimization of the wind farm it was found necessary to verify the WAsP extrapolation of wind atlas results from 2 existing meteorological masts located 5 and 10 km, respectively, from the wind farm site. On-site measurements at the 3.5 x 3.5 km{sup 2} wind farm site in combination with 7 years of near-site wind atlas measurements offer significant amounts of data for verification of wind conditions for micro-siting. Wind speeds, wind directions, turbulence intensities and guests in 47.5 m a.g.l. have been measured at 9 locations across the site. Additionally, one of the site masts is equipped as a reference mast, measuring both vertical profiles of wind speed and temperature as well as air pressure and temperature. The exercise is further facilitated by the fact that winds are highly uni-directional; the north direction accounting for 80-90% of the wind resource. The paper presents comparisons of 5 months of on-site measurements and modeled predictions from 2 existing meteorological masts located at distances of 5 and 10 km, respectively, from the wind farm site. Predictions based on terrain descriptions of the Wind Atlas for the Gulf of Suez 1991-95 showed over-predictions of wind speeds of 4-10%. With calibrated terrain descriptions, made based on measured data and a re-visit to critical parts of the terrain, the average prediction error of wind speeds was reduced to about 1%. These deviations are smaller than generally expected for such wind resource modeling, clearly documenting the validity of using WAsP modeling for micro-siting and layout optimization of the wind farm. (au)

Similar distributions of repaired sites in chromatin of normal and xeroderma pigmentosum variant cells damaged by ultraviolet light

International Nuclear Information System (INIS)

Cleaver, J.E.

1979-01-01

Excision repair of damage from ultraviolet light in both normal and xeroderma pigmentosum variant fibroblasts at early times after irradiation occurred preferentially in regions of DNA accessible to micrococcal nuclease digestion. These regions are predominantly the linker regions between nucleosomes in chromatin. The alterations reported at polymerization and ligation steps of excision repair in the variant are therefore not associated with changes in the relative distributions of repair sites in linker and core particle regions of DNA. (Auth.)

Blood donor show behaviour after an invitation to donate : The influence of collection site factors

NARCIS (Netherlands)

Merz, E.-M.; Zijlstra, B.J.H.; de Kort, W.L.A.M.

2017-01-01

Background and Objectives Show behaviour after invitation to donate varies considerably across donors. More insight into this variation is important for blood banks in achieving stable stocks. This study examined individual factors determining intended show behaviour. Most importantly, however, this

Blood donor show behavior after an invitation to donate: The influence of collection site factors

NARCIS (Netherlands)

Merz, E.M.; Zijlstra, Bonne; De Kort, Wim L.A.M.

2017-01-01

Background and Objectives Show behaviour after invitation to donate varies considerably across donors. More insight into this variation is important for blood banks in achieving stable stocks. This study examined individual factors determining intended show behaviour. Most importantly, however, this

On site remediation of a fuel spill and soil reuse in Antarctica.

Science.gov (United States)

McWatters, R S; Wilkins, D; Spedding, T; Hince, G; Raymond, B; Lagerewskij, G; Terry, D; Wise, L; Snape, I

2016-11-15

The first large-scale remediation of fuel contamination in Antarctica treated 10000L of diesel dispersed in 1700t of soil, and demonstrated the efficacy of on-site bioremediation. The project progressed through initial site assessment and natural attenuation, passive groundwater management, then active remediation and the managed reuse of soil. Monitoring natural attenuation for the first 12years showed contaminant levels in surface soil remained elevated, averaging 5000mg/kg. By contrast, in five years of active remediation (excavation and biopile treatment) contaminant levels decreased by a factor of four. Chemical indicators showed hydrocarbon loss was apportioned to both biodegradation and evaporative processes. Hydrocarbon degradation rates were assessed against biopile soil temperatures, showing a phase of rapid degradation (first 100days above soil temperature threshold of 0°C) followed by slower degradation (beyond 100days above threshold). The biopiles operated successfully within constraints typical of harsh climates and remote sites, including limitations on resources, no external energy inputs and short field seasons. Non-native microorganisms (e.g. inoculations) and other organic materials (e.g. bulking agents) are prohibited in Antarctica making this cold region more challenging for remediation than the Arctic. Biopile operations included an initial fertiliser application, biannual mechanical turning of the soil and minimal leachate recirculation. The biopiles are a practical approach to remediate large quantities of contaminated soil in the Antarctic and already 370t have been reused in a building foundation. The findings presented demonstrate that bioremediation is a viable strategy for Antarctica and other cold regions. Operators can potentially use the modelled relationship between days above 0°C (threshold temperature) and the change in degradation rates to estimate how long it would take to remediate other sites using the biopile technology

Mutational analysis of the nucleotide binding site of Escherichia coli dCTP deaminase

DEFF Research Database (Denmark)

Thymark, Majbritt; Johansson, Eva; Larsen, Sine

2007-01-01

detectable activity with a 30- and 140-fold reduction in k(cat), respectively. Furthermore, S111T and E138D both showed altered dTTP inhibition compared to wild-type enzyme. S111T was almost insensitive to the presence of dTTP. With the E138D enzyme the dTTP dependent increase in cooperativity of d...... of E138D in complex with dUTP showed a hydrogen bonding network in the active site similar to wild-type enzyme. However, changes in the hydrogen bond lengths between the carboxylate and a catalytic water molecule as well as a slightly different orientation of the pyrimidine ring of the bound nucleotide...

Stochastic self-similar and fractal universe

International Nuclear Information System (INIS)

Iovane, G.; Laserra, E.; Tortoriello, F.S.

2004-01-01

The structures formation of the Universe appears as if it were a classically self-similar random process at all astrophysical scales. An agreement is demonstrated for the present hypotheses of segregation with a size of astrophysical structures by using a comparison between quantum quantities and astrophysical ones. We present the observed segregated Universe as the result of a fundamental self-similar law, which generalizes the Compton wavelength relation. It appears that the Universe has a memory of its quantum origin as suggested by R. Penrose with respect to quasi-crystal. A more accurate analysis shows that the present theory can be extended from the astrophysical to the nuclear scale by using generalized (stochastically) self-similar random process. This transition is connected to the relevant presence of the electromagnetic and nuclear interactions inside the matter. In this sense, the presented rule is correct from a subatomic scale to an astrophysical one. We discuss the near full agreement at organic cell scale and human scale too. Consequently the Universe, with its structures at all scales (atomic nucleus, organic cell, human, planet, solar system, galaxy, clusters of galaxy, super clusters of galaxy), could have a fundamental quantum reason. In conclusion, we analyze the spatial dimensions of the objects in the Universe as well as space-time dimensions. The result is that it seems we live in an El Naschie's E-infinity Cantorian space-time; so we must seriously start considering fractal geometry as the geometry of nature, a type of arena where the laws of physics appear at each scale in a self-similar way as advocated long ago by the Swedish school of astrophysics

Role of volatilization in changing TBA and MTBE concentrations at MTBE-contaminated sites.

Science.gov (United States)

Eweis, Juana B; Labolle, Eric M; Benson, David A; Fogg, Graham E

2007-10-01

Tertiary butyl alcohol (TBA) is commonly found as an impurity in methyl tertiary butyl ether (MTBE) added to gasoline. Frequent observations of high TBA, and especially rising TBA/MTBE concentration ratios, in groundwater at gasoline spill sites are generally attributed to microbial conversion of MTBE to TBA. Typically overlooked is the role of volatilization in the attenuation of these chemicals especially in the vadose zone, which is a source of contamination to groundwater. Here we show that volatilization, particularly through remediation by vapor extraction, can substantially affect the trends in TBA and MTBE concentrations and the respective mass available to impact groundwater aquifers, through the preferential removal of more volatile compounds, including MTBE, and the apparent enrichment of less volatile compounds like TBA. We demonstrate this phenomenon through numerical simulations of remedial-enhanced volatilization. Results show increases in TBA/MTBE concentration ratios consistent with ratios observed in groundwater at gasoline spill sites. Volatilization is an important, and potentially dominant, process that can result in concentration trends similar to those typically attributed to biodegradation.

Brick-Burning Kiln from the Zhaiyk Fortified Site

Directory of Open Access Journals (Sweden)

Kalmenov Murat D.

2013-12-01

Full Text Available The article contains a description of the brick-burning kiln, which was discovered during the 2012 excavations on the medieval Zhaiyk fortified site (Western Kazakhstan oblast. A similar object had been discovered on the site in 2002. Kilns of similar design were known on the vast territories of Southeastern Europe and Central Asia in the 10th-15th cc. In the 13th-15th centuries, they were widely spread in the territory of the Golden Horde. The analysis of their design, combined with written sources and ethnographic data, allows reconstructing the operation process of such kilns in general lines. The finds of kilns on the Zhaiyk settlement make it possible to suggest that in the 13th-14th centuries there existed a developed construction materials production in the territory of the settlement.

Self-similar oscillations of a Z pinch

International Nuclear Information System (INIS)

Felber, F.S.

1982-01-01

A new analytic, self-similar solution of the equations of ideal magnetohydrodynamics describes cylindrically symmetric plasmas conducting constant current. The solution indicates that an adiabatic Z pinch oscillates radially with a period typically of the order of a few acoustic transit times. A stability analysis, which shows the growth rate of the sausage instability to be a saturating function of wavenumber, suggests that the oscillations are observable

Siting study for small platform-mounted industrial energy reactors

International Nuclear Information System (INIS)

1975-07-01

Utilizing an existing 313 MW(t) ship propulsion reactor design, a concept has been formulated for a floating platform-mounted nuclear plant and an evaluation has been made to determine reductions in construction time and cost achievable by repetitive platform construction in a shipyard. Concepts and estimates are presented for siting platform-mounted nuclear plants at the location of industrial facilities where the nuclear plants would furnish industrial process heat and/or electrical power. The representative industrial site designated for this study is considered typical of sites that might be used along the extensive network of navigable canals adjacent to the ocean and is similar to potential sites along the inland waterways of the United States

Color-Based Image Retrieval from High-Similarity Image Databases

DEFF Research Database (Denmark)

Hansen, Michael Adsetts Edberg; Carstensen, Jens Michael

2003-01-01

Many image classification problems can fruitfully be thought of as image retrieval in a "high similarity image database" (HSID) characterized by being tuned towards a specific application and having a high degree of visual similarity between entries that should be distinguished. We introduce...... a method for HSID retrieval using a similarity measure based on a linear combination of Jeffreys-Matusita (JM) distances between distributions of color (and color derivatives) estimated from a set of automatically extracted image regions. The weight coefficients are estimated based on optimal retrieval...... performance. Experimental results on the difficult task of visually identifying clones of fungal colonies grown in a petri dish and categorization of pelts show a high retrieval accuracy of the method when combined with standardized sample preparation and image acquisition....

Similar or different?

DEFF Research Database (Denmark)

Cornér, Solveig; Pyhältö, Kirsi; Peltonen, Jouni

2018-01-01

Previous research has identified researcher community and supervisory support as key determinants of the doctoral journey contributing to students’ persistence and robustness. However, we still know little about cross-cultural variation in the researcher community and supervisory support experien...... counter partners, whereas the Finnish students perceived lower levels of instrumental support than the Danish students. The findings imply that seemingly similar contexts hold valid differences in experienced social support and educational strategies at the PhD level....... experienced by PhD students within the same discipline. This study explores the support experiences of 381 PhD students within the humanities and social sciences from three research-intensive universities in Denmark (n=145) and Finland (n=236). The mixed methods design was utilized. The data were collected...... counter partners. The results also indicated that the only form of support in which the students expressed more matched support than mismatched support was informational support. Further investigation showed that the Danish students reported a high level of mismatch in emotional support than their Finnish...

A Progress Evaluation of Four Bilingual Children's Television Shows.

Science.gov (United States)

Klein, Stephen P.; And Others

An evaluation of a bilingual education TV series was conducted involving 6-year-old English speaking, Spanish speaking, and bilingual children at four sites. Children were assigned to control and experimental groups with the latter group seeing four 30 minute shows. A pretest-posttest design was employed with the pretest serving as the covariate…

Small mammal populations at hazardous waste disposal sites near Houston, Texas, USA

Science.gov (United States)

Robbins, C.S.

1990-01-01

Small mammals were trapped, tagged and recaptured in 0?45 ha plots at six hazardous industrial waste disposal sites to determine if populations, body mass and age structures were different from paired control site plots. Low numbers of six species of small mammals were captured on industrial waste sites or control sites. Only populations of hispid cotton rats at industrial waste sites and control sites were large enough for comparisons. Overall population numbers, age structure, and body mass of adult male and female cotton rats were similar at industrial waste sites and control sites. Populations of small mammals (particularly hispid cotton rats) may not suffice as indicators of environments with hazardous industrial waste contamination.

Clustering and visualizing similarity networks of membrane proteins.

Science.gov (United States)

Hu, Geng-Ming; Mai, Te-Lun; Chen, Chi-Ming

2015-08-01

We proposed a fast and unsupervised clustering method, minimum span clustering (MSC), for analyzing the sequence-structure-function relationship of biological networks, and demonstrated its validity in clustering the sequence/structure similarity networks (SSN) of 682 membrane protein (MP) chains. The MSC clustering of MPs based on their sequence information was found to be consistent with their tertiary structures and functions. For the largest seven clusters predicted by MSC, the consistency in chain function within the same cluster is found to be 100%. From analyzing the edge distribution of SSN for MPs, we found a characteristic threshold distance for the boundary between clusters, over which SSN of MPs could be properly clustered by an unsupervised sparsification of the network distance matrix. The clustering results of MPs from both MSC and the unsupervised sparsification methods are consistent with each other, and have high intracluster similarity and low intercluster similarity in sequence, structure, and function. Our study showed a strong sequence-structure-function relationship of MPs. We discussed evidence of convergent evolution of MPs and suggested applications in finding structural similarities and predicting biological functions of MP chains based on their sequence information. © 2015 Wiley Periodicals, Inc.

Classifying Multi-Model Wheat Yield Impact Response Surfaces Showing Sensitivity to Temperature and Precipitation Change

Science.gov (United States)

Fronzek, Stefan; Pirttioja, Nina; Carter, Timothy R.; Bindi, Marco; Hoffmann, Holger; Palosuo, Taru; Ruiz-Ramos, Margarita; Tao, Fulu; Trnka, Miroslav; Acutis, Marco;

Characterization of a Smad motif similar to Drosophila mad in the mouse Msx 1 promoter.

Science.gov (United States)

Alvarez Martinez, Cristina E; Binato, Renata; Gonzalez, Sayonara; Pereira, Monica; Robert, Benoit; Abdelhay, Eliana

2002-03-01

Mouse Msx 1 gene, orthologous of the Drosophila msh, is involved in several developmental processes. BMP family members are major proteins in the regulation of Msx 1 expression. BMP signaling activates Smad 1/5/8 proteins, which associate to Smad 4 before translocating to the nucleus. Analysis of Msx 1 promoter revealed the presence of three elements similar to the consensus established for Mad, the Smad 1 Drosophila counterpart. Notably, such an element was identified in an enhancer important for Msx 1 regulation. Gel shift analysis demonstrated that proteins from 13.5 dpc embryo associate to this enhancer. Remarkably, supershift assays showed that Smad proteins are present in the complex. Purified Smad 1 and 4 also bind to this fragment. We demonstrate that functional binding sites in this enhancer are confined to the Mad motif and flanking region. Our data suggest that this Mad motif may be functional in response to BMP signaling. ©2002 Elsevier Science (USA).

Closure Strategy Nevada Test Site Area 5 Radioactive Waste Management Site

Energy Technology Data Exchange (ETDEWEB)

NSTec Environmental Management

2007-03-01

This paper presents an overview of the strategy for closure of part of the Area 5 Radioactive Waste Management Site (RWMS) at the Nevada Test Site (NTS), which is about 65 miles northwest of Las Vegas, Nevada (Figure 1). The Area 5 RWMS is in the northern part of Frenchman Flat, approximately 14 miles north of Mercury. The Area 5 RWMS encompasses 732 acres subdivided into quadrants, and is bounded by a 1,000-foot (ft)-wide buffer zone. The northwest and southwest quadrants have not been developed. The northeast and southeast quadrants have been used for disposal of unclassified low-level radioactive waste (LLW) and indefinite storage of classified materials. This paper focuses on closure of the 38 waste disposal and classified material storage units within the southeast quadrant of the Area 5 RWMS, called the ''92-Acre Area''. The U.S Department of Energy (DOE), National Nuclear Security Administration Nevada Site Office (NNSA/NSO) is currently planning to close the 92-Acre Area by 2011. Closure planning for this site must take into account the regulatory requirements for a diversity of waste streams, disposal and storage configurations, disposal history, and site conditions. For ease of discussion, the 92-Acre Area has been subdivided into six closure units defined by waste type, location, and similarity in regulatory requirements. Each of the closure units contains one or more waste disposal units; waste disposal units are also called waste disposal cells. The paper provides a brief background of the Area 5 RWMS, identifies key closure issues for the 92-Acre Area, recommends actions to address the issues, and provides the National Security Technologies, LLC (NSTec), schedule for closure.

General siting regulation and population distribution criteria for Greece

International Nuclear Information System (INIS)

Kollas, J.; Yadigaroglu, G.

1983-01-01

A new national regulation for nuclear power plant siting is described. The main body of the regulation is similar in contents to the IAEA Code of Practice in siting, but exceeds its scope in certain areas and covers all aspects of the impact of the plant on the population and the environment of the region, including non-radiological effects. The regulation is accompanied by appendices which refer to site suitability criteria with respect to the radiological consequences from the operational states of the plant and with respect to accidents, including core-melt accidents; these reflect the particular geographic and demographic situation of Greece

Plant water status relationships among major floodplain sites of the Flathead River, Montana

Science.gov (United States)

Lee, L.C.; Hinckley, T.M.; Scott, M.L.

1985-01-01

Water status measurements of dominant species from major floodplain plant community types of the North Fork Flathead River, Montana were used to test the accuracy of site moisture gradient relationships postulated from floristic ordinations and site water balance estimates. Analysis of variance tests showed significant differences among the average predawn xylem pressure potential (ψp) of species in several community types. However, additional analyses failed to indicate a significant degree of association between averaged predawn Yp measurements and either floristic ordination or site water balance results. Sixty eight percent of 22 trials comparing the diurnal average ψp of the same species in different community types on the same day were less negative for a species in the wetter community types as predicted by floristic ordinations. Similarly, 64% of the trials indicated that the diurnal average stomatal conductance was higher for a species in the wetter type. These results suggest that although a floodplain moisture gradient exists, it alone does not limit the distribution of floodplain plant communities in the North Fork.

Gender similarities and differences.

Science.gov (United States)

Hyde, Janet Shibley

2014-01-01

Whether men and women are fundamentally different or similar has been debated for more than a century. This review summarizes major theories designed to explain gender differences: evolutionary theories, cognitive social learning theory, sociocultural theory, and expectancy-value theory. The gender similarities hypothesis raises the possibility of theorizing gender similarities. Statistical methods for the analysis of gender differences and similarities are reviewed, including effect sizes, meta-analysis, taxometric analysis, and equivalence testing. Then, relying mainly on evidence from meta-analyses, gender differences are reviewed in cognitive performance (e.g., math performance), personality and social behaviors (e.g., temperament, emotions, aggression, and leadership), and psychological well-being. The evidence on gender differences in variance is summarized. The final sections explore applications of intersectionality and directions for future research.

Similarity and Equality in Greek Mathematics: Semiotics, History of Mathematics, and Mathematics Education

Science.gov (United States)

Fried, Michael N.

2009-01-01

The first goal of this article to show the profound difference between how equality and similarity are understood in Greek geometry and how they are presented in modern mathematics classes. It highlights that the formula "equal-and-similar" reflects the distinct character of "equal" and "similar" as signs in Greek…

Remaining Sites Verification Package for the 100-D-2 Lead Sheeting Waste Site. Attachment to Waste Site Reclassification Form 2007-030

International Nuclear Information System (INIS)

Dittmer, L.M.

2008-01-01

The 100-D-2 Lead Sheeting waste site was located approximately 50 m southwest of the 185-D Building and approximately 16 m north of the east/west oriented road. The site consisted of a lead sheet covering a concrete pad. In accordance with this evaluation, the verification sampling results support a reclassification of this site to Interim Closed Out. The results of verification sampling show that residual contaminant concentrations do not preclude any future uses and allow for unrestricted use of shallow zone soils. The results also demonstrate that residual contaminant concentrations are protective of groundwater and the Columbia River

Improved personalized recommendation based on a similarity network

Science.gov (United States)

Wang, Ximeng; Liu, Yun; Xiong, Fei

2016-08-01

A recommender system helps individual users find the preferred items rapidly and has attracted extensive attention in recent years. Many successful recommendation algorithms are designed on bipartite networks, such as network-based inference or heat conduction. However, most of these algorithms define the resource-allocation methods for an average allocation. That is not reasonable because average allocation cannot indicate the user choice preference and the influence between users which leads to a series of non-personalized recommendation results. We propose a personalized recommendation approach that combines the similarity function and bipartite network to generate a similarity network that improves the resource-allocation process. Our model introduces user influence into the recommender system and states that the user influence can make the resource-allocation process more reasonable. We use four different metrics to evaluate our algorithms for three benchmark data sets. Experimental results show that the improved recommendation on a similarity network can obtain better accuracy and diversity than some competing approaches.

Similarity Theory and Dimensionless Numbers in Heat Transfer

Science.gov (United States)

Marin, E.; Calderon, A.; Delgado-Vasallo, O.

2009-01-01

We present basic concepts underlying the so-called similarity theory that in our opinion should be explained in basic undergraduate general physics courses when dealing with heat transport problems, in particular with those involving natural or free convection. A simple example is described that can be useful in showing a criterion for neglecting…

Harmonization of multi-site diffusion tensor imaging data.

Science.gov (United States)

Fortin, Jean-Philippe; Parker, Drew; Tunç, Birkan; Watanabe, Takanori; Elliott, Mark A; Ruparel, Kosha; Roalf, David R; Satterthwaite, Theodore D; Gur, Ruben C; Gur, Raquel E; Schultz, Robert T; Verma, Ragini; Shinohara, Russell T

2017-11-01

Diffusion tensor imaging (DTI) is a well-established magnetic resonance imaging (MRI) technique used for studying microstructural changes in the white matter. As with many other imaging modalities, DTI images suffer from technical between-scanner variation that hinders comparisons of images across imaging sites, scanners and over time. Using fractional anisotropy (FA) and mean diffusivity (MD) maps of 205 healthy participants acquired on two different scanners, we show that the DTI measurements are highly site-specific, highlighting the need of correcting for site effects before performing downstream statistical analyses. We first show evidence that combining DTI data from multiple sites, without harmonization, may be counter-productive and negatively impacts the inference. Then, we propose and compare several harmonization approaches for DTI data, and show that ComBat, a popular batch-effect correction tool used in genomics, performs best at modeling and removing the unwanted inter-site variability in FA and MD maps. Using age as a biological phenotype of interest, we show that ComBat both preserves biological variability and removes the unwanted variation introduced by site. Finally, we assess the different harmonization methods in the presence of different levels of confounding between site and age, in addition to test robustness to small sample size studies. Copyright © 2017 Elsevier Inc. All rights reserved.

Extending the Similarity-Attraction Effect: The Effects of When-Similarity in Computer-Mediated Communication

NARCIS (Netherlands)

Kaptein, M.C.; Castaneda, D.; Fernandez, N.; Nass, C.

2014-01-01

The feeling of connectedness experienced in computer-mediated relationships can be explained by the similarity-attraction effect (SAE). Though SAE is well established in psychology, the effects of some types of similarity have not yet been explored. In 2 studies, we demonstrate similarity-attraction

Isolated Fe sites in Metal Organic Framework catalyze the direct conversion of methane to methanol

KAUST Repository

Osadchii, Dmitrii; Olivos Suarez, Alma Itzel; Szé csé nyi, Á gnes; Li, Guanna; Nasalevich, Maxim A.; Dugulan, A Iulian; Serra-Crespo, Pablo; Hensen, Emiel J. M.; Veber, Sergey L.; Fedin, Matvey V.; Sankar, Gopinathan; Pidko, Evgeny A; Gascon, Jorge

2018-01-01

Hybrid materials bearing organic and inorganic motives have been extensively discussed as playgrounds for the implementation of atomically resolved inorganic sites within a confined environment, with an exciting similarity to enzymes. Here, we present the successful design of a site-isolated mixed-metal Metal Organic Framework that mimics the reactivity of soluble methane monooxygenase enzyme reactivity and demonstrates the potential of this strategy to overcome current challenges in selective methane oxidation. We describe the synthesis and characterisation of an Fe-containing MOF that comprises the desired antiferromagnetically cou-pled high spin species in a coordination environment closely resembling that of the enzyme. An electrochemi-cal synthesis method is used to build the microporous MOF matrix while integrating, with an exquisite con-trol, the atomically dispersed Fe active sites in the crystalline scaffold. The model mimics the catalytic C-H activation behaviour of the enzyme to produce methanol, and shows that the key to this reactivity is the for-mation of isolated oxo-bridged Fe units.

Isolated Fe sites in Metal Organic Framework catalyze the direct conversion of methane to methanol

KAUST Repository

Osadchii, Dmitrii

2018-05-10

Hybrid materials bearing organic and inorganic motives have been extensively discussed as playgrounds for the implementation of atomically resolved inorganic sites within a confined environment, with an exciting similarity to enzymes. Here, we present the successful design of a site-isolated mixed-metal Metal Organic Framework that mimics the reactivity of soluble methane monooxygenase enzyme reactivity and demonstrates the potential of this strategy to overcome current challenges in selective methane oxidation. We describe the synthesis and characterisation of an Fe-containing MOF that comprises the desired antiferromagnetically cou-pled high spin species in a coordination environment closely resembling that of the enzyme. An electrochemi-cal synthesis method is used to build the microporous MOF matrix while integrating, with an exquisite con-trol, the atomically dispersed Fe active sites in the crystalline scaffold. The model mimics the catalytic C-H activation behaviour of the enzyme to produce methanol, and shows that the key to this reactivity is the for-mation of isolated oxo-bridged Fe units.

Simulations show decreasing carbon stocks and potential for carbon emissions in Rocky Mountain forests over the next century.

Science.gov (United States)

Boisvenue, Céline; Running, Steven W

2010-07-01

Climate change has altered the environment in which forests grow, and climate change models predict more severe alterations to come. Forests have already responded to these changes, and the future temperature and precipitation scenarios are of foremost concern, especially in the mountainous western United States, where forests occur in the dry environments that interface with grasslands. The objective of this study was to understand the trade-offs between temperature and water controls on these forested sites in the context of available climate projections. Three temperature and precipitation scenarios from IPCC AR4 AOGCMs ranging in precipitation levels were input to the process model Biome-BGC for key forested sites in the northern U.S. Rocky Mountains. Despite the omission of natural and human-caused disturbances in our simulations, our results show consequential effects from these conservative future temperature and precipitation scenarios. According to these projections, if future precipitation and temperatures are similar to or drier than the dry scenario depicted here, high-elevation forests on both the drier and wetter sites, which have in the absence of disturbance accumulated carbon, will reduce their carbon accumulation. Under the marginally drier climate projections, most forests became carbon sources by the end of the simulation horizon (2089). Under all three scenarios, growing season lengthened, the number of days with snow on the ground decreased, peak snow occurred earlier, and water stress increased through the projection horizon (1950-2089) for all sites, which represent the temperature and precipitation spectrum of forests in this region. The quantity, form, and timing of precipitation ultimately drive the carbon accumulation trajectory of forests in this region.

Identification of Polyadenylation Sites within Arabidopsis Thaliana

KAUST Repository

Kalkatawi, Manal

2011-09-01

Machine Learning (ML) is a field of artificial intelligence focused on the design and implementation of algorithms that enable creation of models for clustering, classification, prediction, ranking and similar inference tasks based on information contained in data. Many ML algorithms have been successfully utilized in a variety of applications. The problem addressed in this thesis is from the field of bioinformatics and deals with the recognition of polyadenylation (poly(A)) sites in the genomic sequence of the plant Arabidopsis thaliana. During the RNA processing, a tail consisting of a number of consecutive adenine (A) nucleotides is added to the terminal nucleotide of the 3’- untranslated region (3’UTR) of the primary RNA. The process in which these A nucleotides are added is called polyadenylation. The location in the genomic DNA sequence that corresponds to the start of terminal A nucleotides (i.e. to the end of 3’UTR) is known as a poly(A) site. Recognition of the poly(A) sites in DNA sequence is important for better gene annotation and understanding of gene regulation. In this study, we built an artificial neural network (ANN) for the recognition of poly(A) sites in the Arabidopsis thaliana genome. Our study demonstrates that this model achieves improved accuracy compared to the existing predictive models for this purpose. The key factor contributing to the enhanced predictive performance of our ANN model is a distinguishing set of features used in creation of the model. These features include a number of physico-chemical characteristics of relevance, such as dinucleotide thermodynamic characteristics, electron-ion interaction potential, etc., but also many of the statistical properties of the DNA sequences from the region surrounding poly(A) site, such as nucleotide and polynucleotide properties, common motifs, etc. Our ANN model was compared in performance with several other ML models, as well as with the PAC tool that is specifically developed for

Estimating correlation and covariance matrices by weighting of market similarity

OpenAIRE

Michael C. M\\"unnix; Rudi Sch\\"afer; Oliver Grothe

2010-01-01

We discuss a weighted estimation of correlation and covariance matrices from historical financial data. To this end, we introduce a weighting scheme that accounts for similarity of previous market conditions to the present one. The resulting estimators are less biased and show lower variance than either unweighted or exponentially weighted estimators. The weighting scheme is based on a similarity measure which compares the current correlation structure of the market to the structures at past ...

Savannah River Site's Site Specific Plan

International Nuclear Information System (INIS)

1991-01-01

This Site Specific Plan (SSP) has been prepared by the Savannah River Site (SRS) in order to show the Environmental Restoration and Waste Management activities that were identified during the preparation of the Department of Energy-Headquarters (DOE-HQ) Environmental Restoration and Waste Management Five-Year Plan (FYP) for FY 1992--1996. The SSP has been prepared in accordance with guidance received from DOE-HQ. DOE-SR is accountable to DOE-HQ for the implementation of this plan. The purpose of the SSP is to develop a baseline for policy, budget, and schedules for the DOE Environmental Restoration and Waste Management activities. The plan explains accomplishments since the Fiscal Year (FY) 1990 plan, demonstrates how present and future activities are prioritized, identifies currently funded activities and activities that are planned to be funded in the upcoming fiscal year, and describes future activities that SRS is considering

Marine Export Production and Remineralization During Early Eocene Hyperthermal Events at ODP Site 1263, Walvis Ridge, ODP Site 1209, Shatsky Rise and ODP Site 1215, Equatorial Pacific Ocean

Science.gov (United States)

Lewis, A.; Griffith, E. M.; Thomas, E.; Winguth, A. M. E.

2017-12-01

Understanding the impacts of global hyperthermal events on marine productivity and remineralization is important for understanding the reaction of the ocean to major climate change. Marine export production and remineralization was reconstructed using marine (pelagic) barite accumulation rates (BAR) coupled with records of benthic foraminiferal assemblages across the Paleocene - Eocene Thermal Maximum (PETM) at 55.3 Ma, Eocene Thermal Maximum 2 (ETM2) 2 Ma later, and ETM3 3.1 Ma after the PETM. Marine barite accumulates in deep sea sediment precipitating in the overlying water column during degradation of organic matter exported from the photic zone. Foraminiferal data indicate the amount of organic matter reaching the seafloor. We use the difference between these records to infer changes in rates of remineralization. We present data from ODP Site on Walvis Ridge, Southeastern Atlantic; ODP Site 1209 on Shatsky Rise, North Pacific; and ODP Site 1215, equatorial Pacific. Sites 1263 and 1215 had maximum BAR roughly centered over the maximum negative PETM CIE, whereas at Site 1209 the maximum was before the PETM. The maximum BAR across ETM2 and ETM3 (0.5 and 0.25 of that at the PETM, respectively) was centered over the maximum negative CIE at Site 1263. At Site 1209, the BAR (0.5 the maximum value before the PETM) peaked before ETM2. Barite concentration at Site 1215 was low across at the smaller hyperthermals, but the onset of ETM2 had a maximum value food arrival at the seafloor during elevated BAR, thus indicating enhanced remineralization. During the PETM, at all 3 sites, increases in barite coincided with reduced BFAR. Similar trends were observed during ETM2 at Sites 1263 and 1215, suggesting dramatic changes in remineralization over all hyperthermal events at these sites. Increased remineralization rates could partly account for differences in planktonic and benthic extinction, as observed during the PETM.

Measuring site occupancy

DEFF Research Database (Denmark)

Rogowska-Wrzesinska, Adelina; Wojdyla, Katarzyna; Williamson, James

2014-01-01

occupancy of the modification site. We show that, on one hand, heavily modified cysteines are not necessarily involved in the response to oxidative stress. On the other hand residues with low modification level can be dramatically affected by mild oxidative imbalance. We make use of high resolution mass...... peptides corresponding to 90 proteins. Only 6 modified peptides changed significantly under mild oxidative stress. Quantitative information allowed us to determine relative modification site occupancy of each identified modified residue and pin point heavily modified ones. The method proved to be precise...... and sensitive enough to detect and quantify endogenous levels of oxidative stress on proteome-wide scale and brings a new perspective on the role of the modification site occupancy in cellular redox response....

Somatostatin receptor 2 knockout/lacZ knockin mice show impaired motor coordination and reveal sites of somatostatin action within the striatum.

Science.gov (United States)

Allen, Jeremy P; Hathway, Gareth J; Clarke, Neil J; Jowett, Mike I; Topps, Stephanie; Kendrick, Keith M; Humphrey, Patrick P A; Wilkinson, Lawrence S; Emson, Piers C

2003-05-01

The peptide somatostatin can modulate the functional output of the basal ganglia. The exact sites and mechanisms of this action, however, are poorly understood, and the physiological context in which somatostatin acts is unknown. Somatostatin acts as a neuromodulator via a family of five 7-transmembrane G protein-coupled receptors, SSTR1-5, one of which, SSTR2, is known to be functional in the striatum. We have investigated the role of SSTR2 in basal ganglia function using mice in which Sstr2 has been inactivated and replaced by the lacZ reporter gene. Analysis of Sstr2lacZ expression in the brain by beta-galactosidase histochemistry demonstrated a widespread pattern of expression. By comparison to previously published in situ hybridization and immunohistochemical data, Sstr2lacZ expression was shown to accurately recapitulate that of Sstr2 and thus provided a highly sensitive model to investigate cell-type-specific expression of Sstr2. In the striatum, Sstr2 expression was identified in medium spiny projection neurons restricted to the matrix compartment and in cholinergic interneurons. Sstr2 expression was not detected in any other nuclei of the basal ganglia except for a sparse number of nondopaminergic neurons in the substantia nigra. Microdialysis in the striatum showed Sstr2-null mice were selectively refractory to somatostatin-induced dopamine and glutamate release. In behavioural tests, Sstr2-null mice showed normal levels of locomotor activity and normal coordination in undemanding tasks. However, in beam-walking, a test of fine motor control, Sstr2-null mice were severely impaired. Together these data implicate an important neuromodulatory role for SSTR2 in the striatum.

Entrance C - Meyrin site: new access conditions

CERN Multimedia

2013-01-01

Entrance C on the Meyrin site, which drivers of motorised vehicles can use Mondays to Fridays from 7 a.m. to 9 a.m. and from 5 p.m. to 7 p.m., has been altered to include a turnstile to allow cyclists and pedestrians to use their access card to get in and out of the site from 6 a.m. until 10 p.m.   The following video illustrates how to use the new turnstile: A new type of entrance gate fitted with a number plate reader similar to that installed at the entrance to the Prévessin site should, once fully tested, allow drivers of motorised vehicles to access the site. For the time being, the conditions of use of Entrance C remain unchanged. Further information on the entry into force of new arrangements will be issued in due course. For further information about CERN entrances: CERN opening hours CERN control access GS Department

Growth study and essential oil analysis of Piper aduncum from two sites of Cerrado biome of Minas Gerais State, Brazil

Directory of Open Access Journals (Sweden)

Gisele L. Oliveira

Full Text Available Piper aduncum L., Piperaceae, stands out due to its biological activities, however, it is still found in the wild and little is known about its agronomic point of view. The aim of this study was to evaluate the growth and to analyze the chemical composition of essential oils from leaves of P. aduncum collected in two different sites of Cerrado as well as in cultivated plants. The cultivation was installed out in a greenhouse using cuttings of adult specimens. Essential oils were obtained from fresh leaves. Plants from the two studied locations showed erect growth habit and behavior of linear growth. The essential oils composition of P. aduncum from Bocaiuva did not differ between wild and cultivated plants, as the major substance identified as 1,8-cineole. The plants from Montes Claros site showed a distinct concentration for the two samples, being the major substance characterized as transocimene (13.4% for wild and 1,8-cineole (31.3% for cultivated plants. Samples from both locations showed a similar essential oil composition in cultivars. Our results showed that P. aduncum cultivation is feasible and the variation in chemical composition of the two sites may indicate an environmental influence, since chemical and isoenzyme analysis did not show great differences.

Comparison of equivalent linear and non linear methods on ground response analysis: case study at West Bangka site

International Nuclear Information System (INIS)

Eko Rudi Iswanto; Eric Yee

2016-01-01

Within the framework of identifying NPP sites, site surveys are performed in West Bangka (WB), Bangka-Belitung Island Province. Ground response analysis of a potential site has been carried out using peak strain profiles and peak ground acceleration. The objective of this research is to compare Equivalent Linear (EQL) and Non Linear (NL) methods of ground response analysis on the selected NPP site (West Bangka) using Deep Soil software. Equivalent linear method is widely used because requires soil data in simple way and short time of computational process. On the other hand, non linear method is capable of representing the actual soil behaviour by considering non linear soil parameter. The results showed that EQL method has similar trends to NL method. At surface layer, the acceleration values for EQL and NL methods are resulted as 0.425 g and 0.375 g respectively. NL method is more reliable in capturing higher frequencies of spectral acceleration compared to EQL method. (author)

Similarity of Symbol Frequency Distributions with Heavy Tails

Directory of Open Access Journals (Sweden)

Martin Gerlach

2016-04-01

Full Text Available Quantifying the similarity between symbolic sequences is a traditional problem in information theory which requires comparing the frequencies of symbols in different sequences. In numerous modern applications, ranging from DNA over music to texts, the distribution of symbol frequencies is characterized by heavy-tailed distributions (e.g., Zipf’s law. The large number of low-frequency symbols in these distributions poses major difficulties to the estimation of the similarity between sequences; e.g., they hinder an accurate finite-size estimation of entropies. Here, we show analytically how the systematic (bias and statistical (fluctuations errors in these estimations depend on the sample size N and on the exponent γ of the heavy-tailed distribution. Our results are valid for the Shannon entropy (α=1, its corresponding similarity measures (e.g., the Jensen-Shanon divergence, and also for measures based on the generalized entropy of order α. For small α’s, including α=1, the errors decay slower than the 1/N decay observed in short-tailed distributions. For α larger than a critical value α^{*}=1+1/γ≤2, the 1/N decay is recovered. We show the practical significance of our results by quantifying the evolution of the English language over the last two centuries using a complete α spectrum of measures. We find that frequent words change more slowly than less frequent words and that α=2 provides the most robust measure to quantify language change.

Genetic differentiation between marine iguanas from different breeding sites on the island of Santa Fe (Galapagos Archipelago).

Science.gov (United States)

Lanterbecq, Deborah; Glaberman, Scott; Vitousek, Maren Noelani; Steinfartz, Sebastian; Benavides, Edgar; Wikelski, Martin; Caccone, Adalgisa

2010-01-01

We studied patterns of genetic diversity within and among 5 populations (318 individuals) of Galápagos marine iguanas (Amblyrhynchus cristatus) from the island Santa Fé. Populations were separated by distances of 0.2 to 9.9 km. We sequenced 1182 base pairs of the mitochondrial control region and screened 13 microsatellite loci for variability. We also added data from 5 populations (397 individuals) sampled on 4 neighboring islands (Santa Cruz, Floreana, Espanola, and San Cristobal). The 5 Santa Fé populations, revealed as genetically distinct from populations on other islands, present relatively low levels of genetic diversity, which are similar for both microsatellite (average observed heterozygosity from 0.7686 to 0.7773) and mitochondrial DNA (mtDNA) markers (haplotypic and nucleotide diversity from 0.587 to 0.728 and from 0.00079 to 0.00293, respectively), and comparable with those observed in similar-sized sampling sites on other islands. There was frequency-based evidence of genetic structure between northern and southern sites on Santa Fé (F(st) of 0.0027-0.0115 for microsatellite and 0.0447-0.2391 for mtDNA), but the 4 southern sites showed little differentiation. Most of the intra-island genetic variation was allocated within rather than between sites. There was no evidence of sex-biased dispersal or population substructuring due to lek-mating behavior, suggesting that these 2 observed behaviors are not strong enough to leave an evolutionary signal on genetic patterns in this species.

Microbial Communities Show Parallels at Sites with Distinct

Czech Academy of Sciences Publication Activity Database

Ságová-Marečková, M.; Omelka, M.; Čermák, L.; Kameník, Zdeněk; Olšovská, J.; Hackl, E.; Kopecký, J.; Hadacek, F.

2011-01-01

Roč. 77, č. 21 (2011), s. 7560-7567 ISSN 0099-2240 Institutional research plan: CEZ:AV0Z50200510 Keywords : 16S RIBOSOMAL-RNA * LENGTH-POLYMORPHISM ANALYSIS * MULTIPLE SEQUENCE ALIGNMENT Subject RIV: EE - Microbiology, Virology Impact factor: 3.829, year: 2011

Ground stone tool assemblages at the end of the Chalcolithic period: A preliminary analysis of the Late Chalcolithic sites in the Fazael Valley

Directory of Open Access Journals (Sweden)

Haggai Cohen-Klonymus

2016-10-01

Full Text Available The very Late Chalcolithic sites of the Fazael Valley exhibit changes in settlement patterns and material culture. This paper presents the analysis of the ground stone tool assemblages of these sites, and includes the combination of attribute analysis, functional typology, and spatial and contextual analyses, allowing comparisons both between the different sites and between different phases within the sites. The assemblages of the late sites of Fazael 2 and Fazael 7 show similar use of raw materials and tool design, which is clearly different from the assemblage of the earlier typical Ghassulian Chalcolithic site of Fazael 1. In Fazael 2, two phases revealed a shift from the use of large grinding tools to mortars and small grinding tools. In both the earlier and the later phases, the separation of activity areas within the site is clear. Grinding activity in both phases is restricted to the western side of the site, while mortars and spindle whorls were found only in the south-eastern part. Finally, a comparison with Fazael 1, as well as with other Late Chalcolithic sites, such as Gilat, 'Ein Hilu and 'En Esur, show that the large number of mortars found in Fazael 2 and Fazael 7 is unique, and may hint at a shift to different subsistence strategies appearing in this region in the latest phases of the Chalcolithic period.

Musite, a tool for global prediction of general and kinase-specific phosphorylation sites.

Science.gov (United States)

Gao, Jianjiong; Thelen, Jay J; Dunker, A Keith; Xu, Dong

2010-12-01

Reversible protein phosphorylation is one of the most pervasive post-translational modifications, regulating diverse cellular processes in various organisms. High throughput experimental studies using mass spectrometry have identified many phosphorylation sites, primarily from eukaryotes. However, the vast majority of phosphorylation sites remain undiscovered, even in well studied systems. Because mass spectrometry-based experimental approaches for identifying phosphorylation events are costly, time-consuming, and biased toward abundant proteins and proteotypic peptides, in silico prediction of phosphorylation sites is potentially a useful alternative strategy for whole proteome annotation. Because of various limitations, current phosphorylation site prediction tools were not well designed for comprehensive assessment of proteomes. Here, we present a novel software tool, Musite, specifically designed for large scale predictions of both general and kinase-specific phosphorylation sites. We collected phosphoproteomics data in multiple organisms from several reliable sources and used them to train prediction models by a comprehensive machine-learning approach that integrates local sequence similarities to known phosphorylation sites, protein disorder scores, and amino acid frequencies. Application of Musite on several proteomes yielded tens of thousands of phosphorylation site predictions at a high stringency level. Cross-validation tests show that Musite achieves some improvement over existing tools in predicting general phosphorylation sites, and it is at least comparable with those for predicting kinase-specific phosphorylation sites. In Musite V1.0, we have trained general prediction models for six organisms and kinase-specific prediction models for 13 kinases or kinase families. Although the current pretrained models were not correlated with any particular cellular conditions, Musite provides a unique functionality for training customized prediction models

Narcissists of a Feather Flock Together: Narcissism and the Similarity of Friends.

Science.gov (United States)

Maaß, Ulrike; Lämmle, Lena; Bensch, Doreen; Ziegler, Matthias

2016-03-01

Who is willing to expose himself or herself to narcissists on a long-term basis? Studies that address the interactions of narcissists focus mainly on their interactions with strangers. Hence, the aim of the present study was to investigate the extent to which two best friends' similarity in narcissism would influence their similarities in other personality profiles. A total of 290 best friends' dyads filled out measurements of the whole Dark Triad as well as the Big Five. For each personality domain, profile similarity and its dependence on the similarity in the Dark Triad were determined. Results showed that the friends' similarity in narcissism significantly predicted similarity in all Big Five domains. For the general Big Five similarity as well as extraversion, the effect of narcissism similarity was stronger for male than female or mixed friends. Similarity in psychopathy and Machiavellianism significantly predicted all domains except for openness and extraversion, respectively. © 2016 by the Society for Personality and Social Psychology, Inc.

Efficient similarity-based data clustering by optimal object to cluster reallocation.

Science.gov (United States)

Rossignol, Mathias; Lagrange, Mathieu; Cont, Arshia

2018-01-01

We present an iterative flat hard clustering algorithm designed to operate on arbitrary similarity matrices, with the only constraint that these matrices be symmetrical. Although functionally very close to kernel k-means, our proposal performs a maximization of average intra-class similarity, instead of a squared distance minimization, in order to remain closer to the semantics of similarities. We show that this approach permits the relaxing of some conditions on usable affinity matrices like semi-positiveness, as well as opening possibilities for computational optimization required for large datasets. Systematic evaluation on a variety of data sets shows that compared with kernel k-means and the spectral clustering methods, the proposed approach gives equivalent or better performance, while running much faster. Most notably, it significantly reduces memory access, which makes it a good choice for large data collections. Material enabling the reproducibility of the results is made available online.

Derivation of site-specific selenium criteria for a Kentucky stream receiving fly ash effluent

International Nuclear Information System (INIS)

Reash, R.J.; Van Hassel, J.H.

1993-01-01

Blaine Creek, a fifth-order tributary to the Big Sandy River in eastern Kentucky, receives fly ash effluent from Kentucky Power Company's Big Sandy Plant fly ash pond near the creek's mouth. Long-term biosurvey/physicochemical data and speciation studies were used to derive proposed site-specific selenium water quality criteria. Biosurvey results from 1982--1990 were consistent in showing no adverse effects of fly ash discharge, even during low flow conditions when the effluent comprised 75% of creek flow. Five macroinvertebrate parameters (taxa richness, total abundance, EPT taxa, number caddisflies and chironomids) were significantly correlated with % effluent, indicating enhanced communities at high instream waste concentrations. Several fish metrics similarly showed greater enhancement at high % effluent conditions. Selenium speciation studies indicated that selenite (Se 4+ ) represented 100% of total selenium in the effluent. Total selenium concentrations were low at fully mixed downstream reaches. US EPA's Recalculation Procedure was used to calculate site-specific selenium criteria based on Se 4+ toxicity data for resident species. These criteria are higher than statewide criteria which are based on selenium, effects at waterbodies having low turnover rates

Library of Alexandria's New Web Site

Directory of Open Access Journals (Sweden)

2004-06-01

Full Text Available A review for the new version of Library of Alexandria web site which lunched on May 2004, the review deals with general introduction to the new version , then the main 6 section of the site , and show some features of the new site, and finally talk in concentration about the library catalog on the internet and its search capabilities.

POLYAR, a new computer program for prediction of poly(A sites in human sequences

Directory of Open Access Journals (Sweden)

Qamar Raheel

2010-11-01

Full Text Available Abstract Background mRNA polyadenylation is an essential step of pre-mRNA processing in eukaryotes. Accurate prediction of the pre-mRNA 3'-end cleavage/polyadenylation sites is important for defining the gene boundaries and understanding gene expression mechanisms. Results 28761 human mapped poly(A sites have been classified into three classes containing different known forms of polyadenylation signal (PAS or none of them (PAS-strong, PAS-weak and PAS-less, respectively and a new computer program POLYAR for the prediction of poly(A sites of each class was developed. In comparison with polya_svm (till date the most accurate computer program for prediction of poly(A sites while searching for PAS-strong poly(A sites in human sequences, POLYAR had a significantly higher prediction sensitivity (80.8% versus 65.7% and specificity (66.4% versus 51.7% However, when a similar sort of search was conducted for PAS-weak and PAS-less poly(A sites, both programs had a very low prediction accuracy, which indicates that our knowledge about factors involved in the determination of the poly(A sites is not sufficient to identify such polyadenylation regions. Conclusions We present a new classification of polyadenylation sites into three classes and a novel computer program POLYAR for prediction of poly(A sites/regions of each of the class. In tests, POLYAR shows high accuracy of prediction of the PAS-strong poly(A sites, though this program's efficiency in searching for PAS-weak and PAS-less poly(A sites is not very high but is comparable to other available programs. These findings suggest that additional characteristics of such poly(A sites remain to be elucidated. POLYAR program with a stand-alone version for downloading is available at http://cub.comsats.edu.pk/polyapredict.htm.

On different forms of self similarity

International Nuclear Information System (INIS)

Aswathy, R.K.; Mathew, Sunil

2016-01-01

Fractal geometry is mainly based on the idea of self-similar forms. To be self-similar, a shape must able to be divided into parts that are smaller copies, which are more or less similar to the whole. There are different forms of self similarity in nature and mathematics. In this paper, some of the topological properties of super self similar sets are discussed. It is proved that in a complete metric space with two or more elements, the set of all non super self similar sets are dense in the set of all non-empty compact sub sets. It is also proved that the product of self similar sets are super self similar in product metric spaces and that the super self similarity is preserved under isometry. A characterization of super self similar sets using contracting sub self similarity is also presented. Some relevant counterexamples are provided. The concepts of exact super and sub self similarity are introduced and a necessary and sufficient condition for a set to be exact super self similar in terms of condensation iterated function systems (Condensation IFS’s) is obtained. A method to generate exact sub self similar sets using condensation IFS’s and the denseness of exact super self similar sets are also discussed.

High-Resolution Source Parameter and Site Characteristics Using Near-Field Recordings - Decoding the Trade-off Problems Between Site and Source

Science.gov (United States)

Chen, X.; Abercrombie, R. E.; Pennington, C.

2017-12-01

Recorded seismic waveforms include contributions from earthquake source properties and propagation effects, leading to long-standing trade-off problems between site/path effects and source effects. With near-field recordings, the path effect is relatively small, so the trade-off problem can be simplified to between source and site effects (commonly referred as "kappa value"). This problem is especially significant for small earthquakes where the corner frequencies are within similar ranges of kappa values, so direct spectrum fitting often leads to systematic biases due to corner frequency and magnitude. In response to the significantly increased seismicity rate in Oklahoma, several local networks have been deployed following major earthquakes: the Prague, Pawnee and Fairview earthquakes. Each network provides dense observations within 20 km surrounding the fault zone, recording tens of thousands of aftershocks between M1 to M3. Using near-field recordings in the Prague area, we apply a stacking approach to separate path/site and source effects. The resulting source parameters are consistent with parameters derived from ground motion and spectral ratio methods from other studies; they exhibit spatial coherence within the fault zone for different fault patches. We apply these source parameter constraints in an analysis of kappa values for stations within 20 km of the fault zone. The resulting kappa values show significantly reduced variability compared to those from direct spectral fitting without constraints on the source spectrum; they are not biased by earthquake magnitudes. With these improvements, we plan to apply the stacking analysis to other local arrays to analyze source properties and site characteristics. For selected individual earthquakes, we will also use individual-pair empirical Green's function (EGF) analysis to validate the source parameter estimations.

CT findings of rectosigmoid carcinoma showing exophytic growth

International Nuclear Information System (INIS)

Ohgi, Kazuyuki; Kohno, Atsushi; Higuchi, Mutsumi

1987-01-01

CT findings of 7 rectosigmoid carcinomas showing exophytic growth were evaluated. All cases had bulky masses, ranging from 6.0 to 11.5 cm in maximum diameter. All masses were difficult to differentiate from the other pelvic masses on CT, presumably due to their exophytic growth and/or invasion to the surrounding organs. However, 3 out of 7 cases showed diffuse rectosigmoidal wall thickening adjacent to the primary tumor, and it is considered to be valuable in the determination of primary site. All female cases had gynecological symptom such as genital bleeding, due to uterine and/or vaginal invasion. When indeterminate pelvic mass is revealed by CT, rectosigmoid carcinoma should be considered into differential diagnosis. (author)

Site selection report basalt waste isolation program near-surface test facility

International Nuclear Information System (INIS)

Sharpe, S.D.

1978-01-01

A site selection committee was established to review the information gathered on potential sites and to select a site for the Near-Surface Test Facility Phase I. A decision was made to use a site on the north face of Gable Mountain located on the Hanford Site. This site provided convenient access to the Pomona Basalt Flow. This flow was selected for use at this site because it exhibited the characteristics established in the primary criteria. These criteria were: the flows thickness; its dryness; its nearness to the surface; and, its similarities to basalt units which are candidates for the repository. After the selection of the Near-Surface Test Facility Phase I Site, the need arose for an additional facility to demonstrate safe handling, storage techniques, and the physical effects of radioactive materials on an in situ basalt formation. The committee reviewed the sites selected for Phase I and chose the same site for locating Phase II of the Near-Surface Test Facility

Similar effects of substance P on learning and memory function between hippocampus and striatal marginal division

Science.gov (United States)

Yu, Yan; Zeng, Changchun; Shu, Siyun; Liu, Xuemei; Li, Chuhua

2014-01-01

Substance P is an endogenous neurokinin that is present in the central and peripheral nervous systems. The neuropeptide substance P and its high-affinity receptor neurokinin 1 receptor are known to play an important role in the central nervous system in inflammation, blood pressure, motor behavior and anxiety. The effects of substance P in the hippocampus and the marginal division of the striatum on memory remain poorly understood. Compared with the hippocampus as a control, immunofluorescence showed high expression of the substance P receptor, neurokinin 1, in the marginal division of the striatum of normal rats. Unilateral or bilateral injection of an antisense oligonucleotide against neurokinin 1 receptor mRNA in the rat hippocampus or marginal division of the striatum effectively reduced neurokinin 1 receptor expression. Independent of injection site, rats that received this antisense oligonucleotide showed obviously increased footshock times in a Y-maze test. These results indicate that the marginal division of the striatum plays a similar function in learning and memory to the hippocampus, which is a valuable addition to our mechanistic understanding of the learning and memory functions of the marginal division of the striatum. PMID:25206901

USER PERCEPTION TOWARDS SOCIAL NETWORKING SITES - AN ANALYTICAL APPROACH

OpenAIRE

Dr. S. Shanmugapriya; A. Kokila

2017-01-01

A social networking site (SNS) or social media is an online platform that people use to build social networks or social relations with other people who share similar personal or career interests, activities, backgrounds or real-life connections. The advent of Social Networking sites and its resources have revolutionized the communication and social relation world. This paper aims to assess the user perception towards SNS like Facebook, Twitter and LinkedIn. In the study data was obtained thro...

Study of the ancient iron-smelting sites at Pantaki, Tsauni and Samaru-west, Nigeria, using neutron activation analysis

International Nuclear Information System (INIS)

Oladipupo, M.D.; OIadipo, M.O.A.; Mallam, S.P.; Akpa, T.C.

2010-01-01

Neutron activation analysis was used to obtain concentrations of some elements in samples of potsherds and furnaces obtained from Pantaki, Tsauni and Samaru-west ancient iron-smelting sites. Using WARD method, cluster analysis of the elements was carried out to establish the relationship between the archaeological samples in term of similarity in elemental concentrations. It was found that there is some level of similarity among the potsherd samples from the three sites. Also, most of furnace samples display some similarity. It was established that there was cultural linkage between the iron-smelters at the different sites. The similarity between the samples lead to a conclusion that pot makers and furnace makers could have existed, who obtained clays from common sources, made and sold the products to users in different communities.

Similarity or difference?

DEFF Research Database (Denmark)

Villadsen, Anders Ryom

2013-01-01

While the organizational structures and strategies of public organizations have attracted substantial research attention among public management scholars, little research has explored how these organizational core dimensions are interconnected and influenced by pressures for similarity....... In this paper I address this topic by exploring the relation between expenditure strategy isomorphism and structure isomorphism in Danish municipalities. Different literatures suggest that organizations exist in concurrent pressures for being similar to and different from other organizations in their field......-shaped relation exists between expenditure strategy isomorphism and structure isomorphism in a longitudinal quantitative study of Danish municipalities....

Subsurface characterization and geohydrologic site evaluation West Chestnut Ridge site

International Nuclear Information System (INIS)

1984-01-01

The West Chestnut Ridge Site at the Oak Ridge National Laboratory is being considered for use as a repository for low-level radioactive waste. The purposes of this study were to provide a geohydrological characterization of the site for use in pathways analysis, and to provide preliminary geotechnical recommendations that would be used for development of a site utilization plan. Subsurface conditions were investigated at twenty locations and observation wells were installed. Field testing at each location included the Standard Penetration Test and permeability tests in soil and rock. A well pumping test was ocmpleted at one site. Laboratory testing included permeability, deformability, strength and compaction tests, as well as index and physical property tests. The field investigations showed that the subsurface conditions include residual soil overlying a weathered zone of dolomite which grades into relatively unweathered dolomite at depth. The thickness of residual soil is typically 80 ft (24 m) on the ridges, but can be as little as 10 ft (3 m) in the valleys. Trench excavations to depths of 30 ft (9 m) should not present serious slope stability problems above the water table. On-site soils can be used for liners or trench backfill but these soils may require moisture conditioning to achieve required densities. 19 figures, 8 tables

Processes of Similarity Judgment

Science.gov (United States)

Larkey, Levi B.; Markman, Arthur B.

2005-01-01

Similarity underlies fundamental cognitive capabilities such as memory, categorization, decision making, problem solving, and reasoning. Although recent approaches to similarity appreciate the structure of mental representations, they differ in the processes posited to operate over these representations. We present an experiment that…

Judgments of brand similarity

NARCIS (Netherlands)

Bijmolt, THA; Wedel, M; Pieters, RGM; DeSarbo, WS

This paper provides empirical insight into the way consumers make pairwise similarity judgments between brands, and how familiarity with the brands, serial position of the pair in a sequence, and the presentation format affect these judgments. Within the similarity judgment process both the

Renewing the Respect for Similarity

Directory of Open Access Journals (Sweden)

Shimon eEdelman

2012-07-01

Full Text Available In psychology, the concept of similarity has traditionally evoked a mixture of respect, stemmingfrom its ubiquity and intuitive appeal, and concern, due to its dependence on the framing of the problemat hand and on its context. We argue for a renewed focus on similarity as an explanatory concept, bysurveying established results and new developments in the theory and methods of similarity-preservingassociative lookup and dimensionality reduction — critical components of many cognitive functions, aswell as of intelligent data management in computer vision. We focus in particular on the growing familyof algorithms that support associative memory by performing hashing that respects local similarity, andon the uses of similarity in representing structured objects and scenes. Insofar as these similarity-basedideas and methods are useful in cognitive modeling and in AI applications, they should be included inthe core conceptual toolkit of computational neuroscience.

Self-similar continued root approximants

International Nuclear Information System (INIS)

Gluzman, S.; Yukalov, V.I.

2012-01-01

A novel method of summing asymptotic series is advanced. Such series repeatedly arise when employing perturbation theory in powers of a small parameter for complicated problems of condensed matter physics, statistical physics, and various applied problems. The method is based on the self-similar approximation theory involving self-similar root approximants. The constructed self-similar continued roots extrapolate asymptotic series to finite values of the expansion parameter. The self-similar continued roots contain, as a particular case, continued fractions and Padé approximants. A theorem on the convergence of the self-similar continued roots is proved. The method is illustrated by several examples from condensed-matter physics.

A duck hepatitis B virus strain with a knockout mutation in the putative X ORF shows similar infectivity and in vivo growth characteristics to wild-type virus

International Nuclear Information System (INIS)

Meier, P.; Scougall, C.A.; Will, H.; Burrell, C.J.; Jilbert, A.R.

2003-01-01

Hepadnaviruses including human hepatitis B virus (HBV) and duck hepatitis B virus (DHBV) express X proteins, HBx and DHBx, respectively. Both HBx and DHBx are transcriptional activators and modulate cellular signaling in in vitro assays. To test whether the DHBx protein plays a role in virus infection, we compared the in vivo infectivity and growth characteristics of a DHBV3 strain with a stop codon in the X-like ORF (DHBV3-X-K.O.) to those of the wild-type DHBV3 strain. Here we report that the two strains showed no significant difference in (i) their ability to induce infection that resulted in stable viraemia measured by serum surface antigen (DHBsAg) and DHBV DNA, and detection of viral proteins and replicative DNA intermediates in the liver; (ii) the rate of spread of infection in liver and extrahepatic sites after low-dose virus inoculation; and (iii) the ability to produce transient or persistent infection under balanced age/dose conditions designed to detect small differences between the strains. Thus, none of the infection parameters assayed were detectably affected by the X-ORF knockout mutation, raising the question whether DHBx expression plays a physiological role during in vivo infection with wild-type DHBV

Privacy in social networking sites

OpenAIRE

Λεονάρδος, Γεώργιος; Leonardos, Giorgos

2016-01-01

The purpose of this study is to explore the aspects of privacy over the use of social networks web sites. More specific, we will show the types of social networks, their privacy mechanisms that are different in each social network site, their privacy options that are offered to users. We will report some serious privacy violations incidents of the most popular social networks sites such as Facebook, Twitter, LinkedIn. Also, we will report some important surveys about social networks and pr...

Quality assurance during site construction. Pt. 1

International Nuclear Information System (INIS)

Mueller, J.

1980-01-01

The first part of the lecture deals with the Quality Assurance system on the construction site in general. Basic site-related problems during contract implementation and the QA system requirements resulting from them are presented. The compilation of these requirements in a QA program and its inclusion in the site manual in written form are explained. Site organization, personnel qualification and procedures are referred to. Whereas the first part shows what is to be done, the second part shows how it can be put into practice on the site. All the essential points for the assurance of quality are addressed. They include, e.g., review of documents, incoming goods control, in-process surveillance, store controls, identification of components and systems, dealing with changes and deviations, documentation control and audits. By means of examples taken form practice the necessity of a well-functioning QA system, and the importance of quality-assuring measures on the site are pointed out. (orig.)

Coal mine site reclamation

Energy Technology Data Exchange (ETDEWEB)

NONE

2013-02-15

Coal mine sites can have significant effects on local environments. In addition to the physical disruption of land forms and ecosystems, mining can also leave behind a legacy of secondary detrimental effects due to leaching of acid and trace elements from discarded materials. This report looks at the remediation of both deep mine and opencast mine sites, covering reclamation methods, back-filling issues, drainage and restoration. Examples of national variations in the applicable legislation and in the definition of rehabilitation are compared. Ultimately, mine site rehabilitation should return sites to conditions where land forms, soils, hydrology, and flora and fauna are self-sustaining and compatible with surrounding land uses. Case studies are given to show what can be achieved and how some landscapes can actually be improved as a result of mining activity.

Chemical composition of the major components of PM in different sites at the Metropolitan Region of Chile

Science.gov (United States)

Reyes, F.; Castillo, M. A.; Rubio, M.; Gramsch, E.; Vasquez, Y.; Oyola, P.

2013-05-01

Santiago, Chile's capital is one of most polluted megacity (5.5 million of people) of the world. Currently, PM2.5 annual concentration is over 2.2 times the Chilean standard (20 μg/m3). Continuous measurements of non-refractory PM1.0 (sulfate, nitrate, chloride, ammonium and organics aerosols), black carbon, and PM2,5 mass concentration were determined using Aerosol Chemical Speciation Monitor (ACSM, Aerodyne Research, Inc), absorption coefficient monitor (SIMCA, Santiago University) and dustrack monitor (TSI Inc) in order to know the temporal variability of the major components of PM. The measurements were carried out at kerbside, urban background, industrial and mixed residential/industrial locations during year 2012 and -2013. Meteorological data (Relative Humidity, temperature, wind speed, wind direction and precipitations) were obtained from the air quality network operated by the environmental authority. The results show strong correlation with the metropolitan region major sources. Multiple regression analysis indicates that precipitations have a strong impact on PM1.0 soluble components; relative humidity has effects only on chloride, sulfate and black carbon. Chloride concentration decrease when temperature is increasing. The perceptual contribution of each component is similar among all sites. All sites shows that OA (Organics Aerosol) as the major constituent of PM1.0 (>50%), followed of nitrates (>13%). Sulfate could be used to differentiate the industrial site; due to there is a strong impact of SO2 emission. Combustion sources direct impact can be seen at BC contribution at industrial and kerbside site. Also, the OA/BC ratio shows slow value at kerbside (3.05) and industrial (3.26) site, and higher at urban background site (4.15). Aged organics aerosols are majority found at all sites (f43/f44 plot), indicating that regional background is strong in all results. These results will be compared with size distribution measurements available from previous

Interaction of D-LSD with binding sites in brain: a study in vivo and in vitro

International Nuclear Information System (INIS)

Ebersole, B.L.J.

1985-01-01

The localization of [ 3 H]-d-lysergic acid diethylamide ([ 3 H]LSD) binding sites in the mouse brain was compared in vivo and in vitro. Radioautography of brain sections incubated with [ 3 H]LSD in vitro revealed substantial specific [ 3 H]LSD binding in cortical layers III-IV and areas CA1 and dentate gyrus in hippocampus. In contrast, in brain sections from animals that received [ 3 H]LSD in vivo, binding in hippocampus was scant and diffuse, although the pattern of labeling in cortex was similar to that seen in vitro. The low specific binding in hippocampus relative to cortex was confirmed by homogenate filtration studies of brain areas from mice that received injections of [ 3 H]LSD. Time-course studies established that peak specific binding at ten minutes was the same in cortex and hippocampus. At all times, binding in hippocampus was about one-third of that in cortex; in contrast, the concentration of free [ 3 H]LSD did not vary between regions. This finding was unexpected, because binding studies in vitro in membrane preparations indicated that the density and affinity of [ 3 H]LSD binding sites were similar in both brain regions. Saturation binding studies in vivo showed that the lower amount of [ 3 H]LSD binding in hippocampus was attributable to a lower density of sites labeled by [ 3 H]LSD. The pharmacological identify of [ 3 H]LSD binding sites in vivo may be relevant to the hallucinogenic properties of LSD and of other related hallucinogens

Piv site-specific invertase requires a DEDD motif analogous to the catalytic center of the RuvC Holliday junction resolvases.

Science.gov (United States)

Buchner, John M; Robertson, Anne E; Poynter, David J; Denniston, Shelby S; Karls, Anna C

2005-05-01

Piv, a unique prokaryotic site-specific DNA invertase, is related to transposases of the insertion elements from the IS110/IS492 family and shows no similarity to the site-specific recombinases of the tyrosine- or serine-recombinase families. Piv tertiary structure is predicted to include the RNase H-like fold that typically encompasses the catalytic site of the recombinases or nucleases of the retroviral integrase superfamily, including transposases and RuvC-like Holliday junction resolvases. Analogous to the DDE and DEDD catalytic motifs of transposases and RuvC, respectively, four Piv acidic residues D9, E59, D101, and D104 appear to be positioned appropriately within the RNase H fold to coordinate two divalent metal cations. This suggests mechanistic similarity between site-specific inversion mediated by Piv and transposition or endonucleolytic reactions catalyzed by enzymes of the retroviral integrase superfamily. The role of the DEDD motif in Piv catalytic activity was addressed using Piv variants that are substituted individually or multiply at these acidic residues and assaying for in vivo inversion, intermolecular recombination, and DNA binding activities. The results indicate that all four residues of the DEDD motif are required for Piv catalytic activity. The DEDD residues are not essential for inv recombination site recognition and binding, but this acidic tetrad does appear to contribute to the stability of Piv-inv interactions. On the basis of these results, a working model for Piv-mediated inversion that includes resolution of a Holliday junction is presented.

Genetic similarity of soybean genotypes revealed by seed protein

Directory of Open Access Journals (Sweden)

Nikolić Ana

2005-01-01

Full Text Available More accurate and complete descriptions of genotypes could help determinate future breeding strategies and facilitate introgression of new genotypes in current soybean genetic pool. The objective of this study was to characterize 20 soybean genotypes from the Maize Research Institute "Zemun Polje" collection, which have good agronomic performances, high yield, lodging and drought resistance, and low shuttering by seed proteins as biochemical markers. Seed proteins were isolated and separated by PAA electrophoresis. On the basis of the presence/absence of protein fractions coefficients of similarity were calculated as Dice and Roger and Tanamoto coefficient between pairs of genotypes. The similarity matrix was submitted for hierarchical cluster analysis of un weighted pair group using arithmetic average (UPGMA method and necessary computation were performed using NTSYS-pc program. Protein seed analysis confirmed low level of genetic diversity in soybean. The highest genetic similarity was between genotypes P9272 and Kador. According to obtained results, soybean genotypes were assigned in two larger groups and coefficients of similarity showed similar results. Because of the lack of pedigree data for analyzed genotypes, correspondence with marker data could not be determined. In plant with a narrow genetic base in their gene pool, such as soybean, protein markers may not be sufficient for characterization and study of genetic diversity.

Word Similarity from Dictionaries: Inferring Fuzzy Measures from Fuzzy Graphs

Directory of Open Access Journals (Sweden)

Vicenc Torra

2008-01-01

Full Text Available WORD SIMILARITY FROM DICTIONARIES: INFERRING FUZZY MEASURES FROM FUZZY GRAPHS The computation of similarities between words is a basic element of information retrieval systems, when retrieval is not solely based on word matching. In this work we consider a measure between words based on dictionaries. This is achieved assuming that a dictionary is formalized as a fuzzy graph. We show that the approach permits to compute measures not only for pairs of words but for sets of them.

Structure and floristic similarities of upper montane forests in Serra Fina mountain range, southeastern Brazil

Directory of Open Access Journals (Sweden)

Leonardo Dias Meireles

2015-03-01

Full Text Available The upper montane forests in the southern and southeastern regions of Brazil have an unusual and discontinuous geographic distribution at the top of the Atlantic coastal mountain ranges. To describe the floristic composition and structure of the Atlantic Forest near its upper altitudinal limit in southeastern Brazil, 30 plots with 10 × 10 m were installed in three forest sites between 2,200 and 2,300 m.a.s.l. at Serra Fina. The floristic composition and phytosociological structure of this forest were compared with other montane and upper montane forests. In total, 704 individuals were included, belonging to 24 species, 15 families, and 19 genera. Myrsinaceae, Myrtaceae, Symplocaceae, and Cunoniaceae were the most important families, and Myrsine gardneriana, Myrceugenia alpigena, Weinmannia humilis, and Symplocos corymboclados were the most important species. The three forest sites revealed differences in the abundance of species, density, canopy height, and number of stems per individual. The upper montane forests showed structural similarities, such as lower richness, diversity, and effective number of species, and they tended to have higher total densities and total dominance per hectare to montane forests. The most important species in these upper montane forests belong to Austral-Antartic genera or neotropical and pantropical genera that are typical of montane areas. The high number of species shared by these forests suggests past connections between the vegetation in southern Brazilian high-altitude areas.

Thai Language Sentence Similarity Computation Based on Syntactic Structure and Semantic Vector

Science.gov (United States)

Wang, Hongbin; Feng, Yinhan; Cheng, Liang

2018-03-01

Sentence similarity computation plays an increasingly important role in text mining, Web page retrieval, machine translation, speech recognition and question answering systems. Thai language as a kind of resources scarce language, it is not like Chinese language with HowNet and CiLin resources. So the Thai sentence similarity research faces some challenges. In order to solve this problem of the Thai language sentence similarity computation. This paper proposes a novel method to compute the similarity of Thai language sentence based on syntactic structure and semantic vector. This method firstly uses the Part-of-Speech (POS) dependency to calculate two sentences syntactic structure similarity, and then through the word vector to calculate two sentences semantic similarity. Finally, we combine the two methods to calculate two Thai language sentences similarity. The proposed method not only considers semantic, but also considers the sentence syntactic structure. The experiment result shows that this method in Thai language sentence similarity computation is feasible.

Remaining Sites Verification Package for the 128-F-2, 100-F Burning Pit Waste Site, Waste Site Reclassification Form 2008-031

Energy Technology Data Exchange (ETDEWEB)

J. M. Capron

2008-12-01

The 128-F-2 waste site consisted of multiple burn and debris filled pits located directly east of the 107-F Retention Basin and approximately 30.5 m east of the northeast corner of the 100-F Area perimeter road that runs along the riverbank. The burn pits were used for incinerating nonradioactive, combustible materials from 1945 to 1965. In accordance with this evaluation, the verification sampling results support a reclassification of this site to Interim Closed Out. The current site conditions achieve the remedial action objectives and the corresponding remedial action goals established in the Remaining Sites ROD. The results of verification sampling show that residual contaminant concentrations do not preclude any future uses and allow for unrestricted use of shallow zone soils. The results also demonstrate that residual contaminant concentrations are protective of groundwater and the Columbia River.

Collaborative Filtering Recommendation Based on Trust Model with Fused Similar Factor

Directory of Open Access Journals (Sweden)

Ye Li

2017-01-01

Full Text Available Recommended system is beneficial to e-commerce sites, which provides customers with product information and recommendations; the recommendation system is currently widely used in many fields. In an era of information explosion, the key challenges of the recommender system is to obtain valid information from the tremendous amount of information and produce high quality recommendations. However, when facing the large mount of information, the traditional collaborative filtering algorithm usually obtains a high degree of sparseness, which ultimately lead to low accuracy recommendations. To tackle this issue, we propose a novel algorithm named Collaborative Filtering Recommendation Based on Trust Model with Fused Similar Factor, which is based on the trust model and is combined with the user similarity. The novel algorithm takes into account the degree of interest overlap between the two users and results in a superior performance to the recommendation based on Trust Model in criteria of Precision, Recall, Diversity and Coverage. Additionally, the proposed model can effectively improve the efficiency of collaborative filtering algorithm and achieve high performance.

Similar on the Inside (pre-grinding)

Science.gov (United States)

2004-01-01

This approximate true-color image taken by the panoramic camera on the Mars Exploration Rover Opportunity show the rock called 'Pilbara' located in the small crater dubbed 'Fram.' The rock appears to be dotted with the same 'blueberries,' or spherules, found at 'Eagle Crater.' Spirit drilled into this rock with its rock abrasion tool. After analyzing the hole with the rover's scientific instruments, scientists concluded that Pilbara has a similar chemical make-up, and thus watery past, to rocks studied at Eagle Crater. This image was taken with the panoramic camera's 480-, 530- and 600-nanometer filters.

Similar on the Inside (post-grinding)

Science.gov (United States)

2004-01-01

This approximate true-color image taken by the panoramic camera on the Mars Exploration Rover Opportunity show the hole drilled into the rock called 'Pilbara,' which is located in the small crater dubbed 'Fram.' Spirit drilled into this rock with its rock abrasion tool. The rock appears to be dotted with the same 'blueberries,' or spherules, found at 'Eagle Crater.' After analyzing the hole with the rover's scientific instruments, scientists concluded that Pilbara has a similar chemical make-up, and thus watery past, to rocks studied at Eagle Crater. This image was taken with the panoramic camera's 480-, 530- and 600-nanometer filters.

Assessment of Mars Exploration Rover Landing Site Predictions

Science.gov (United States)

Golombek, M. P.

2005-05-01

Comprehensive analyses of remote sensing data during the 3-year effort to select the Mars Exploration Rover landing sites at Gusev crater and Meridiani Planum correctly predicted the safe and trafficable surfaces explored by the two rovers. Gusev crater was predicted to be a relatively low relief surface that was comparably dusty, but less rocky than the Viking landing sites. Available data for Meridiani Planum indicated a very flat plain composed of basaltic sand to granules and hematite that would look completely unlike any of the existing landing sites with a dark, low albedo surface, little dust and very few rocks. Orbital thermal inertia measurements of 315 J m-2 s-0.5 K-1 at Gusev suggested surfaces dominated by duricrust to cemented soil-like materials or cohesionless sand or granules, which is consistent with observed soil characteristics and measured thermal inertias from the surface. THEMIS thermal inertias along the traverse at Gusev vary from 285 at the landing site to 330 around Bonneville rim and show systematic variations that can be related to the observed increase in rock abundance (5-30%). Meridiani has an orbital bulk inertia of ~200, similar to measured surface inertias that correspond to observed surfaces dominated by 0.2 mm sand size particles. Rock abundance derived from orbital thermal differencing techniques suggested that Meridiani Planum would have very low rock abundance, consistent with the rock free plain traversed by Opportunity. Spirit landed in an 8% orbital rock abundance pixel, consistent with the measured 7% of the surface covered by rocks >0.04 m diameter at the landing site, which is representative of the plains away from craters. The orbital albedo of the Spirit traverse varies from 0.19 to 0.30, consistent with surface measurements in and out of dust devil tracks. Opportunity is the first landing in a low albedo portion of Mars as seen from orbit, which is consistent with the dark, dust-free surface and measured albedos. The

Children with social anxiety and other anxiety disorders show similar deficits in habitual emotional regulation: evidence for a transdiagnostic phenomenon.

Science.gov (United States)

Keil, Verena; Asbrand, Julia; Tuschen-Caffier, Brunna; Schmitz, Julian

2017-07-01

Deficits in emotion regulation (ER) are an important factor in maintaining social anxiety disorder (SAD) in adults. As SAD and ER problems typically develop during childhood and adolescence, and are maintained dynamically within the parent-child dyad, research on families can help to reveal the role ER plays in the early development of SAD. The current study assessed self-reported habitual ER in dyads of children with SAD (n = 31), children with mixed anxiety disorders (MAD; n = 41) and healthy control children (HC; n = 36), and their parents. Results indicate a transdiagnostic quality of ER in that, children with SAD and children with MAD similarly reported less adaptive and more maladaptive ER strategies than HC children, whereas no group differences in parental ER strategies emerged. Furthermore, children's ER strategies aggressive action, withdrawal and self-devaluation and the parental ER strategy reappraisal were associated with social anxiety symptoms. These results suggest that there may be deficits in ER which generalize across childhood anxiety disorders. Our results are discussed in relation to current theories and their implications for treatment of childhood SAD.

Possible sites for future nuclear power plants in Israel

Energy Technology Data Exchange (ETDEWEB)

Yaar, Ilan, E-mail: ilany@energy.gov.il [Ministry of National Infrastructure, Energy and Water Resources, Chief Scientist Office, 14 Hartum St., POB 36148, Jerusalem 9136002 (Israel); Walter, Ayelet [Ministry of National Infrastructure, Energy and Water Resources, Chief Scientist Office, 14 Hartum St., POB 36148, Jerusalem 9136002 (Israel); Sanders, Yovav [Sysnet Group, Habarzel St. 32, Tel Aviv 69710 (Israel); Felus, Yaron [Survey of Israel, 1 Lincoln St., POB 14171, Tel-Aviv 61141 (Israel); Calvo, Ran; Hamiel, Yariv [Geological Survey of Israel, 30 Malkhe Israel St., Jerusalem 95501 (Israel)

2016-03-15

A preliminary work aimed at allocating suitable new sites for possible NPPs in Israel is presented. The work is based on Israel's present NPP siting criteria, supported by selected procedure performed by various countries that conducted similar process. The site selection process was conducted in two stages: first, a selection procedure using demographic analysis was conducted; second, a seismological and geological analysis process was performed in the remaining area. From the combined two screening processes results, an overall new area of 569 km{sup 2} was located as a possible area for future construction of NPPs in Israel. Further and more comprehensive work, based on the IAEAs site selection guidelines, has to be performed in the future, in order to verify the preliminary findings presented in this work.

A self-similar hierarchy of the Korean stock market

Science.gov (United States)

Lim, Gyuchang; Min, Seungsik; Yoo, Kun-Woo

2013-01-01

A scaling analysis is performed on market values of stocks listed on Korean stock exchanges such as the KOSPI and the KOSDAQ. Different from previous studies on price fluctuations, market capitalizations are dealt with in this work. First, we show that the sum of the two stock exchanges shows a clear rank-size distribution, i.e., the Zipf's law, just as each separate one does. Second, by abstracting Zipf's law as a γ-sequence, we define a self-similar hierarchy consisting of many levels, with the numbers of firms at each level forming a geometric sequence. We also use two exponential functions to describe the hierarchy and derive a scaling law from them. Lastly, we propose a self-similar hierarchical process and perform an empirical analysis on our data set. Based on our findings, we argue that all money invested in the stock market is distributed in a hierarchical way and that a slight difference exists between the two exchanges.

Branch length similarity entropy-based descriptors for shape representation

Science.gov (United States)

Kwon, Ohsung; Lee, Sang-Hee

2017-11-01

In previous studies, we showed that the branch length similarity (BLS) entropy profile could be successfully used for the shape recognition such as battle tanks, facial expressions, and butterflies. In the present study, we proposed new descriptors, roundness, symmetry, and surface roughness, for the recognition, which are more accurate and fast in the computation than the previous descriptors. The roundness represents how closely a shape resembles to a circle, the symmetry characterizes how much one shape is similar with another when the shape is moved in flip, and the surface roughness quantifies the degree of vertical deviations of a shape boundary. To evaluate the performance of the descriptors, we used the database of leaf images with 12 species. Each species consisted of 10 - 20 leaf images and the total number of images were 160. The evaluation showed that the new descriptors successfully discriminated the leaf species. We believe that the descriptors can be a useful tool in the field of pattern recognition.

Do People Know What They Want: A Similar or Complementary Partner?

Directory of Open Access Journals (Sweden)

Pieternel Dijkstra

2008-10-01

Full Text Available The present study examined the extent to which individuals seek partners with similar, as opposed to complementary, personality characteristics. Results showed that whereas individuals desired a partner who resembles them in terms of personality, when asked about their preferences in general, most individuals indicated that they desired a complementary partner instead of a similar one. In addition to a similar partner with regard to personality, women also desired a more conscientious, less neurotic and more extraverted partner than men. These results are discussed with reference to the importance of matched personalities in marital success.

9 CFR 309.3 - Dead, dying, disabled, or diseased and similar livestock.

Science.gov (United States)

2010-01-01

... similar livestock. 309.3 Section 309.3 Animals and Animal Products FOOD SAFETY AND INSPECTION SERVICE... diseased and similar livestock. (a) Livestock found to be dead or in a dying condition on the premises of... § 309.13. (b) Livestock plainly showing on ante-mortem inspection any disease or condition that, under...

A conserved chloramphenicol binding site at the entrance to the ribosomal peptide exit tunnel

DEFF Research Database (Denmark)

Long, Katherine S; Porse, Bo T

2003-01-01

, of E.coli 23S rRNA and G2084 (2058 in E.coli numbering) in domain V of H.halobium 23S rRNA. The modification sites overlap with a portion of the macrolide binding site and cluster at the entrance to the peptide exit tunnel. The data correlate with the recently reported chloramphenicol binding site...... on an archaeal ribosome and suggest that a similar binding site is present on the E.coli ribosome....

Roadside soils show low plant available zinc and copper concentrations.

Science.gov (United States)

Morse, Natalie; Walter, M Todd; Osmond, Deanna; Hunt, William

2016-02-01

Vehicle combustion and component wear are a major source of metal contamination in the environment, which could be especially concerning where road ditches are actively farmed. The objective of this study was to assess how site variables, namely age, traffic (vehicles day(-1)), and percent carbon (%C) affect metal accumulation in roadside soils. A soil chronosequence was established with sites ranging from 3 to 37 years old and bioavailable, or mobile, concentrations of Zinc (Zn) and Copper (Cu) were measured along major highways in North Carolina using a Mehlich III extraction. Mobile Zn and Cu concentrations were low overall, and when results were scaled via literature values to "total metal", the results were still generally lower than previous roadside studies. This could indicate farming on lands near roads would pose a low plant toxicity risk. Zinc and Cu were not correlated with annual average traffic count, but were positively correlated with lifetime traffic load (the product of site age and traffic count). This study shows an often overlooked variable, site age, should be included when considering roadside pollution accumulation. Zinc and Cu were more strongly associated with %C, than traffic load. Because vehicle combustion is also a carbon source, it is not obvious whether the metals and carbon are simply co-accumulating or whether the soil carbon in roadside soils may facilitate previously overlooked roles in sequestering metals on-site. Copyright © 2015 Elsevier Ltd. All rights reserved.

Heterochromatin and rDNA sites distribution in the holocentric chromosomes of Cuscuta approximata Bab. (Convolvulaceae).

Science.gov (United States)

Guerra, Marcelo; García, Miguel A

2004-02-01

Cuscuta is a widely distributed genus of holoparasitic plants. Holocentric chromosomes have been reported only in species of one of its subgenera (Cuscuta subg. Cuscuta). In this work, a representative of this subgenus, Cuscuta approximata, was investigated looking for its mitotic and meiotic chromosome behaviour and the heterochromatin distribution. The mitotic chromosomes showed neither primary constriction nor Rabl orientation whereas the meiotic ones exhibited the typical quadripartite structure characteristic of holocentrics, supporting the assumption of holocentric chromosomes as a synapomorphy of Cuscuta subg. Cuscuta. Chromosomes and interphase nuclei displayed many heterochromatic blocks that stained deeply with hematoxylin, 4',6-diamidino-2-phenylindole (DAPI), or after C banding. The banded karyotype showed terminal or subterminal bands in all chromosomes and central bands in some of them. The single pair of 45S rDNA sites was observed at the end of the largest chromosome pair, close to a DAPI band and a 5S rDNA site. Two other 5S rDNA site pairs were found, both closely associated with DAPI bands. The noteworthy giant nuclei of glandular cells of petals and ovary wall exhibited large chromocentres typical of polytenic nuclei. The chromosomal location of heterochromatin and rDNA sites and the structure of the endoreplicated nuclei of C. approximata seemed to be similar to those known in monocentric nuclei, suggesting that centromeric organization has little or no effect on chromatin organization.

Levels and sources of PAHs in selected sites from Portugal: biomonitoring with Pinus pinea and Pinus pinaster needles.

Science.gov (United States)

Ratola, Nuno; Amigo, José Manuel; Alves, Arminda

2010-04-01

Pine needle samples from two pine species (Pinus pinaster Ait. and Pinus pinea L.) were collected at 29 sites scattered throughout Portugal, in order to biomonitor the levels and trends of 16 polycyclic aromatic hydrocarbons (PAHs). The values obtained for the sum of all PAHs ranged from 76 to 1944 ng/g [dry weight (dw)]. Despite the apparent matrix similarities between both pine species, P. pinaster needles revealed higher mean entrapment levels than P. pinea (748 and 399 ng/g (dw) per site, respectively). The urban and industrial sites have the highest average of PAH incidence [for P. pinea, 465 and 433 ng/g (dw) per site, respectively, and for P. pinaster, 1147 and 915 ng/g (dw)], followed by the rural sites [233 ng/g and 711 ng/g (dw) per site, for P. pinea and P. pinaster, respectively]. The remote sites, both from P. pinaster needles, show the least contamination, with 77 ng/g (dw) per site. A predominance of 3-ring and 4-ring PAHs was observed in most samples, with phenanthrene having 30.1% of the total. Naphthalene prevailed in remote sites. Rainfall had no influence on the PAHs levels, but there was a relationship between higher wind speeds and lower concentrations. PAH molecular ratios revealed the influence of both petrogenic and pyrogenic sources.

GASS-WEB: a web server for identifying enzyme active sites based on genetic algorithms.

Science.gov (United States)

Moraes, João P A; Pappa, Gisele L; Pires, Douglas E V; Izidoro, Sandro C

2017-07-03

Enzyme active sites are important and conserved functional regions of proteins whose identification can be an invaluable step toward protein function prediction. Most of the existing methods for this task are based on active site similarity and present limitations including performing only exact matches on template residues, template size restraints, despite not being capable of finding inter-domain active sites. To fill this gap, we proposed GASS-WEB, a user-friendly web server that uses GASS (Genetic Active Site Search), a method based on an evolutionary algorithm to search for similar active sites in proteins. GASS-WEB can be used under two different scenarios: (i) given a protein of interest, to match a set of specific active site templates; or (ii) given an active site template, looking for it in a database of protein structures. The method has shown to be very effective on a range of experiments and was able to correctly identify >90% of the catalogued active sites from the Catalytic Site Atlas. It also managed to achieve a Matthew correlation coefficient of 0.63 using the Critical Assessment of protein Structure Prediction (CASP 10) dataset. In our analysis, GASS was ranking fourth among 18 methods. GASS-WEB is freely available at http://gass.unifei.edu.br/. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

Composite Structural Motifs of Binding Sites for Delineating Biological Functions of Proteins

Science.gov (United States)

Kinjo, Akira R.; Nakamura, Haruki

2012-01-01

Most biological processes are described as a series of interactions between proteins and other molecules, and interactions are in turn described in terms of atomic structures. To annotate protein functions as sets of interaction states at atomic resolution, and thereby to better understand the relation between protein interactions and biological functions, we conducted exhaustive all-against-all atomic structure comparisons of all known binding sites for ligands including small molecules, proteins and nucleic acids, and identified recurring elementary motifs. By integrating the elementary motifs associated with each subunit, we defined composite motifs that represent context-dependent combinations of elementary motifs. It is demonstrated that function similarity can be better inferred from composite motif similarity compared to the similarity of protein sequences or of individual binding sites. By integrating the composite motifs associated with each protein function, we define meta-composite motifs each of which is regarded as a time-independent diagrammatic representation of a biological process. It is shown that meta-composite motifs provide richer annotations of biological processes than sequence clusters. The present results serve as a basis for bridging atomic structures to higher-order biological phenomena by classification and integration of binding site structures. PMID:22347478

Site characterization and validation. Stage 2 - Preliminary predictions

International Nuclear Information System (INIS)

Olsson, O.; Black, J.H.; Gale, J.E.; Holmes, D.C.

1989-05-01

The Site Characterization and Validation (SCV) project is designed to assess how well we can characterize a volume of rock prior to using it as a repository. The programme of work focuses on the validation of the techniques used in site characterization. The SCV project contains 5 stages of work arranged in two 'cycles' of data-gathering, prediction, and validation. The first stage of work has included drilling of 6 boreholes (N2, N3, N4, W1, W2 and V3) and measurements of geology, fracture characteristics, stess, single borehole geophysical logging, radar, seismics and hydrogeology. The rock at the SCV site is granite with small lithological variations. Based essentially on radar and seismic results 5 'fracture zones' have been identified, named GA, GB, GC, GH and GI. They all extend acroos the entire SCV site. They aer basically in in two groups (GA, GB, GC and GH, GI). The first group are aligned N40 degree E with a dip of 35 degree to the south. The second group are aligned approximately N10 degree W dipping 60 degree E. From the stochastic analysis of the joint data it was possible to identify three main fracture orientation clusters. The orientation of two of these clusters agree roughly with orientation of the main features. Cluster B has roughly the same orientation as GH and GI, while features GA, GB and GC have an orientation similar to the more loosely defined cluster C. The orientation of the third cluster (A) is northwest with a dip to northeast. It is found that 94% of all measured hydraulic transmissivity is accounted for by 4% of the tested rock, not all of this 'concentrated' transmissivity is with the major features defined by geophysics. When the hydraulic connections across the site are examied they show that there are several welldefined zones which permit rapid transmission of hydraulic signals. These are essentially from the northeast to the southwest. (66 figs., 21 tabs., 33 refs.)

Similar or different?: the importance of similarities and differences for support between siblings

NARCIS (Netherlands)

Voorpostel, M.; van der Lippe, T.; Dykstra, P.A.; Flap, H.

2007-01-01

Using a large-scale Dutch national sample (N = 7,126), the authors examine the importance of similarities and differences in the sibling dyad for the provision of support. Similarities are assumed to enhance attraction and empathy; differences are assumed to be related to different possibilities for

Similar or Different? The Importance of Similarities and Differences for Support Between Siblings

NARCIS (Netherlands)

Voorpostel, Marieke; Lippe, Tanja van der; Dykstra, Pearl A.; Flap, Henk

2007-01-01

Using a large-scale Dutch national sample (N = 7,126), the authors examine the importance of similarities and differences in the sibling dyad for the provision of support. Similarities are assumed to enhance attraction and empathy; differences are assumed to be related to different possibilities for

On-site cell field test support program

Science.gov (United States)

Staniunas, J. W.; Merten, G. P.

1982-09-01

Utility sites for data monitoring were reviewed and selected. Each of these sites will be instrumented and its energy requirements monitored and analyzed for one year prior to the selection of 40 Kilowatt fuel cell field test sites. Analyses in support of the selection of sites for instrumentation shows that many building sectors offered considerable market potential. These sectors include nursing home, health club, restaurant, industrial, hotel/motel and apartment.

Self-similar cosmological models

Energy Technology Data Exchange (ETDEWEB)

Chao, W Z [Cambridge Univ. (UK). Dept. of Applied Mathematics and Theoretical Physics

1981-07-01

The kinematics and dynamics of self-similar cosmological models are discussed. The degrees of freedom of the solutions of Einstein's equations for different types of models are listed. The relation between kinematic quantities and the classifications of the self-similarity group is examined. All dust local rotational symmetry models have been found.

Sonographic Appearance of Abdominal Wall at the Left Flank of Laparotomy Incision Site in Ettawah Grade Does

Directory of Open Access Journals (Sweden)

M. F. Ulum

2014-12-01

Full Text Available The aim of this study was to describe the sonographic appearance of abdominal wall at the left flank of laparotomy incision site in 11 mated Ettawah grade does. Brightness-mode ultrasound examination by using transducer with frequency of 5.0-6.0 MHz was conducted to grouping the does based on their pregnancy statuses. The incision site of the abdominal wall at left flank laparotomy was transcutaneous-scanned as long as 8 cm vertically. The sonographic appearance of the laparotomy wall thickness showed that in all groups of does were similar and not different statistically. The thickness of oblique external and oblique internal abdominal muscles increased in the pregnant does as compared to non-pregnant does (P<0.05.

Assessment of Vegetation Structural Diversity and Similarity Index of ...

African Journals Online (AJOL)

Data were analysed using descriptive statistics, relative density, diversity and similarity indices. The result showed that the forest reserve has one hundred and ninety species of plants belonging to sixty three families. The dominant plant families recorded in the forest are Leguminosae (12.63%), Rubiaceae (8.42%), ...

Similarity analyses of chromatographic herbal fingerprints: A review

International Nuclear Information System (INIS)

Goodarzi, Mohammad; Russell, Paul J.; Vander Heyden, Yvan

2013-01-01

Graphical abstract: -- Highlights: •Similarity analyses of herbal fingerprints are reviewed. •Different (dis)similarity approaches are discussed. •(Dis)similarity-metrics and exploratory-analysis approaches are illustrated. •Correlation and distance-based measures are overviewed. •Similarity analyses illustrated by several case studies. -- Abstract: Herbal medicines are becoming again more popular in the developed countries because being “natural” and people thus often assume that they are inherently safe. Herbs have also been used worldwide for many centuries in the traditional medicines. The concern of their safety and efficacy has grown since increasing western interest. Herbal materials and their extracts are very complex, often including hundreds of compounds. A thorough understanding of their chemical composition is essential for conducting a safety risk assessment. However, herbal material can show considerable variability. The chemical constituents and their amounts in a herb can be different, due to growing conditions, such as climate and soil, the drying process, the harvest season, etc. Among the analytical methods, chromatographic fingerprinting has been recommended as a potential and reliable methodology for the identification and quality control of herbal medicines. Identification is needed to avoid fraud and adulteration. Currently, analyzing chromatographic herbal fingerprint data sets has become one of the most applied tools in quality assessment of herbal materials. Mostly, the entire chromatographic profiles are used to identify or to evaluate the quality of the herbs investigated. Occasionally only a limited number of compounds are considered. One approach to the safety risk assessment is to determine whether the herbal material is substantially equivalent to that which is either readily consumed in the diet, has a history of application or has earlier been commercialized i.e. to what is considered as reference material. In order

Similarity analyses of chromatographic herbal fingerprints: A review

Energy Technology Data Exchange (ETDEWEB)

Goodarzi, Mohammad [Department of Analytical Chemistry and Pharmaceutical Technology, Center for Pharmaceutical Research, Vrije Universiteit Brussel, Laarbeeklaan 103, B-1090 Brussels (Belgium); Russell, Paul J. [Safety and Environmental Assurance Centre, Unilever, Colworth Science Park, Sharnbrook, Bedfordshire MK44 1LQ (United Kingdom); Vander Heyden, Yvan, E-mail: yvanvdh@vub.ac.be [Department of Analytical Chemistry and Pharmaceutical Technology, Center for Pharmaceutical Research, Vrije Universiteit Brussel, Laarbeeklaan 103, B-1090 Brussels (Belgium)

2013-12-04

Graphical abstract: -- Highlights: •Similarity analyses of herbal fingerprints are reviewed. •Different (dis)similarity approaches are discussed. •(Dis)similarity-metrics and exploratory-analysis approaches are illustrated. •Correlation and distance-based measures are overviewed. •Similarity analyses illustrated by several case studies. -- Abstract: Herbal medicines are becoming again more popular in the developed countries because being “natural” and people thus often assume that they are inherently safe. Herbs have also been used worldwide for many centuries in the traditional medicines. The concern of their safety and efficacy has grown since increasing western interest. Herbal materials and their extracts are very complex, often including hundreds of compounds. A thorough understanding of their chemical composition is essential for conducting a safety risk assessment. However, herbal material can show considerable variability. The chemical constituents and their amounts in a herb can be different, due to growing conditions, such as climate and soil, the drying process, the harvest season, etc. Among the analytical methods, chromatographic fingerprinting has been recommended as a potential and reliable methodology for the identification and quality control of herbal medicines. Identification is needed to avoid fraud and adulteration. Currently, analyzing chromatographic herbal fingerprint data sets has become one of the most applied tools in quality assessment of herbal materials. Mostly, the entire chromatographic profiles are used to identify or to evaluate the quality of the herbs investigated. Occasionally only a limited number of compounds are considered. One approach to the safety risk assessment is to determine whether the herbal material is substantially equivalent to that which is either readily consumed in the diet, has a history of application or has earlier been commercialized i.e. to what is considered as reference material. In order

Comparative assessment of coal tars obtained from 10 former manufactured gas plant sites in the eastern United States

Energy Technology Data Exchange (ETDEWEB)

Brown, D.G.; Gupta, L.; Kim, T.H.; Moo-Young, H.K.; Coleman, A.J. [Lehigh University, Bethlehem, PA (United States). Dept. of Civil & Environmental Engineering

2006-11-15

A comparative analysis was performed on eleven coal tars obtained from former manufactured gas plant sites in the eastern United States. Bulk properties analyzed included percent ash, Karl Fisher water content, viscosity and average molecular weight. Chemical properties included monocyclic- and polycyclic-aromatic hydrocarbon (PAH) concentrations, alkylated aromatic concentrations, and concentrations of aliphatic and aromatic fractions. It was found that there was at least an order-of-magnitude variation in all properties measured between the eleven coal tars. Additionally, two coal tars obtained from the same manufactured gas plant site had very different properties, highlighting that there can be wide variations in coal tar properties from different samples obtained from the same site. Similarities were also observed between the coal tars. The relative chemical distributions were similar for all coal tars, and the coal tars predominantly consisted of PAHs, with naphthalene being the single-most prevalent compound. The C{sub 9-22} aromatic fraction, an indicator of all PAHs up to a molecular weight of approximately 276 g mole{sup -1}, showed a strong power-law relationship with the coal tar average molecular weight (MWct). And the concentrations of individual PAHs decreased linearly as MWct increased up to ca. 1000 g mole{sup -1}, above which they remained low and variable. Implications of these properties and their variation with MWct on groundwater quality are discussed. Ultimately, while these similarities do allow generalities to be made about coal tars, the wide range of coal tar bulk and chemical properties reported here highlights the complex nature of coal tars.

The Lusi eruption site: insights from surface and subsurface investigations

Science.gov (United States)

Mazzini, A.

2017-12-01

The Indonesian Lusi eruption has been spewing boiling water, gas, and sediments since the 29th of May 2006. Initially, numerous aligned eruptions sites appeared along the Watukosek fault system (WFS) that was reactivated after the Yogyakarta earthquake occurring the 27th of May in the Java Island. Within weeks several villages were submerged by boiling mud. The most prominent eruption site was named Lusi. To date Lusi is still active and an area of 7 km2is covered by mud. Since its birth Lusi erupted with a pulsating behaviour. In the framework of the ERC grant "Lusi Lab" we conducted several years of monitoring and regional investigations coupling surface sampling and subsurface imaging in the region around Lusi. Ambient noise tomography studies, obtained with a local network of 31 stations, revealed for the first time subsurface images of the Lusi region and the adjacent Arjuno-Welirang (AW) volcanic complex. Results show that below the AW volcanic complex are present 5km deep magma chambers that are connected, through a defined corridor, with the roots of the Lusi eruption site. The Lusi subsurface shows the presence of a defined vertical hydrothermal plume that extends to at least 5km. Chemical analyses of the seeping fluids sampled from 1) the Lusi plume (using a specifically designed drone), 2) the region around Lusi, and 3) the fumaroles and the hydro thermal springs of AW, revealed striking similarities. More specifically a mantellic signature of the Lusi fluids confirms the scenario that Lusi represents a magmatic-driven hydrothermal system hosted in sedimentary basin. Seismic profiles interpretation, surface mapping, and fluid sampling show that the WFS, connecting AW and extending towards the NE of Java, acted as a preferential pathway for the igneous intrusion and fluids migration towards the subsurface. Petrography and dating of the clasts erupted at Lusi record high temperatures and indicate that the roots of the active conduit extend to at least 5km

Benefits of Multiple Methods for Evaluating HIV Counseling and Testing Sites in Pennsylvania.

Science.gov (United States)

Encandela, John A.; Gehl, Mary Beth; Silvestre, Anthony; Schelzel, George

1999-01-01

Examines results from two methods used to evaluate publicly funded human immunodeficiency virus (HIV) counseling and testing in Pennsylvania. Results of written mail surveys of all sites and interviews from a random sample of 30 sites were similar in terms of questions posed and complementary in other ways. (SLD)

Mortality in employees at a New Zealand agrochemical manufacturing site

Science.gov (United States)

Burns, Carol J.; Herbison, G. Peter; Humphry, Noel F.; Bodner, Kenneth; Collins, James J.

2009-01-01

Background Previous studies at the Dow AgroSciences (Formerly Ivon Watkins-Dow) plant in New Plymouth, New Zealand, had raised concerns about the cancer risk in a subset of workers at the site with potential exposure to 2,3,7,8-tetrachlorodibenzo-p-dioxin. As the plant had been involved in the synthesis and formulation of a wide range of agrochemicals and their feedstocks, we examined the mortality risk for all workers at the site. Aims To quantify the mortality hazards arising from employment at the Dow AgroSciences agrochemical production site in New Plymouth, New Zealand. Methods Workers employed between 1 January 1969 and 1 October 2003 were followed up to the end of 2004. Standardized mortality ratios (SMRs) were calculated using national mortality rates by employment duration, sex, period of hire and latency. Results A total of 1754 employees were followed during the study period and 247 deaths were observed. The all causes and all cancers SMRs were 0.97 (95% CI 0.85–1.10) and 1.01 (95% CI 0.80–1.27), respectively. Mortality due to all causes was higher for short-term workers (SMR 1.23, 95% CI 0.91–1.62) than long-term workers (SMR 0.92, 95% CI 0.80–1.06) and women had lower death rates than men. Analyses by latency and period of hire did not show any patterns consistent with an adverse impact of occupational exposures. Conclusions The mortality experience of workers at the site was similar to the rest of New Zealand. PMID:19297337

Characterization Report Operational Closure Covers for the Area 5 Radioactive Waste Management Site at the Nevada Test Site

International Nuclear Information System (INIS)

Bechtel Nevada Geotechnical Sciences

2005-01-01

Bechtel Nevada (BN) manages two low-level Radioactive Waste Management Sites (RWMSs) at the Nevada Test Site (NTS) for the U.S. Department of Energy (DOE) National Nuclear Security Administration Nevada Site Office (NNSA/NSO). The Area 3 RWMS is located in south-central Yucca Flat and the Area 5 RWMS is located about 15 miles south, in north-central Frenchman Flat. Though located in two separate topographically closed basins, they are similar in climate and hydrogeologic setting. The Area 5 RWMS uses engineered shallow-land burial cells to dispose of packaged waste, while the Area 3 RWMS uses subsidence craters formed from underground testing of nuclear weapons for the disposal of packaged and unpackaged bulk waste. Over the next several decades, most waste disposal units at both the Area 3 and Area 5 RWMSs are anticipated to be closed. Closure of the Area 3 and Area 5 RWMSs will proceed through three phases: operational closure, final closure, and institutional control. Many waste disposal units at the Area 5RWMS are operationally closed and final closure has been placed on one unit at the Area 3 RWMS (U-3ax/bl). Because of the similarities between the two sites (e.g., type of wastes, environmental factors, operational closure cover designs, etc.), many characterization studies and data collected at the Area 3 RWMS are relevant and applicable to the Area 5 RWMS. For this reason, data and closure strategies from the Area 3 RWMS are referred to as applicable. This document is an interim Characterization Report - Operational Closure Covers, for the Area 5 RWMS. The report briefly describes the Area 5 RWMS and the physical environment where it is located, identifies the regulatory requirements, reviews the approach and schedule for closing, summarizes the monitoring programs, summarizes characterization studies and results, and then presents conclusions and recommendations

Quantifying accelerated soil erosion through ecological site-based assessments of wind and water erosion

Science.gov (United States)

This work explores how organising soil erosion assessments using established groupings of similar soils (ecological sites) can inform systems for managing accelerated soil erosion. We evaluated aeolian sediment transport and fluvial erosion rates for five ecological sites in southern New Mexico, USA...

Warping similarity space in category learning by human subjects: the role of task difficulty

OpenAIRE

Pevtzow, Rachel; Harnad, Stevan

1997-01-01

In innate Categorical Perception (CP) (e.g., colour perception), similarity space is "warped," with regions of increased within-category similarity (compression) and regions of reduced between-category similarity (separation) enh ancing the category boundaries and making categorisation reliable and all-or-none rather than graded. We show that category learning can likewise warp similarity space, resolving uncertainty near category boundaries. Two Hard and two Easy texture learning tasks were ...

Self-similarity in the equation of motion of a ship

Directory of Open Access Journals (Sweden)

Gyeong Joong Lee

2014-06-01

Full Text Available If we want to analyze the motion of a body in fluid, we should use rigid-body dynamics and fluid dynamics together. Even if the rigid-body and fluid dynamics are each self-consistent, there arises the problem of self-similar structure in the equation of motion when the two dynamics are coupled with each other. When the added mass is greater than the mass of a body, the calculated motion is divergent because of its self-similar structure. This study showed that the above problem is an inherent problem. This problem of self-similar structure may arise in the equation of motion in which the fluid dynamic forces are treated as external forces on the right hand side of the equation. A reconfiguration technique for the equation of motion using pseudo-added-mass was proposed to resolve the self-similar structure problem; specifically for the case when the fluid force is expressed by integration of the fluid pressure.

Reducing the risk of surgical site infection: a case controlled study of contamination of theatre clothing.

Science.gov (United States)

Sivanandan, Indu; Bowker, Karen E; Bannister, Gordon C; Soar, Jasmeet

2011-02-01

Surgical site infections are one of the most important causes of healthcare associated infections (HCAI), accounting for 20% of all HCAIs. Surgical site infections affect 1% of joint replacement operations. This study was designed to assess whether theatre clothing is contaminated more inside or outside the theatre suite. Petri dishes filled with horse blood agar were pressed on theatre clothes at 0, 2, 4, 6 and 8 hours to sample bacterial contamination in 20 doctors whilst working in and outside the theatre suite. The results showed that there was greater bacterial contamination when outside the theatre suite at 2 hours. There were no differences in the amount of contamination at 4, 6 and 8 hours. This study suggests that the level of contamination of theatre clothes is similar both inside and outside the theatre setting.

Young Children's Analogical Reasoning across Cultures: Similarities and Differences

Science.gov (United States)

Richland, Lindsey Engle; Chan, Tsz-Kit; Morrison, Robert G.; Au, Terry Kit-Fong

2010-01-01

A cross-cultural comparison between U.S. and Hong Kong preschoolers examined factors responsible for young children's analogical reasoning errors. On a scene analogy task, both groups had adequate prerequisite knowledge of the key relations, were the same age, and showed similar baseline performance, yet Chinese children outperformed U.S. children…

SiteChar. Characterisation of European CO2 storage. Deliverable 8.4. Quantitative social site characterisations

Energy Technology Data Exchange (ETDEWEB)

Brunsting, S.; Mastop, E.A. [ECN Policy Studies, Energy research Centre of the Netherlands ECN, Amsterdam (Netherlands); Kaiser, M.; Zimmer, R. [Unabhaengiges Institut fuer Umweltfragen UfU, Berlin (Germany)

2013-06-15

This report describes the results of the last stage of the in-depth social site characterisation activities at two prospective CCS sites as part of the SiteChar project: a CCS onshore site and a CCS offshore site. The onshore site is the Zalecze and Zuchlow site application (Poland - WP5) and the offshore site is the North Sea Moray Firth site (UK - WP3). This deliverable describes the results from a repeated quantitative measurement of local awareness, knowledge, and perceptions of CCS at both sites using representative surveys. For comparison and discussion of all SiteChar WP8 results we refer to the final summary report D8.5. The 2nd survey showed some interesting results. First of all, awareness of CCS was still very low. While in the UK around half of the respondents had at least heard of local plans for CCS, in Poland this was only 21%. It seems that awareness in the UK was mostly induced by specific plans in the area that were abandoned in the course of the SiteChar project. Second, it seems that on the whole the local publics were rather positive about CCS. Most respondents expected a positive impact of CCS on the region. In the UK, arguments for that were mainly economic, while in Poland arguments were mainly related to environmental concerns. Although there are some worries about risks of leakage, especially at the onshore site in Poland, people think that authorities will properly regulate CCS and monitor the safety of CCS. Expectations were mostly that it would be good for the country and that it will help reach international targets for CO2 reduction and buy time to develop renewable energy. Respondents seemed uncertain about the costs of using CCS and whether the technique is ready for widespread use. Especially in Poland people seemed to agree that CCS is essential for tackling climate change. Most differences between the two sites may be attributed to the proximity of the site to the local community. The Polish site is onshore and therefore much

Chemical and physical characteristics of tar samples from selected Manufactured Gas Plant (MGP) sites

International Nuclear Information System (INIS)

Ripp, J.; Taylor, B.; Mauro, D.; Young, M.

1993-05-01

A multiyear, multidisciplinary project concerning the toxicity of former Manufactured Gas Plant (MGP) tarry residues was initiated by EPRI under the Environmental Behavior of Organic Substances (EBOS) Program. This report concerns one portion of that work -- the collection and chemical characterization of tar samples from several former MGP sites. META Environmental, Inc. and Atlantic Environmental Services, Inc. were contracted by EPRI to collect several samples of tarry residues from former MGP sites with varied historical gas production processes and from several parts of the country. The eight tars collected during this program were physically very different. Some tars were fluid and easily pumped from existing wells, while other tars were thicker, semi-solid, or solid. Although care was taken to collect only tar, the nature of the residues at several sites made it impossible not to collect other material, such as soil, gravel, and plant matter. After the samples were collected, they were analyzed for 37 organic compounds, 8 metals, and cyanide. In addition, elemental analysis was performed on the tar samples for carbon, hydrogen, oxygen, sulfur and nitrogen content and several physical/chemical properties were determined for each tar. The tars were mixed together in different batches and distributed to researchers for use in animal toxicity studies. The results of this work show that, although the tars were produced from different processes and stored in different manners, they had some chemical similarities. All of the tars, with the exception of one unusual solid tar, contained similar relative abundances of polycyclic aromatic hydrocarbons (PAHs)

The serotonin transporter in rhesus monkey brain: comparison of DASB and citalopram binding sites

International Nuclear Information System (INIS)

Zeng Zhizhen; Chen, T.-B.; Miller, Patricia J.; Dean, Dennis; Tang, Y.S.; Sur, Cyrille; Williams, David L.

2006-01-01

We have characterized the interaction of the serotonin transporter ligand [ 3 H]-N,N-dimethyl-2-(2-amino-4-cyanophenylthio)-benzylamine (DASB) with rhesus monkey brain in vitro using tissue homogenate binding and autoradiographic mapping. [ 3 H]-DASB, a tritiated version of the widely used [ 11 C] positron emission tomography tracer, was found to selectively bind to a single population of sites with high affinity (K d =0.20±0.04 nM). The serotonin transporter density (B max ) obtained for rhesus frontal cortex was found to be 66±8 fmol/mg protein using [ 3 H]-DASB, similar to the B max value obtained using the reference radioligand [ 3 H]-citalopram, a well-characterized and highly selective serotonin reuptake inhibitor (83±22 fmol/mg protein). Specific binding sites of both [ 3 H]-DASB and [ 3 H]-citalopram were similarly and nonuniformly distributed throughout the rhesus central nervous system, in a pattern consistent with serotonin transporter localization reported for human brain. Regional serotonin transporter densities, estimated from optical densities of the autoradiographic images, were well correlated between the two radioligands. Finally, DASB and fluoxetine showed dose-dependent full inhibition of [ 3 H]-citalopram binding in a competition autoradiographic study, with K i values in close agreement with those obtained from rhesus brain homogenates. This side-by-side comparison of [ 3 H]-DASB and [ 3 H]-citalopram binding sites in rhesus tissue homogenates and in adjacent rhesus brain slices provides additional support for the use of [ 11 C]-DASB to assess the availability and distribution of serotonin transporters in nonhuman primates

Investigation of off-site airborne transport of lead from a superfund removal action site using lead isotope ratios and concentrations

Science.gov (United States)

Pribil, Michael J.; Maddaloni, Mark A.; Staiger, Kimberly; Wilson, Eric; Magriples, Nick; Ali, Mustafa; Santella, Dennis

2014-01-01

Lead (Pb) concentration and Pb isotopic composition of surface and subsurface soil samples were used to investigate the potential for off-site air transport of Pb from a former white Pb processing facility to neighboring residential homes in a six block area on Staten Island, NY. Surface and subsurface soil samples collected on the Jewett White Pb site were found to range from 1.122 to 1.138 for 206Pb/207Pb and 2.393 to 2.411 for 208Pb/207Pb. The off-site surface soil samples collected from residential backyards, train trestle, near site grass patches and background areas varied from 1.144 to 1.196 for 206Pb/207Pb and 2.427 to 2.464 for 208Pb/207Pb. Two soil samples collected along Richmond Terrace, where Jewett site soils accumulated after major rain events, varied from 1.136 to 1.147 for 206Pb/207Pb and 2.407 to 2.419 for 208Pb/207Pb. Lead concentration for on-site surface soil samples ranged from 450 to 8000 ug/g, on-site subsurface soil samples ranged from 90,000 to 240,000 ug/g and off-site samples varied from 380 to 3500 ug/g. Lead concentration and isotopic composition for the Staten Island off-site samples were similar to previously published data for other northeastern US cities and reflect re-suspension and re-mobilization of local accumulated Pb. The considerable differences in both the Pb isotopic composition and Pb concentration of on-site and off-site samples resulted in the ability to geochemically trace the transport of particulate Pb. Data in this study indicate minimal off-site surface transport of Pb from the Jewett site into the neighboring residential area.

Childhood leukaemia and non-Hodgkin's lymphoma near large rural construction sites, with a comparison with Sellafield nuclear site