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Sample records for bloodusing simple protein

  1. Simple sequence proteins in prokaryotic proteomes

    OpenAIRE

    Ramachandran Srinivasan; Gnanamani Muthiah; Subramanyam Mekapati

    2006-01-01

    Abstract Background The structural and functional features associated with Simple Sequence Proteins (SSPs) are non-globularity, disease states, signaling and post-translational modification. SSPs are also an important source of genetic and possibly phenotypic variation. Analysis of 249 prokaryotic proteomes offers a new opportunity to examine the genomic properties of SSPs. Results SSPs are a minority but they grow with proteome size. This relationship is exhibited across species varying in g...

  2. Simple sequence proteins in prokaryotic proteomes

    Directory of Open Access Journals (Sweden)

    Ramachandran Srinivasan

    2006-06-01

    Full Text Available Abstract Background The structural and functional features associated with Simple Sequence Proteins (SSPs are non-globularity, disease states, signaling and post-translational modification. SSPs are also an important source of genetic and possibly phenotypic variation. Analysis of 249 prokaryotic proteomes offers a new opportunity to examine the genomic properties of SSPs. Results SSPs are a minority but they grow with proteome size. This relationship is exhibited across species varying in genomic GC, mutational bias, life style, and pathogenicity. Their proportion in each proteome is strongly influenced by genomic base compositional bias. In most species simple duplications is favoured, but in a few cases such as Mycobacteria, large families of duplications occur. Amino acid preference in SSPs exhibits a trend towards low cost of biosynthesis. In SSPs and in non-SSPs, Alanine, Glycine, Leucine, and Valine are abundant in species widely varying in genomic GC whereas Isoleucine and Lysine are rich only in organisms with low genomic GC. Arginine is abundant in SSPs of two species and in the non-SSPs of Xanthomonas oryzae. Asparagine is abundant only in SSPs of low GC species. Aspartic acid is abundant only in the non-SSPs of Halobacterium sp NRC1. The abundance of Serine in SSPs of 62 species extends over a broader range compared to that of non-SSPs. Threonine(T is abundant only in SSPs of a couple of species. SSPs exhibit preferential association with Cell surface, Cell membrane and Transport functions and a negative association with Metabolism. Mesophiles and Thermophiles display similar ranges in the content of SSPs. Conclusion Although SSPs are a minority, the genomic forces of base compositional bias and duplications influence their growth and pattern in each species. The preferences and abundance of amino acids are governed by low biosynthetic cost, evolutionary age and base composition of codons. Abundance of charged amino acids Arginine

  3. How Simple Can the Proteins Be

    Science.gov (United States)

    Li, Tanping; Wang, Jun; Fan, Ke; Wang, Wei

    The validity of complexity simplifications for proteins with different structural features may be different. In this paper, the simplification for proteins is studied using the ratios of successful prediction of structural class under a presumed amino-acid-grouping scheme with a composition-coupled method. It is found that for the α-class proteins, a two-letter alphabet may cover the degree of freedom to characterize the complexity of the class; for the β-class proteins, a 7-letter alphabet might indicate the minimal number of residue types to reconstruct the class feature of the natural proteins; for the α + β-class proteins and the α/β-class proteins, the redundancy of the compositions is weak and the simplification leads to a great loss of the information related to the corresponding structural classes.

  4. Neutral evolution of Protein-protein interactions: a computational study using simple models

    OpenAIRE

    Simonson Thomas; Noirel Josselin

    2007-01-01

    Abstract Background Protein-protein interactions are central to cellular organization, and must have appeared at an early stage of evolution. To understand better their role, we consider a simple model of protein evolution and determine the effect of an explicit selection for Protein-protein interactions. Results In the model, viable sequences all have the same fitness, following the neutral evolution theory. A very simple, two-dimensional lattice representation of the protein structures is u...

  5. A Simple Algorithm for Maximum Clique and Matching Protein Structures

    Directory of Open Access Journals (Sweden)

    S. Balaji

    2010-09-01

    Full Text Available The maximum common subgraph (MCS problem has become increasingly important in matching protein structures of two proteins. Two proteins represented as graphs by simple contact map and product of these graphs was input to the proposed algorithm. A maximum clique in the product graph, found by the proposed algorithm, provides a measure of the structural similarity between the two proteins. The proposed algorithm produced optimal solution for most of the benchmark problem of the protein data bank and also for the public domain DIMACS benchmark problems of maximum clique. The computational results show that the prposed algorithm efficiently produces the common substructure of two proteins, used for protein structural analysis and protein classification.

  6. A simple stochastic model for the evolution of protein lengths

    OpenAIRE

    Destri C.; Miccio C.

    2007-01-01

    We analyze a simple discrete-time stochastic process for the theoretical modeling of the evolution of protein lengths. At every step of the process, a new protein is produced as a modi¿cation of one of the proteins already existing, and its length is assumed to be a random variable that depends only on the length of the originating protein. Thus a random recursive tree is produced over the natural numbers. If quasi scale invariance is assumed, the length distribution in a single history tends...

  7. A simple probabilistic model of multibody interactions in proteins

    DEFF Research Database (Denmark)

    Johansson, Kristoffer Enøe; Hamelryck, Thomas

    2013-01-01

    predictions. Our coarse-grained model is compared to state-of-art methods that use full atomic detail. This article illustrates how the use of simple probabilistic models can lead to new opportunities in the treatment of nonlocal interactions in knowledge-based protein structure prediction and design.......Protein structure prediction methods typically use statistical potentials, which rely on statistics derived from a database of know protein structures. In the vast majority of cases, these potentials involve pairwise distances or contacts between amino acids or atoms. Although some potentials...... beyond pairwise interactions have been described, the formulation of a general multibody potential is seen as intractable due to the perceived limited amount of data. In this article, we show that it is possible to formulate a probabilistic model of higher order interactions in proteins, without...

  8. A simple probabilistic model of multibody interactions in proteins.

    Science.gov (United States)

    Johansson, Kristoffer Enøe; Hamelryck, Thomas

    2013-08-01

    Protein structure prediction methods typically use statistical potentials, which rely on statistics derived from a database of know protein structures. In the vast majority of cases, these potentials involve pairwise distances or contacts between amino acids or atoms. Although some potentials beyond pairwise interactions have been described, the formulation of a general multibody potential is seen as intractable due to the perceived limited amount of data. In this article, we show that it is possible to formulate a probabilistic model of higher order interactions in proteins, without arbitrarily limiting the number of contacts. The success of this approach is based on replacing a naive table-based approach with a simple hierarchical model involving suitable probability distributions and conditional independence assumptions. The model captures the joint probability distribution of an amino acid and its neighbors, local structure and solvent exposure. We show that this model can be used to approximate the conditional probability distribution of an amino acid sequence given a structure using a pseudo-likelihood approach. We verify the model by decoy recognition and site-specific amino acid predictions. Our coarse-grained model is compared to state-of-art methods that use full atomic detail. This article illustrates how the use of simple probabilistic models can lead to new opportunities in the treatment of nonlocal interactions in knowledge-based protein structure prediction and design. PMID:23468247

  9. Simple model of p H-induced protein denaturation

    Science.gov (United States)

    Hidaka, T.; Shimada, A.; Nakata, Y.; Kodama, H.; Kurihara, H.; Tokihiro, T.; Ihara, S.

    2015-07-01

    The p H-induced conformational changes of proteins are systematically studied in the framework of a hydrophobic-polar (HP) model, in which proteins are dramatically simplified as chains of hydrophobic (H) and polar (P) beads on a lattice. We express the electrostatic interaction, the principal driving force of p H-induced unfolding that is not included in the conventional HP model, as the repulsive energy term between P monomers. As a result of the exact enumeration of all of the 14- to 18-mers, it is found that lowest-energy states in many sequences change from single "native" conformations to multiple sets of "denatured" conformations with an increase in the electrostatic repulsion. The switching of the lowest-energy states occurs in quite a similar way to real proteins: it is almost always between two states, while in a small fraction of ≥16 -mers it is between three states. We also calculate the structural fluctuations for all of the denatured states and find that the denatured states contain a broad range of incompletely unfolded conformations, similar to "molten globule" states referred to in acid or alkaline denatured real proteins. These results show that the proposed model provides a simple physical picture of p H-induced protein denaturation.

  10. Neutral evolution of Protein-protein interactions: a computational study using simple models

    Directory of Open Access Journals (Sweden)

    Simonson Thomas

    2007-11-01

    Full Text Available Abstract Background Protein-protein interactions are central to cellular organization, and must have appeared at an early stage of evolution. To understand better their role, we consider a simple model of protein evolution and determine the effect of an explicit selection for Protein-protein interactions. Results In the model, viable sequences all have the same fitness, following the neutral evolution theory. A very simple, two-dimensional lattice representation of the protein structures is used, and the model only considers two kinds of amino acids: hydrophobic and polar. With these approximations, exact calculations are performed. The results do not depend too strongly on these assumptions, since a model using a 3D, off-lattice representation of the proteins gives results in qualitative agreement with the 2D one. With both models, the evolutionary dynamics lead to a steady state population that is enriched in sequences that dimerize with a high affinity, well beyond the minimal level needed to survive. Correspondingly, sequences close to the viability threshold are less abundant in the steady state, being subject to a larger proportion of lethal mutations. The set of viable sequences has a "funnel" shape, consistent with earlier studies: sequences that are highly populated in the steady state are "close" to each other (with proximity being measured by the number of amino acids that differ. Conclusion This bias in the the steady state sequences should lead to an increased resistance of the population to environmental change and an increased ability to evolve.

  11. Prediction of thermodynamic instabilities of protein solutions from simple protein–protein interactions

    Energy Technology Data Exchange (ETDEWEB)

    D’Agostino, Tommaso [Dipartimento di Fisica, Università di Palermo, Via Archirafi 36, 90123 Palermo (Italy); Solana, José Ramón [Departamento de Física Aplicada, Universidad de Cantabria, 39005 Santander (Spain); Emanuele, Antonio, E-mail: antonio.emanuele@unipa.it [Dipartimento di Fisica, Università di Palermo, Via Archirafi 36, 90123 Palermo (Italy)

    2013-10-16

    Highlights: ► We propose a model of effective protein–protein interaction embedding solvent effects. ► A previous square-well model is enhanced by giving to the interaction a free energy character. ► The temperature dependence of the interaction is due to entropic effects of the solvent. ► The validity of the original SW model is extended to entropy driven phase transitions. ► We get good fits for lysozyme and haemoglobin spinodal data taken from literature. - Abstract: Statistical thermodynamics of protein solutions is often studied in terms of simple, microscopic models of particles interacting via pairwise potentials. Such modelling can reproduce the short range structure of protein solutions at equilibrium and predict thermodynamics instabilities of these systems. We introduce a square well model of effective protein–protein interaction that embeds the solvent’s action. We modify an existing model [45] by considering a well depth having an explicit dependence on temperature, i.e. an explicit free energy character, thus encompassing the statistically relevant configurations of solvent molecules around proteins. We choose protein solutions exhibiting demixing upon temperature decrease (lysozyme, enthalpy driven) and upon temperature increase (haemoglobin, entropy driven). We obtain satisfactory fits of spinodal curves for both the two proteins without adding any mean field term, thus extending the validity of the original model. Our results underline the solvent role in modulating or stretching the interaction potential.

  12. Simple method for identification of plasmid-coded proteins

    International Nuclear Information System (INIS)

    Proteins encoded by plasmid DNA are specifically labeled in uv-irradiated cells of Escherichia coli carrying recA and uvrA mutations because extensive degradation of the chromosome DNA occurs concurrently with amplification of plasmid DNA

  13. A Simple and Effective Protein Folding Activity Suitable for Large Lectures

    Science.gov (United States)

    White, Brian

    2006-01-01

    This article describes a simple and inexpensive hands-on simulation of protein folding suitable for use in large lecture classes. This activity uses a minimum of parts, tools, and skill to simulate some of the fundamental principles of protein folding. The major concepts targeted are that proteins begin as linear polypeptides and fold to…

  14. A simple and fast heuristic for protein structure comparison

    Directory of Open Access Journals (Sweden)

    Moreno Vega Marcos

    2008-03-01

    Full Text Available Abstract Background Protein structure comparison is a key problem in bioinformatics. There exist several methods for doing protein comparison, being the solution of the Maximum Contact Map Overlap problem (MAX-CMO one of the alternatives available. Although this problem may be solved using exact algorithms, researchers require approximate algorithms that obtain good quality solutions using less computational resources than the formers. Results We propose a variable neighborhood search metaheuristic for solving MAX-CMO. We analyze this strategy in two aspects: 1 from an optimization point of view the strategy is tested on two different datasets, obtaining an error of 3.5%(over 2702 pairs and 1.7% (over 161 pairs with respect to optimal values; thus leading to high accurate solutions in a simpler and less expensive way than exact algorithms; 2 in terms of protein structure classification, we conduct experiments on three datasets and show that is feasible to detect structural similarities at SCOP's family and CATH's architecture levels using normalized overlap values. Some limitations and the role of normalization are outlined for doing classification at SCOP's fold level. Conclusion We designed, implemented and tested.a new tool for solving MAX-CMO, based on a well-known metaheuristic technique. The good balance between solution's quality and computational effort makes it a valuable tool. Moreover, to the best of our knowledge, this is the first time the MAX-CMO measure is tested at SCOP's fold and CATH's architecture levels with encouraging results. Software is available for download at http://modo.ugr.es/jrgonzalez/msvns4maxcmo.

  15. A simple contact mapping algorithm for identifying potential peptide mimetics in protein–protein interaction partners

    OpenAIRE

    Krall, Alex; Brunn, Jonathan; Kankanala, Spandana; Michael H. Peters

    2014-01-01

    A simple, static contact mapping algorithm has been developed as a first step at identifying potential peptide biomimetics from protein interaction partner structure files. This rapid and simple mapping algorithm, “OpenContact” provides screened or parsed protein interaction files based on specified criteria for interatomic separation distances and interatomic potential interactions. The algorithm, which uses all-atom Amber03 force field models, was blindly tested on several unrelated cases f...

  16. A simple immunoblotting method after separation of proteins in agarose gel

    DEFF Research Database (Denmark)

    Koch, C; Skjødt, K; Laursen, I

    A simple and sensitive method for immunoblotting of proteins after separation in agarose gels is described. It involves transfer of proteins onto nitrocellulose paper simply by diffusion through pressure, a transfer which only takes about 10 min. By this method we have demonstrated the existence of...... multiple molecular forms of the complement factors C3 and factor B in serum from 2 species, man and chicken, after electrophoretic separation in agarose. We have also demonstrated the usefulness of the method for determining the isoelectric point of proteins after isoelectric focusing in agarose....

  17. A Simple Model of Protein Domain Swapping in Crowded Cellular Environments.

    Science.gov (United States)

    Woodard, Jaie C; Dunatunga, Sachith; Shakhnovich, Eugene I

    2016-06-01

    Domain swapping in proteins is an important mechanism of functional and structural innovation. However, despite its ubiquity and importance, the physical mechanisms that lead to domain swapping are poorly understood. Here, we present a simple two-dimensional coarse-grained model of protein domain swapping in the cytoplasm. In our model, two-domain proteins partially unfold and diffuse in continuous space. Monte Carlo multiprotein simulations of the model reveal that domain swapping occurs at intermediate temperatures, whereas folded dimers and folded monomers prevail at low temperatures, and partially unfolded monomers predominate at high temperatures. We use a simplified amino acid alphabet consisting of four residue types, and find that the oligomeric state at a given temperature depends on the sequence of the protein. We also show that hinge strain between domains can promote domain swapping, consistent with experimental observations for real proteins. Domain swapping depends nonmonotonically on the protein concentration, with domain-swapped dimers occurring at intermediate concentrations and nonspecific interactions between partially unfolded proteins occurring at high concentrations. For folded proteins, we recover the result obtained in three-dimensional lattice simulations, i.e., that functional dimerization is most prevalent at intermediate temperatures and nonspecific interactions increase at low temperatures. PMID:27276255

  18. A rapid and simple assay for growth hormone-binding protein activity in human plasma

    International Nuclear Information System (INIS)

    The newly discovered circulating growth hormone binding proteins dictate a re-evaluation of the state of GH in plasma in health and disease as the binding proteins are known to affect GH metabolism and action. We describe a rapid and simple GH-binding assay that allows determination of free and complexed plasma GH, as well as GH-binding protein activity as an index of GH-binding protein levels, with relative ease. The method is based on incubation of plasma with 125I-GH and separation of bound from free GH on small DEAE-cellulose columns; it can be used on a large scale for routine determinations. The results obtained by this method are comparable to those obtained with the previously used slow and more cumbersome gel filtration technique. Initial data obtained in normal subject and certain disease states show that the bound fraction of plasma GH is similar in men, women and children, is unaffected by pregnancy or acute infection, but is marginally decreased in liver cirrhosis. In acromegaly, binding protein activity also appears normal when allowance is made for partial saturation of the binding proteins by the high prevailing GH levels. The technique we describe should facilitate investigations of normal and abnormal regulation of the GH binding proteins. (author)

  19. A simple purification and activity assay of the coagulant protein from Moringa oleifera seed.

    Science.gov (United States)

    Ghebremichael, Kebreab A; Gunaratna, K R; Henriksson, Hongbin; Brumer, Harry; Dalhammar, Gunnel

    2005-06-01

    Use of extracts from Moringa oleifera (MO) is of great interest for low-cost water treatment. This paper discusses water and salt extraction of a coagulant protein from the seed, purification using ion exchange, its chemical characteristics, coagulation and antimicrobial properties. The coagulant from both extracts is a cationic protein with pI greater than 9.6 and molecular mass less than 6.5 kDa. Mass spectrometric analysis of the purified water extract indicated that it contained at least four homologous proteins, based on MS/MS peptide sequence data. The protein is thermoresistant and remained active after 5h heat treatment at 95 degrees C. The coagulant protein showed both flocculating and antibacterial effects of 1.1--4 log reduction. With samples of high turbidity, the MO extract showed similar coagulation activity as alum. Cecropin A and MO extract were found to have similar flocculation effects for clay and microorganisms. Simple methods for both the purification and assay of MO coagulating proteins are presented, which are necessary for large-scale water treatment applications. PMID:15921719

  20. Structure, Function, Self-Assembly and Origin of Simple Membrane Proteins

    Science.gov (United States)

    Pohorille, Andrew

    2003-01-01

    Integral membrane proteins perform such essential cellular functions as transport of ions, nutrients and waste products across cell walls, transduction of environmental signals, regulation of cell fusion, recognition of other cells, energy capture and its conversion into high-energy compounds. In fact, 30-40% of genes in modem organisms codes for membrane proteins. Although contemporary membrane proteins or their functional assemblies can be quite complex, their transmembrane fragments are usually remarkably simple. The most common structural motif for these fragments is a bundle of alpha-helices, but occasionally it could be a beta-barrel. In a series of molecular dynamics computer simulations we investigated self-organizing properties of simple membrane proteins based on these structural motifs. Specifically, we studied folding and insertion into membranes of short, nonpolar or amphiphatic peptides. We also investigated glycophorin A, a peptide that forms sequence-specific dimers, and a transmembrane aggregate of four identical alpha-helices that forms an efficient and selective voltage-gated proton channel was investigated. Many peptides are attracted to water-membrane interfaces. Once at the interface, nonpolar peptides spontaneously fold to a-helices. Whenever the sequence permits, peptides that contain both polar and nonpolar amino also adopt helical structures, in which polar and nonpolar amino acid side chains are immersed in water and membrane, respectively. Specific identity of side chains is less important. Helical peptides at the interface could insert into the membrane and adopt a transmembrane conformation. However, insertion of a single helix is unfavorable because polar groups in the peptide become completely dehydrated upon insertion. The unfavorable free energy of insertion can be regained by spontaneous association of peptides in the membrane. The first step in this process is the formation of dimers, although the most common are aggregates of 4

  1. A simple and reliable approach to docking protein-protein complexes from very sparse NOE-derived intermolecular distance restraints

    International Nuclear Information System (INIS)

    A simple and reliable approach for docking protein-protein complexes from very sparse NOE-derived intermolecular distance restraints (as few as three from a single point) in combination with a novel representation for an attractive potential between mapped interaction surfaces is described. Unambiguous assignments of very sparse intermolecular NOEs are obtained using a reverse labeling strategy in which one the components is fully deuterated with the exception of selective protonation of the δ-methyl groups of isoleucine, while the other component is uniformly 13C-labeled. This labeling strategy can be readily extended to selective protonation of Ala, Leu, Val or Met. The attractive potential is described by a 'reduced' radius of gyration potential applied specifically to a subset of interfacial residues (those with an accessible surface area ≥ 50% in the free proteins) that have been delineated by chemical shift perturbation. Docking is achieved by rigid body minimization on the basis of a target function comprising the sparse NOE distance restraints, a van der Waals repulsion potential and the 'reduced' radius of gyration potential. The method is demonstrated for two protein-protein complexes (EIN-HPr and IIAGlc-HPr) from the bacterial phosphotransferase system. In both cases, starting from 100 different random orientations of the X-ray structures of the free proteins, 100% convergence is achieved to a single cluster (with near identical atomic positions) with an overall backbone accuracy of ∼2 A. The approach described is not limited to NMR, since interfaces can also be mapped by alanine scanning mutagenesis, and sparse intermolecular distance restraints can be derived from double cycle mutagenesis, cross-linking combined with mass spectrometry, or fluorescence energy transfer

  2. A simple apparatus for generating stretched polyacrylamide gels, yielding uniform alignment of proteins and detergent micelles

    International Nuclear Information System (INIS)

    Compressed and stretched polyacrylamide hydrogels previously have been shown to offer a robust method for aligning proteins. A simple, funnel-like apparatus is described for generating uniformly stretched hydrogels. For prolate-shaped proteins, gels stretched in the direction of the magnetic field yield two-fold larger alignment than gels compressed to the same aspect ratio in this direction. Empirically, protein alignment is found to be proportional to (c-2.3)2 [(do/dN)3-1], where do and dN are the diameters of the cylindrical gels before and after stretching, respectively, and c is the polyacrylamide weight fraction in percent. Low gel densities, in the 4-7% range, are found to have minimal effects on macromolecular rotational correlation times, τc, and no effect of the compression ratio on τc could be discerned over the range studied (do/dNle1.4). Application is demonstrated for a sample containing the first Ig-binding domain of protein G, and for a detergent-solubilized peptide

  3. A simple yeast-based strategy to identify host cellular processes targeted by bacterial effector proteins.

    Directory of Open Access Journals (Sweden)

    Eran Bosis

    Full Text Available Bacterial effector proteins, which are delivered into the host cell via the type III secretion system, play a key role in the pathogenicity of gram-negative bacteria by modulating various host cellular processes to the benefit of the pathogen. To identify cellular processes targeted by bacterial effectors, we developed a simple strategy that uses an array of yeast deletion strains fitted into a single 96-well plate. The array is unique in that it was optimized computationally such that despite the small number of deletion strains, it covers the majority of genes in the yeast synthetic lethal interaction network. The deletion strains in the array are screened for hypersensitivity to the expression of a bacterial effector of interest. The hypersensitive deletion strains are then analyzed for their synthetic lethal interactions to identify potential targets of the bacterial effector. We describe the identification, using this approach, of a cellular process targeted by the Xanthomonas campestris type III effector XopE2. Interestingly, we discover that XopE2 affects the yeast cell wall and the endoplasmic reticulum stress response. More generally, the use of a single 96-well plate makes the screening process accessible to any laboratory and facilitates the analysis of a large number of bacterial effectors in a short period of time. It therefore provides a promising platform for studying the functions and cellular targets of bacterial effectors and other virulence proteins.

  4. Determination of olanzapine in whole blood using simple protein precipitation and liquid chromatography-tandem mass spectrometry

    DEFF Research Database (Denmark)

    Nielsen, Marie Katrine Klose; Johansen, Sys Stybe

    2009-01-01

    A simple, sensitive, and reproducible liquid chromatography-tandem mass spectrometry method has been developed and validated for the quantification of the antipsychotic drug olanzapine in whole blood using dibenzepine as internal standard (IS). After acidic methanol-induced protein precipitation of...

  5. Birth and death of protein domains: A simple model of evolution explains power law behavior

    Directory of Open Access Journals (Sweden)

    Berezovskaya Faina S

    2002-10-01

    Full Text Available Abstract Background Power distributions appear in numerous biological, physical and other contexts, which appear to be fundamentally different. In biology, power laws have been claimed to describe the distributions of the connections of enzymes and metabolites in metabolic networks, the number of interactions partners of a given protein, the number of members in paralogous families, and other quantities. In network analysis, power laws imply evolution of the network with preferential attachment, i.e. a greater likelihood of nodes being added to pre-existing hubs. Exploration of different types of evolutionary models in an attempt to determine which of them lead to power law distributions has the potential of revealing non-trivial aspects of genome evolution. Results A simple model of evolution of the domain composition of proteomes was developed, with the following elementary processes: i domain birth (duplication with divergence, ii death (inactivation and/or deletion, and iii innovation (emergence from non-coding or non-globular sequences or acquisition via horizontal gene transfer. This formalism can be described as a birth, death and innovation model (BDIM. The formulas for equilibrium frequencies of domain families of different size and the total number of families at equilibrium are derived for a general BDIM. All asymptotics of equilibrium frequencies of domain families possible for the given type of models are found and their appearance depending on model parameters is investigated. It is proved that the power law asymptotics appears if, and only if, the model is balanced, i.e. domain duplication and deletion rates are asymptotically equal up to the second order. It is further proved that any power asymptotic with the degree not equal to -1 can appear only if the hypothesis of independence of the duplication/deletion rates on the size of a domain family is rejected. Specific cases of BDIMs, namely simple, linear, polynomial and rational

  6. Ethidium bromide provides a simple tool for identifying genuine DNA-independent protein associations.

    OpenAIRE

    J. S. Lai; Herr, W

    1992-01-01

    DNA-dependent and DNA-independent associations of DNA-binding proteins are important in transcriptional regulation. The analysis of DNA-independent associations frequently relies on assaying protein interaction in the absence of target DNA sequences. We have found that contaminating DNA in protein preparations can stabilize DNA-dependent associations that may appear DNA-independent. Three cellular proteins of 70, 85, and 110 kDa coimmunoprecipitated with the octamer motif-binding protein Oct-...

  7. Simple screening method for autoantigen proteins using the N-terminal biotinylated protein library produced by wheat cell-free synthesis.

    Science.gov (United States)

    Matsuoka, Kazuhiro; Komori, Hiroaki; Nose, Masato; Endo, Yaeta; Sawasaki, Tatsuya

    2010-08-01

    Autoimmune diseases are a heterogeneous group of diseases characterized by immune reactions against either a major or a limited number of the bodies own autoantigens, causing inflammation and damage to tissues and organs. Thus, identification of autoantigens is an important first step to understanding autoimmune diseases. Here we demonstrate a simple screening method for identification of autoantigens reacting with patient serum antibodies by combination of an N-terminal biotinylated protein library (BPL), produced using a wheat cell-free protein production system, and a commercially available luminescence system. Optimization studies using well-characterized autoantigens showed specific interactions between N-terminal biotinylated proteins and antibody that were sensitively detected under homogeneous reaction conditions. In this optimized assay, 1 microL of the translation mixture expressing the biotinylated proteins produced significant luminescence signal by addition of diluted serum between 1:500 and 1:10 000 in 25 microL of reaction volume. For the BPL construction, 214 mouse genes, consisting of 103 well-known autoantigens and 111 genes in the mouse autoimmune susceptibility loci, and the sera of MRL/lpr mouse were used as an autoimmune model. By this screening method, 25 well-known autoantigens and 71 proteins in the loci were identified as autoantigen proteins specifically reacting with sera antibodies. Cross-referencing with the Gene Ontology Database, 26 and 38 of autoantigen proteins were predicted to have nuclear localization and identified as membrane and/or extracellular proteins. The immune reaction of six randomly selected proteins was confirmed by immunoprecipitation and/or immunoblot analyses. Interestingly, three autoantigen proteins were recognized by immunoprecipitation but not by immunoblot analysis. These results suggest that the BPL-based method could provide a simple system for screening of autoantigen proteins and would help with

  8. Elution of proteins from polyacrylamide eels: a simple and economic procedure

    OpenAIRE

    Vera Bongertz

    1989-01-01

    A simplified methodology for the quantitative electroelution of proteins from polyacrylamide gels is described. After staining with Coomassie Brilliant Blue R 250, the identified bands are excised from the gel and the proteins eluted using a procedure developed for use in conventional tube gel electrophoresis equipment.

  9. A simple and cost-effective solid-phase protein nano-assay using polyacrylamide-coated glass plates.

    Science.gov (United States)

    Krajewski, Wladyslaw A

    2015-02-01

    A new solid-phase protein nano-assay is suggested for simple and sensitive estimation of protein content in sample buffers (a 1-μl sample is sufficient for analysis). The assay is different from conventional "on-filter" assays in that it uses inexpensive fully transparent polyacrylamide gel (PAAG)-coated glass plates as solid support and, thus, combines the convenience of "on-membrane" staining with the sensitivity and ease of documentation of "in-gel" staining (and, therefore, is especially suited for standard lab gel documentation systems). The PAAG plates assay is compatible with all dyes for in-gel protein staining. Depending on the sensitivity of the staining protocol, the assay can be used in macro-, micro-, and nano-assay formats. We also describe a low-cost two-component colloidal Coomassie brilliant blue G-250 (CBB G-250) staining protocol for fast quantitative visualization of proteins spotted on a PAAG plate (the detection limit is up to 2 ng of proteins even when using a Nikon CoolPix digital camera and white light transilluminator instead of a gel scanner). The suggested colloidal CBB G-250 protocol could also be used for visualizing nano-amounts of proteins in polyacrylamide gels. The PAAG plate assay could be useful for proteomic applications and, in general, for all cases where a fast, sensitive, and easily documentable cost-effective solid-phase protein assay is required. PMID:25449300

  10. Simple Method of Synthesizing Nickel-Nitrilotriacetic Acid Gold Nanoparticles with a Narrow Size Distribution for Protein Labeling

    Science.gov (United States)

    Kitai, Toshiyuki; Watanabe, Yuta; Toyoshima, Yoko Y.; Kobayashi, Takuya; Murayama, Takashi; Sakaue, Hiroyuki; Suzuki, Hitoshi; Takahagi, Takayuki

    2011-09-01

    We developed a simple method to synthesize nickel-nitrilotriacetic acid gold nanoparticles (Ni-NTA Au NPs) with a narrow size distribution for site-specific labeling in protein complexes. Au NPs were synthesized by the reduction of HAuCl4 using trisodium citrate and tannin acid. Then, the nanoparticle surfaces were modified with NTA and subsequent complexation with Ni2+. The mean diameter of the synthesized Ni-NTA Au NPs was 4.3 nm, and the coefficient of variation was 9%. The specific binding of the Ni-NTA Au NPs to polyhistidine-tagged (His-tagged) proteins was determined by transmission electron microscopy using kinesin and the p62 subunit of dynactin. Consequently, our method is useful for analyzing the substructures of protein complexes.

  11. A simple detection method for low-affinity membrane protein interactions by baculoviral display.

    Directory of Open Access Journals (Sweden)

    Toshiko Sakihama

    Full Text Available BACKGROUND: Membrane protein interactions play an important role in cell-to-cell recognition in various biological activities such as in the immune or neural system. Nevertheless, there has remained the major obstacle of expression of the membrane proteins in their active form. Recently, we and other investigators found that functional membrane proteins express on baculovirus particles (budded virus, BV. In this study, we applied this BV display system to detect interaction between membrane proteins important for cell-to-cell interaction in immune system. METHODOLOGY/PRINCIPAL FINDINGS: We infected Sf9 cells with recombinant baculovirus encoding the T cell membrane protein CD2 or its ligand CD58 and recovered the BV. We detected specific interaction between CD2-displaying BV and CD58-displaying BV by an enzyme-linked immunosorbent assay (ELISA. Using this system, we also detected specific interaction between two other membrane receptor-ligand pairs, CD40-CD40 ligand (CD40L, and glucocorticoid-induced TNFR family-related protein (GITR-GITR ligand (GITRL. Furthermore, we observed specific binding of BV displaying CD58, CD40L, or GITRL to cells naturally expressing their respective receptors by flowcytometric analysis using anti-baculoviral gp64 antibody. Finally we isolated CD2 cDNA from a cDNA expression library by magnetic separation using CD58-displaying BV and anti-gp64 antibody. CONCLUSIONS: We found the BV display system worked effectively in the detection of the interaction of membrane proteins. Since various membrane proteins and their oligomeric complexes can be displayed on BV in the native form, this BV display system should prove highly useful in the search for natural ligands or to develop screening systems for therapeutic antibodies and/or compounds.

  12. A simple principle concerning the robustness of protein complex activity to changes in gene expression

    Directory of Open Access Journals (Sweden)

    Lehner Ben

    2008-01-01

    Full Text Available Abstract Background The functions of a eukaryotic cell are largely performed by multi-subunit protein complexes that act as molecular machines or information processing modules in cellular networks. An important problem in systems biology is to understand how, in general, these molecular machines respond to perturbations. Results In yeast, genes that inhibit growth when their expression is reduced are strongly enriched amongst the subunits of multi-subunit protein complexes. This applies to both the core and peripheral subunits of protein complexes, and the subunits of each complex normally have the same loss-of-function phenotypes. In contrast, genes that inhibit growth when their expression is increased are not enriched amongst the core or peripheral subunits of protein complexes, and the behaviour of one subunit of a complex is not predictive for the other subunits with respect to over-expression phenotypes. Conclusion We propose the principle that the overall activity of a protein complex is in general robust to an increase, but not to a decrease in the expression of its subunits. This means that whereas phenotypes resulting from a decrease in gene expression can be predicted because they cluster on networks of protein complexes, over-expression phenotypes cannot be predicted in this way. We discuss the implications of these findings for understanding how cells are regulated, how they evolve, and how genetic perturbations connect to disease in humans.

  13. Simple Screening Method for Autoantigen Proteins Using the N-Terminal Biotinylated Protein Library Produced by Wheat Cell-Free Synthesis

    OpenAIRE

    Matsuoka, Kazuhiro; Komori, Hiroaki; Nose, Masato; Endo, Yaeta; Sawasaki, Tatsuya

    2010-01-01

    Autoimmune diseases are a heterogeneous group of diseases characterized by immune reactions against either a major or a limited number of the bodies own autoantigens, causing inflammation and damage to tissues and organs. Thus, identification of autoantigens is an important first step to understanding autoimmune diseases. Here we demonstrate a simple screening method for identification of autoantigens reacting with patient serum antibodies by combination of an N-terminal biotinylated protein ...

  14. Simple biophysics underpins collective conformations of the intrinsically disordered proteins of the Nuclear Pore Complex.

    Science.gov (United States)

    Vovk, Andrei; Gu, Chad; Opferman, Michael G; Kapinos, Larisa E; Lim, Roderick Yh; Coalson, Rob D; Jasnow, David; Zilman, Anton

    2016-01-01

    Nuclear Pore Complexes (NPCs) are key cellular transporter that control nucleocytoplasmic transport in eukaryotic cells, but its transport mechanism is still not understood. The centerpiece of NPC transport is the assembly of intrinsically disordered polypeptides, known as FG nucleoporins, lining its passageway. Their conformations and collective dynamics during transport are difficult to assess in vivo. In vitro investigations provide partially conflicting results, lending support to different models of transport, which invoke various conformational transitions of the FG nucleoporins induced by the cargo-carrying transport proteins. We show that the spatial organization of FG nucleoporin assemblies with the transport proteins can be understood within a first principles biophysical model with a minimal number of key physical variables, such as the average protein interaction strengths and spatial densities. These results address some of the outstanding controversies and suggest how molecularly divergent NPCs in different species can perform essentially the same function. PMID:27198189

  15. Simple Method To Prepare Oligonucleotide-Conjugated Antibodies and Its Application in Multiplex Protein Detection in Single Cells.

    Science.gov (United States)

    Gong, Haibiao; Holcomb, Ilona; Ooi, Aik; Wang, Xiaohui; Majonis, Daniel; Unger, Marc A; Ramakrishnan, Ramesh

    2016-01-20

    The diversity of nucleic acid sequences enables genomics studies in a highly multiplexed format. Since multiplex protein detection is still a challenge, it would be useful to use genomics tools for this purpose. This can be accomplished by conjugating specific oligonucleotides to antibodies. Upon binding of the oligonucleotide-conjugated antibodies to their targets, the protein levels can be converted to oligonucleotide levels. In this report we describe a simple method for preparing oligonucleotide-conjugated antibodies and discuss this method's application in oligonucleotide extension reaction (OER) for multiplex protein detection. Conjugation is based on strain-promoted alkyne-azide cycloaddition (the Cu-free click reaction), in which the antibody is activated with a dibenzocyclooctyne (DBCO) moiety and subsequently linked covalently with an azide-modified oligonucleotide. In the functional test, the reaction conditions and purification processes were optimized to achieve maximum yield and best performance. The OER assay employs a pair of antibody binders (two antibodies, each conjugated with its own oligonucleotide) developed for each protein target. The two oligonucleotides contain unique six-base complementary regions at their 3' prime ends to allow annealing and extension by DNA synthesis enzymes to form a DNA template. Following preamplification, the DNA template is detected by qPCR. Distinct oligonucleotide sequences are assigned to different antibody binders to enable multiplex protein detection. When tested using recombinant proteins, some antibody binders, such as those specific to CSTB, MET, EpCAM, and CASP3, had dynamic ranges of 5-6 logs. The antibody binders were also used in a multiplexed format in OER assays, and the binders successfully detected their protein targets in cell lysates, and in single cells in combination with the C1 system. This click reaction-based antibody conjugation procedure is cost-effective, needs minimal hands-on time, and

  16. Introducing Proteomics in the Undergraduate Curriculum: A Simple 2D Gel Electrophoresis Exercise with Serum Proteins

    Science.gov (United States)

    Kim, Thomas D.; Craig, Paul A.

    2010-01-01

    Two-dimensional gel electrophoresis (2DGE) remains an important tool in the study of biological systems by proteomics. While the use of 2DGE is commonplace in research publications, there are few instructional laboratories that address the use of 2DGE for analyzing complex protein samples. One reason for this lack is the fact that the preparation…

  17. A simple strategy based on photobiotin irradiation for the photoelectrochemical immobilization of proteins on electrode surfaces

    International Nuclear Information System (INIS)

    A photoactivable organic polymer was prepared first by electrogeneration of a conductive biotinylated polypyrrole film in acetonitrile electrolyte. The successive anchoring of avidin and photobiotin led to a multilayer configuration. The latter was illuminated with light (wavelength 370-400 nm) in the presence of proteins adsorbed onto its surface. The irradiation allowed the covalent linking of the proteins to the modified electrode. As a result of the photochemical reaction, a monolayer of enzyme (glucose oxidase, GOX or alkaline phosphatase, AP) was covalently bound to the photobiotin-modified surface with retention of their catalytic activities. The surfacic activities were 34 and 1.69 mU cm-2 for GOX and AP photobiotin electrodes, respectively. These enzyme electrodes were compared to similar configurations obtained through the immobilization of biotinylated glucose oxidase or avidin-conjugated alkaline phosphatase on biotinylated polypyrrole film. Our results suggest that both procedures led to the immobilization of the same enzyme amount, namely a protein monolayer. This novel photo-immobilization methodology was also successfully applied to the anchoring of an anti-cholera toxin antibody which was then detected by a secondary antibody labelled with a peroxidase

  18. Simple biophysics underpins collective conformations of the intrinsically disordered proteins of the Nuclear Pore Complex

    Science.gov (United States)

    Vovk, Andrei; Gu, Chad; Opferman, Michael G; Kapinos, Larisa E; Lim, Roderick YH; Coalson, Rob D; Jasnow, David; Zilman, Anton

    2016-01-01

    Nuclear Pore Complexes (NPCs) are key cellular transporter that control nucleocytoplasmic transport in eukaryotic cells, but its transport mechanism is still not understood. The centerpiece of NPC transport is the assembly of intrinsically disordered polypeptides, known as FG nucleoporins, lining its passageway. Their conformations and collective dynamics during transport are difficult to assess in vivo. In vitro investigations provide partially conflicting results, lending support to different models of transport, which invoke various conformational transitions of the FG nucleoporins induced by the cargo-carrying transport proteins. We show that the spatial organization of FG nucleoporin assemblies with the transport proteins can be understood within a first principles biophysical model with a minimal number of key physical variables, such as the average protein interaction strengths and spatial densities. These results address some of the outstanding controversies and suggest how molecularly divergent NPCs in different species can perform essentially the same function. DOI: http://dx.doi.org/10.7554/eLife.10785.001 PMID:27198189

  19. No simple dependence between protein evolution rate and the number of protein-protein interactions: only the most prolific interactors tend to evolve slowly

    Directory of Open Access Journals (Sweden)

    Koonin Eugene V

    2003-01-01

    Full Text Available Abstract Background It has been suggested that rates of protein evolution are influenced, to a great extent, by the proportion of amino acid residues that are directly involved in protein function. In agreement with this hypothesis, recent work has shown a negative correlation between evolutionary rates and the number of protein-protein interactions. However, the extent to which the number of protein-protein interactions influences evolutionary rates remains unclear. Here, we address this question at several different levels of evolutionary relatedness. Results Manually curated data on the number of protein-protein interactions among Saccharomyces cerevisiae proteins was examined for possible correlation with evolutionary rates between S. cerevisiae and Schizosaccharomyces pombe orthologs. Only a very weak negative correlation between the number of interactions and evolutionary rate of a protein was observed. Furthermore, no relationship was found between a more general measure of the evolutionary conservation of S. cerevisiae proteins, based on the taxonomic distribution of their homologs, and the number of protein-protein interactions. However, when the proteins from yeast were assorted into discrete bins according to the number of interactions, it turned out that 6.5% of the proteins with the greatest number of interactions evolved, on average, significantly slower than the rest of the proteins. Comparisons were also performed using protein-protein interaction data obtained with high-throughput analysis of Helicobacter pylori proteins. No convincing relationship between the number of protein-protein interactions and evolutionary rates was detected, either for comparisons of orthologs from two completely sequenced H. pylori strains or for comparisons of H. pylori and Campylobacter jejuni orthologs, even when the proteins were classified into bins by the number of interactions. Conclusion The currently available comparative-genomic data do not

  20. Simple clinical means of documenting increased pulmonary endothelial permeability to protein

    Energy Technology Data Exchange (ETDEWEB)

    Mishkin, F.S.; Niden, A.; Kumar, A.; Thomas, A.; Reese, I.C.; Vasinrapee, P.

    1987-02-20

    The authors investigated a simple method that can be used at the bedside for documenting the net accumulation of albumin in the lung. The technique employs measurement with a computer-linked gamma camera of the activity ratio in an area of the right lung compared with the same-sized area in the heart at 20 minutes and three hours following intravenous injection of technetium Tc 99m albumin. They applied this measurement to three groups of patients: a control group and patients with roentgenographic evidence of edema classified according to clinically available criteria as either hydrostatic edema or permeability edema to see if they could document differences among these groups. In control patients this ratio did not increase by more than seven units between the 20-minute and three-hour measurements. Of 18 patients classified by other routine clinical means as having hydrostatic pulmonary edema, 89% showed no increase in lung albumin accumulation. In 29 patients with permeability edema associated with the so-called adult respiratory distress syndrome, 31% showed evidence of net pulmonary albumin accumulation. These findings suggest that some patients otherwise classified as having hydrostatic edema have concomitant permeability changes in the microvasculature and that permeability edema represents a spectrum of endothelial damage.

  1. Simple clinical means of documenting increased pulmonary endothelial permeability to protein

    International Nuclear Information System (INIS)

    The authors investigated a simple method that can be used at the bedside for documenting the net accumulation of albumin in the lung. The technique employs measurement with a computer-linked gamma camera of the activity ratio in an area of the right lung compared with the same-sized area in the heart at 20 minutes and three hours following intravenous injection of technetium Tc 99m albumin. They applied this measurement to three groups of patients: a control group and patients with roentgenographic evidence of edema classified according to clinically available criteria as either hydrostatic edema or permeability edema to see if they could document differences among these groups. In control patients this ratio did not increase by more than seven units between the 20-minute and three-hour measurements. Of 18 patients classified by other routine clinical means as having hydrostatic pulmonary edema, 89% showed no increase in lung albumin accumulation. In 29 patients with permeability edema associated with the so-called adult respiratory distress syndrome, 31% showed evidence of net pulmonary albumin accumulation. These findings suggest that some patients otherwise classified as having hydrostatic edema have concomitant permeability changes in the microvasculature and that permeability edema represents a spectrum of endothelial damage

  2. Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems

    Directory of Open Access Journals (Sweden)

    Wolf Yuri I

    2011-07-01

    Full Text Available Abstract Background The CRISPR-Cas adaptive immunity systems that are present in most Archaea and many Bacteria function by incorporating fragments of alien genomes into specific genomic loci, transcribing the inserts and using the transcripts as guide RNAs to destroy the genome of the cognate virus or plasmid. This RNA interference-like immune response is mediated by numerous, diverse and rapidly evolving Cas (CRISPR-associated proteins, several of which form the Cascade complex involved in the processing of CRISPR transcripts and cleavage of the target DNA. Comparative analysis of the Cas protein sequences and structures led to the classification of the CRISPR-Cas systems into three Types (I, II and III. Results A detailed comparison of the available sequences and structures of Cas proteins revealed several unnoticed homologous relationships. The Repeat-Associated Mysterious Proteins (RAMPs containing a distinct form of the RNA Recognition Motif (RRM domain, which are major components of the CRISPR-Cas systems, were classified into three large groups, Cas5, Cas6 and Cas7. Each of these groups includes many previously uncharacterized proteins now shown to adopt the RAMP structure. Evidence is presented that large subunits contained in most of the CRISPR-Cas systems could be homologous to Cas10 proteins which contain a polymerase-like Palm domain and are predicted to be enzymatically active in Type III CRISPR-Cas systems but inactivated in Type I systems. These findings, the fact that the CRISPR polymerases, RAMPs and Cas2 all contain core RRM domains, and distinct gene arrangements in the three types of CRISPR-Cas systems together provide for a simple scenario for origin and evolution of the CRISPR-Cas machinery. Under this scenario, the CRISPR-Cas system originated in thermophilic Archaea and subsequently spread horizontally among prokaryotes. Conclusions Because of the extreme diversity of CRISPR-Cas systems, in-depth sequence and structure

  3. Simple assay method for proteins carrying sexual hormones (PTHS); values in men, women, and during pregnancy

    International Nuclear Information System (INIS)

    Starting from the fact that the binding forces between steroid hormones and their carrier proteins are similar to those between antigens and antibodies, the paper describes PTHS determination by a dilution method analogous to antiserum labelling for radioimmunoassay. The method consists of the following steps: 1) Plasma dilution, 2) incubation of the solutions with 20,000 dpm 1,2 3H testosterone, 3) separation of the tracer fraction bound to PTHS by precipitation with ammonium sulfate, 4) centrifugation and measurement of the supernatant, 5) presentation of the findings in a graphical system with the bound steroid fraction, referred to the free steroid (U/L) as the ordinate and the plasma dilutions as the abscissa. The values represent the label in 50% of the sites. The method offers the highest sensitivity, i.e. the steepest parts of the dilution curves where 50% of the binding sites are located. The method also dispenses with tedious processes such as dialysis. The following PTHS values were obtained: 1/5 in men, 1/93 in women, and 1/360 in pregnant women. There were no cross-reactions. (AJ)

  4. A simple two-state protein unfolds mechanically via multiple heterogeneous pathways at single-molecule resolution

    Science.gov (United States)

    Schönfelder, Jörg; Perez-Jimenez, Raul; Muñoz, Victor

    2016-06-01

    A major drive in protein folding has been to develop experimental technologies to resolve the myriads of microscopic pathways and complex mechanisms that purportedly underlie simple two-state folding behaviour. This is key for cross-validating predictions from theory and modern computer simulations. Detecting such complexity experimentally has remained elusive even using methods with improved time, structural or single-molecule resolution. Here, we investigate the mechanical unfolding of cold shock protein B (Csp), a showcase two-state folder, using single-molecule force-spectroscopy. Under controlled-moderate pulling forces, the unfolding of Csp emerges as highly heterogeneous with trajectories ranging from single sweeps to different combinations of multiple long-lived mechanical intermediates that also vary in order of appearance. Steered molecular dynamics simulations closely reproduce the experimental observations, thus matching unfolding patterns with structural events. Our results provide a direct glimpse at the nanoscale complexity underlying two-state folding, and postulate these combined methods as unique tools for dissecting the mechanical unfolding mechanisms of such proteins.

  5. Simple Machines Made Simple.

    Science.gov (United States)

    St. Andre, Ralph E.

    Simple machines have become a lost point of study in elementary schools as teachers continue to have more material to cover. This manual provides hands-on, cooperative learning activities for grades three through eight concerning the six simple machines: wheel and axle, inclined plane, screw, pulley, wedge, and lever. Most activities can be…

  6. Simple and rapid solid-phase radioimmunoassay for serum progesterone, using the protein A of Staphylococcus aureus as immunoadsorbent

    International Nuclear Information System (INIS)

    A simple, rapid, and inexpensive radioimmunoassay method for serum progesterone is described, which uses a solid-phase technique for separation of antibody-bound from antibody-free progesterone. Rabbit antiprogesterone immunoglobulins are adsorbed on the protein A of formaldehyde- and heat-treated Staphylococcus aureus cells (Pansorbin; Calbiochem-Behring Corp., La Jolla, California). The suspension of antibody-coated Pansorbin retains all its binding activity of 1-2-H(N)-progesterone when kept at + 40 or at -250C for at least 4 months. Dose-response curves obtained with ether-serum extracts and with the progesterone standard do not deviate significantly from parallelism. The progesterone standard gives identical dose-response curves whether diluted in the assay buffer or in a progesterone-free ether-serum extract. The sensitivity of the assay is 0.02 ng/assay tube. The intra-assay variation coefficient is 16%, and the routine interassay variation coefficient is 17%. The mean serum progesterone concentrations were 0.55 ng/ml during the follicular phase of the menstrual cycle and 12.5 ng/ml during the luteal phase. The average blank value for distilled water was 0.02 ng/assay tube

  7. Direct, simple derivatization of disulfide bonds in proteins with organic mercury in alkaline medium without any chemical pre-reducing agents

    International Nuclear Information System (INIS)

    Highlights: • A simple procedure for the derivatization of proteins disulfide bonds. • Cysteine groups in several proteins derivatised with pHMB in alkaline media. • 75–100% labelling of cysteines in proteins with pHMB. - Abstract: In this work we have studied the derivatization of protein disulfide bonds with p-Hydroxymercurybenzoate (pHMB) in strong alkaline medium without any preliminary reduction. The reaction has been followed by the determination of the protein–pHMB complex using size exclusion chromatography coupled to a microwave/UV mercury oxidation system for the on-line oxidation of free and protein-complexed pHMB and atomic fluorescence spectrometry (SEC–CVG–AFS) detection. The reaction has been optimized by an experimental design using lysozyme as a model protein and applied to several thiolic proteins. The proposed method reports, for the first time, that it is possible to label 75–100% cysteines of proteins and, thus, to determine thiolic proteins without the need of any reducing step to obtain reduced -SH groups before mercury labelling. We obtained a detection limit of 100 nmol L−1 based on a signal-to-noise ratio of 3 for unbound and complexed pHMB, corresponding to a detection limit of proteins ranged between 3 and 360 nmol L−1, depending on the number of cysteines in the protein sequence

  8. Direct, simple derivatization of disulfide bonds in proteins with organic mercury in alkaline medium without any chemical pre-reducing agents

    Energy Technology Data Exchange (ETDEWEB)

    Campanella, Beatrice; Onor, Massimo [National Research Council of Italy, C.N.R., Istituto di Chimica dei Composti Organo Metallici-ICCOM- UOS Pisa, Area di Ricerca, Via G. Moruzzi 1, 56124 Pisa (Italy); Ferrari, Carlo [National Research Council of Italy, C.N.R., Istituto Nazionale di Ottica, INO-UOS Pisa, Area di Ricerca, Via G. Moruzzi 1, 56124 Pisa (Italy); D’Ulivo, Alessandro [National Research Council of Italy, C.N.R., Istituto di Chimica dei Composti Organo Metallici-ICCOM- UOS Pisa, Area di Ricerca, Via G. Moruzzi 1, 56124 Pisa (Italy); Bramanti, Emilia, E-mail: bramanti@pi.iccom.cnr.it [National Research Council of Italy, C.N.R., Istituto di Chimica dei Composti Organo Metallici-ICCOM- UOS Pisa, Area di Ricerca, Via G. Moruzzi 1, 56124 Pisa (Italy)

    2014-09-16

    Highlights: • A simple procedure for the derivatization of proteins disulfide bonds. • Cysteine groups in several proteins derivatised with pHMB in alkaline media. • 75–100% labelling of cysteines in proteins with pHMB. - Abstract: In this work we have studied the derivatization of protein disulfide bonds with p-Hydroxymercurybenzoate (pHMB) in strong alkaline medium without any preliminary reduction. The reaction has been followed by the determination of the protein–pHMB complex using size exclusion chromatography coupled to a microwave/UV mercury oxidation system for the on-line oxidation of free and protein-complexed pHMB and atomic fluorescence spectrometry (SEC–CVG–AFS) detection. The reaction has been optimized by an experimental design using lysozyme as a model protein and applied to several thiolic proteins. The proposed method reports, for the first time, that it is possible to label 75–100% cysteines of proteins and, thus, to determine thiolic proteins without the need of any reducing step to obtain reduced -SH groups before mercury labelling. We obtained a detection limit of 100 nmol L{sup −1} based on a signal-to-noise ratio of 3 for unbound and complexed pHMB, corresponding to a detection limit of proteins ranged between 3 and 360 nmol L{sup −1}, depending on the number of cysteines in the protein sequence.

  9. Proteomic screen in the simple metazoan Hydra identifies 14-3-3 binding proteins implicated in cellular metabolism, cytoskeletal organisation and Ca2+ signalling

    Science.gov (United States)

    Pauly, Barbara; Lasi, Margherita; MacKintosh, Carol; Morrice, Nick; Imhof, Axel; Regula, Jörg; Rudd, Stephen; David, Charles N; Böttger, Angelika

    2007-01-01

    Background 14-3-3 proteins have been implicated in many signalling mechanisms due to their interaction with Ser/Thr phosphorylated target proteins. They are evolutionarily well conserved in eukaryotic organisms from single celled protozoans and unicellular algae to plants and humans. A diverse array of target proteins has been found in higher plants and in human cell lines including proteins involved in cellular metabolism, apoptosis, cytoskeletal organisation, secretion and Ca2+ signalling. Results We found that the simple metazoan Hydra has four 14-3-3 isoforms. In order to investigate whether the diversity of 14-3-3 target proteins is also conserved over the whole animal kingdom we isolated 14-3-3 binding proteins from Hydra vulgaris using a 14-3-3-affinity column. We identified 23 proteins that covered most of the above-mentioned groups. We also isolated several novel 14-3-3 binding proteins and the Hydra specific secreted fascin-domain-containing protein PPOD. In addition, we demonstrated that one of the 14-3-3 isoforms, 14-3-3 HyA, interacts with one Hydra-Bcl-2 like protein in vitro. Conclusion Our results indicate that 14-3-3 proteins have been ubiquitous signalling components since the start of metazoan evolution. We also discuss the possibility that they are involved in the regulation of cell numbers in response to food supply in Hydra. PMID:17651497

  10. Proteomic screen in the simple metazoan Hydra identifies 14-3-3 binding proteins implicated in cellular metabolism, cytoskeletal organisation and Ca2+ signalling

    Directory of Open Access Journals (Sweden)

    Imhof Axel

    2007-07-01

    Full Text Available Abstract Background 14-3-3 proteins have been implicated in many signalling mechanisms due to their interaction with Ser/Thr phosphorylated target proteins. They are evolutionarily well conserved in eukaryotic organisms from single celled protozoans and unicellular algae to plants and humans. A diverse array of target proteins has been found in higher plants and in human cell lines including proteins involved in cellular metabolism, apoptosis, cytoskeletal organisation, secretion and Ca2+ signalling. Results We found that the simple metazoan Hydra has four 14-3-3 isoforms. In order to investigate whether the diversity of 14-3-3 target proteins is also conserved over the whole animal kingdom we isolated 14-3-3 binding proteins from Hydra vulgaris using a 14-3-3-affinity column. We identified 23 proteins that covered most of the above-mentioned groups. We also isolated several novel 14-3-3 binding proteins and the Hydra specific secreted fascin-domain-containing protein PPOD. In addition, we demonstrated that one of the 14-3-3 isoforms, 14-3-3 HyA, interacts with one Hydra-Bcl-2 like protein in vitro. Conclusion Our results indicate that 14-3-3 proteins have been ubiquitous signalling components since the start of metazoan evolution. We also discuss the possibility that they are involved in the regulation of cell numbers in response to food supply in Hydra.

  11. A twist on folding: Predicting optimal sequences and optimal folds of simple protein models with the hidden-force algorithm

    CERN Document Server

    Kolossváry, István

    2012-01-01

    We propose a new way of looking at global optimization of off-lattice protein models. We present a dual optimization concept of predicting optimal sequences as well as optimal folds. We validate the utility of the recently introduced hidden-force Monte Carlo optimization algorithm by finding significantly lower energy folds for minimalist protein models than previously reported. Further, we also find the protein sequence that yields the lowest energy fold amongst all sequences for a given chain length and residue mixture. In particular, for protein models with a binary sequence, we show that the sequence-optimized folds form more compact cores than the lowest energy folds of the historically fixed, Fibonacci-series sequences of chain lengths of 13, 21, 34, 55, and 89. We emphasize that while the protein model we used is minimalist, the methodology is applicable to detailed protein models, and sequence optimization may yield novel folds and aid de novo protein design.

  12. Eastern Staining: A Simple Recombinant Protein Detection Technology Using a Small Peptide Tag and Its Orthogonal Fluorescent Compound

    Directory of Open Access Journals (Sweden)

    Jae-Jung Lee

    2012-06-01

    Full Text Available Small peptide tags such as c-myc, HA, or FLAG tag have facilitated efficient Western-blotting of proteins of interest especially when specific antibodies for the proteins are not available. However, the conventional Western-blotting requires the multi-steps process taking at least several hours up to two days. With examples of various applications, here we show a convenient and time-saving method for protein detection which employs a fluorescent chemical BDED and its binding peptide RC-tag. And we propose “Estern staining”, as a standard term for protein detection method using fluorescent chemicals and their binding small peptide tags. Eastern staining may substitutes for the time-consuming “immuno-staining” in many versatile applications.

  13. Hydroxyl Radical Dosimetry for High Flux Hydroxyl Radical Protein Footprinting Applications Using a Simple Optical Detection Method.

    Science.gov (United States)

    Xie, Boer; Sharp, Joshua S

    2015-11-01

    Hydroxyl radical protein footprinting (HRPF) by fast photochemical oxidation of proteins (FPOP) is a powerful benchtop tool used to probe protein structure, interactions, and conformational changes in solution. However, the reproducibility of all HRPF techniques is limited by the ability to deliver a defined concentration of hydroxyl radicals to the protein. This ability is impacted by both the amount of radical generated and the presence of radical scavengers in solution. In order to compare HRPF data from sample to sample, a hydroxyl radical dosimeter is needed that can measure the effective concentration of radical that is delivered to the protein, after accounting for both differences in hydroxyl radical generation and nonanalyte radical consumption. Here, we test three radical dosimeters (Alexa Fluor 488, terepthalic acid, and adenine) for their ability to quantitatively measure the effective radical dose under the high radical concentration conditions of FPOP. Adenine has a quantitative relationship between UV spectrophotometric response, effective hydroxyl radical dose delivered, and peptide and protein oxidation levels over the range of radical concentrations typically encountered in FPOP. The simplicity of an adenine-based dosimeter allows for convenient and flexible incorporation into FPOP applications, and the ability to accurately measure the delivered radical dose will enable reproducible and reliable FPOP across a variety of platforms and applications. PMID:26455423

  14. Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures

    Energy Technology Data Exchange (ETDEWEB)

    Berjanskii, Mark; Zhou Jianjun; Liang Yongjie; Lin Guohui; Wishart, David S., E-mail: david.wishart@ualberta.ca [University of Alberta, Department of Computing Science (Canada)

    2012-07-15

    In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no parameter identical to X-ray resolution. Instead, resolution is often used as a synonym of NMR model quality. Resolution of NMR structures is often deduced from ensemble precision, torsion angle normality and number of distance restraints per residue. The lack of common techniques to assess the resolution of X-ray and NMR structures complicates the comparison of structures solved by these two methods. This problem is sometimes approached by calculating 'equivalent resolution' from structure quality metrics. However, existing protocols do not offer a comprehensive assessment of protein structure as they calculate equivalent resolution from a relatively small number (<5) of protein parameters. Here, we report a development of a protocol that calculates equivalent resolution from 25 measurable protein features. This new method offers better performance (correlation coefficient of 0.92, mean absolute error of 0.28 A) than existing predictors of equivalent resolution. Because the method uses coordinate data as a proxy for X-ray diffraction data, we call this measure 'Resolution-by-Proxy' or ResProx. We demonstrate that ResProx can be used to identify under-restrained, poorly refined or inaccurate NMR structures, and can discover structural defects that the other equivalent resolution methods cannot detect. The ResProx web server is available at http://www.resprox.cahttp://www.resprox.ca.

  15. Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures

    International Nuclear Information System (INIS)

    In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no parameter identical to X-ray resolution. Instead, resolution is often used as a synonym of NMR model quality. Resolution of NMR structures is often deduced from ensemble precision, torsion angle normality and number of distance restraints per residue. The lack of common techniques to assess the resolution of X-ray and NMR structures complicates the comparison of structures solved by these two methods. This problem is sometimes approached by calculating “equivalent resolution” from structure quality metrics. However, existing protocols do not offer a comprehensive assessment of protein structure as they calculate equivalent resolution from a relatively small number (<5) of protein parameters. Here, we report a development of a protocol that calculates equivalent resolution from 25 measurable protein features. This new method offers better performance (correlation coefficient of 0.92, mean absolute error of 0.28 Å) than existing predictors of equivalent resolution. Because the method uses coordinate data as a proxy for X-ray diffraction data, we call this measure “Resolution-by-Proxy” or ResProx. We demonstrate that ResProx can be used to identify under-restrained, poorly refined or inaccurate NMR structures, and can discover structural defects that the other equivalent resolution methods cannot detect. The ResProx web server is available at http://www.resprox.cahttp://www.resprox.ca.

  16. Creating functional sophistication from simple protein building blocks, exemplified by factor H and the regulators of complement activation.

    Science.gov (United States)

    Makou, Elisavet; Herbert, Andrew P; Barlow, Paul N

    2015-10-01

    Complement control protein modules (CCPs) occur in numerous functionally diverse extracellular proteins. Also known as short consensus repeats (SCRs) or sushi domains each CCP contains approximately 60 amino acid residues, including four consensus cysteines participating in two disulfide bonds. Varying in length and sequence, CCPs adopt a β-sandwich type fold and have an overall prolate spheroidal shape with N- and C-termini lying close to opposite poles of the long axis. CCP-containing proteins are important as cytokine receptors and in neurotransmission, cell adhesion, blood clotting, extracellular matrix formation, haemoglobin metabolism and development, but CCPs are particularly well represented in the vertebrate complement system. For example, factor H (FH), a key soluble regulator of the alternative pathway of complement activation, is made up entirely from a chain of 20 CCPs joined by short linkers. Collectively, therefore, the 20 CCPs of FH must mediate all its functional capabilities. This is achieved via collaboration and division of labour among these modules. Structural studies have illuminated the dynamic architectures that allow FH and other CCP-rich proteins to perform their biological functions. These are largely the products of a highly varied set of intramolecular interactions between CCPs. The CCP can act as building block, spacer, highly versatile recognition site or dimerization mediator. Tandem CCPs may form composite binding sites or contribute to flexible, rigid or conformationally 'switchable' segments of the parent proteins. PMID:26517887

  17. The expression of a xylanase targeted to ER-protein bodies provides a simple strategy to produce active insoluble enzyme polymers in tobacco plants.

    Directory of Open Access Journals (Sweden)

    Immaculada Llop-Tous

    Full Text Available BACKGROUND: Xylanases deserve particular attention due to their potential application in the feed, pulp bleaching and paper industries. We have developed here an efficient system for the production of an active xylanase in tobacco plants fused to a proline-rich domain (Zera of the maize storage protein γ-zein. Zera is a self-assembling domain able to form protein aggregates in vivo packed in newly formed endoplasmic reticulum-derived organelles known as protein bodies (PBs. METHODOLOGY/PRINCIPAL FINDINGS: Tobacco leaves were transiently transformed with a binary vector containing the Zera-xylanase coding region, which was optimized for plant expression, under the control of the 35S CaMV promoter. The fusion protein was efficiently expressed and stored in dense PBs, resulting in yields of up to 9% of total protein. Zera-xylanase was post-translationally modified with high-mannose-type glycans. Xylanase fused to Zera was biologically active not only when solubilized from PBs but also in its insoluble form. The resistance of insoluble Zera-xylanase to trypsin digestion demonstrated that the correct folding of xylanase in PBs was not impaired by Zera oligomerization. The activity of insoluble Zera-xylanase was enhanced when substrate accessibility was facilitated by physical treatments such as ultrasound. Moreover, we found that the thermostability of the enzyme was improved when Zera was fused to the C-terminus of xylanase. CONCLUSION/SIGNIFICANCE: In the present work we have successfully produced an active insoluble aggregate of xylanase fused to Zera in plants. Zera-xylanase chimeric protein accumulates within ER-derived protein bodies as active aggregates that can easily be recovered by a simple density-based downstream process. The production of insoluble active Zera-xylanase protein in tobacco outlines the potential of Zera as a fusion partner for producing enzymes of biotechnological relevance. Zera-PBs could thus become efficient and low

  18. relaxGUI: a new software for fast and simple NMR relaxation data analysis and calculation of ps-ns and μs motion of proteins

    International Nuclear Information System (INIS)

    Investigation of protein dynamics on the ps-ns and μs-ms timeframes provides detailed insight into the mechanisms of enzymes and the binding properties of proteins. Nuclear magnetic resonance (NMR) is an excellent tool for studying protein dynamics at atomic resolution. Analysis of relaxation data using model-free analysis can be a tedious and time consuming process, which requires good knowledge of scripting procedures. The software relaxGUI was developed for fast and simple model-free analysis and is fully integrated into the software package relax. It is written in Python and uses wxPython to build the graphical user interface (GUI) for maximum performance and multi-platform use. This software allows the analysis of NMR relaxation data with ease and the generation of publication quality graphs as well as color coded images of molecular structures. The interface is designed for simple data analysis and management. The software was tested and validated against the command line version of relax.

  19. Development of an 125I-postlabeling assay as a simple, rapid, and sensitive index of DNA-protein cross-links.

    OpenAIRE

    Zhuang, Z.; Costa, M.

    1994-01-01

    A rapid, simple, and sensitive 125I-postlabeling technique has been developed to allow detection of DNA-protein cross-links induced by environmental contaminants and carcinogens. This method is based on specific incorporation of 125I into tyrosine residues associated with DNA. Cultured Chinese hamster ovary cells were exposed to various crosslinking agents, e.g., UV light, K2CrO4, or NiCl2. DNA was isolated by proteinase K/phenol/chloroform. The residual peptides cross-linked to DNA were radi...

  20. The influence of hydrodynamic interactions on protein dynamics in confined and crowded spaces-assessment in simple models.

    Science.gov (United States)

    Wojciechowski, Michał; Szymczak, Piotr; Cieplak, Marek

    2010-01-01

    We consider several systems that are confined within a softly repulsive sphere. The first one is a model protein, crambin, which is described by a structure-based coarse grained model. We demonstrate that the folding process is accelerated by the hydrodynamic interactions (HI) in a way that depends on the radius of the sphere. The tighter the encompassing sphere, the smaller the effect, independent of the nature of the starting conformations. The second system is a protein surrounded by protein-like softly repulsive spheres that make the confined space crowded. In this case, the HI shorten the folding times in a way which depends on the degree of crowdedness only weakly. The third system is a collection of spheres that are meant to represent molecules. We show that confinement increases association times. We also observe that the HI either facilitate or obstruct association of two spheres depending on the crowding conditions. The dependence of the association time on crowdedness in the confining sphere is qualitatively distinct from that derived by Wieczorek and Zielenkiewicz for a cube with the periodic boundary conditions. PMID:21119219

  1. The influence of hydrodynamic interactions on protein dynamics in confined and crowded spaces—assessment in simple models

    Science.gov (United States)

    Wojciechowski, Michał; Szymczak, Piotr; Cieplak, Marek

    2010-12-01

    We consider several systems that are confined within a softly repulsive sphere. The first one is a model protein, crambin, which is described by a structure-based coarse grained model. We demonstrate that the folding process is accelerated by the hydrodynamic interactions (HI) in a way that depends on the radius of the sphere. The tighter the encompassing sphere, the smaller the effect, independent of the nature of the starting conformations. The second system is a protein surrounded by protein-like softly repulsive spheres that make the confined space crowded. In this case, the HI shorten the folding times in a way which depends on the degree of crowdedness only weakly. The third system is a collection of spheres that are meant to represent molecules. We show that confinement increases association times. We also observe that the HI either facilitate or obstruct association of two spheres depending on the crowding conditions. The dependence of the association time on crowdedness in the confining sphere is qualitatively distinct from that derived by Wieczorek and Zielenkiewicz for a cube with the periodic boundary conditions.

  2. The influence of hydrodynamic interactions on protein dynamics in confined and crowded spaces—assessment in simple models

    International Nuclear Information System (INIS)

    We consider several systems that are confined within a softly repulsive sphere. The first one is a model protein, crambin, which is described by a structure-based coarse grained model. We demonstrate that the folding process is accelerated by the hydrodynamic interactions (HI) in a way that depends on the radius of the sphere. The tighter the encompassing sphere, the smaller the effect, independent of the nature of the starting conformations. The second system is a protein surrounded by protein-like softly repulsive spheres that make the confined space crowded. In this case, the HI shorten the folding times in a way which depends on the degree of crowdedness only weakly. The third system is a collection of spheres that are meant to represent molecules. We show that confinement increases association times. We also observe that the HI either facilitate or obstruct association of two spheres depending on the crowding conditions. The dependence of the association time on crowdedness in the confining sphere is qualitatively distinct from that derived by Wieczorek and Zielenkiewicz for a cube with the periodic boundary conditions

  3. Simple machines

    CERN Document Server

    Graybill, George

    2007-01-01

    Just how simple are simple machines? With our ready-to-use resource, they are simple to teach and easy to learn! Chocked full of information and activities, we begin with a look at force, motion and work, and examples of simple machines in daily life are given. With this background, we move on to different kinds of simple machines including: Levers, Inclined Planes, Wedges, Screws, Pulleys, and Wheels and Axles. An exploration of some compound machines follows, such as the can opener. Our resource is a real time-saver as all the reading passages, student activities are provided. Presented in s

  4. Simple immunoblot and immunohistochemical detection of Penaeus stylirostris densovirus using monoclonal antibodies to viral capsid protein expressed heterologously.

    Science.gov (United States)

    Sithigorngul, Paisarn; Hajimasalaeh, Warunee; Longyant, Siwaporn; Sridulyakul, Pattarin; Rukpratanporn, Sombat; Chaivisuthangkura, Parin

    2009-12-01

    Penaeus stylirostris densovirus (PstDNV), called formerly infectious hypodermal and hematopoietic necrosis virus (IHHNV), is an important shrimp pathogen which can cause mortality in the blue shrimp Penaeus (Litopenaeus) stylirostris and stunting in the whiteleg shrimp Penaeus (Litopenaeus) vannamei. Five monoclonal antibodies (MAbs) were produced against the 37kDa capsid protein 3 (CP3) of PstDNV expressed heterologously in the form of a fusion protein with glutathione-S-transferase called GST-CP3. All MAbs belonged to the IgG2b subclass and could bind to GST-CP3 at 300 pg/spot in immunodot-blot tests. They could detect CP3 in naturally infected shrimp extracts by Western blotting and dot blotting and in shrimp tissues by immunohistochemistry without cross-reactivity to extracts from uninfected shrimps or shrimps infected with several other viruses. Although dot blot assay sensitivity was approximately 1000 times lower than that of one step PCR for PstDNV, it easily detected PstDNV infections in field samples of Penaeus monodon and Penaeus vannamei. PMID:19654023

  5. Concentrated Solutions of Single-Chain Nanoparticles: A Simple Model for Intrinsically Disordered Proteins under Crowding Conditions.

    Science.gov (United States)

    Moreno, Angel J; Lo Verso, Federica; Arbe, Arantxa; Pomposo, José A; Colmenero, Juan

    2016-03-01

    By means of large-scale computer simulations and small-angle neutron scattering (SANS), we investigate solutions of single-chain nanoparticles (SCNPs), covering the whole concentration range from infinite dilution to melt density. The analysis of the conformational properties of the SCNPs reveals that these synthetic nano-objects share basic ingredients with intrinsically disordered proteins (IDPs), as topological polydispersity, generally sparse conformations, and locally compact domains. We investigate the role of the architecture of the SCNPs in their collapse behavior under macromolecular crowding. Unlike in the case of linear macromolecules, which experience the usual transition from self-avoiding to Gaussian random-walk conformations, crowding leads to collapsed conformations of SCNPs resembling those of crumpled globules. This behavior is already found at volume fractions (about 30%) that are characteristic of crowding in cellular environments. The simulation results are confirmed by the SANS experiments. Our results for SCNPs-a model system free of specific interactions-propose a general scenario for the effect of steric crowding on IDPs: collapse from sparse conformations at high dilution to crumpled globular conformations in cell environments. PMID:26894933

  6. A simple enzyme-substrate localized conjugation method to generate immobilized, functional glutathione S-transferase fusion protein columns for affinity enrichment.

    Science.gov (United States)

    Coughlin, John; Masci, Allyson; Gronke, Robert S; Bergelson, Svetlana; Co, Carl

    2016-07-15

    Immobilized protein receptors and enzymes are tools for isolating or enriching ligands and substrates based on affinity. For example, glutathione S-transferase (GST) is fused to proteins as a tag for binding to its substrate glutathione (GSH) linked to solid supports. One issue with this approach is that high-affinity interactions between receptors and ligands require harsh elution conditions such as low pH, which can result in leached receptor. Another issue is the inherent nonspecific chemical conjugation of reactive groups such as N-hydroxysuccinimide (NHS) that couple lysines to solid supports; the nonspecificity of NHS may result in residue modifications near the binding site(s) of the receptor that can affect ligand specificity. In this study, a simple conjugation procedure is presented that overcomes these limitations and results in immobilized GST fusion proteins that are functional and specific. Here, the affinity of GST for GSH was used to generate an enzyme-substrate site-specific cross-linking reaction; GSH-Sepharose was preactivated with 1-ethyl-3-(dimethylaminopropyl)carbodiimide (EDC) and then incubated Fc gamma receptor IIIa (FcγRIIIa)-GST. The immobilized FcγRIIIa-GST more specifically bound glycosylated immunoglobulin G1s (IgG1s) and was used to enrich nonfucosylated IgG1s from weaker binding species. This technique can be used when modifications of amino acids lead to changes in activity. PMID:27063248

  7. Simple Interactions

    DEFF Research Database (Denmark)

    a Danish and international public. The exhibition Simple Interactions. Sound Art from Japan presents works by 9 Japanese artists at the Museum of Contemporary Art Roskilde. The exhibition mixes installations, performances and documentations, all of which examine how simple interactions can create...

  8. Simple high-cell density fed-batch technique for high-level recombinant protein production with Pichia pastoris: Application to intracellular production of Hepatitis B surface antigen

    Directory of Open Access Journals (Sweden)

    Ross Anton

    2009-02-01

    Full Text Available Abstract Background Hepatitis B is a serious global public health concern. Though a safe and efficacious recombinant vaccine is available, its use in several resource-poor countries is limited by cost. We have investigated the production of Hepatitis B virus surface antigen (HBsAg using the yeast Pichia pastoris GS115 by inserting the HBsAg gene into the alcohol oxidase 1 locus. Results Large-scale production was optimized by developing a simple fed-batch process leading to enhanced product titers. Cells were first grown rapidly to high-cell density in a batch process using a simple defined medium with low salt and high glycerol concentrations. Induction of recombinant product synthesis was carried out using rather drastic conditions, namely through the addition of methanol to a final concentration of 6 g L-1. This methanol concentration was kept constant for the remainder of the cultivation through continuous methanol feeding based on the on-line signal of a flame ionization detector employed as methanol analyzer in the off-gas stream. Using this robust feeding protocol, maximum concentrations of ~7 grams HBsAg per liter culture broth were obtained. The amount of soluble HBsAg, competent for assembly into characteristic virus-like particles (VLPs, an attribute critical to its immunogenicity and efficacy as a hepatitis B vaccine, reached 2.3 grams per liter of culture broth. Conclusion In comparison to the highest yields reported so far, our simple cultivation process resulted in an ~7 fold enhancement in total HBsAg production with more than 30% of soluble protein competent for assembly into VLPs. This work opens up the possibility of significantly reducing the cost of vaccine production with implications for expanding hepatitis B vaccination in resource-poor countries.

  9. Simple containers for simple hypergraphs

    OpenAIRE

    Saxton, David; Thomason, Andrew

    2014-01-01

    We give an easy method for constructing containers for simple hypergraphs. Some applications are given; in particular, a very transparent calculation is offered for the number of H-free hypergraphs, where H is some fixed uniform hypergraph.

  10. Simple synthesis of carbon-11-labeled chromen-4-one derivatives as new potential PET agents for imaging of DNA-dependent protein kinase (DNA-PK) in cancer

    International Nuclear Information System (INIS)

    Carbon-11-labeled chromen-4-one derivatives were synthesized as new potential PET agents for imaging of DNA repair enzyme DNA-dependent protein kinase (DNA-PK) in cancer. The target tracers, X-[11C]methoxy-2-morpholino-4H-chromen-4-ones (X=8, 7, 6, 5; [11C]4a–d), were prepared from their corresponding precursors, X-hydroxy-2-morpholino-4H-chromen-4-ones (X=8, 7, 6, 5; 5a–d), with [11C]CH3OTf through O-[11C]methylation and isolated by a simplified solid-phase extraction (SPE) method using a C-18 Sep-Pak Plus cartridge. The radiochemical yields decay corrected to end of bombardment (EOB), from [11C]CO2, were 40–60%. The specific activity at end of synthesis (EOS) was 185–370 GBq/μmol. - Highlights: ► New chromen-4-one derivatives were synthesized. ► New carbon-11-labeled chromen-4-one derivatives were synthesized. ► Simple solid-phase extraction (SPE) method was employed in radiosynthesis.

  11. A simple and visible colorimetric method through Zr(4+)-phosphate coordination for the assay of protein tyrosine phosphatase 1B and screening of its inhibitors.

    Science.gov (United States)

    Zhang, Juan; Lv, Jun; Wang, Xiaonan; Li, Defeng; Wang, Zhaoxia; Li, Genxi

    2015-08-21

    Inhibitors of protein tyrosine phosphatase 1B (PTP1B) are promising agents for the treatment of type 2 diabetes and obesity, so a colorimetric method has been developed in this work for PTP1B assay and screening of its inhibitors. The method is based on the chelation effect of zirconium (Zr(4+)) ions on the phosphate group, which may induce aggregation of 4-aminophenylphosphate-functionalized gold nanoparticles (APP/AuNPs) and the corresponding color change of the testing solution. Owing to the dephosphorylation of PTP1B, the aggregation of AuNPs will be influenced by PTP1B since there is no coordination reactivity between Zr(4+) ions and 4-aminophenol, the hydrolyzed product of APP catalyzed by the enzyme. Therefore, a simple colorimetric method for the assay of PTP1B activity can be developed. Under the optimized experimental conditions, the ratios of absorbance at a wavelength of 650 nm to that at 522 nm vary linearly with the PTP1B activity in the range from 0.005 to 0.18 U mL(-1) with the lowest detection limit of 0.0017 U mL(-1). Moreover, using this proposed method, the inhibition effect of 6-chloro-3-formyl-7-methylchromone, betulinic acid, ursolic acid, and sodium orthovanadate on PTP1B activity can be tested with IC50 values of 10, 13, 9, and 1.1 μM, respectively. Therefore, this new method has great potential not only for the detection of PTP1B activity but also for the screening of the inhibitors. PMID:26153652

  12. A simple and visualized method to screen for effective siRNAs by using green fluorescence protein (GFP) as a reporter

    Institute of Scientific and Technical Information of China (English)

    Zhixin SHAN; Qiuxiong LIN; Yongheng FU; Chunyu DENG; Xiaohong LI; Xiyong YU

    2008-01-01

    To screen for effective small interference RNA (siRNA), a simple and visualized method was developed using the green fluorescence protein (GFP) as a reporter. Candidate siRNAs targeting macrophage migration inhibition factor genes (MIF) were identified. By using the pEGFP-N3 vector, the MIF-GFP expression plasmid, pEGFP-MIF, was constructed with the same Kozak con-sensus translation initiation site and start code ATG for the MIF-EGFP coding sequence. Based on the siRNA expression vector pSilencer-4,1,3 candidate MIF siRNA expression plasmids were constructed and co-transfected with the pEGFP-MIF into the H EK293 cells, respectively. The GFP expression in HEK293 cells could be viewed by fluorescence microscopy and the MIF mRNA expressions were determined by real-time quantitative PCR. The 3 candidate MIF siRNA expression plasmids were also co-transfected with the MIF expression plasmid into the HEK293 cells, respectively, and the MIF mRNA expres-sions were determined by real-time quantitative PCR. The results show that the down-regulated expression of the MIF mRNA was consistent with the GFP expression and the same effective MIF siRNAs were screened by using the pEGFP-MIF or MIF expression plasmid with the candidate MIF siRNAs expression plasmids. Therefore, by using the GFP as a reporter, a useful method was provided to screen for effective siRNAs tar-geting specific genes co-expressed with the GFP. This may be a good strategy for screening for effective siRNAs tar-geting different genes.

  13. Simple Genetic Selection Protocol for Isolation of Overexpressed Genes That Enhance Accumulation of Membrane-Integrated Human G Protein-Coupled Receptors in Escherichia coli ▿

    OpenAIRE

    Skretas, Georgios; Georgiou, George

    2010-01-01

    The efficient production of membrane proteins in bacteria remains a major challenge. In this work, we sought to identify overexpressed genes that enhance the yields of recombinant membrane proteins in Escherichia coli. We developed a genetic selection system for bacterial membrane protein production, consisting of membrane protein fusions with the enzyme β-lactamase and facile selection of high-production strains on ampicillin-containing media. This system was used to screen the ASKA library,...

  14. Buprenorphine and norbuprenorphine quantification in human plasma by simple protein precipitation and ultra-high performance liquid chromatography tandem mass spectrometry.

    Science.gov (United States)

    Lüthi, Guillaume; Blangy, Valeria; Eap, Chin B; Ansermot, Nicolas

    2013-04-15

    A highly sensitive ultra-high performance liquid chromatography tandem mass spectrometry (UHPLC-MS/MS) method was developed for the quantification of buprenorphine and its major metabolite norbuprenorphine in human plasma. In order to speed up the process and decrease costs, sample preparation was performed by simple protein precipitation with acetonitrile. To the best of our knowledge, this is the first application of this extraction technique for the quantification of buprenorphine in plasma. Matrix effects were strongly reduced and selectivity increased by using an efficient chromatographic separation on a sub-2 μm column (Acquity UPLC BEH C18 1.7 μm, 2.1×50 mm) in 5 min with a gradient of ammonium formate 20 mM pH 3.05 and acetonitrile as mobile phase at a flow rate of 0.4 ml/min. Detection was made using a tandem quadrupole mass spectrometer operating in positive electrospray ionization mode, using multiple reaction monitoring. The procedure was fully validated according to the latest Food and Drug Administration guidelines and the Société Française des Sciences et Techniques Pharmaceutiques. Very good results were obtained by using a stable isotope-labeled internal standard for each analyte, to compensate for the variability due to the extraction and ionization steps. The method was very sensitive with lower limits of quantification of 0.1 ng/ml for buprenorphine and 0.25 ng/ml for norbuprenorphine. The upper limit of quantification was 250 ng/ml for both drugs. Trueness (98.4-113.7%), repeatability (1.9-7.7%), intermediate precision (2.6-7.9%) and internal standard-normalized matrix effects (94-101%) were in accordance with international recommendations. The procedure was successfully used to quantify plasma samples from patients included in a clinical pharmacogenetic study and can be transferred for routine therapeutic drug monitoring in clinical laboratories without further development. PMID:23357637

  15. Simple and Rapid Hollow Fiber Liquid Phase Microextraction Followed by High Performance Liquid Chromatography Method for Determination of Drug-protein Binding

    Institute of Scientific and Technical Information of China (English)

    XI Guo-chen; HU Shuang; BAI Xiao-hong

    2011-01-01

    A method was established using hollow fiber-liquid phase microextraction(HF-LPME) followed by high performance liquid chromatography(HPLC) to determine the concentration of the free(unbound) drug in the solution of the drug and protein.Measurements of drug-protein binding ratios and free drug concentrations were then analyzed with the Klotz equation to determine the equilibrium binding constant and number of binding sites for drug-protein interaction.The optimized method allows one to perform the efficient extraction and separation of free drug from protein-bound drug,protein,and other interfering substances.This approach was used to characterize the binding of the anticholinergic drugs atropine sulfate and scopolamine hydrobromide to proteins in human plasma and bovine serum albumin(BSA).The results demonstrate the utility of HF-LPME method for measuring free drug concentrations in protein-drug mixtures and determining the protein binding parameters of a pharmacologically important class of drugs.

  16. A simple recipe for the non-expert bioinformaticist for building experimentally-testable hypotheses for proteins with no known homologs.

    Science.gov (United States)

    Zawaira, Alexander; Shibayama, Youtaro

    2012-12-01

    The study of the protein-protein interactions (PPIs) of unique ORFs is a strategy for deciphering the biological roles of unique ORFs of interest. For uniform reference, we define unique ORFs as those for which no matching protein is found after PDB-BLAST search with default parameters. The uniqueness of the ORFs generally precludes the straightforward use of structure-based approaches in the design of experiments to explore PPIs. Many open-source bioinformatics tools, from the commonly-used to the relatively esoteric, have been built and validated to perform analyses and/or predictions of sorts on proteins. How can these available tools be combined into a protocol that helps the non-expert bioinformaticist researcher to design experiments to explore the PPIs of their unique ORF? Here we define a pragmatic protocol based on accessibility of software to achieve this and we make it concrete by applying it on two proteins-the ImuB and ImuA' proteins from Mycobacterium tuberculosis. The protocol is pragmatic in that decisions are made largely based on the availability of easy-to-use freeware. We define the following basic and user-friendly software pathway to build testable PPI hypotheses for a query protein sequence: PSI-PRED → MUSTER → metaPPISP → ASAView and ConSurf. Where possible, other analytical and/or predictive tools may be included. Our protocol combines the software predictions and analyses with general bioinformatics principles to arrive at consensus, prioritised and testable PPI hypotheses. PMID:22956349

  17. DOCLASP - Docking ligands to target proteins using spatial and electrostatic congruence extracted from a known holoenzyme and applying simple geometrical transformations

    Science.gov (United States)

    Chakraborty, Sandeep

    2016-01-01

    The ability to accurately and effectively predict the interaction between proteins and small drug-like compounds has long intrigued researchers for pedagogic, humanitarian and economic reasons. Protein docking methods (AutoDock, GOLD, DOCK, FlexX and Glide to name a few) rank a large number of possible conformations of protein-ligand complexes using fast algorithms. Previously, it has been shown that structural congruence leading to the same enzymatic function necessitates the congruence of electrostatic properties (CLASP). The current work presents a methodology for docking a ligand into a target protein, provided that there is at least one known holoenzyme with ligand bound - DOCLASP (Docking using CLASP). The contact points of the ligand in the holoenzyme defines a motif, which is used to query the target enzyme using CLASP. If there are significant matches, the holoenzyme and the target protein are superimposed based on congruent atoms. The same linear and rotational transformations are also applied to the ligand, thus creating a unified coordinate framework having the holoenzyme, the ligand and the target enzyme. In the current work, the dipeptidyl peptidase-IV inhibitor vildagliptin was docked to the PI-PLC structure complexed with myo-inositol using DOCLASP. Also, corroboration of the docking of phenylthiourea to the modelled structure of polyphenol oxidase (JrPPO1) from walnut is provided based on the subsequently solved structure of JrPPO1 (PDBid:5CE9). Analysis of the binding of the antitrypanosomial drug suramin to nine non-homologous proteins in the PDB database shows a diverse set of binding motifs, and multiple binding sites in the phospholipase A2-likeproteins from the Bothrops genus of pitvipers. The conformational changes in the suramin molecule on binding highlights the challenges in docking flexible ligands into an already ’plastic’ binding site. Thus, DOCLASP presents a method for ’soft docking’ ligands to proteins with low

  18. One simple step in the identification of the cofactors signals, one giant leap for the solution structure determination of multiheme proteins

    International Nuclear Information System (INIS)

    Multiheme proteins play major roles in various biological systems. Structural information on these systems in solution is crucial to understand their functional mechanisms. However, the presence of numerous proton-containing groups in the heme cofactors and the magnetic properties of the heme iron, in particular in the oxidised state, complicates significantly the assignment of the NMR signals. Consequently, the multiheme proteins superfamily is extremely under-represented in structural databases, which constitutes a severe bottleneck in the elucidation of their structural-functional relationships. In this work, we present a strategy that simplifies the assignment of the NMR signals in multiheme proteins and, concomitantly, their solution structure determination, using the triheme cytochrome PpcA from the bacterium Geobacter sulfurreducens as a model. Cost-effective isotopic labeling was used to double label (13C/15N) the protein in its polypeptide chain, with the correct folding and heme post-translational modifications. The combined analysis of 1H-13C HSQC NMR spectra obtained for labeled and unlabeled samples of PpcA allowed a straight discrimination between the heme cofactors and the polypeptide chain signals and their confident assignment. The results presented here will be the foundations to assist solution structure determination of multiheme proteins, which are still very scarce in the literature.

  19. Optimising expression of the recombinant fusion protein biopesticide ω-hexatoxin-Hv1a/GNA in Pichia pastoris: sequence modifications and a simple method for the generation of multi-copy strains.

    Science.gov (United States)

    Pyati, Prashant; Fitches, Elaine; Gatehouse, John A

    2014-08-01

    Production of recombinant protein bio-insecticides on a commercial scale can only be cost effective if host strains with very high expression levels are available. A recombinant fusion protein containing an arthropod toxin, ω-hexatoxin-Hv1a, (from funnel web spider Hadronyche versuta) linked to snowdrop lectin (Galanthus nivalis agglutinin; GNA) is an effective oral insecticide and candidate biopesticide. However, the fusion protein was vulnerable to proteolysis during production in the yeast Pichia pastoris. To prevent proteolysis, the Hv1a/GNA fusion expression construct was modified by site-directed mutagenesis to remove a potential Kex2 cleavage site at the C-terminus of the Hv1a peptide. To obtain a high expressing clone of P. pastoris to produce recombinant Hv1a/GNA, a straightforward method was used to produce multi-copy expression plasmids, which does not require multiple integrations to give clones of P. pastoris containing high copy numbers of the introduced gene. Removal of the Kex2 site resulted in increased levels of intact fusion protein expressed in wild-type P. pastoris strains, improving levels of intact recombinant protein recoverable. Incorporation of a C-terminal (His)6 tag enabled single step purification of the fusion protein. These modifications did not affect the insecticidal activity of the recombinant toxin towards lepidopteran larvae. Introduction of multiple expression cassettes increased the amount of secreted recombinant fusion protein in a laboratory scale fermentation by almost tenfold on a per litre of culture basis. Simple modifications in the expression construct can be advantageous for the generation of high expressing P. pastoris strains for production of a recombinant protein, without altering its functional properties. PMID:24898110

  20. Heat-shock protein 70 PCR-RFLP: a universal simple tool for Leishmania species discrimination in the New and Old World

    OpenAIRE

    Montalvo, A. M.; Fraga, J.; Monzote, L.; Montano, I.; De Doncker, S.; Dujardin, J. C.; Van der Auwera, G.

    2010-01-01

    SUMMARY Introduction. Species typing in leishmaniasis gains importance in diagnostics, epidemiology, and clinical studies. A restriction fragment length polymorphism (RFLP) assay of PCR amplicons from a partial heat-shock protein 70 gene (hsp70) had been described for the New World, allowing identification of some species. Methods. Based on an initial in silico analysis of 51 hsp70 sequences, most of which we recently determined in the frame of a phylogenetic study, species-specific restricti...

  1. Poly(ethylene glycol) anchored to poly(dopamine) layers: highly versatile and simple way of suppressing protein adsorption and cell adhesion

    Czech Academy of Sciences Publication Activity Database

    Pop-Georgievski, Ognen; Popelka, Štěpán; Proks, Vladimír; Houska, Milan; Jaroš, J.; Hampl, A.; Rypáček, František

    Praha : Ústav makromolekulární chemie AV ČR, 2010. L_21. ISBN 978-80-85009-62-0. [Workshop "Career in Polymers" /2./. 23.07.2010-24.07.2010, Praha] R&D Projects: GA AV ČR KJB400500904; GA MŠk 1M0538 EU Projects: European Commission(XE) 500283 - EXPERTISSUES Institutional research plan: CEZ:AV0Z40500505 Keywords : poly(ethylene glycol) * protein adsorption * biomedical applications Subject RIV: CD - Macromolecular Chemistry

  2. A simple strategy for 13C,1H labeling at the Ile-γ2 methyl position in highly deuterated proteins

    International Nuclear Information System (INIS)

    A straightforward approach for the production of highly deuterated proteins labeled with 13C and 1H at Ile-γ2 methyl positions is described. The utility of the methodology is illustrated with an application involving the half proteasome (360 kDa). High quality 2D Ile 13Cγ2,1Hγ2 HMQC data sets, exploiting the methyl-TROSY principle, are recorded with excellent sensitivity and resolution, that compare favorably with Ile 13Cδ1,1Hδ1 spectra. This labeling scheme adds to a growing list of different approaches that are significantly impacting the utility of solution NMR spectroscopy in studies of supra-molecular systems.

  3. Simple fabrication of hydrophobic surface target for increased sensitivity and homogeneity in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry analysis of peptides, phosphopeptides, carbohydrates and proteins.

    Science.gov (United States)

    Chen, Chao-Jung; Lai, Chien-Chen; Tseng, Mei-Chun; Liu, Yu-Ching; Lin, Shih-Yi; Tsai, Fuu-Jen

    2013-06-14

    To enhance sample signals and improve homogeneity in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF) analysis, a simple, rapid, and efficient sample preparation method was developed in this study. Polydimethylsiloxane (PDMS) was coated on a stainless steel MALDI plate, forming a transparent, hydrophobic surface that enhanced sample signals without producing observable background signals. Compared to the use of an unmodified commercial metal MALDI plate, peptide signals were enhanced by ~7.1-11.0-fold due to the reduced sample spot area of the PDMS-coated plate, and showed improved peptide mass fingerprinting (PMF) and MS/MS peptide sequencing results. In the analysis of phosphopeptides and carbohydrates with a 2,5-dihydroxybenzoic acid (DHB) matrix, the PDMS-coated plate showed improved sample homogeneity and signal enhancements of ~5.2-8.2-fold and ~2.8-3.2-fold, respectively. Improved sensitivity in the observation of more unique fragment ions by MS/MS analysis, to successfully distinguish isomeric carbohydrates, was also illustrated. In protein analysis with a sinapinic acid (SA) matrix, a ~3.4-fold signal enhancement was observed. The PDMS film coating was easily removed and refabricated to avoid sample carryover, and was applicable to diverse commercial MALDI plates. The PDMS-coated approach is a simple, practical, and attractive method for enhancing analyte signals and homogeneity. PMID:23726097

  4. Crossing simple resonances

    International Nuclear Information System (INIS)

    A simple criterion governs the beam distortion and/or loss of protons on a fast resonance crossing. Results from numerical integrations are illustrated for simple sextupole, octupole, and 10-pole resonances

  5. Simple Variance Swaps

    OpenAIRE

    Ian Martin

    2011-01-01

    The large asset price jumps that took place during 2008 and 2009 disrupted volatility derivatives markets and caused the single-name variance swap market to dry up completely. This paper defines and analyzes a simple variance swap, a relative of the variance swap that in several respects has more desirable properties. First, simple variance swaps are robust: they can be easily priced and hedged even if prices can jump. Second, simple variance swaps supply a more accurate measure of market-imp...

  6. Simple Machine Junk Cars

    Science.gov (United States)

    Herald, Christine

    2010-01-01

    During the month of May, the author's eighth-grade physical science students study the six simple machines through hands-on activities, reading assignments, videos, and notes. At the end of the month, they can easily identify the six types of simple machine: inclined plane, wheel and axle, pulley, screw, wedge, and lever. To conclude this unit,…

  7. A Simple "Tubeless" Telescope

    Science.gov (United States)

    Straulino, S.; Bonechi, L.

    2010-01-01

    Two lenses make it possible to create a simple telescope with quite large magnification. The set-up is very simple and can be reproduced in schools, provided the laboratory has a range of lenses with different focal lengths. In this article, the authors adopt the Keplerian configuration, which is composed of two converging lenses. This instrument,…

  8. The AGM Simple Pendulum

    OpenAIRE

    Villarino, Mark B.

    2012-01-01

    We present a self-contained development of Gauss' Arithmetic-Geometric Mean (AGM) and the work of A.E. Ingham who obtained rigorous error bounds for the AGM approximations to the period of a simple pendulum

  9. Simple Machines Simply Put.

    Science.gov (United States)

    Kirkwood, James J.

    1994-01-01

    Students explore the workings of the lever, wheel and axle, and the inclined plane as they build simple toys--a bulldozer and a road grader. The project takes four weeks. Diagrams and procedures are included. (PR)

  10. Strategy as simple rules.

    Science.gov (United States)

    Eisenhardt, K M; Sull, D N

    2001-01-01

    The success of Yahoo!, eBay, Enron, and other companies that have become adept at morphing to meet the demands of changing markets can't be explained using traditional thinking about competitive strategy. These companies have succeeded by pursuing constantly evolving strategies in market spaces that were considered unattractive according to traditional measures. In this article--the third in an HBR series by Kathleen Eisenhardt and Donald Sull on strategy in the new economy--the authors ask, what are the sources of competitive advantage in high-velocity markets? The secret, they say, is strategy as simple rules. The companies know that the greatest opportunities for competitive advantage lie in market confusion, but they recognize the need for a few crucial strategic processes and a few simple rules. In traditional strategy, advantage comes from exploiting resources or stable market positions. In strategy as simple rules, advantage comes from successfully seizing fleeting opportunities. Key strategic processes, such as product innovation, partnering, or spinout creation, place the company where the flow of opportunities is greatest. Simple rules then provide the guidelines within which managers can pursue such opportunities. Simple rules, which grow out of experience, fall into five broad categories: how- to rules, boundary conditions, priority rules, timing rules, and exit rules. Companies with simple-rules strategies must follow the rules religiously and avoid the temptation to change them too frequently. A consistent strategy helps managers sort through opportunities and gain short-term advantage by exploiting the attractive ones. In stable markets, managers rely on complicated strategies built on detailed predictions of the future. But when business is complicated, strategy should be simple. PMID:11189455

  11. Simple guide to Skype

    CERN Document Server

    Winter, Rick

    2013-01-01

    Simple Guides give you Just the Facts Get up to speed with Skypefast! Simple Guides: get you started quickly. No extra clutter, no extra reading. Learn how to set up Skype, as well as how to add and set up all your friends, family, and other contacts. Find out about all the features of Skype, how to change views, set your status and conduct video and audio only calls. Learn about all the different things you can do to contact your friends and family on Skype for free, and start having fun!

  12. Excel 2010 Made Simple

    CERN Document Server

    Katz, Abbott

    2011-01-01

    Get the most out of Excel 2010 with Excel 2010 Made Simple - learn the key features, understand what's new, and utilize dozens of time-saving tips and tricks to get your job done. Over 500 screen visuals and clear-cut instructions guide you through the features of Excel 2010, from formulas and charts to navigating around a worksheet and understanding Visual Basic for Applications (VBA) and macros. Excel 2010 Made Simple takes a practical and highly effective approach to using Excel 2010, showing you the best way to complete your most common spreadsheet tasks. You'll learn how to input, format,

  13. Droids Made Simple

    CERN Document Server

    Mazo, Gary

    2011-01-01

    If you have a Droid series smartphone - Droid, Droid X, Droid 2, or Droid 2 Global - and are eager to get the most out of your device, Droids Made Simple is perfect for you. Authors Martin Trautschold, Gary Mazo and Marziah Karch guide you through all of the features, tips, and tricks using their proven combination of clear instructions and detailed visuals. With hundreds of annotated screenshots and step-by-step directions, Droids Made Simple will transform you into a Droid expert, improving your productivity, and most importantly, helping you take advantage of all of the cool features that c

  14. Simple cryogenic infrared window

    NARCIS (Netherlands)

    Hartemink, M.; Godfried, H.P.

    1991-01-01

    A simple, cheap technique is reported that allows materials with both large and small thermal expansion coefficients to be mounted as windows in low temperature cryostats while at the same time avoiding thermal stresses. The construction may be thermally cycled many times with no change in its prope

  15. Simple Kidney Cysts

    Science.gov (United States)

    ... ended or closed at one end; some newer machines are designed to allow the person to lie in a more open space. Like CT scans, MRIs can show cysts and tumors. [ Top ] How are simple kidney cysts treated? Treatment is not needed for ...

  16. Working with Simple Machines

    Science.gov (United States)

    Norbury, John W.

    2006-01-01

    A set of examples is provided that illustrate the use of work as applied to simple machines. The ramp, pulley, lever and hydraulic press are common experiences in the life of a student, and their theoretical analysis therefore makes the abstract concept of work more real. The mechanical advantage of each of these systems is also discussed so that…

  17. A Simple Hydrogen Electrode

    Science.gov (United States)

    Eggen, Per-Odd

    2009-01-01

    This article describes the construction of an inexpensive, robust, and simple hydrogen electrode, as well as the use of this electrode to measure "standard" potentials. In the experiment described here the students can measure the reduction potentials of metal-metal ion pairs directly, without using a secondary reference electrode. Measurements…

  18. Simple Finite Jordan Pseudoalgebras

    Directory of Open Access Journals (Sweden)

    Pavel Kolesnikov

    2009-01-01

    Full Text Available We consider the structure of Jordan H-pseudoalgebras which are linearly finitely generated over a Hopf algebra H. There are two cases under consideration: H = U(h and H = U(h # C[Γ], where h is a finite-dimensional Lie algebra over C, Γ is an arbitrary group acting on U(h by automorphisms. We construct an analogue of the Tits-Kantor-Koecher construction for finite Jordan pseudoalgebras and describe all simple ones.

  19. Simple Schlieren Light Meter

    Science.gov (United States)

    Rhodes, David B.; Franke, John M.; Jones, Stephen B.; Leighty, Bradley D.

    1992-01-01

    Simple light-meter circuit used to position knife edge of schlieren optical system to block exactly half light. Enables operator to check quickly position of knife edge between tunnel runs to ascertain whether or not in alignment. Permanent measuring system made part of each schlieren system. If placed in unused area of image plane, or in monitoring beam from mirror knife edge, provides real-time assessment of alignment of schlieren system.

  20. Modern mathematics made simple

    CERN Document Server

    Murphy, Patrick

    1982-01-01

    Modern Mathematics: Made Simple presents topics in modern mathematics, from elementary mathematical logic and switching circuits to multibase arithmetic and finite systems. Sets and relations, vectors and matrices, tesselations, and linear programming are also discussed.Comprised of 12 chapters, this book begins with an introduction to sets and basic operations on sets, as well as solving problems with Venn diagrams. The discussion then turns to elementary mathematical logic, with emphasis on inductive and deductive reasoning; conjunctions and disjunctions; compound statements and conditional

  1. Information technology made simple

    CERN Document Server

    Carter, Roger

    1991-01-01

    Information Technology: Made Simple covers the full range of information technology topics, including more traditional subjects such as programming languages, data processing, and systems analysis. The book discusses information revolution, including topics about microchips, information processing operations, analog and digital systems, information processing system, and systems analysis. The text also describes computers, computer hardware, microprocessors, and microcomputers. The peripheral devices connected to the central processing unit; the main types of system software; application soft

  2. Working with simple machines

    CERN Document Server

    Norbury, J W

    2006-01-01

    A set of examples is provided that illustrate the use of work as applied to simple machines. The ramp, pulley, lever and hydraulic press are common experiences in the life of a student and their theoretical analysis therefore makes the abstract concept of work more real. The mechanical advantage of each of these systems is also discussed so that students can evaluate their usefulness as machines.

  3. Working with simple machines

    Science.gov (United States)

    Norbury, John W.

    2006-11-01

    A set of examples is provided that illustrate the use of work as applied to simple machines. The ramp, pulley, lever and hydraulic press are common experiences in the life of a student, and their theoretical analysis therefore makes the abstract concept of work more real. The mechanical advantage of each of these systems is also discussed so that students can evaluate their usefulness as machines.

  4. Simple Finite Jordan Pseudoalgebras

    Science.gov (United States)

    Kolesnikov, Pavel

    2009-01-01

    We consider the structure of Jordan H-pseudoalgebras which are linearly finitely generated over a Hopf algebra H. There are two cases under consideration: H = U(h) and H = U(h) # C[Γ], where h is a finite-dimensional Lie algebra over C, Γ is an arbitrary group acting on U(h) by automorphisms. We construct an analogue of the Tits-Kantor-Koecher construction for finite Jordan pseudoalgebras and describe all simple ones.

  5. Central simple Poisson algebras

    Institute of Scientific and Technical Information of China (English)

    SU; Yucai; XU; Xiaoping

    2004-01-01

    Poisson algebras are fundamental algebraic structures in physics and symplectic geometry. However, the structure theory of Poisson algebras has not been well developed. In this paper, we determine the structure of the central simple Poisson algebras related to locally finite derivations, over an algebraically closed field of characteristic zero.The Lie algebra structures of these Poisson algebras are in general not finitely-graded.

  6. Optimising expression of the recombinant fusion protein biopesticide ω-hexatoxin-Hv1a /GNA in Pichia pastoris : sequence modifications and a simple method for the generation of multi-copy strains.

    OpenAIRE

    Pyati, P; Fitches, E.; Gatehouse, J A

    2014-01-01

    Production of recombinant protein bio-insecticides on a commercial scale can only be cost effective if host strains with very high expression levels are available. A recombinant fusion protein containing an arthropod toxin, ω-hexatoxin-Hv1a, (from funnel web spider Hadronyche versuta) linked to snowdrop lectin (Galanthus nivalis agglutinin; GNA) is an effective oral insecticide and candidate biopesticide. However, the fusion protein was vulnerable to proteolysis during production in the yeast...

  7. Shotput kinematics made simple

    International Nuclear Information System (INIS)

    We show that some results in the kinematics of a point particle can be easily recalled by introducing simple definitions. In particular, in the parabolic motion of a particle thrown from a height h above the origin O at an angle θ from the horizontal direction, the optimum angle θ* for reaching the maximum distance Rmax on the ground, measured from the origin, can be found by calculating the inverse tangent of the ratio between the initial velocity V0 and the final velocity Vf. The value of Rmax is itself found to be easily expressed as V0Vf/g, g being the acceleration due to gravity. (paper)

  8. Dimensional analysis made simple

    International Nuclear Information System (INIS)

    An inductive strategy is proposed for teaching dimensional analysis to second- or third-year students of physics, chemistry, or engineering. In this strategy, Buckingham's theorem is seen as a consequence and not as the starting point. In order to concentrate on the basics, the mathematics is kept as elementary as possible. Simple examples are suggested for classroom demonstrations of the power of the technique and others are put forward for homework or experimentation, but instructors are encouraged to produce examples of their own. (paper)

  9. Theory of simple liquids

    CERN Document Server

    Hansen, Jean-Pierre

    1986-01-01

    This book gives a comprehensive and up-to-date treatment of the theory of ""simple"" liquids. The new second edition has been rearranged and considerably expanded to give a balanced account both of basic theory and of the advances of the past decade. It presents the main ideas of modern liquid state theory in a way that is both pedagogical and self-contained. The book should be accessible to graduate students and research workers, both experimentalists and theorists, who have a good background in elementary mechanics.Key Features* Compares theoretical deductions with experimental r

  10. Data processing made simple

    CERN Document Server

    Wooldridge, Susan

    2013-01-01

    Data Processing: Made Simple, Second Edition presents discussions of a number of trends and developments in the world of commercial data processing. The book covers the rapid growth of micro- and mini-computers for both home and office use; word processing and the 'automated office'; the advent of distributed data processing; and the continued growth of database-oriented systems. The text also discusses modern digital computers; fundamental computer concepts; information and data processing requirements of commercial organizations; and the historical perspective of the computer industry. The

  11. Simple Driving Techniques

    DEFF Research Database (Denmark)

    Rosendahl, Mads

    2002-01-01

    -like language. Our aim is to extract a simple notion of driving and show that even in this tamed form it has much of the power of more general notions of driving. Our driving technique may be used to simplify functional programs which use function composition and will often be able to remove intermediate data......Driving was introduced as a program transformation technique by Valentin Turchin in some papers around 1980. It was intended for the programming language REFAL and used in metasystem transitions based on super compilation. In this paper we present one version of driving for a more conventional lisp...

  12. Electronics made simple

    CERN Document Server

    Olsen, George H

    1987-01-01

    Electronics: Made Simple covers the fundamental principles, basic devices, characteristics, and application of electronic equipment.This book is divided into 15 chapters and begins with reviews of the properties and behavior of resistors, capacitors, inductors, and semiconductor devices. Considerable chapters deal with how these devices can be assembled into useful fundamental circuits such as amplifiers, oscillators and power supplies. These topics are followed by discussions of the importance of integrated circuits and the use of digital equipment and photocells in control and computing appa

  13. Applied mathematics made simple

    CERN Document Server

    Murphy, Patrick

    1982-01-01

    Applied Mathematics: Made Simple provides an elementary study of the three main branches of classical applied mathematics: statics, hydrostatics, and dynamics. The book begins with discussion of the concepts of mechanics, parallel forces and rigid bodies, kinematics, motion with uniform acceleration in a straight line, and Newton's law of motion. Separate chapters cover vector algebra and coplanar motion, relative motion, projectiles, friction, and rigid bodies in equilibrium under the action of coplanar forces. The final chapters deal with machines and hydrostatics. The standard and conte

  14. Program For Simple Algebra

    International Nuclear Information System (INIS)

    PFSA (Program For Simple Algebra) is designed to be helpful to people doing algebra and calculus with polynomial expressions. It is written entirely in Fortran and hence is portable and easily modified. It is much (approximately 90 times) faster than Macsyma. PFSA uses Fortran integer arithmetic to compute coefficients, and so the occurrence of an excessively large number in a numerator or denominator during a computation bombs the computation. The program was developed to enable a computation (of a canonical transformation for a Hamiltonian system) which was too big to be run in other systems available at the time. The intent in creating PFSA was to make a program which would do the Hamiltonian computation and similar computations easily and fast. The only language available (on the Cray) was Fortran. Example C in Section III is a very simple canonical transformation. In running the problem for which PFSA was written some intermediate expressions have more than 20,000 terms and some answers have more than 1000 terms

  15. On Simple Noetherian Rings

    Institute of Scientific and Technical Information of China (English)

    Somyot Plubtieng

    2003-01-01

    A module M is called a CS-module (or extending module [5]) if every submodule of M is essential in a direct summand of M. It is shown that (i) a simple ring R is right noetherian if and only if every cyclic singular right R-module is either a CS-module or a noetherian module; (ii) for a prime ring R, if every proper cyclic right R-module is a direct sum of a quasi-injective module and a finitely cogenerated module, then R is either semisimple artinian or a right Ore domain; and (iii) a prime ring R is right noetherian if and only if every cyclic right R-module is a direct sum of a quasi-injective module and a noetherian module.

  16. A Simple Harmonic Universe

    Energy Technology Data Exchange (ETDEWEB)

    Graham, Peter W.; /Stanford U., ITP; Horn, Bart; Kachru, Shamit; /Stanford U., ITP /SLAC; Rajendran, Surjeet; /Johns Hopkins U. /Stanford U., ITP; Torroba, Gonzalo; /Stanford U., ITP /SLAC

    2011-12-14

    We explore simple but novel bouncing solutions of general relativity that avoid singularities. These solutions require curvature k = +1, and are supported by a negative cosmological term and matter with -1 < w < -1 = 3. In the case of moderate bounces (where the ratio of the maximal scale factor a{sub +} to the minimal scale factor a{sub -} is {Omicron}(1)), the solutions are shown to be classically stable and cycle through an infinite set of bounces. For more extreme cases with large a{sub +} = a{sub -}, the solutions can still oscillate many times before classical instabilities take them out of the regime of validity of our approximations. In this regime, quantum particle production also leads eventually to a departure from the realm of validity of semiclassical general relativity, likely yielding a singular crunch. We briefly discuss possible applications of these models to realistic cosmology.

  17. Molecular genetics made simple

    Directory of Open Access Journals (Sweden)

    Heba Sh. Kassem

    2012-07-01

    Full Text Available Genetics have undoubtedly become an integral part of biomedical science and clinical practice, with important implications in deciphering disease pathogenesis and progression, identifying diagnostic and prognostic markers, as well as designing better targeted treatments. The exponential growth of our understanding of different genetic concepts is paralleled by a growing list of genetic terminology that can easily intimidate the unfamiliar reader. Rendering genetics incomprehensible to the clinician however, defeats the very essence of genetic research: its utilization for combating disease and improving quality of life. Herein we attempt to correct this notion by presenting the basic genetic concepts along with their usefulness in the cardiology clinic. Bringing genetics closer to the clinician will enable its harmonious incorporation into clinical care, thus not only restoring our perception of its simple and elegant nature, but importantly ensuring the maximal benefit for our patients.

  18. Una historia muy simple

    OpenAIRE

    Miha Mazzini

    2009-01-01

    Voy a contarles una historia muy simple. Probablemente no les parecerá nada espe- cial y no quiero robarles tiempo, así que voy a tratar de hacerlo lo más rápido posible. Me inscribí en psicología porque eso hizo mi mejor amiga. Éramos compañeras desde jardín de infantes y siempre la seguí en todo. En tercer año de facultad conoció a su novio y continuó sus estudios en otro país; por primera vez no podía seguirla. Cuando rendí todos los exámenes, el profesor me preguntó si estaba interesa...

  19. SIMPLE LIFE AND RELIGION

    Directory of Open Access Journals (Sweden)

    Ahmet YILDIRIM

    2014-07-01

    Full Text Available Individuals in terms of the economy in which we live is one of the most important phenomenon of the century. This phenomenon present itself as the only determinant of people's lives by entering almost makes itself felt. The mo st obvious objective needs of the economy by triggering motive is to induce people to consume . Consumer culture pervades all aspects of the situation are people . Therefore, these people have the blessing of culture , beauty and value all in the name of w hatever is consumed. This is way out of the siege of moral and religious values we have is to go back again . Referred by local cultural and religious values, based on today increasingly come to the fore and the Muslim way of life appears to be close to th e plain / lean preferred by many people life has been a way of life. Even the simple life , a way of life in the Western world , a conception of life , a philosophy, a movement as it has become widely accepted. Here in determining the Muslim way of life Pr ophet. Prophet (sa lived the kind of life a very important model, sample, and determining which direction is known. Religious values, which is the carrier of the prophets, sent to the society they have always been examples and models. Because every aspect of human life, his life style and the surrounding area has a feature. We also value his life that he has unknowingly and without learning and skills and to understand it is not possible to live our religion . We also our presentation, we mainly of Islam o utlook on life and predicted life - style, including the Prophet of Islam 's (sa simple life to scrutinize and lifestyle issues related to reveal , in short Islam's how life has embraced and the Prophet. Prophet's will try to find answers to questions reg arding how to live.

  20. The simple harmonic urn

    CERN Document Server

    Crane, Edward; Volkov, Stanislav; Wade, Andrew; Waters, Robert

    2009-01-01

    We study a generalized Polya urn model with two types of ball. If the drawn ball is red it is replaced together with a black ball, but if the drawn ball is black it is replaced and a red ball is thrown out of the urn. When only black balls remain, the roles of the colours are swapped and the process restarts. We prove that the resulting Markov chain is transient but that if we throw out a ball every time the colours swap, the process is positive-recurrent. We show that the embedded process obtained by observing the number of balls in the urn at the swapping times has a scaling limit that is essentially the square of a Bessel diffusion. We consider an oriented percolation model naturally associated with the urn process, and obtain detailed information about its structure, showing that the open subgraph is an infinite tree with a single end. We also study a natural continuous-time embedding of the urn process that demonstrates the relation to the simple harmonic oscillator; in this setting our transience result...

  1. Quasispecies made simple.

    Directory of Open Access Journals (Sweden)

    J J Bull

    2005-11-01

    Full Text Available Quasispecies are clouds of genotypes that appear in a population at mutation-selection balance. This concept has recently attracted the attention of virologists, because many RNA viruses appear to generate high levels of genetic variation that may enhance the evolution of drug resistance and immune escape. The literature on these important evolutionary processes is, however, quite challenging. Here we use simple models to link mutation-selection balance theory to the most novel property of quasispecies: the error threshold-a mutation rate below which populations equilibrate in a traditional mutation-selection balance and above which the population experiences an error catastrophe, that is, the loss of the favored genotype through frequent deleterious mutations. These models show that a single fitness landscape may contain multiple, hierarchically organized error thresholds and that an error threshold is affected by the extent of back mutation and redundancy in the genotype-to-phenotype map. Importantly, an error threshold is distinct from an extinction threshold, which is the complete loss of the population through lethal mutations. Based on this framework, we argue that the lethal mutagenesis of a viral infection by mutation-inducing drugs is not a true error catastophe, but is an extinction catastrophe.

  2. IVOA Simple Image Access

    CERN Document Server

    Dowler, Patrick; Bonnarel, François

    2016-01-01

    The Simple Image Access protocol (SIA) provides capabilities for the discovery, description, access, and retrieval of multi-dimensional image datasets, including 2-D images as well as datacubes of three or more dimensions. SIA data discovery is based on the ObsCore Data Model (ObsCoreDM), which primarily describes data products by the physical axes (spatial, spectral, time, and polarization). Image datasets with dimension greater than 2 are often referred to as datacubes, cube or image cube datasets and may be considered examples of hypercube or n-cube data. In this document the term "image" refers to general multi-dimensional datasets and is synonymous with these other terms unless the image dimensionality is otherwise specified. SIA provides capabilities for image discovery and access. Data discovery and metadata access (using ObsCoreDM) are defined here. The capabilities for drilling down to data files (and related resources) and services for remote access are defined elsewhere, but SIA also allows for dir...

  3. Resonant growth in simple systems

    DEFF Research Database (Denmark)

    Gordon, R A

    1983-01-01

    It is shown that a simple extension of the usual sinusoidal trial solution in elementary textbooks to include a time-dependent amplitude of oscillation—a special case of the general Kryloff–Bogoliuboff solution—makes it possible to give a simple unified treatment of resonant growth in simple syst...... systems at a level readily accessible to beginning physics students....

  4. Roughly Weighted Hierarchical Simple Games

    OpenAIRE

    Hameed, Ali; Slinko, Arkadii

    2012-01-01

    Hierarchical simple games - both disjunctive and conjunctive - are natural generalizations of simple majority games. They take their origin in the theory of secret sharing. Another important generalization of simple majority games with origin in economics and politics are weighted and roughly weighted majority games. In this paper we characterize roughly weighted hierarchical games identifying where the two approaches coincide.

  5. Simple high-cell density fed-batch technique for high-level recombinant protein production with Pichia pastoris: Application to intracellular production of Hepatitis B surface antigen

    OpenAIRE

    Ross Anton; Lünsdorf Heinrich; Gäbel Thomas; Adnan Ahmad; Gurramkonda Chandrasekhar; Nemani Satish; Swaminathan Sathyamangalam; Khanna Navin; Rinas Ursula

    2009-01-01

    Abstract Background Hepatitis B is a serious global public health concern. Though a safe and efficacious recombinant vaccine is available, its use in several resource-poor countries is limited by cost. We have investigated the production of Hepatitis B virus surface antigen (HBsAg) using the yeast Pichia pastoris GS115 by inserting the HBsAg gene into the alcohol oxidase 1 locus. Results Large-scale production was optimized by developing a simple fed-batch process leading to enhanced product ...

  6. Simple inflationary quintessential model

    Science.gov (United States)

    de Haro, Jaume; Amorós, Jaume; Pan, Supriya

    2016-04-01

    In the framework of a flat Friedmann-Lemaître-Robertson-Walker geometry, we present a non-geodesically past complete model of our Universe without the big bang singularity at finite cosmic time, describing its evolution starting from its early inflationary era up to the present accelerating phase. We found that a hydrodynamical fluid with nonlinear equation of state could result in such scenario, which after the end of this inflationary stage, suffers a sudden phase transition and enters into the stiff matter dominated era, and the Universe becomes reheated due to a huge amount of particle production. Finally, it asymptotically enters into the de Sitter phase concluding the present accelerated expansion. Using the reconstruction technique, we also show that this background provides an extremely simple inflationary quintessential potential whose inflationary part is given by the well-known 1-dimensional Higgs potential, i.e., a double well inflationary potential, and the quintessential one by an exponential potential that leads to a deflationary regime after this inflation, and it can depict the current cosmic acceleration at late times. Moreover the Higgs potential leads to a power spectrum of the cosmological perturbations which fit well with the latest Planck estimations. Further, we compared our viable potential with some known inflationary quintessential potential, which shows that our quintessential model, that is, the Higgs potential combined with the exponential one, is an improved version of them because it contains an analytic solution that allows us to perform all analytic calculations. Finally, we have shown that the introduction of a nonzero cosmological constant simplifies the potential considerably with an analytic behavior of the background which again permits us to evaluate all the quantities analytically.

  7. Amazon SimpleDB LITE

    CERN Document Server

    Chaganti, Prabhakar

    2011-01-01

    This focused book is an extracted LITE version of Packt's full: Amazon SimpleDB Developer Guide. It concentrates on getting a grounding in the value of SimpleDB, and shows how to set up an AWS account, enable a SimpleDB service for the account, and install and set up libraries for Java, PHP, and Python. If you are a developer wanting to get to grips with a primer into SimpleDB, then this book is for you. You do not need to know anything about SimpleDB to read and learn from this book, and no basic knowledge is strictly necessary.

  8. On Simple-Injective Rings

    Institute of Scientific and Technical Information of China (English)

    W.K. Nicholson; Jae Keol Park; M.F. Yousif

    2002-01-01

    A ring R is called right simple-injective if every R-linear map from a right ideal of R to R with simple image can be extended to R. It is shown that a right simple-injective ring R is quasi-Frobenius if R is right Goldie with essential right socle, or R is left perfect and the right annihilator of k ∈ R is finitely generated whenever kR or Rk is simple. This extends a result of Bjork.

  9. Simple Algebras of Invariant Operators

    Institute of Scientific and Technical Information of China (English)

    Xiaorong Shen; J.D.H. Smith

    2001-01-01

    Comtrans algebras were introduced in as algebras with two trilinear operators, a commutator [x, y, z] and a translator , which satisfy certain identities. Previously known simple comtrans algebras arise from rectangular matrices, simple Lie algebras, spaces equipped with a bilinear form having trivial radical, spaces of hermitian operators over a field with a minimum polynomial x2+1. This paper is about generalizing the hermitian case to the so-called invariant case. The main result of this paper shows that the vector space of n-dimensional invariant operators furnishes some comtrans algebra structures, which are simple provided that certain Jordan and Lie algebras are simple.

  10. Simple Distillation and Fractional Distillation

    Institute of Scientific and Technical Information of China (English)

    张萍

    2004-01-01

    A pure solvent can be separated from a solution by simple distillation. Distillation is the process of boiling a liquid and condensing the vapor. For example, pure water can be obtained from salt solution by distillation. The figure below shows the apparatus used for simple distillation in the laboratory.

  11. Simulations of protein folding

    International Nuclear Information System (INIS)

    We have developed a simple, phenomenological, Monte-Carlo code that predicts the three-dimensional structure of globular proteins from the DNA sequences that define them. We have applied this code to two small proteins, the villin headpiece (1VII) and colel rop (1ROP). Our code folds both proteins to within 5 A rms of their native structures

  12. Modeling Protein Domain Function

    Science.gov (United States)

    Baker, William P.; Jones, Carleton "Buck"; Hull, Elizabeth

    2007-01-01

    This simple but effective laboratory exercise helps students understand the concept of protein domain function. They use foam beads, Styrofoam craft balls, and pipe cleaners to explore how domains within protein active sites interact to form a functional protein. The activity allows students to gain content mastery and an understanding of the…

  13. Simple ocean carbon cycle models

    Energy Technology Data Exchange (ETDEWEB)

    Caldeira, K. [Lawrence Livermore National Lab., CA (United States); Hoffert, M.I. [New York Univ., NY (United States). Dept. of Earth System Sciences; Siegenthaler, U. [Bern Univ. (Switzerland). Inst. fuer Physik

    1994-02-01

    Simple ocean carbon cycle models can be used to calculate the rate at which the oceans are likely to absorb CO{sub 2} from the atmosphere. For problems involving steady-state ocean circulation, well calibrated ocean models produce results that are very similar to results obtained using general circulation models. Hence, simple ocean carbon cycle models may be appropriate for use in studies in which the time or expense of running large scale general circulation models would be prohibitive. Simple ocean models have the advantage of being based on a small number of explicit assumptions. The simplicity of these ocean models facilitates the understanding of model results.

  14. Simple algebras of Weyl type

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Over a field F of arbitrary characteristic, we define the associative and the Lie algebras of Weyl type on the same vector space A[D]=A[D] from any pair of a commutative associative algebra A with an identity element and the polynomial algebra [D] of a commutative derivation subalgebra D of A. We prove that A[D], as a Lie algebra (modulo its center) or as an associative algebra, is simple if and only if A is D-simple and A[D] acts faithfully on A. Thus we obtain a lot of simple algebras.

  15. Simple manipulator for rotating spheres

    International Nuclear Information System (INIS)

    We describe a simple device for rapidly rotating a small sphere to any orientation for inspection of the surface. The ball is held between two small, flat surfaces and rolls as the surfaces are moved differentially parallel to one another

  16. The Simple Publishing Interface (SPI)

    NARCIS (Netherlands)

    Ternier, Stefaan; Massart, David; Totschnig, Michael; Klerkx, Joris; Duval, Erik

    2010-01-01

    Ternier, S., Massart, D., Totschnig, M., Klerkx, J., & Duval, E. (2010). The Simple Publishing Interface (SPI). D-Lib Magazine, September/October 2010, Volume 16 Number 9/10, doi:10.1045/september2010-ternier

  17. Hidden Symmetries in Simple Graphs

    Directory of Open Access Journals (Sweden)

    Allen D. Parks

    2012-03-01

    Full Text Available It is shown that each element s in the normalizer of the automorphism group Aut(G of a simple graph G with labeled vertex set V is an Aut(G invariant isomorphism between G and the graph obtained from G by the s permutation of V—i.e., s is a hidden permutation symmetry of G. A simple example illustrates the theory and the applied notion of system robustness for reconfiguration under symmetry constraint (RUSC is introduced.

  18. Simple machines made simple a teacher resource manual

    CERN Document Server

    Andre, Ralph E St

    1993-01-01

    This book allows you to present scientific principles and simple mechanics through hands-on cooperative learning activities. Using inexpensive materials (e.g., tape, paper clips), students build simple machines-such as levers, pulleys, spring scales, gears, wheels and axles, windmills, and wedges-that demonstrate how things work. Activities have easy-to-locate materials lists, time requirements, and step-by-step directions (usually illustrated) on presentation. Ideas for bulletin boards, learning centers, and computer-assisted instruction are an added bonus.

  19. How Simple is the Simple View of Reading?

    Science.gov (United States)

    Gustafson, Stefan; Samuelsson, Christina; Johansson, Ellinor; Wallmann, Julia

    2013-01-01

    According to the Simple View of Reading, reading ability can be divided into decoding and language comprehension. In the present study, decoding and comprehension's contribution to reading ability was studied both in children with reading difficulties and in children with typical reading ability. Decoding and comprehension was further divided…

  20. Simple Encryption/Decryption Application

    OpenAIRE

    Majdi Al-qdah; Lin Yi Hui

    2007-01-01

    This paper presents an Encryption/Decryption application that is able to work with any type of file; for example: image files, data files, documentation files…etc. The method of encryption is simple enough yet powerful enough to fit the needs of students and staff in a small institution. The application uses simple key generation method of random number generation and combination. The final encryption is a binary one performed through rotation of bits and XOR operation applied on each b...

  1. Acupuncture Treatment of Simple Obesity

    Institute of Scientific and Technical Information of China (English)

    Wei Qunli; Liu Zhicheng

    2005-01-01

    In order to investigate the therapeutic effects of ear acupuncture, body acupuncture and the combined use of the two in the treatment of simple obesity, 195 cases of obesity were divided into three groups, in which different reinforcing and reducing methods were applied according to their symptoms and signs.The effects of body acupuncture and body plus ear acupuncture were obviously superior to that of ear acupuncture, and the combined use of ear acupuncture and body acupuncture was better than that of simple body acupuncture.

  2. Simple two Higgs doublet model

    CERN Document Server

    Jora, Renata; Nasri, Salah; Schechter, Joseph; Shahid, M Naeem

    2008-01-01

    We study a simple two Higgs doublet model which reflects, in a phenomenological way, the idea of compositeness for the Higgs sector. It is relatively predictive. In one scenario, it allows for a "hidden" usual Higgs particle in the 100 GeV region and a possible dark matter candidate.

  3. Simple Machines in the Community

    Science.gov (United States)

    Bryan, Robert; Laroder, Aris; Tippins, Deborah; Emaz, Meliza; Fox, Ryan

    2008-01-01

    The community can be a powerful context and mini-laboratory for cultivating students' common understandings of science and mathematics. On the island of Panay in the Philippines, the community was the starting place for a group of fifth- and sixth-grade students to explore simple machines in their daily lives. What students learned in the process…

  4. A Simple Relativistic Bohr Atom

    Science.gov (United States)

    Terzis, Andreas F.

    2008-01-01

    A simple concise relativistic modification of the standard Bohr model for hydrogen-like atoms with circular orbits is presented. As the derivation requires basic knowledge of classical and relativistic mechanics, it can be taught in standard courses in modern physics and introductory quantum mechanics. In addition, it can be shown in a class that…

  5. The simple ethers of glycerin

    International Nuclear Information System (INIS)

    From glycerin derivatives the considerable interest is present simple ethers because many of them are biological active and found wide practical using as an effect drugs, inters for thin organic synthesis, vehicle for injections, regulators of plants growth, reagents, components for perfumery-cosmetic goods and etc

  6. Simple braids for surface homeomorphisms

    OpenAIRE

    Parwani, Kamlesh

    2005-01-01

    Let S be a compact, oriented surface with negative Euler characteristic and let f be a homeomorphism of S that is isotopic to the identity. If there exists a periodic orbit with a non-zero rotation vector, then there exists a simple braid with the same rotation vector.

  7. Simple Indolizidine and Quinolizidine Alkaloids.

    Science.gov (United States)

    Michael, Joseph P

    2016-01-01

    This review of simple indolizidine and quinolizidine alkaloids (i.e., those in which the parent bicyclic systems are in general not embedded in polycyclic arrays) is an update of the previous coverage in Volume 55 of this series (2001). The present survey covers the literature from mid-1999 to the end of 2013; and in addition to aspects of the isolation, characterization, and biological activity of the alkaloids, much emphasis is placed on their total synthesis. A brief introduction to the topic is followed by an overview of relevant alkaloids from fungal and microbial sources, among them slaframine, cyclizidine, Steptomyces metabolites, and the pantocins. The important iminosugar alkaloids lentiginosine, steviamine, swainsonine, castanospermine, and related hydroxyindolizidines are dealt with in the subsequent section. The fourth and fifth sections cover metabolites from terrestrial plants. Pertinent plant alkaloids bearing alkyl, functionalized alkyl or alkenyl substituents include dendroprimine, anibamine, simple alkaloids belonging to the genera Prosopis, Elaeocarpus, Lycopodium, and Poranthera, and bicyclic alkaloids of the lupin family. Plant alkaloids bearing aryl or heteroaryl substituents include ipalbidine and analogs, secophenanthroindolizidine and secophenanthroquinolizidine alkaloids (among them septicine, julandine, and analogs), ficuseptine, lasubines, and other simple quinolizidines of the Lythraceae, the simple furyl-substituted Nuphar alkaloids, and a mixed quinolizidine-quinazoline alkaloid. The penultimate section of the review deals with the sizable group of simple indolizidine and quinolizidine alkaloids isolated from, or detected in, ants, mites, and terrestrial amphibians, and includes an overview of the "dietary hypothesis" for the origin of the amphibian metabolites. The final section surveys relevant alkaloids from marine sources, and includes clathryimines and analogs, stellettamides, the clavepictines and pictamine, and bis

  8. Simple models of proteins with repulsive non-native contacts

    OpenAIRE

    Li, Mai Suan; Cieplak, Marek

    1999-01-01

    The Go model is extended to the case when the non-native contact energies may be either attractive or repulsive. The folding temperature is found to increase with the energy of non-native contacts. The repulsive non-native contact energies may lead to folding at T=0 for some two-dimensional sequences and to reduction in complexity of disconnectivity graphs for local energy minima.

  9. Simple Encryption/Decryption Application

    Directory of Open Access Journals (Sweden)

    Majdi Al-qdah

    2007-06-01

    Full Text Available This paper presents an Encryption/Decryption application that is able to work with any type of file; for example: image files, data files, documentation files…etc. The method of encryption is simple enough yet powerful enough to fit the needs of students and staff in a small institution. The application uses simple key generation method of random number generation and combination. The final encryption is a binary one performed through rotation of bits and XOR operation applied on each block of data in any file using a symmetric decimal key. The key generation and Encryption are all done by the system itself after clicking the encryption button with transparency to the user. The same encryption key is also used to decrypt the encrypted binary file.

  10. The Simple Science of Flight

    Science.gov (United States)

    Tennekes, Henk

    1997-05-01

    From the smallest gnat to the largest aircraft, all things that fly obey the same aerodynamic principles. The Simple Science of Flight offers a leisurely introduction to the mechanics of flight and, beyond that, to the scientific attitude that finds wonder in simple calculations, forging connections between, say, the energy efficiency of a peanut butter sandwich and that of the kerosene that fuels a jumbo jet. It is the product of a lifetime of watching and investigating the way flight happens. The hero of the book is the Boeing 747, which Tennekes sees as the current pinnacle of human ingenuity in mastering the science of flight. Also covered are paper airplanes, kites, gliders, and human-powered flying machines as well as birds and insects. Tennekes explains concepts like lift, drag, wing loading, and cruising speed through many fascinating comparisons, anecdotes, and examples.

  11. Webcam classification using simple features

    Science.gov (United States)

    Pramoun, Thitiporn; Choe, Jeehyun; Li, He; Chen, Qingshuang; Amornraksa, Thumrongrat; Lu, Yung-Hsiang; Delp, Edward J.

    2015-03-01

    Thousands of sensors are connected to the Internet and many of these sensors are cameras. The "Internet of Things" will contain many "things" that are image sensors. This vast network of distributed cameras (i.e. web cams) will continue to exponentially grow. In this paper we examine simple methods to classify an image from a web cam as "indoor/outdoor" and having "people/no people" based on simple features. We use four types of image features to classify an image as indoor/outdoor: color, edge, line, and text. To classify an image as having people/no people we use HOG and texture features. The features are weighted based on their significance and combined. A support vector machine is used for classification. Our system with feature weighting and feature combination yields 95.5% accuracy.

  12. Simple model of hydrophobic hydration.

    Science.gov (United States)

    Lukšič, Miha; Urbic, Tomaz; Hribar-Lee, Barbara; Dill, Ken A

    2012-05-31

    Water is an unusual liquid in its solvation properties. Here, we model the process of transferring a nonpolar solute into water. Our goal was to capture the physical balance between water's hydrogen bonding and van der Waals interactions in a model that is simple enough to be nearly analytical and not heavily computational. We develop a 2-dimensional Mercedes-Benz-like model of water with which we compute the free energy, enthalpy, entropy, and the heat capacity of transfer as a function of temperature, pressure, and solute size. As validation, we find that this model gives the same trends as Monte Carlo simulations of the underlying 2D model and gives qualitative agreement with experiments. The advantages of this model are that it gives simple insights and that computational time is negligible. It may provide a useful starting point for developing more efficient and more realistic 3D models of aqueous solvation. PMID:22564051

  13. Simple techniques can increase motivation

    Energy Technology Data Exchange (ETDEWEB)

    Smith, E.A.

    1982-12-01

    Productivity depends upon strong motivation. This article describes how the symptoms of weak motivation can be detected among engineers and other employees and what to do about it. Fortunately, most people want to be productive and respond to simple motivation building techniques. These techniques include establishing twoway communication between supervisor and subordinate, delegating authority on the basis of responsibility, effective organization of time, and the use of positive reinforcement (or rewards) and, when conditions merit it, negative reinforcement (or sanctions).

  14. Simple echoes and subtle reverberations

    Science.gov (United States)

    Keeports, David

    2010-03-01

    Reverberation within an enclosed space can be viewed as a superposition of a large number of simple echoes. The echoes that make up the sound of reverberation fall neatly into two categories, relatively loud and sparse early reflections, and relatively soft and dense late reflections. Ways in which readily available music production software can be used for the study of reverberation are suggested. Additionally, methods of adding reverberation to recorded sound are discussed.

  15. SIMPLE INNOVATION OF FINANCIAL ASSET

    Institute of Scientific and Technical Information of China (English)

    ZHANG Shunming

    2001-01-01

    This paper presents a simple two-period model of the innovationof financial asset by commission-revenue maximization exchange. The economic agents with meanvariance preferences take transaction costs in the process of trading the financial asset, the buying per-unit commission of the futures contract and the selling per-unit commission of the financial asset. The commission-revenue maximization exchange innovates financial asset.

  16. SIMPLE THOUGHTS IN ECONOMIC LIFE

    Directory of Open Access Journals (Sweden)

    Ahmet YILDIRIM

    2015-07-01

    Full Text Available One of the most important realities of our life is econ omy. This reality is such a thing that determines alone all over the life of the human being. The most crucial aims of economy is directing people to spent mony by triggering the instinct of individuals’ need. The culture of consumption not only embraces a ll the life of individuals but does it couses of the crises of the society. Although it depends on the time, surroundings and characters of individual, the understanding of simple life represents an idea that people shlould consume more than they need. It is well known that most of the problems in the world arouses from the bad usages of the natural sources of the world. The sources of the world is limited and is decreasing time by time. Becuase of this reality people need to use natural sorcers very caref ully. In order to control the sources, responsible institutions, governments and people must advise and suggest to individuals to be carefull in using the money and the sources. They should teach the people to live in a simple life without spending sources too much. In this study, at the beginning, consumption which couses the economical and financial crises will be handled, secondly the characteristics of simple life will be discussed and lastly the relationships between simple life and economy will be exa mined. At the end, the way in which the solutions might take place will be shown and some suggestions will be directed to the people.

  17. Classification of Simple Current Invariants

    CERN Document Server

    Gato-Rivera, Beatriz

    1991-01-01

    We summarize recent work on the classification of modular invariant partition functions that can be obtained with simple currents in theories with a center (Z_p)^k with p prime. New empirical results for other centers are also presented. Our observation that the total number of invariants is monodromy-independent for (Z_p)^k appears to be true in general as well. (Talk presented in the parallel session on string theory of the Lepton-Photon/EPS Conference, Geneva, 1991.)

  18. Correlation and simple linear regression.

    Science.gov (United States)

    Eberly, Lynn E

    2007-01-01

    This chapter highlights important steps in using correlation and simple linear regression to address scientific questions about the association of two continuous variables with each other. These steps include estimation and inference, assessing model fit, the connection between regression and ANOVA, and study design. Examples in microbiology are used throughout. This chapter provides a framework that is helpful in understanding more complex statistical techniques, such as multiple linear regression, linear mixed effects models, logistic regression, and proportional hazards regression. PMID:18450049

  19. Simple Algorithm Portfolio for SAT

    OpenAIRE

    Nikolic, Mladen; Maric, Filip; Janicic, Predrag

    2011-01-01

    The importance of algorithm portfolio techniques for SAT has long been noted, and a number of very successful systems have been devised, including the most successful one --- SATzilla. However, all these systems are quite complex (to understand, reimplement, or modify). In this paper we propose a new algorithm portfolio for SAT that is extremely simple, but in the same time so efficient that it outperforms SATzilla. For a new SAT instance to be solved, our portfolio finds its k-nearest neighb...

  20. Simple and Realistic Data Generation

    DEFF Research Database (Denmark)

    Pedersen, Kenneth Houkjær; Torp, Kristian; Wind, Rico

    2006-01-01

    This paper presents a generic, DBMS independent, and highly extensible relational data generation tool. The tool can efficiently generate realistic test data for OLTP, OLAP, and data streaming applications. The tool uses a graph model to direct the data generation. This model makes it very simple...... to generate data even for large database schemas with complex inter- and intra table relationships. The model also makes it possible to generate data with very accurate characteristics....

  1. Comparing Simple Quasar Demographics Models

    CERN Document Server

    Veale, Melanie; Conroy, Charlie

    2014-01-01

    This paper explores several simple model variations for the connections among quasars, galaxies, and dark matter halos for redshifts 1 < z < 6. A key component of these models is that we enforce a self-consistent black hole (BH) history by tracking both BH mass and BH growth rate at all redshifts. We connect objects across redshift with a simple constant-number-density procedure, and choose a fiducial model with a relationship between BH and galaxy growth rates that is linear and evolves in a simple way with redshift. Within this fiducial model, we find the quasar luminosity function (QLF) by calculating an "intrinsic" luminosity based on either the BH mass or BH growth rate, and then choosing a model of quasar variability with either a lognormal or truncated power-law distribution of instantaneous luminosities. This gives four model variations, which we fit to the observed QLF at each redshift. With the best-fit models in hand, we undertake a detailed comparison of the four fiducial models, and explore...

  2. Identifying Protein-Protein Interaction Sites Using Covering Algorithm

    OpenAIRE

    Jie Song; Jiaxing Cheng; Xiuquan Du

    2009-01-01

    Identification of protein-protein interface residues is crucial for structural biology. This paper proposes a covering algorithm for predicting protein-protein interface residues with features including protein sequence profile and residue accessible area. This method adequately utilizes the characters of a covering algorithm which have simple, lower complexity and high accuracy for high dimension data. The covering algorithm can achieve a comparable performance (69.62%, Complete dataset; 60....

  3. Protein Microarray On-Demand: A Novel Protein Microarray System

    OpenAIRE

    Chatterjee, Deb K.; Sitaraman, Kalavathy; Baptista, Cassio; Hartley, James; Hill, Thomas M.; David J. Munroe

    2008-01-01

    We describe a novel, simple and low-cost protein microarray strategy wherein the microarrays are generated by printing expression ready plasmid DNAs onto slides that can be converted into protein arrays on-demand. The printed expression plasmids serve dual purposes as they not only direct the synthesis of the protein of interest; they also serve to capture the newly synthesized proteins through a high affinity DNA-protein interaction. To accomplish this we have exploited the high-affinity bin...

  4. Protein crystallization with paper

    Science.gov (United States)

    Matsuoka, Miki; Kakinouchi, Keisuke; Adachi, Hiroaki; Maruyama, Mihoko; Sugiyama, Shigeru; Sano, Satoshi; Yoshikawa, Hiroshi Y.; Takahashi, Yoshinori; Yoshimura, Masashi; Matsumura, Hiroyoshi; Murakami, Satoshi; Inoue, Tsuyoshi; Mori, Yusuke; Takano, Kazufumi

    2016-05-01

    We developed a new protein crystallization method that incorporates paper. A small piece of paper, such as facial tissue or KimWipes, was added to a drop of protein solution in the traditional sitting drop vapor diffusion technique, and protein crystals grew by incorporating paper. By this method, we achieved the growth of protein crystals with reducing osmotic shock. Because the technique is very simple and the materials are easy to obtain, this method will come into wide use for protein crystallization. In the future, it could be applied to nanoliter-scale crystallization screening on a paper sheet such as in inkjet printing.

  5. Systems analysis made simple computerbooks

    CERN Document Server

    Antill, Lyn

    1980-01-01

    Systems Analysis: Made Simple Computerbooks introduces the essential elements of information systems analysis and design and teaches basic technical skills required for the tasks involved. The book covers the aspects to the design of an information system; information systems and the organization, including the types of information processing activity and computer-based information systems; the role of the systems analyst; and the human activity system. The text also discusses information modeling, socio-technical design, man-machine interface, and the database design. Software specification

  6. A Simple Model of Conflict

    OpenAIRE

    Ille, Sebastian

    2013-01-01

    This paper develops a simple dynamic, non-symmetric game between two player populations that can be generalised to a large variety of conflicts. One population attempts to re-write a current (social) contract in its favour, whereas the other prefers to maintain the status quo. In the model's initial set up, the free-rider problem obstructs the occurrence of a conflict, leading to a low probability of a successful turn-over. The normative and conventional framework, in which players interact, ...

  7. Computer electronics made simple computerbooks

    CERN Document Server

    Bourdillon, J F B

    2014-01-01

    Computer Electronics: Made Simple Computerbooks presents the basics of computer electronics and explains how a microprocessor works. Various types of PROMs, static RAMs, dynamic RAMs, floppy disks, and hard disks are considered, along with microprocessor support devices made by Intel, Motorola and Zilog. Bit slice logic and some AMD bit slice products are also described.Comprised of 14 chapters, this book begins with an introduction to the fundamentals of hardware design, followed by a discussion on the basic building blocks of hardware (NAND, NOR, AND, OR, NOT, XOR); tools and equipment that

  8. Windows Phone 7 Made Simple

    CERN Document Server

    Trautschold, Martin

    2011-01-01

    With Windows Phone 7, Microsoft has created a completely new smartphone operating system that focuses on allowing users to be productive with their smartphone in new ways, while offering seamless integration and use of Microsoft Office Mobile as well as other productivity apps available in the Microsoft App Store. Windows Phone 7 Made Simple offers a clear, visual, step-by-step approach to using your Windows Phone 7 smartphone, no matter what the manufacturer. Author Jon Westfall is an expert in mobile devices, recognized by Microsoft as a "Most Valuable Professional" with experience

  9. Simple laws of urban growth

    CERN Document Server

    Masucci, Paolo; Batty, Michael

    2012-01-01

    By analysing the evolution of the street network of Greater London from the late 1700s to the present, we are able to shed light on the inner mechanisms that lie behind the growth of a city. First we define an object called a city as a spatial discontinuous phenomena, from clustering the density of street intersections. Second, we find that the city growth mechanisms can be described by two logistic laws, hence can be determined by a simple model of urban network growth in the presence of competition for limited space.

  10. A simple Cavendish experimental apparatus

    Science.gov (United States)

    Kossler, W. J.; Klein, Susann; Morrow, Dominick; Juliao, Andre

    2016-03-01

    A simple Cavendish apparatus is described that allows measurement of the gravitational constant G and makes observable the gravitational attraction between commonplace objects. The apparatus consists of a torsion balance constructed from readily available materials, including lead bricks and fishing weights ("sinkers"). A computer program is used to determine the gravitational field at the location of the small mass due to a nearby lead brick, which allows students to gain experience with numerical methods. Experimental results obtained are compatible with the accepted value of G.

  11. Simple approximations for condensational growth

    Energy Technology Data Exchange (ETDEWEB)

    Kostinski, A B [Michigan Technological University, 1400 Townsend Drive, Houghton, MI 49931-1200 (United States)], E-mail: alex.kostinski@mtu.edu

    2009-01-15

    A simple geometric argument relating to the liquid water content of clouds is given. The phase relaxation time and the nature of the quasi-steady approximation for the diffusional growth of cloud drops are elucidated directly in terms of water vapor concentration. Spatial gradients of vapor concentration, inherent in the notion of quasi-steady growth, are discussed and we argue for an occasional reversal of the traditional point of view: rather than a drop growing in response to a given supersaturation, the observed values of the supersaturation in clouds are the result of a vapor field adjusting to droplet growth. Our perspective is illustrated by comparing the exponential decay of condensation trails with a quasi-steady regime of cirrus clouds. The role of aerosol loading in decreasing relaxation times and increasing the rate of growth of the liquid water content is also discussed.

  12. Simple Algorithm Portfolio for SAT

    CERN Document Server

    Nikolic, Mladen; Janicic, Predrag

    2011-01-01

    The importance of algorithm portfolio techniques for SAT has long been noted, and a number of very successful systems have been devised, including the most successful one --- SATzilla. However, all these systems are quite complex (to understand, reimplement, or modify). In this paper we propose a new algorithm portfolio for SAT that is extremely simple, but in the same time so efficient that it outperforms SATzilla. For a new SAT instance to be solved, our portfolio finds its k-nearest neighbors from the training set and invokes a solver that performs the best at those instances. The main distinguishing feature of our algorithm portfolio is the locality of the selection procedure --- the selection of a SAT solver is based only on few instances similar to the input one.

  13. iPad Made Simple

    CERN Document Server

    Trautschold, Martin; Learning, MSL Made Simple

    2010-01-01

    The new iPad is sleek, powerful, and most importantly, it's much more than just a big iPhone. Your iPad is can be used for reading, surfing the web, emailing, watching TV/Movies, getting work done, and much more. And with the upcoming wave of iPad apps, the possibilities are endless. iPad X Made Simple clarifies all of the key features on the iPad, introduces what's new, and also reveals dozens of time-saving shortcuts and techniques. The book has over 1,000 screen shots that are carefully annotated with step-by-step instructions. * Clear instructions on how to set up and use the iPad * Illust

  14. Methadone radioimmunoassay: two simple methods

    International Nuclear Information System (INIS)

    Two simple and economical radioimmunoassays for methadone in blood or urine are described. Haemolysis, decomposition, common anticoagulants and sodium fluoride do not affect the results. One assay used commercially-available [1-3H](-)-methadone hydrobromide as the label, while the other uses a radioiodinated conjugate of 4-dimethylamino-2,2-diphenylpentanoic acid and L-tyrosine methyl ester. A commercially-available antiserum is used in both assays. Normethadone and α-methadol cross-react to a small extent with the antiserum while methadone metabolites, dextropropoxyphene, dipipanone and phenadoxone have negligible cross-reactivities. The 'cut-offs' of the two assays as described are 30 and 33 ng ml-1 for blood, and 24 and 21 ng ml-1 for urine. The assay using the radioiodinated conjugate can be made more sensitive if required by increasing the specific activity of the label. (author)

  15. Methadone radioimmunoassay: two simple methods

    Energy Technology Data Exchange (ETDEWEB)

    Robinson, K.; Smith, R.N. (Metropolitan Police Forensic Science Laboratory, London (UK))

    1983-09-01

    Two simple and economical radioimmunoassays for methadone in blood or urine are described. Haemolysis, decomposition, common anticoagulants and sodium fluoride do not affect the results. One assay used commercially-available (1-/sup 3/H)(-)-methadone hydrobromide as the label, while the other uses a radioiodinated conjugate of 4-dimethylamino-2,2-diphenylpentanoic acid and L-tyrosine methyl ester. A commercially-available antiserum is used in both assays. Normethadone and ..cap alpha..-methadol cross-react to a small extent with the antiserum while methadone metabolites, dextropropoxyphene, dipipanone and phenadoxone have negligible cross-reactivities. The 'cut-offs' of the two assays as described are 30 and 33 ng ml/sup -1/ for blood, and 24 and 21 ng ml/sup -1/ for urine. The assay using the radioiodinated conjugate can be made more sensitive if required by increasing the specific activity of the label.

  16. Simple Models of Superconformal Flavor

    CERN Document Server

    Craig, Nathaniel

    2010-01-01

    The observed hierarchy of fermion masses and mixings may be generated by renormalization group flow if the Standard Model is coupled to a near-conformal sector at high energies. If the conformal sector is supersymmetric, these effects are rendered calculable by a combination of superconformal symmetry and a-maximization. The viability of such models depends on whether they generate the observed fermion mass hierarchy before the Standard Model gauge couplings hit a Landau pole. Here we construct a variety of simple vector-like models of superconformal flavor, including both ten-centered and democratic variations. We discuss in detail the subtleties of applying the a-maximization procedure to determine anomalous dimensions of Standard Model fields. We find that a wide range of models based on SU(N) or Sp(2N) SQCD with fundamental and adjoint matter are viable theories of superconformal flavor.

  17. Generalized gradient approximation made simple

    International Nuclear Information System (INIS)

    Generalized gradient approximations Exc = ∫ d3 r f(n↑, n↓, triangledown n↑, triangledown n↓) for the exchange-correlation energy typically surpass the accuracy of the local spin density approximation and compete with standard quantum-chemical methods in electronic-structure calculations. But the derivation and analytic expression for the integrand f tend to be complicated and over-parametrized. We present a simple derivation of a simple but accurate expression for f, involving no parameter other than fundamental-constants. The derivation invoices only general ideas (not details) of the real-space cutoff construction, and agrees closely with the result of this construction. Besides its greater simplicity, this PBE96 functional has other advantages over PW91: (1) The correct behavior of the correlation energy is recovered under uniform scaling to the high-density limit. (2) The linear response of the uniform electron gas agrees with the accurate local spin density prediction. 96:006128*1 Paper TuI 6 Many-body effects are hidden in the universal density functional. The interaction of degenerate states via two-body operators, such as the electron-electron repulsion (for describing multiplets or the interaction of molecular fragments at large separations) are thus not explicitly considered in the Kohn-Sham scheme. In practice the density functionals have to be approximated, and there is a fundamental difficulty which arises in the case of degeneracy. While density functionals should be universal, the effect of degeneracy is linked to the potential characteristic to the atom, molecule, or crystal. There are, however, several possibilities to treat degeneracy effects within density functional theory, a few of which will be discussed. These take profit of the use of two-body operators, which can be, but must not be, the physical electron-electron interaction

  18. Two Simple Models for Fracking

    Science.gov (United States)

    Norris, Jaren Quinn

    Recent developments in fracking have enable the recovery of oil and gas from tight shale reservoirs. These developments have also made fracking one of the most controversial environmental issues in the United States. Despite the growing controversy surrounding fracking, there is relatively little publicly available research. This dissertation introduces two simple models for fracking that were developed using techniques from non-linear and statistical physics. The first model assumes that the volume of induced fractures must be equal to the volume of injected fluid. For simplicity, these fractures are assumed to form a spherically symmetric damage region around the borehole. The predicted volumes of water necessary to create a damage region with a given radius are in good agreement with reported values. The second model is a modification of invasion percolation which was previously introduced to model water flooding. The reservoir rock is represented by a regular lattice of local traps that contain oil and/or gas separated by rock barriers. The barriers are assumed to be highly heterogeneous and are assigned random strengths. Fluid is injected from a central site and the weakest rock barrier breaks allowing fluid to flow into the adjacent site. The process repeats with the weakest barrier breaking and fluid flowing to an adjacent site each time step. Extensive numerical simulations were carried out to obtain statistical properties of the growing fracture network. The network was found to be fractal with fractal dimensions differing slightly from the accepted values for traditional percolation. Additionally, the network follows Horton-Strahler and Tokunaga branching statistics which have been used to characterize river networks. As with other percolation models, the growth of the network occurs in bursts. These bursts follow a power-law size distribution similar to observed microseismic events. Reservoir stress anisotropy is incorporated into the model by assigning

  19. Simple Solutions for Treating Dry Mouth

    Science.gov (United States)

    Patient Education Sheet Simple Solutions for Treating Dry Mouth Clinicians: Please make as many copies of this ... Philadelphia, for authoring “Simple Solutions for Treating Dry Mouth.” Ask your family doctor to discontinue or provide ...

  20. Simulations of Protein Folding

    CERN Document Server

    Cahill, M; Cahill, K E; Cahill, Michael; Fleharty, Mark; Cahill, Kevin

    2000-01-01

    We have developed a simple, phenomenological, Monte-Carlo code that predicts the three-dimensional structure of globular proteins from the DNA sequences that define them. We have applied this code to two small proteins, the villin headpiece (1VII) and cole1 rop (1ROP). Our code folded the 36-residue villin headpiece to a mean rms distance of less than 5 A from its native structure as revealed by NMR; it folded a 56-residue fragment of the protein cole1 rop to within 11 A of its native structure. The denatured starting configurations of these two proteins were, respectively, 29 A and 55 A distant from their native structures.

  1. Plunger with simple retention valve

    International Nuclear Information System (INIS)

    This patent describes a positive displacement retention valve apparatus in which the actual flow equals the theoretical maximum flow through the retention valve. The apparatus includes, in combination, a confined fluid flow conduit, a piston adapted for reciprocal movement within the fluid flow conduit between upstream and downstream limit positions, piston reciprocating means, and pressure responsive check valve means located upstream with respect to the piston in the fluid flow conduit. The pressure responsive check valve means operable to permit fluid flow therethrough in a downstream direction toward the piston, and to preclude fluid flow therethrough in an opposite direction. The piston is composed of parts which are relatively movable with respect to one another. The piston includes a simple retention valve consisting of a plug means, a cylinder having a minimum and a maximum internal cross section flow area therein and being reciprocal within the confined fluid flow conduit, and a seat on the cylinder for the plug means. The piston reciprocating means are operatively connected to the plug means

  2. A simple model inducing QCD

    CERN Document Server

    Aref'eva, I Ya

    1993-01-01

    A simple lattice model inducing a gauge theory is considered. The model describes an interaction of a gauge field to an $N\\times N$ complex matrix scalar field transforming as a field in the fundamental representation. In contrast to the Kazakov-Migdal model the model contains only the linear interaction between scalar and gauge lattice fields. This model does not suffer from extra local U(1) symmetries. In an approximation of a translation invariant master field the large N limit of the model is investigated. At large N the gauge fields can be integrated out yielding an effective theory describing an interaction of eigenvalues of the master field. The reduced model exhibits phase transitions at the points $\\beta_{\\bar {cr}}$ and $\\beta _{\\underline{cr}}$ and the region $(\\beta_{\\bar{cr}}, \\beta_{\\underline{cr}})$ separates the strong and weak regions of the model. To study the behaviour of the model at large $N$ in more systematic way the quenched momentum prescription with constraints for treating the large...

  3. A simple quantum heat engine

    CERN Document Server

    Arnaud, J; Philippe, F; Arnaud, Jacques; Chusseau, Laurent; Philippe, Fabrice

    2002-01-01

    A simple urn model is presented that may describe heat engines employing as working agents spin-1/2 particles (e.g., electrons) or two-level atoms. In this model the cold reservoir is an urn located at altitude $\\epsilon_{c}$ that contains $N$ balls of total weight $n_{c}$. Likewise, the hot reservoir at altitude $\\epsilon_{h}$ contains $N$ balls of total weight $n_{h}$. A cycle consists of exchanging two randomly selected balls between the reservoirs. Elementary considerations show that the heat-engine efficiency (ratio of the average work performed divided by the average hot-reservoir energy consumption) is $\\eta=1-\\epsilon_{c}/\\epsilon_{h}$. The case where the two reservoirs have negative temperatures is symmetrical to the case where the two reservoirs have positive temperatures in the sense that heat engines become heat pumps and conversely. When the cold reservoir has positive temperature while the hot reservoir has negative temperature the maximum efficiency is unity. When many cold and hot sub-reservoi...

  4. Simple molecules as complex systems.

    Science.gov (United States)

    Furtenbacher, Tibor; Arendás, Péter; Mellau, Georg; Császár, Attila G

    2014-01-01

    For individual molecules quantum mechanics (QM) offers a simple, natural and elegant way to build large-scale complex networks: quantized energy levels are the nodes, allowed transitions among the levels are the links, and transition intensities supply the weights. QM networks are intrinsic properties of molecules and they are characterized experimentally via spectroscopy; thus, realizations of QM networks are called spectroscopic networks (SN). As demonstrated for the rovibrational states of H2(16)O, the molecule governing the greenhouse effect on earth through hundreds of millions of its spectroscopic transitions (links), both the measured and first-principles computed one-photon absorption SNs containing experimentally accessible transitions appear to have heavy-tailed degree distributions. The proposed novel view of high-resolution spectroscopy and the observed degree distributions have important implications: appearance of a core of highly interconnected hubs among the nodes, a generally disassortative connection preference, considerable robustness and error tolerance, and an "ultra-small-world" property. The network-theoretical view of spectroscopy offers a data reduction facility via a minimum-weight spanning tree approach, which can assist high-resolution spectroscopists to improve the efficiency of the assignment of their measured spectra. PMID:24722221

  5. Structure of simple (binary) oxides

    International Nuclear Information System (INIS)

    Crystal structures of different simple and binary oxides of M3O, M2O, MO, MO2, MO4, MO3, M2O3, M3O4, M2O5, M2O7 composition as well as lowest cesium oxides (Cs7O, Cs4O, Cs11O3) are considered. Cs3O crystals are constructed out of the colomns of the Cs3O composition consisting of octahedrals OCs6 jointed through the opposite faces. This is the ZrI3 ''antistructure''. Cs2O has the CdCl2 antistructure. ZrO2, HfO2, CeO2, ThO2, UO2, NpO2, PuO2, AmO2, CmO2, PoO2 oxides have the structural type of fluorite of rutile - VO2, NbO2, TaO2, MoO2, ReO2 oxides, of wurtzite - BeO. The NbO oxide is unique, in its structure the oxygen and niobium atoms form four complanar bonds. A three-dimensional skeleton constructed out of the octahedral structural units Nb6 (Nb-Nb 2.98 A) is separated. ZrO2 is a polymorphous, at 1100 grad. the monoclinic modification transfers to tetragonal. M2O7 oxides are Re2O7, Tc2O7

  6. Squid – a simple bioinformatics grid

    Directory of Open Access Journals (Sweden)

    de Miranda Antonio B

    2005-08-01

    Full Text Available Abstract Background BLAST is a widely used genetic research tool for analysis of similarity between nucleotide and protein sequences. This paper presents a software application entitled "Squid" that makes use of grid technology. The current version, as an example, is configured for BLAST applications, but adaptation for other computing intensive repetitive tasks can be easily accomplished in the open source version. This enables the allocation of remote resources to perform distributed computing, making large BLAST queries viable without the need of high-end computers. Results Most distributed computing / grid solutions have complex installation procedures requiring a computer specialist, or have limitations regarding operating systems. Squid is a multi-platform, open-source program designed to "keep things simple" while offering high-end computing power for large scale applications. Squid also has an efficient fault tolerance and crash recovery system against data loss, being able to re-route jobs upon node failure and recover even if the master machine fails. Our results show that a Squid application, working with N nodes and proper network resources, can process BLAST queries almost N times faster than if working with only one computer. Conclusion Squid offers high-end computing, even for the non-specialist, and is freely available at the project web site. Its open-source and binary Windows distributions contain detailed instructions and a "plug-n-play" instalation containing a pre-configured example.

  7. Simple UV spectrophotometric assay of Clarithromycin

    Directory of Open Access Journals (Sweden)

    Dr. Safila Naveed

    2014-09-01

    Full Text Available Clarithromycin belongs to semi-synthetic macrolide antibiotic class of drugs that inhibits bacterial protein synthesis.. Our aim of study is to develop a efficient least time consuming and simple spectrophotometric method for the assay of clarithromycin. Comparision of assay of five different brands of clarithromycin (klaricid,klaribact,rithmo,clariteck,E-clark available in public medical store of Karachi, Pakistan has also been done. The assay is based on the ultraviolet UV absorbance maxima at about 210nm wavelength of mefenamic acid, water is used as solvent. A sample of drug was dissolved in water to produce a solution containing mefenamic acid. Similarly, a sample of ground tablets of different brand were dissolved in water and various dilutions were made. The absorbance of sample preparation was measured at 210nm against the solvent blank and the assay was determined by comparing with the absorbance of available brand. Our results reveals that among all the five brands of clarithromycin (klaricid,klaribact,rithmo,clariteck,E-clark Klaribact shows highest percentage assay i.e 115.3846%. Klaricid and Claritecl shows percentage assay of 107.693%. Rithmo shows a percent assay of 92.307% while E-clark shows lowest value for percentage assay 84.6153%

  8. Synthetically simple, highly resilient hydrogels.

    Science.gov (United States)

    Cui, Jun; Lackey, Melissa A; Madkour, Ahmad E; Saffer, Erika M; Griffin, David M; Bhatia, Surita R; Crosby, Alfred J; Tew, Gregory N

    2012-03-12

    Highly resilient synthetic hydrogels were synthesized by using the efficient thiol-norbornene chemistry to cross-link hydrophilic poly(ethylene glycol) (PEG) and hydrophobic polydimethylsiloxane (PDMS) polymer chains. The swelling and mechanical properties of the hydrogels were controlled by the relative amounts of PEG and PDMS. The fracture toughness (G(c)) was increased to 80 J/m(2) as the water content of the hydrogel decreased from 95% to 82%. In addition, the mechanical energy storage efficiency (resilience) was more than 97% at strains up to 300%. This is comparable with one of the most resilient materials known: natural resilin, an elastic protein found in many insects, such as in the tendons of fleas and the wings of dragonflies. The high resilience of these hydrogels can be attributed to the well-defined network structure provided by the versatile chemistry, low cross-link density, and lack of secondary structure in the polymer chains. PMID:22372639

  9. Chirality and Protein Folding

    OpenAIRE

    Kwiecinska, Joanna I.; Cieplak, Marek

    2004-01-01

    There are several simple criteria of folding to a native state in model proteins. One of them involves crossing of a threshold value of the RMSD distance away from the native state. Another checks whether all native contacts are established, i.e. whether the interacting amino acids come closer than some characteristic distance. We use Go-like models of proteins and show that such simple criteria may prompt one to declare folding even though fragments of the resulting conformations have a wron...

  10. Protein structure by mechanical triangulation

    OpenAIRE

    Dietz, Hendrik; Rief, Matthias

    2006-01-01

    Knowledge of protein structure is essential to understand protein function. High-resolution protein structure has so far been the domain of ensemble methods. Here, we develop a simple single-molecule technique to measure spatial position of selected residues within a folded and functional protein structure in solution. Construction and mechanical unfolding of cysteine-engineered polyproteins with controlled linkage topology allows measuring intramolecular distance with angstrom precision. We ...

  11. Are polar liquids less simple?

    Science.gov (United States)

    Fragiadakis, D.; Roland, C. M.

    2013-03-01

    Strong correlation between equilibrium fluctuations under isochoric conditions of the potential energy, U, and the virial, W, is a characteristic of liquids that implies the presence of certain dynamic properties, such as density scaling of the relaxation times and isochronal superpositioning of the relaxation function. In this work we employ molecular dynamics simulations on methanol and two variations, lacking hydrogen bonds and a dipole moment, to assess the connection between the correlation of U and W and these dynamic properties. We show, in accord with prior results of others [T. S. Ingebrigtsen, T. B. Schrøder, and J. C. Dyre, Phys. Rev. X 2, 011011 (2012), 10.1103/PhysRevX.2.011011], that simple van der Waals liquids exhibit both strong correlations and the expected dynamic behavior. However, for polar liquids this correspondence breaks down—weaker correlation between U and W is not associated with worse conformance to density scaling or isochronal superpositioning. The reason for this is that strong correlation between U and W only requires their proportionality, whereas the expected dynamic behavior depends primarily on constancy of the proportionality constant for all state points. For hydrogen-bonded liquids, neither strong correlation nor adherence to the dynamic properties is observed; however, this nonconformance is not directly related to the concentration of hydrogen bonds, but rather to the greater deviation of the intermolecular potential from an inverse power law (IPL). Only (hypothetical) liquids having interactions governed strictly by an IPL are perfectly correlating and exhibit the consequent dynamic properties over all thermodynamic conditions.

  12. Simple Treat.i Sensivity Analysis

    OpenAIRE

    Sneekes, A.C.; Wal, van der, M.F.

    2009-01-01

    The topic of this report is a sensitivity analysis of the SimpleTreat.i model. SimpleTreat.i (Van der Wal 2008) is a slightly modified version of the SimpleTreat model for evaluating municipal waste water treatment plants (WWTPs). The original SimpleTreat model is described in Struijs (1996). The modifications are intended to make SimpleTreat.i more easily applicable in an industrial setting. Both the initial modifications and the sensitivity analyses haven been performed under contracts from...

  13. Relationship of Simple Renal Cyst to Hypertension

    OpenAIRE

    Kim, Su-Mi; Chung, Tae-Heum; Oh, Myoung-Soon; Kwon, Sung-Gul; Bae, Sung-Jin

    2014-01-01

    Background Simple renal cyst is the most common cystic deformation found in adults. However, there were a few systematic Korean reports for the clinical symptoms and complications of simple renal cysts. The author's purpose was to determine the relationship between simple renal cysts diagnosed by abdominal ultrasonography and hypertension. Methods Among 13,482 persons who took a routine physical examination at Ulsan University Hospital in 2002, 5,127 persons who took medical examinations agai...

  14. A Simple Measure of Economic Complexity

    OpenAIRE

    Inoua, Sabiou

    2016-01-01

    We show from a simple model that a country's technological development can be measured by the logarithm of the number of products it makes. We show that much of the income gaps among countries are due to differences in technology, as measured by this simple metric. Finally, we show that the so-called Economic Complexity Index (ECI), a recently proposed measure of collective knowhow, is in fact an estimate of this simple metric (with correlation above 0.9).

  15. Protein Thin Film Machines

    OpenAIRE

    Federici, Stefania; Oliviero, Giulio; Hamad-Schifferli, Kimberly; Bergese, Paolo

    2010-01-01

    We report the first example of microcantilever beams that are reversibly driven by protein thin film machines fuelled by cycling the salt concentration of the surrounding solution. We also show that upon the same salinity stimulus the drive can be completely reversed in its direction by introducing a surface coating ligand. Experimental results are throughout discussed within a general yet simple thermodynamic model.

  16. Thermal unfolding of proteins

    OpenAIRE

    Cieplak, Marek; Sulkowska, Joanna I.

    2006-01-01

    Thermal unfolding of proteins is compared to folding and mechanical stretching in a simple topology-based dynamical model. We define the unfolding time and demonstrate its low-temperature divergence. Below a characteristic temperature, contacts break at separate time scales and unfolding proceeds approximately in a way reverse to folding. Features in these scenarios agree with experiments and atomic simulations on titin.

  17. Thermal unfolding of proteins

    Science.gov (United States)

    Cieplak, Marek; Sułkowska, Joanna I.

    2005-11-01

    Thermal unfolding of proteins is compared to folding and mechanical stretching in a simple topology-based dynamical model. We define the unfolding time and demonstrate its low-temperature divergence. Below a characteristic temperature, contacts break at separate time scales and unfolding proceeds approximately in a way reverse to folding. Features in these scenarios agree with experiments and atomic simulations on titin.

  18. Protein Foods

    Science.gov (United States)

    ... Text Size: A A A Listen En Español Protein Foods Foods high in protein such as fish, ... the vegetarian proteins, whether they have carbohydrate. Best Protein Choices The best choices are: Plant-based proteins ...

  19. The Fluid Foil: The Seventh Simple Machine

    Science.gov (United States)

    Mitts, Charles R.

    2012-01-01

    A simple machine does one of two things: create a mechanical advantage (lever) or change the direction of an applied force (pulley). Fluid foils are unique among simple machines because they not only change the direction of an applied force (wheel and axle); they convert fluid energy into mechanical energy (wind and Kaplan turbines) or vice versa,…

  20. Simple current extensions and the permutation orbifold

    International Nuclear Information System (INIS)

    We review extensions by integer spin simple currents in two-dimensional conformal field theories and their application in string theory. In particular, we study the problem of resolving the fixed points of a simple current and apply the formalism to the permutation orbifold.

  1. A simple bivariate count data regression model

    OpenAIRE

    Shiferaw Gurmu; John Elder

    2007-01-01

    This paper develops a simple bivariate count data regression model in which dependence between count variables is introduced by means of stochastically related unobserved heterogeneity components. Unlike existing commonly used bivariate models, we obtain a computationally simple closed form of the model with an unrestricted correlation pattern.

  2. Sunspots and Their Simple Harmonic Motion

    Science.gov (United States)

    Ribeiro, C. I.

    2013-01-01

    In this paper an example of a simple harmonic motion, the apparent motion of sunspots due to the Sun's rotation, is described, which can be used to teach this subject to high-school students. Using real images of the Sun, students can calculate the star's rotation period with the simple harmonic motion mathematical expression.

  3. Multiplex PCR Assay for Direct Identification of Group B Streptococcal Alpha-Protein-Like Protein Genes

    OpenAIRE

    Creti, Roberta; Fabretti, Francesca; Orefici, Graziella; von Hunolstein, Christina

    2004-01-01

    We developed a group B streptococcus multiplex PCR assay which allows, by direct analysis of the amplicon size, determination of the surface protein antigen genes of alpha-C protein, epsilon protein, Rib, Alp2, Alp3, and Alp4. The multiplex PCR assay offers a rapid and simple method of subtyping Streptococcus agalactiae based on surface protein genes.

  4. Protein sequence databases.

    Science.gov (United States)

    Apweiler, Rolf; Bairoch, Amos; Wu, Cathy H

    2004-02-01

    A variety of protein sequence databases exist, ranging from simple sequence repositories, which store data with little or no manual intervention in the creation of the records, to expertly curated universal databases that cover all species and in which the original sequence data are enhanced by the manual addition of further information in each sequence record. As the focus of researchers moves from the genome to the proteins encoded by it, these databases will play an even more important role as central comprehensive resources of protein information. Several the leading protein sequence databases are discussed here, with special emphasis on the databases now provided by the Universal Protein Knowledgebase (UniProt) consortium. PMID:15036160

  5. Protein-protein interactions

    DEFF Research Database (Denmark)

    Byron, Olwyn; Vestergaard, Bente

    2015-01-01

    Responsive formation of protein:protein interaction (PPI) upon diverse stimuli is a fundament of cellular function. As a consequence, PPIs are complex, adaptive entities, and exist in structurally heterogeneous interplays defined by the energetic states of the free and complexed protomers. The...

  6. Changes of acylation stimulating protein,adiponectin level in simple obese children and their clinical significance%单纯性肥胖症儿童促酰化蛋白和脂联素水平变化的临床意义

    Institute of Scientific and Technical Information of China (English)

    龚雪萍; 廖均梅

    2015-01-01

    Objective To explore the relationship between acylation stimulating protein(ASP),adiponectin(ADPN)and the inci-dence of childhood obesity and the significance of them in diagnoses and therapy of children's obesity. Methods 200 children including 62 obese children,73 overweight children and 65 healthy control children were recruited. Fasting plasma glucose (FPG),fasting insulin (FINS),total cholesterol(TC),triglyeerides (TG),low density lipoprotein-cholesterol (LDL-C),and HDL-C (high density lipoprotein-cholesterol)were determined by automatic blood analyses machine. Serum ASP and ADPN levels were determined by enzyme linked immu-nosorbent assay(ELISA). Results Compared with healthy children group,FPG,FINS,LDL-C,TC,TG,insulin resistance index(IRI), ASP of obese and overweight children groups were significantly higher(P < 0. 05),while the level of HDL-C,ADPN and insulin sensitivity index(ISI)were significantly lower(P < 0. 05). And there was significant difference in the levels of FPG,FINS,LDL-C,TC,TG and IRI between obese and overweight children groups(P < 0. 05). ASP was negatively connected with ADPN in neonates with HIE. Conclusion In simple obesity children,there was a significant change in serum ASP and ADPN. And ASP and ADPN were involved in the disorder of lipid metabolism in obese children. Serum ASP and ADPN levels can be used as a new indicator to evaluate the risk of childhood obesity trends and future evaluation of diabetes and cardiovascular diseases.%目的:探讨单纯性肥胖症儿童促酰化蛋白(ASP)和脂联素(ADPN)水平变化的临床意义。方法选取2014年1月至2014年12月惠州市第一妇幼保健院儿科内分泌门诊就诊及健康体检的200例儿童作为研究对象,其中单纯性肥胖组62例,超重组73例和健康对照组65例。根据患者的身高和体质量计算出体质量指数(BMI)。测定空腹血糖(FPG)、空腹胰岛素(FINS)、总胆固醇( TC)、三酰甘油(TG)、低

  7. Acanthamoeba castellanii STAT protein.

    Science.gov (United States)

    Kicinska, Anna; Leluk, Jacek; Jarmuszkiewicz, Wieslawa

    2014-01-01

    STAT (signal transducers and activators of transcription) proteins are one of the important mediators of phosphotyrosine-regulated signaling in metazoan cells. We described the presence of STAT protein in a unicellular, free-living amoebae with a simple life cycle, Acanthamoeba castellanii. A. castellanii is the only, studied to date, Amoebozoan that does not belong to Mycetozoa but possesses STATs. A sequence of the A. castellanii STAT protein includes domains similar to those of the Dictyostelium STAT proteins: a coiled coil (characteristic for Dictyostelium STAT coiled coil), a STAT DNA-binding domain and a Src-homology domain. The search for protein sequences homologous to A. castellanii STAT revealed 17 additional sequences from lower eukaryotes. Interestingly, all of these sequences come from Amoebozoa organisms that belong to either Mycetozoa (slime molds) or Centramoebida. We showed that there are four separated clades within the slime mold STAT proteins. The A. castellanii STAT protein branches next to a group of STATc proteins from Mycetozoa. We also demonstrate that Amoebozoa form a distinct monophyletic lineage within the STAT protein world that is well separated from the other groups. PMID:25338074

  8. Acanthamoeba castellanii STAT protein.

    Directory of Open Access Journals (Sweden)

    Anna Kicinska

    Full Text Available STAT (signal transducers and activators of transcription proteins are one of the important mediators of phosphotyrosine-regulated signaling in metazoan cells. We described the presence of STAT protein in a unicellular, free-living amoebae with a simple life cycle, Acanthamoeba castellanii. A. castellanii is the only, studied to date, Amoebozoan that does not belong to Mycetozoa but possesses STATs. A sequence of the A. castellanii STAT protein includes domains similar to those of the Dictyostelium STAT proteins: a coiled coil (characteristic for Dictyostelium STAT coiled coil, a STAT DNA-binding domain and a Src-homology domain. The search for protein sequences homologous to A. castellanii STAT revealed 17 additional sequences from lower eukaryotes. Interestingly, all of these sequences come from Amoebozoa organisms that belong to either Mycetozoa (slime molds or Centramoebida. We showed that there are four separated clades within the slime mold STAT proteins. The A. castellanii STAT protein branches next to a group of STATc proteins from Mycetozoa. We also demonstrate that Amoebozoa form a distinct monophyletic lineage within the STAT protein world that is well separated from the other groups.

  9. Simple Signal Source based Micro Controller

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    Using micro controller, DAC and Multi-periods syn-thesis, we can buildup a very simple signal source with precisefrequency, amplitude and waveform. Wave parameters can beprogrammed in advance. The circuit can satisfy some special re-quirements.

  10. The Invention Convention: Mind Meets Simple Machines.

    Science.gov (United States)

    Hadi-Tabassum, Samina

    1997-01-01

    Describes an Earth Day celebration where students had to design an invention made of simple machines that could crush an empty aluminum can through 10 rapid mechanical movements using materials foraged from the students' homes. (JRH)

  11. Simple and Clear Proofs of Stirling's Formula

    Science.gov (United States)

    Niizeki, Shozo; Araki, Makoto

    2010-01-01

    The purpose of our article is to show two simpler and clearer methods of proving Stirling's formula than the traditional and conventional ones. The distinction of our method is to use the simple trapezoidal formula.

  12. The unsaturated simple ethers of glycerin

    International Nuclear Information System (INIS)

    To the unsaturated simple ethers of glycerin related allyl, vinyl ethers, which can be mono-, di- and three-substitutes. Besides there are known compounds, which contain simultaneously saturate and unsaturated radicals in molecule

  13. A Simple Preparation Method for Diphosphoimidazole

    DEFF Research Database (Denmark)

    Rosenberg, T.

    1964-01-01

    A simple method for the preparation of diphosphoimidazole is presented that involves direct phosphorylation of imidazole by phosphorus oxychloride in alkaline aqueous solution. Details are given on the use of diphosphoimidazole in preparing sodium phosphoramidate and certain phosphorylated amino...

  14. Generalized Inflations of Completely Simple Semigroups

    Institute of Scientific and Technical Information of China (English)

    Qiang Wang; Shelly L. Wismath

    2007-01-01

    Clarke and Monzo defined a construction called a generalized inflation of a semigroup, and proved that for unions of groups, all null extensions are generalized inflations. We characterize when a groupoid containing a completely simple semigroup B is an as\tsociative generalized inflation of B, and thus provide a way to construct all associative generalized inflations (null extensions) of a given completely simple semigroup.This answers a question posed by Clarke and Monzo.

  15. Introducing ASK, A Simple Knowledgeable System

    OpenAIRE

    Thompson, Bozena H.; Thompson, Frederick B.

    1982-01-01

    ASK, A Simple Knowledgeable System, is a total system for the structuring, manipulation and communication of information. It is a simple system in the sense that its development concentrated on clean engineering solutions to what could be done now with good response times. The user interface is a limited dialect of English. In contrast to expert systems, in which experts build the knowledge base and users make use of this expert knowledge, ASK is aimed at the user who wishes to create, tes...

  16. Simple Lie algebras and Dynkin diagrams

    International Nuclear Information System (INIS)

    The following theorem is studied: in a simple Lie algebra of rank p there are p positive roots such that all the other n-3p/2 positive roots are linear combinations of them with integer non negative coefficients. Dykin diagrams are built by representing the simple roots with circles and drawing a junction between the roots. Five exceptional algebras are studied, focusing on triple junction algebra, angular momentum algebra, weights of the representation, antisymmetric tensors, and subalgebras

  17. Force, motion & simple machines big book

    CERN Document Server

    Graybill, George

    2007-01-01

    Our Combined resource includes all the required fundamentals for teaching Force, Motion & Simple Machines. Give your students a kick start on learning with our resource that has simplified language and vocabulary. We begin with a look at force, motion and work, with examples of simple machines in daily life. Discover what a force is, and different kinds of forces that work on contact and at a distance.

  18. Prediction of potential drug targets based on simple sequence properties

    Directory of Open Access Journals (Sweden)

    Lai Luhua

    2007-09-01

    Full Text Available Abstract Background During the past decades, research and development in drug discovery have attracted much attention and efforts. However, only 324 drug targets are known for clinical drugs up to now. Identifying potential drug targets is the first step in the process of modern drug discovery for developing novel therapeutic agents. Therefore, the identification and validation of new and effective drug targets are of great value for drug discovery in both academia and pharmaceutical industry. If a protein can be predicted in advance for its potential application as a drug target, the drug discovery process targeting this protein will be greatly speeded up. In the current study, based on the properties of known drug targets, we have developed a sequence-based drug target prediction method for fast identification of novel drug targets. Results Based on simple physicochemical properties extracted from protein sequences of known drug targets, several support vector machine models have been constructed in this study. The best model can distinguish currently known drug targets from non drug targets at an accuracy of 84%. Using this model, potential protein drug targets of human origin from Swiss-Prot were predicted, some of which have already attracted much attention as potential drug targets in pharmaceutical research. Conclusion We have developed a drug target prediction method based solely on protein sequence information without the knowledge of family/domain annotation, or the protein 3D structure. This method can be applied in novel drug target identification and validation, as well as genome scale drug target predictions.

  19. Ultrafiltration of pegylated proteins

    Science.gov (United States)

    Molek, Jessica R.

    There is considerable clinical interest in the use of "second-generation" therapeutics produced by conjugation of a native protein with various polymers including polyethylene glycol (PEG). PEG--protein conjugates, so-called PEGylated proteins, can exhibit enhanced stability, half-life, and bioavailability. One of the challenges in the commercial production of PEGylated proteins is the purification required to remove unreacted polymer, native protein, and in many cases PEGylated proteins with nonoptimal degrees of conjugation. The overall objective of this thesis was to examine the use of ultrafiltration for the purification of PEGylated proteins. This included: (1) analysis of size-based separation of PEGylated proteins using conventional ultrafiltration membranes, (2) use of electrically-charged membranes to exploit differences in electrostatic interactions, and (3) examination of the effects of PEGylation on protein fouling. The experimental results were analyzed using appropriate theoretical models, with the underlying physical properties of the PEGylated proteins evaluated using size exclusion chromatography, capillary electrophoresis, dynamic light scattering, and reverse phase chromatography. PEGylated proteins were produced by covalent attachment of activated PEG to a protein via primary amines on the lysine residues. A simple model was developed for the reaction kinetics, which was used to explore the effect of reaction conditions and mode of operation on the distribution of PEGylated products. The effective size of the PEGylated proteins was evaluated using size exclusion chromatography, with appropriate correlations developed for the size in terms of the molecular weight of the native protein and attached PEG. The electrophoretic mobility of the PEGylated proteins were evaluated by capillary electrophoresis with the data in good agreement with a simple model accounting for the increase in protein size and the reduction in the number of protonated amine

  20. The Design of SimpleITK

    Directory of Open Access Journals (Sweden)

    Bradley Christopher Lowekamp

    2013-12-01

    Full Text Available SimpleITK is a new interface to the Insight Segmentation andRegistration Toolkit (ITK designed to facilitate rapid prototyping, educationand scientific activities, via high level programminglanguages. ITK is a templated C++ library of image processingalgorithms and frameworks for biomedical and other applications, andit was designed to be generic, flexible and extensible. Initially, ITKprovided a direct wrapping interface to languages such as Python andTcl through the WrapITK system. Unlike WrapITK, which exposed ITK'scomplex templated interface, SimpleITK was designed to provide an easyto use and simplified interface to ITK's algorithms. It includesprocedural methods, hides ITK's demand driven pipeline, and provides atemplate-less layer. Also SimpleITK provides practical conveniencessuch as binary distribution packages and overloaded operators. Ouruser-friendly design goals dictated a departure from the directinterface wrapping approach of WrapITK, towards a new facadeclass structure that only exposes the required functionality, hidingITK's extensive template use. Internally SimpleITK utilizes a manualdescription of each filter with code-generation and advanced C++meta-programming to provide the higher-level interface, bringing thecapabilities of ITK to a wider audience. SimpleITK is licensed asopen source software under the Apache License Version 2.0 and more informationabout downloading it can be found at http://www.simpleitk.org.

  1. Simple and Reproducible Sample Preparation for Single-Shot Phosphoproteomics with High Sensitivity

    DEFF Research Database (Denmark)

    Jersie-Christensen, Rosa R; Sultan, Abida; Olsen, Jesper V

    2016-01-01

    The traditional sample preparation workflow for mass spectrometry (MS)-based phosphoproteomics is time consuming and usually requires multiple steps, e.g., lysis, protein precipitation, reduction, alkylation, digestion, fractionation, and phosphopeptide enrichment. Each step can introduce chemical...... artifacts, in vitro protein and peptide modifications, and contaminations. Those often result in sample loss and affect the sensitivity, dynamic range and accuracy of the mass spectrometric analysis. Here we describe a simple and reproducible phosphoproteomics protocol, where lysis, denaturation, reduction...

  2. A Simple Test of Class-Level Genetic Association Can Reveal Novel Cardiometabolic Trait Loci

    OpenAIRE

    Qian, Jing; Nunez, Sara; Reed, Eric; Reilly, Muredach P.; Foulkes, Andrea S.

    2016-01-01

    Background Characterizing the genetic determinants of complex diseases can be further augmented by incorporating knowledge of underlying structure or classifications of the genome, such as newly developed mappings of protein-coding genes, epigenetic marks, enhancer elements and non-coding RNAs. Methods We apply a simple class-level testing framework, termed Genetic Class Association Testing (GenCAT), to identify protein-coding gene association with 14 cardiometabolic (CMD) related traits acro...

  3. Maximal temperature in a simple thermodynamical system

    Science.gov (United States)

    Dai, De-Chang; Stojkovic, Dejan

    2016-06-01

    Temperature in a simple thermodynamical system is not limited from above. It is also widely believed that it does not make sense talking about temperatures higher than the Planck temperature in the absence of the full theory of quantum gravity. Here, we demonstrate that there exist a maximal achievable temperature in a system where particles obey the laws of quantum mechanics and classical gravity before we reach the realm of quantum gravity. Namely, if two particles with a given center of mass energy come at the distance shorter than the Schwarzschild diameter apart, according to classical gravity they will form a black hole. It is possible to calculate that a simple thermodynamical system will be dominated by black holes at a critical temperature which is about three times lower than the Planck temperature. That represents the maximal achievable temperature in a simple thermodynamical system.

  4. A simple model for turbulence intermittencies

    CERN Document Server

    Rimbert, Nicolas

    2009-01-01

    Whether turbulence intermittencies shall be described by a log-Poisson, a log-stable pdf or other distributions is still debated nowadays. In this paper, a bridge between polymer physics, self-avoiding walk and random vortex stretching is established which may help in getting a new insight on this topics. Actually a very simple relationship between stability index of the stable law and the well known Flory exponent stemming from polymer physics is established. Moreover the scaling of turbulence intermittencies with Reynolds number is also obtained and the overall picture is very close to Tennekes' simple model for the fine scale structure of turbulence [Phys. Fluids, 11, 3 (1968)] : vortex tubes of Kolmogorov length width are bend by bigger vortices of Taylor length scale. This thus results in both a simple and sound model with no fitting parameter needed.

  5. Maximal temperature in a simple thermodynamical system

    CERN Document Server

    Dai, De-Chang

    2016-01-01

    Temperature in a simple thermodynamical system is not limited from above. It is also widely believed that it does not make sense talking about temperatures higher than the Planck temperature in the absence of the full theory of quantum gravity. Here, we demonstrate that there exist a maximal achievable temperature in a system where particles obey the laws of quantum mechanics and classical gravity before we reach the realm of quantum gravity. Namely, if two particles with a given center of mass energy come at the distance shorter than the Schwarzschild diameter apart, according to classical gravity they will form a black hole. It is possible to calculate that a simple thermodynamical system will be dominated by black holes at a critical temperature which is about three times lower than the Planck temperature. That represents the maximal achievable temperature in a simple thermodynamical system.

  6. Chirality and protein folding

    Energy Technology Data Exchange (ETDEWEB)

    Kwiecinska, Joanna I; Cieplak, Marek [Institute of Physics, Polish Academy of Sciences, Aleja Lotnikow 32/46, 02-668 Warsaw (Poland)

    2005-05-11

    There are several simple criteria of folding to a native state in model proteins. One of them involves crossing of a threshold value of the root mean square deviation distance away from the native state. Another checks whether all native contacts are established, i.e. whether the interacting amino acids come closer than some characteristic distance. We use Go-like models of proteins and show that such simple criteria may prompt one to declare folding even though fragments of the resulting conformations have a wrong sense of chirality. We propose that a better condition of folding should augment the simple criteria with the requirement that most of the local values of the chirality should be nearly native. The kinetic discrepancy between the simple and compound criteria can be substantially reduced in the Go-like models by providing the Hamiltonian with a term which favours native values of the local chirality. We study the effects of this term as a function of its amplitude and compare it to other models such as ones with side groups and ones with angle-dependent potentials.

  7. Chirality and protein folding

    Science.gov (United States)

    Kwiecinska, Joanna I.; Cieplak, Marek

    2005-05-01

    There are several simple criteria of folding to a native state in model proteins. One of them involves crossing of a threshold value of the root mean square deviation distance away from the native state. Another checks whether all native contacts are established, i.e. whether the interacting amino acids come closer than some characteristic distance. We use Go-like models of proteins and show that such simple criteria may prompt one to declare folding even though fragments of the resulting conformations have a wrong sense of chirality. We propose that a better condition of folding should augment the simple criteria with the requirement that most of the local values of the chirality should be nearly native. The kinetic discrepancy between the simple and compound criteria can be substantially reduced in the Go-like models by providing the Hamiltonian with a term which favours native values of the local chirality. We study the effects of this term as a function of its amplitude and compare it to other models such as ones with side groups and ones with angle-dependent potentials.

  8. : Protein flexibility

    OpenAIRE

    Bornot, Aurélie; Offmann, Bernard; De Brevern, Alexandre

    2007-01-01

    Protein structures and protein structural models are great tools to reach protein function and provide very relevant information for drug design. Nevertheless, protein structures are not rigid entities. Cutting-edge bioinformatics methods tend to take into account the flexibility of these macromolecules. We present new approaches used to define protein structure flexibility.

  9. Extremal property of a simple cycle

    CERN Document Server

    Gorban, A N

    2013-01-01

    We study systems with finite number of states $A_i$ ($i=1,..., n$), which obey the first order kinetics (master equation) without detailed balance. For any nonzero complex eigenvalue $\\lambda$ we prove the inequality $\\frac{|\\Im \\lambda |}{|\\Re \\lambda |} \\leq \\cot\\frac{\\pi}{n}$. This bound is sharp and it becomes an equality for an eigenvalue of a simple irreversible cycle $A_1 \\to A_2 \\to... \\to A_n \\to A_1$ with equal rate constants of all transitions. Therefore, the simple cycle with the equal rate constants has the slowest decay of the oscillations among all first order kinetic systems with the same number of states.

  10. Extremal property of a simple cycle

    OpenAIRE

    Gorban, A. N.

    2013-01-01

    We study systems with finite number of states $A_i$ ($i=1,..., n$), which obey the first order kinetics (master equation) without detailed balance. For any nonzero complex eigenvalue $\\lambda$ we prove the inequality $\\frac{|\\Im \\lambda |}{|\\Re \\lambda |} \\leq \\cot\\frac{\\pi}{n}$. This bound is sharp and it becomes an equality for an eigenvalue of a simple irreversible cycle $A_1 \\to A_2 \\to... \\to A_n \\to A_1$ with equal rate constants of all transitions. Therefore, the simple cycle with the ...

  11. TRSkit: A Simple Digital Library Toolkit

    Science.gov (United States)

    Nelson, Michael L.; Esler, Sandra L.

    1997-01-01

    This paper introduces TRSkit, a simple and effective toolkit for building digital libraries on the World Wide Web. The toolkit was developed for the creation of the Langley Technical Report Server and the NASA Technical Report Server, but is applicable to most simple distribution paradigms. TRSkit contains a handful of freely available software components designed to be run under the UNIX operating system and served via the World Wide Web. The intended customer is the person that must continuously and synchronously distribute anywhere from 100 - 100,000's of information units and does not have extensive resources to devote to the problem.

  12. Circularly Polarized Luminescence from Simple Organic Molecules.

    Science.gov (United States)

    Sánchez-Carnerero, Esther M; Agarrabeitia, Antonia R; Moreno, Florencio; Maroto, Beatriz L; Muller, Gilles; Ortiz, María J; de la Moya, Santiago

    2015-09-21

    This article aims to show the identity of "circularly polarized luminescent active simple organic molecules" as a new concept in organic chemistry due to the potential interest of these molecules, as availed by the exponentially growing number of research articles related to them. In particular, it describes and highlights the interest and difficulty in developing chiral simple (small and non-aggregated) organic molecules able to emit left- or right-circularly polarized light efficiently, the efforts realized up to now to reach this challenging objective, and the most significant milestones achieved to date. General guidelines for the preparation of these interesting molecules are also presented. PMID:26136234

  13. High-gain nonlinear observer for simple genetic regulation process

    Science.gov (United States)

    Torres, L. A.; Ibarra-Junquera, V.; Escalante-Minakata, P.; Rosu, H. C.

    2007-07-01

    High-gain nonlinear observers occur in the nonlinear automatic control theory and are in standard usage in chemical engineering processes. We apply such a type of analysis in the context of a very simple one-gene regulation circuit. In general, an observer combines an analytical differential-equation-based model with partial measurement of the system in order to estimate the non-measured state variables. We use one of the simplest observers, that of Gauthier et al., which is a copy of the original system plus a correction term which is easy to calculate. For the illustration of this procedure, we employ a biological model, recently adapted from Goodwin's old book by De Jong, in which one plays with the dynamics of the concentrations of the messenger RNA coding for a given protein, the protein itself, and a single metabolite. Using the observer instead of the metabolite, it is possible to rebuild the non-measured concentrations of the mRNA and the protein.

  14. Mathematical methods for protein science

    Energy Technology Data Exchange (ETDEWEB)

    Hart, W.; Istrail, S.; Atkins, J. [Sandia National Labs., Albuquerque, NM (United States)

    1997-12-31

    Understanding the structure and function of proteins is a fundamental endeavor in molecular biology. Currently, over 100,000 protein sequences have been determined by experimental methods. The three dimensional structure of the protein determines its function, but there are currently less than 4,000 structures known to atomic resolution. Accordingly, techniques to predict protein structure from sequence have an important role in aiding the understanding of the Genome and the effects of mutations in genetic disease. The authors describe current efforts at Sandia to better understand the structure of proteins through rigorous mathematical analyses of simple lattice models. The efforts have focused on two aspects of protein science: mathematical structure prediction, and inverse protein folding.

  15. A simple thermodynamic test to discriminate between two-state and downhill folding.

    Science.gov (United States)

    Oliva, Fabiana Y; Muñoz, Victor

    2004-07-21

    The recent discovery of one-state folding, in which proteins unfold by progressive structural disorganizations (i.e., downhill folding), has emphasized the need for simple thermodynamic tests to discriminate between this behavior and classical two-state folding. On the basis of theoretical results from elementary statistical mechanical models, we propose such a test. The test involves monitoring the equilibrium unfolding transition induced by a combination of temperature and chemical denaturants with a probe that is sensitive to the average protein backbone conformation. The rationale is that the coupling between two different denaturation procedures can reveal subtle changes in protein conformational ensembles even when using bulk measurements. We demonstrate the applicability of the test by studying the unfolding process of the protein BBL, which has been previously characterized as a downhill folding protein. This test should be very useful for high-throughput design strategies and for the analysis of mutational effects in small proteins. PMID:15250680

  16. Simple approach to study biomolecule adsorption in polymeric microfluidic channels

    International Nuclear Information System (INIS)

    Highlights: ► A simple tool to assess biomolecule adsorption onto the surfaces of microchannels. ► Development for dilution by surface-adsorption based depletion of protein samples. ► It can easily be done using a readily available apparatus like a spin-coater. ► The assessment tool is facile and quantitative. ► Straightforward comparison of different surface chemistries. - Abstract: Herein a simple analytical method is presented for the characterization of biomolecule adsorption on cyclo olefin polymer (COP, trade name: Zeonor®) substrates which are widely used in microfluidic lab-on-a-chip devices. These Zeonor® substrates do not possess native functional groups for specific reactions with biomolecules. Therefore, depending on the application, such substrates must be functionalized by surface chemistry methods to either enhance or suppress biomolecular adsorption. This work demonstrates a microfluidic method for evaluating the adsorption of antibodies and oligonucleotides surfaces. The method uses centrifugal microfluidic flow-through chips and can easily be implemented using common equipment such as a spin coater. The working principle is very simple. The user adds 40 L of the solution containing the sample to the starting side of a microfluidic channel, where it is moved through by centrifugal force. Some molecules are adsorbed in the channel. The sample is then collected at the other end in a small reservoir and the biomolecule concentration is measured. As a pilot application, we characterized the adsorption of goat anti-human IgG and a 20-mer DNA on Zeonor®, and on three types of functionalized Zeonor: 3-aminopropyltriethoxysilane (APTES) modified surface with mainly positive charge, negatively charged surface with immobilized bovine serum albumin (BSA), and neutral, hydrogel-like film with polyethylene glycol (PEG) characteristics. This simple analytical approach adds to the fundamental understanding of the interaction forces in real

  17. Total protein

    Science.gov (United States)

    The total protein test measures the total amount of two classes of proteins found in the fluid portion of your ... nutritional problems, kidney disease or liver disease . If total protein is abnormal, you will need to have more ...

  18. Identifying kinetically stable proteins with capillary electrophoresis

    OpenAIRE

    Zhang, Songjie; Xia, Ke; Chung, Wai Keen; Cramer, Steven M; Colón, Wilfredo

    2010-01-01

    Unlike most proteins, which are in equilibrium with partially and globally unfolded conformations, kinetically stable proteins (KSPs) are trapped in their native conformations and are often resistant to harsh environment. Based on a previous correlation between kinetic stability (KS) and a protein's resistance to sodium dodecyl sulfate (SDS), we show here a simple method to identify KSPs by SDS-capillary electrophoresis (CE). Control non-KSPs were fully denatured by SDS and formed protein:SDS...

  19. Studying the Greenhouse Effect: A Simple Demonstration.

    Science.gov (United States)

    Papageorgiou, G.; Ouzounis, K.

    2000-01-01

    Studies the parameters involved in a presentation of the greenhouse effect and describes a simple demonstration of this effect. Required equipment includes a 100-120 watt lamp, a 250mL beaker, and a thermometer capable of recording 0-750 degrees Celsius together with a small amount of chloroform. (Author/SAH)

  20. Simple graphical display program for physics

    International Nuclear Information System (INIS)

    A simple subroutine based on the Tektronix Plot-10/Advanced Graphing II package to be used with a Tektronix CRT terminal is presented. It is specifically designed for the needs of a physicist, but contains enough options to allow for a wider use. 1 figure

  1. Simple random sampling with over-replacement

    OpenAIRE

    Antal, Erika; Tillé, Yves

    2016-01-01

    There are several ways to select units with replacement and an equal inclusion expectation. We present a new sampling design called simple random sampling with over-replacement. Its interest lies in the high variance produced for the Horvitz–Thompson estimator. This characteristic could be useful for resampling methods.

  2. Simple Method To Detect β-Galactosidase

    OpenAIRE

    Bhowmik, Tarun; Marth, Elmer H.

    1989-01-01

    A simple and rapid method was developed to detect β-galactosidase by using α- or β-naphthyl-β-d-galactopyranoside as substrate and fast garnet GBC as a dye coupler following polyacrylamide gel electrophoresis. This method was specific for β-galactosidase but not for phospho-β-galactosidase.

  3. Automorphism groups of finite dimensional simple algebras

    OpenAIRE

    Gordeev, Nikolai L.; Popov, Vladimir L.

    2004-01-01

    We show that if a field k contains sufficiently many elements(for instance, if k is infinite), and K is an algebraically closed field containing k, then every linear algebraic k-group over K is k-isomorphic to Aut(A\\otimes_kK), where A is a finite dimensional simple algebra over k.

  4. A Simple Technique for High Resistance Measurement

    Science.gov (United States)

    Aguilar, Horacio Munguia; Landin, Ramon Ochoa

    2012-01-01

    A simple electronic system for the measurement of high values of resistance is shown. This system allows the measurement of resistance in the range of a few megohm up to 10[superscript 9] [omega]. We have used this system for the evaluation of CdS thin film resistance, but other practical uses in the basic physics laboratory are presented.…

  5. A Simple Homemade Polarised Sunglasses Test Card

    Science.gov (United States)

    Bamdad, Farzad

    2016-01-01

    In this article construction of a simple and inexpensive test card which can be used to demonstrate the polarisation ability of sunglasses is described. The card was fabricated simply by using a piece of polariser sheet with one to three layers of cellophane tape fixed on it.

  6. From Complex to Simple: Interdisciplinary Stochastic Models

    Science.gov (United States)

    Mazilu, D. A.; Zamora, G.; Mazilu, I.

    2012-01-01

    We present two simple, one-dimensional, stochastic models that lead to a qualitative understanding of very complex systems from biology, nanoscience and social sciences. The first model explains the complicated dynamics of microtubules, stochastic cellular highways. Using the theory of random walks in one dimension, we find analytical expressions…

  7. Building Simple Hidden Markov Models. Classroom Notes

    Science.gov (United States)

    Ching, Wai-Ki; Ng, Michael K.

    2004-01-01

    Hidden Markov models (HMMs) are widely used in bioinformatics, speech recognition and many other areas. This note presents HMMs via the framework of classical Markov chain models. A simple example is given to illustrate the model. An estimation method for the transition probabilities of the hidden states is also discussed.

  8. Using Simple Machines to Leverage Learning

    Science.gov (United States)

    Dotger, Sharon

    2008-01-01

    What would your students say if you told them they could lift you off the ground using a block and a board? Using a simple machine, they'll find out they can, and they'll learn about work, energy, and motion in the process! In addition, this integrated lesson gives students the opportunity to investigate variables while practicing measurement…

  9. Simple matrix elements with dynamical fermions

    International Nuclear Information System (INIS)

    We report on studies of simple matrix elements from simulations with two flavors of sea quarks, both staggered and Wilson. We show the decay constants of vector and pseudoscalar mesons. The effects of sea quarks are small. These simulations are done at relatively large lattice spacing compared to most quenched studies. (orig.)

  10. Simple classical approach to spin resonance phenomena

    DEFF Research Database (Denmark)

    Gordon, R A

    1977-01-01

    A simple classical method of describing spin resonance in terms of the average power absorbed by a spin system is discussed. The method has several advantages over more conventional treatments, and a number of important spin resonance phenomena, not normally considered at the introductory level...

  11. Simple adaptive tracking control for mobile robots

    Science.gov (United States)

    Bobtsov, Alexey; Faronov, Maxim; Kolyubin, Sergey; Pyrkin, Anton

    2014-12-01

    The problem of simple adaptive and robust control is studied for the case of parametric and dynamic dimension uncertainties: only the maximum possible relative degree of the plant model is known. The control approach "consecutive compensator" is investigated. To illustrate the efficiency of proposed approach an example with the mobile robot motion control using computer vision system is considered.

  12. Special Relativity as a Simple Geometry Problem

    Science.gov (United States)

    de Abreu, Rodrigo; Guerra, Vasco

    2009-01-01

    The null result of the Michelson-Morley experiment and the constancy of the one-way speed of light in the "rest system" are used to formulate a simple problem, to be solved by elementary geometry techniques using a pair of compasses and non-graduated rulers. The solution consists of a drawing allowing a direct visualization of all the fundamental…

  13. A simple homemade polarised sunglasses test card

    Science.gov (United States)

    Bamdad, Farzad

    2016-05-01

    In this article construction of a simple and inexpensive test card which can be used to demonstrate the polarisation ability of sunglasses is described. The card was fabricated simply by using a piece of polariser sheet with one to three layers of cellophane tape fixed on it.

  14. A Simple Condition for Bounded Displacement

    CERN Document Server

    Solomon, Yaar

    2011-01-01

    We study separated nets that correspond to substitution tilings of the Euclidean space. We give a simple condition, in terms of the eigenvalues and eigenspaces of the substitution matrix, to know whether the separated net is a bounded displacement of the integer lattice or not.

  15. Nature versus Nurture: The Simple Contrast

    Science.gov (United States)

    Davidoff, Jules; Goldstein, Julie; Roberson, Debi

    2009-01-01

    We respond to the commentary of Franklin, Wright, and Davies ("Journal of Experimental Child Psychology, 102", 239-245 [2009]) by returning to the simple contrast between nature and nurture. We find no evidence from the toddler data that makes us revise our ideas that color categories are learned and never innate. (Contains 1 figure.)

  16. Charge operators in simple Lie groups

    Science.gov (United States)

    Taormina, A.

    1984-03-01

    Charge operators for representations of dimension less than or equal to 16 are computed in all simple Lie groups. The representations for which the charge operator reproduces the charge spectrum of leptons and quarks of one family are analyzed from a GUT point of view.

  17. Long, polymorphic microsatellites in simple organisms.

    Science.gov (United States)

    Field, D; Wills, C

    1996-02-22

    We have examined the phylogenetic distribution of the longest, perfect microsatellites in GenBank. Despite the large contributions of model higher-eukaryotic organisms to GenBank, the selective cloning of long microsatellites from these organisms as genetic markers, and the relative lack of concentration on the microsatellites in lower eukaryotes and prokaryotes, we found that simple organisms, defined here as slime molds, fungi, protists, prokaryotes, viruses, organelles and plasmids, contributed 78 of the 375 examined sequences. These 78 simple-organism microsatellites are characterized predominantly by trinucleotide repeats, nearly half of which lie in exons, and in general show a bias towards A+T rich motifs. Simple-organism microsatellites represented more than once in GenBank displayed length polymorphisms when independent clones were compared. These facts collectively raise speculation as to the role of these 'junk' sequences in such highly economical genomes, especially when precise changes in long microsatellites are known to regulate critical virulence factors in several prokaryotes. Regardless of their biological significance, simple-organism microsatellites may provide a general source of molecular markers to track disease outbreaks and the evolution of microorganisms in unprecedented detail. PMID:8728984

  18. Fractal surfaces from simple arithmetic operations

    Science.gov (United States)

    García-Morales, Vladimir

    2016-04-01

    Fractal surfaces ('patchwork quilts') are shown to arise under most general circumstances involving simple bitwise operations between real numbers. A theory is presented for all deterministic bitwise operations on a finite alphabet. It is shown that these models give rise to a roughness exponent H that shapes the resulting spatial patterns, larger values of the exponent leading to coarser surfaces.

  19. Jarzynski's Equality Illustrated by Simple Examples

    Science.gov (United States)

    Hijar, Humberto; Ortiz de Zarate, Jose M.

    2010-01-01

    The Jarzynski theorem is perhaps the most recently discovered simple general formula in elementary statistical physics. In this paper, written with a pedagogical aim, we illustrate the physical concepts under the Jarzynski and related results by a detailed calculation with a representative example. The physics of the model is sufficiently…

  20. A SIMPLE AXIOMATIZATION OF THE EGALITARIAN SOLUTION

    OpenAIRE

    Saglam, Ismail

    2014-01-01

    In this paper, we present a simple axiomatization of the n-person egalitarian solution. The single condition sufficient for characterization is a new axiom, called symmetric decomposability that combines the axioms of step-by-step negotiations, symmetry, and weak Pareto optimality used in an early characterization by Kalai [(1977) Proportional solutions to bargaining situations: Interpersonal utility comparisons, Econometrica 45, 1623–1630].

  1. Teaching Inequality: A Simple Counterfactual Exercise.

    Science.gov (United States)

    Brezina, Timothy

    1996-01-01

    Describes a simple in-class exercise that reveals some flaws in capitalist, individualistic-oriented ideology by following specific assumptions to their logical conclusion. Poses the question, if drive and ambition are sole determinants of success could society accommodate a population where everyone possessed those qualities? (MJP)

  2. Simple Models for All Topological Phases

    OpenAIRE

    Chern, Tong

    2016-01-01

    We construct simple models for all topological phases of free fermions. These explicit models can realize all the nontrivial topological phases (with any possible topological invariant) of the periodic table. Many well known models for topological insulators and superconductors are special cases of our general constructions.

  3. A Simple Solution to Type Specialization

    DEFF Research Database (Denmark)

    Danvy, Olivier

    inference instead of being based on symbolic interpretation. Type Specialization is very elegant in principle but it also appears non-trivial in practice. Stating the problem in terms of types instead of in terms of type encodings suggests a very simple type-directed solution, namely, to use a projection...

  4. Simple Analysis of Historical Lime Mortars

    Science.gov (United States)

    Pires, Joa~o

    2015-01-01

    A laboratory experiment is described in which a simple characterization of a historical lime mortar is made by the determination of its approximate composition by a gravimetric method. Fourier transform infrared (FTIR) spectroscopy and X-ray diffraction (XRD) are also used for the qualitative characterization of the lime mortar components. These…

  5. Microwave Radiometer Linearity Measured by Simple Means

    DEFF Research Database (Denmark)

    Skou, Niels

    2002-01-01

    Modern spaceborne radiometer systems feature an almost perfect on-board calibration, hence the primary calibration task to be carried out before launch is a check of radiometer linearity. This paper describes two ways of measuring linearity of microwave radiometers only requiring relatively simple...

  6. A Simple and Efficient Kinetic Spanner

    DEFF Research Database (Denmark)

    Abam, Mohammad; de Berg, Mark; Gudmundsson, Joachim

    2008-01-01

    We present a new and simple (1+ε)-spanner of size O(nε2) for a set of n points in the plane, which can be maintained efficiently as the points move. Assuming the trajectories of the points can be described by polynomials whose degrees are at most s, the number of topological changes to the spanner...

  7. Simple Activity Demonstrates Wind Energy Principles

    Science.gov (United States)

    Roman, Harry T.

    2012-01-01

    Wind energy is an exciting and clean energy option often described as the fastest-growing energy system on the planet. With some simple materials, teachers can easily demonstrate its key principles in their classroom. (Contains 1 figure and 2 tables.)

  8. Strong Bisimilarity of Simple Process Algebras

    DEFF Research Database (Denmark)

    Srba, Jirí

    2003-01-01

    We study bisimilarity and regularity problems of simple process algebras. In particular, we show PSPACE-hardness of the following problems: (i) strong bisimilarity of Basic Parallel Processes (BPP), (ii) strong bisimilarity of Basic Process Algebra (BPA), (iii) strong regularity of BPP, and (iv) ...

  9. A Simple Acronym for Doing Calculus: CAL

    Science.gov (United States)

    Hathaway, Richard J.

    2008-01-01

    An acronym is presented that provides students a potentially useful, unifying view of the major topics covered in an elementary calculus sequence. The acronym (CAL) is based on viewing the calculus procedure for solving a calculus problem P* in three steps: (1) recognizing that the problem cannot be solved using simple (non-calculus) techniques;…

  10. Simulated Holograms: A Simple Introduction to Holography.

    Science.gov (United States)

    Dittmann, H.; Schneider, W. B.

    1992-01-01

    Describes a project that uses a computer and a dot matrix printer to simulate the holographic recording process of simple object structures. The process' four steps are (1) superposition of waves; (2) representing the superposition of a plane reference wave on the monitor screen; (3) photographic reduction of the images; and (4) reconstruction of…

  11. Seismic Safety Of Simple Masonry Buildings

    International Nuclear Information System (INIS)

    Several masonry buildings comply with the rules for simple buildings provided by seismic codes. For these buildings explicit safety verifications are not compulsory if specific code rules are fulfilled. In fact it is assumed that their fulfilment ensures a suitable seismic behaviour of buildings and thus adequate safety under earthquakes. Italian and European seismic codes differ in the requirements for simple masonry buildings, mostly concerning the building typology, the building geometry and the acceleration at site. Obviously, a wide percentage of buildings assumed simple by codes should satisfy the numerical safety verification, so that no confusion and uncertainty have to be given rise to designers who must use the codes. This paper aims at evaluating the seismic response of some simple unreinforced masonry buildings that comply with the provisions of the new Italian seismic code. Two-story buildings, having different geometry, are analysed and results from nonlinear static analyses performed by varying the acceleration at site are presented and discussed. Indications on the congruence between code rules and results of numerical analyses performed according to the code itself are supplied and, in this context, the obtained result can provide a contribution for improving the seismic code requirements

  12. Geometric classification of simple graph algebras

    DEFF Research Database (Denmark)

    Sørensen, Adam Peder Wie

    2013-01-01

    Inspired by Franks’ classification of irreducible shifts of finite type, we provide a short list of allowed moves on graphs that preserve the stable isomorphism class of the associated C ∗ -algebras. We show that if two graphs have stably isomorphic and simple unital algebras then we can use these...

  13. A simple proof for monotone CLT

    CERN Document Server

    Saigo, Hayato

    2009-01-01

    In the case of monotone independence, the transparent understanding of the mechanism to validate the central limit theorem (CLT) has been lacking, in sharp contrast to commutative, free and Boolean cases. We have succeeded in clarifying it by making use of simple combinatorial structure of peakless pair partitions.

  14. Simple Minimal Informationally Complete Measurements for Qudits

    OpenAIRE

    Weigert, Stefan

    2005-01-01

    Simple minimal but informationally complete positive operator-valued measures are constructed out of the expectation-value representation for qudits. Upon suitable modification, the procedure transforms any set of d^2 linearly independent hermitean operators into such an observable. Minor changes in the construction lead to closed-form expressions for informationally complete positive measures in d-dimensional Hilbert spaces.

  15. Nature versus nurture: The simple contrast

    OpenAIRE

    Davidoff, Jules B.; Goldstein, Julie; Roberson, Debi

    2009-01-01

    We respond to the commentary of Franklin, Wright, and Davies (Journal of Experimental Child Psychology, 102, 239-245 [2009]) by returning to the simple contrast between nature and nurture. We find no evidence from the toddler data that makes us revise our ideas that color categories are learned and never innate.

  16. A novel and simple atrial retractor.

    Science.gov (United States)

    Kofidis, Theo; Lee, Chuen Neng

    2011-05-01

    Minimally invasive cardiac operations require specialized equipment. Atrial retractors are a frequently used tool to expose heart valves for minimally invasive and open procedures. The models currently available in the market are efficient; however, they may be complex, bulky, or expensive. We introduce a novel, very simple atrial retractor we designed using ubiquitously available materials. PMID:21524488

  17. Simple Cloud Chambers Using Gel Ice Packs

    Science.gov (United States)

    Kamata, Masahiro; Kubota, Miki

    2012-01-01

    Although cloud chambers are highly regarded as teaching aids for radiation education, school teachers have difficulty in using cloud chambers because they have to prepare dry ice or liquid nitrogen before the experiment. We developed a very simple and inexpensive cloud chamber that uses the contents of gel ice packs which can substitute for dry…

  18. Simple high-temperature thermal diffusivity apparatus

    Science.gov (United States)

    Wood, C.; Zoltan, A.

    1984-01-01

    A simple and inexpensive thermal diffusivity apparatus is described for measurement up to 1600 K. The novel features of apparatus include a light pipe, a long furnace, and a differential thermocouple. A low heat-load sample holder for clamping the sample in a vertical position is also described. The results of measurements on AXM-5Q graphite are reported.

  19. A Simple Vector Proof of Feuerbach's Theorem

    OpenAIRE

    Scheer, Michael

    2011-01-01

    The celebrated theorem of Feuerbach states that the nine-point circle of a nonequilateral triangle is tangent to both its incircle and its three excircles. In this note, we give a simple proof of Feuerbach's Theorem using straightforward vector computations. All required preliminaries are proven here for the sake of completeness.

  20. A simple example of temporal cloaking

    CERN Document Server

    Eskin, Gregory

    2016-01-01

    Recently the temporal cloaking was widely studied in the physical literature using the method of transformation optics (cf. M. McCall et al [9] and others). We give a simple example of temporal cloaking based on the change of coordinates and the reduction to the initialboundary value problem with additional interior conditions

  1. Simple Demonstration of the Seebeck Effect

    Science.gov (United States)

    Molki, Arman

    2010-01-01

    In this article we propose a simple and low-cost experimental set-up through which science educators can demonstrate the Seebeck effect using a thermocouple and an instrumentation amplifier. The experiment can be set up and conducted during a 1-hour laboratory session. (Contains 3 tables and 3 figures.)

  2. Simple Harmonic Motion in Harmonic Plane Waves.

    Science.gov (United States)

    Benumof, Reuben

    1980-01-01

    Discusses the distribution of kinetic and potential energy in transverse and longitudinal waves and examines the transmission of power and momentum. This discussion is intended to aid in understanding the simple harmonic motion of a particle involved in the propagation of a harmonic mechanical plane wave. (HM)

  3. FGF21 Mediates Endocrine Control of Simple Sugar Intake and Sweet Taste Preference by the Liver

    DEFF Research Database (Denmark)

    von Holstein-Rathlou, Stephanie; BonDurant, Lucas D; Peltekian, Lila;

    2016-01-01

    ), which markedly suppresses consumption of simple sugars, but not complex carbohydrates, proteins, or lipids. Genetic loss of FGF21 in mice increases sucrose consumption, whereas acute administration or overexpression of FGF21 suppresses the intake of both sugar and non-caloric sweeteners. FGF21 does not...

  4. Hydrophobic interaction in the liquid phases of globular protein solutions: structure factor parameters

    OpenAIRE

    Braun, F N

    2002-01-01

    We develop a simple correspondence between hydrophobic surface topology of globular proteins and and an effective protein-protein adhesiveness parameter of the Baxter type. We discuss within this framework analytical interpretation of the structure factor governing static light scattering.

  5. Simple solutions for reduced fish farm hazards.

    Science.gov (United States)

    Myers, Melvin L; Cole, Henry P

    2009-01-01

    Aquaculture poses emerging challenges for agricultural safety and health. Fish farming has many of the same hazards as other types of farming, but it also poses additional hazards associated with water impoundments and night-time work. In a multidisciplinary approach, researchers from four universities are identifying occupational hazards in fish farming and identifying no-cost or low-cost "simple solutions" to reduce or eliminate them. Simple solutions are discovered through farm visits so as to understand the countermeasures that individual stakeholders have taken to protect their workforce, and these countermeasures are documented and photographed to inform other farmers of these solutions. Equipping tractors with rollover protective structures is a standard practice to protect operators from serious injury in the event of an overturn. Other solutions identified include eliminating the need to climb feed bins to open and close the hatch for feed delivery by using a pull-cable at ground level. This simple technology eliminates the exposure to falling from an elevation, a risk that accounts for at least one reported death of a worker on a fish farm. Another solution is to replace metal paddles on a hatchery trough with plastic paddles that if and when entangled in a worker's hair or clothing slip on the rotating drive shaft and thus reduce laceration and entanglement injuries. Another simple solution to prevent entanglements in large pond aerators, used to mechanically dissolve oxygen into the water, that are operated by farm tractor power take-off shafts is to use electrically powered aerators. Bubble-type aerators are safer than electrically powered paddle aerators because workers are shielded from moving parts. Many additional simple solutions have been identified for a range of tasks in this environment. PMID:19437271

  6. Biomedical sensors for disease detection made simple

    DEFF Research Database (Denmark)

    Veldhuis, Djuke

    2015-01-01

    Researchers in Korea have succeeded in making a new protein detection platform, using low-cost plastic and paper substrates. Their work could help reduce the cost and improve the accuracy of infectious disease diagnosis....

  7. A NASA Recipe for Protein Crystallography. Educational Brief.

    Science.gov (United States)

    National Aeronautics and Space Administration, Washington, DC.

    This brief discusses growing protein crystals. Protein crystals can be very difficult to grow. This activity for grades 9-12 provides a simple recipe for growing protein crystals from Brazil nuts. Included are a history of protein crystals, a discussion of microgravity effects on growth, connections to academic standards, and lab sheets. (MVL)

  8. Simple sequence repeat length polymorphisms mapped to rat chromosome 11.

    Science.gov (United States)

    Du, Y; Remmers, E F; Goldmuntz, E A; Zha, H; Mathern, P; Crofford, L J; Wilder, R L

    1994-01-01

    Two genes and two anonymous DNA loci were mapped to rat chromosome 11 using F2 intercross progeny of Fischer (F344/N) and Lewis (LEW/N) inbred rats. These four loci formed a single linkage group covering 21.5 cM with the following map order: somatostatin (SST)-D11N161-D11N18-cell surface protein (MOX2). These four loci were typed by PCR-based simple sequence repeat (SSR) length polymorphism detection. For each marker four to seven different alleles were detected using a panel of 13 inbred rat strains (F344/N, LEW/N, BN/SsN, BUF/N, LER/N, MR/N, MNR/N, LOU/MN, ACI/N, WBB1/N, WBB2/N, SHR/N, WKY/N). Comparative gene mapping analysis suggests syntenic conservation between rat chromosome 11 and mouse Chromosome 16. PMID:8222758

  9. Sensing of antipyretic carboxylates by simple chromogenic calix[4]pyrroles.

    Science.gov (United States)

    Nishiyabu, Ryuhei; Anzenbacher, Pavel

    2005-06-15

    We present a simple, two- or three-step method for the synthesis of chromogenic octamethylcalix[4]pyrrole-based (OMCP) sensors for anions. Electrophilic aromatic substitution allows for converting the pyrrole moieties of OMCP into a dye. The formation of a sensor-anion complex results in partial charge transfer and a dramatic change in color. The absorption (UV-vis) and NMR titration experiments show that the chromogenic OMCPs sense anions administered as aqueous solutions, even at high ionic strength ( approximately 0.1 M NaCl), while displaying selectivity for pyrophosphate and carboxylate anions. The experiments with polyurethane sensor films show a strong response for aqueous carboxylates, such as antipyretics naproxen approximately ibuprofen > salicylate, without being biased by bicarbonate or carboxy termini of blood plasma proteins. PMID:15941245

  10. A Simple Model for Immature Retrovirus Capsid Assembly

    Science.gov (United States)

    Paquay, Stefan; van der Schoot, Paul; Dragnea, Bogdan

    In this talk I will present simulations of a simple model for capsomeres in immature virus capsids, consisting of only point particles with a tunable range of attraction constrained to a spherical surface. We find that, at sufficiently low density, a short interaction range is sufficient for the suppression of five-fold defects in the packing and causes instead larger tears and scars in the capsid. These findings agree both qualitatively and quantitatively with experiments on immature retrovirus capsids, implying that the structure of the retroviral protein lattice can, for a large part, be explained simply by the effective interaction between the capsomeres. We thank the HFSP for funding under Grant RGP0017/2012.

  11. Power spectra of a constrained totally asymmetric simple exclusion process

    Science.gov (United States)

    Cook, L. Jonathan; Zia, R. K. P.

    2010-07-01

    In nature, all biological systems function in a far-from-equilibrium state. Here, we study the process of translation in protein synthesis, using the totally asymmetric simple exclusion process (TASEP) as a model. In particular, we explore the effects of a finite supply of particles for the TASEP, as in a living cell with a finite pool of ribosomes. Specifically, we investigate the power spectrum associated with total occupancy, utilizing both Monte Carlo simulations and theoretical analysis. New features arise, such as large suppressions at low frequencies, due to the added constraint. A theory is formulated based on a Langevin approach with discrete space and time. With good agreement between the simulation and theory, we gain some insights into the effects of finite resources on the TASEP.

  12. Interfacial Protein-Protein Associations

    OpenAIRE

    Langdon, Blake B.; Kastantin, Mark; Walder, Robert; Schwartz, Daniel K.

    2013-01-01

    While traditional models of protein adsorption focus primarily on direct protein-surface interactions, recent findings suggest that protein-protein interactions may play a central role. Using high-throughput intermolecular resonance energy transfer (RET) tracking, we directly observed dynamic, protein-protein associations of bovine serum albumin on poly(ethylene glycol) modified surfaces. The associations were heterogeneous and reversible, and associating molecules resided on the surface for ...

  13. A simple method suitable to study de novo root organogenesis

    Directory of Open Access Journals (Sweden)

    Xiaodong eChen

    2014-05-01

    Full Text Available De novo root organogenesis is the process in which adventitious roots regenerate from detached or wounded plant tissues or organs. In tissue culture, appropriate types and concentrations of plant hormones in the medium are critical for inducing adventitious roots. However, in natural conditions, regeneration from detached organs is likely to rely on endogenous hormones. To investigate the actions of endogenous hormones and the molecular mechanisms guiding de novo root organogenesis, we developed a simple method to imitate natural conditions for adventitious root formation by culturing Arabidopsis thaliana leaf explants on B5 medium without additive hormones. Here we show that the ability of the leaf explants to regenerate roots depends on the age of the leaf and on certain nutrients in the medium. Based on these observations, we provide examples of how this method can be used in different situations, and how it can be optimized. This simple method could be used to investigate the effects of various physiological and molecular changes on the regeneration of adventitious roots. It is also useful for tracing cell lineage during the regeneration process by differential interference contrast observation of -glucuronidase staining, and by live imaging of proteins labeled with fluorescent tags.

  14. Simple spherical ablative-implosion model

    International Nuclear Information System (INIS)

    A simple model of the ablative implosion of a high-aspect-ratio (shell radius to shell thickness ratio) spherical shell is described. The model is similar in spirit to Rosenbluth's snowplow model. The scaling of the implosion time was determined in terms of the ablation pressure and the shell parameters such as diameter, wall thickness, and shell density, and compared these to complete hydrodynamic code calculations. The energy transfer efficiency from ablation pressure to shell implosion kinetic energy was examined and found to be very efficient. It may be possible to attach a simple heat-transport calculation to our implosion model to describe the laser-driven ablation-implosion process. The model may be useful for determining other energy driven (e.g., ion beam) implosion scaling

  15. Keep It Simple, Make It Fast!

    OpenAIRE

    Guerra, Paula

    2015-01-01

    13-17 juillet 2015Université de Porto/ Casa da Música/ Porto/ PortugalInformations détaillées : www.punk.pt/conference-2/Envoi des propositions avant le 15 février 2015 La conférence de 2014 Au cours du mois de juillet dernier, la conférence internationale « Keep It Simple, Make It Fast! Scènes de musique underground et cultures DIY » (KISMIF conférence 2014) s’est tenue à Porto, Portugal. Ce congrès s’est réalisé dans le cadre du projet d’investigation « Keep It Simple, Make It Fast! Prolégo...

  16. Simple educational tool for digital speckle shearography

    International Nuclear Information System (INIS)

    In this study, an educational tool has been prepared for obtaining short-term and more economic training on digital speckle shearography (DSS). Shearography non-destructive testing (NDT) has gained wide acceptance over the last decade, providing a number of important and exciting inspection solutions in aerospace, electronics and medical device manufacturing. For exploring these motivations, it is important to develop didactic tools to understand the potential of digital shearography through training and didactic courses in the field of NDT. In this paper we describe a simple tool for making one familiar with the potential of DSS in the area of education and training. The system is realized with a simple and economic optical setup and a virtual instrument based on the LabVIEW™ and DAQ. (paper)

  17. Is the world simple or complicated

    CERN Document Server

    Barrow, John D

    1998-01-01

    Stop some particle physicists in the street and they will soon be trying to persuade you that the world is altogether simple and symmetrical. But stop a biologist, an economist, or a social scientist and they will tell you quite the opposite: the world is a higgledy-piggledy collection of complexities that owes little to symmetry and displays precious little simplicity. So who is right : is the world really complicated or is it simple ? We shall look at the reasoning that leads to these different conclusions, show why we got different answers to our question, and look at some of the recent developments that have taken place in the study of systems from sand-piles to music on the border between order and chaos. We shall also look at some of the connections between our aesthetic sensibilities and the structure of scientific theories.

  18. The SIMPLE Phase II Dark Matter Search

    CERN Document Server

    Felizardo, M; Morlat, T; Fernandes, A C; Ramos, A R; Marques, J G; Kling, A; Puibasset, J; Auguste, M; Boyer, D; Cavaillou, A; Poupeney, J; Sudre, C; Carvalho, F P; Prudencio, M I; Marques, R

    2014-01-01

    Phase II of SIMPLE (Superheated Instrument for Massive ParticLe Experiments) searched for astroparticle dark matter using superheated liquid C$_{2}$ClF$_{5}$ droplet detectors. Each droplet generally requires an energy deposition with linear energy transfer (LET) $\\gtrsim$ 150 keV/$\\mu$m for a liquid-to-gas phase transition, providing an intrinsic rejection against minimum ionizing particles of order 10$^{-10}$, and reducing the backgrounds to primarily $\\alpha$ and neutron-induced recoil events. The droplet phase transition generates a millimetric-sized gas bubble which is recorded by acoustic means. We describe the SIMPLE detectors, their acoustic instrumentation, and the characterizations, signal analysis and data selection which yield a particle-induced, "true nucleation" event detection efficiency of better than 97% at a 95% C.L. The recoil-$\\alpha$ event discrimination, determined using detectors first irradiated with neutrons and then doped with alpha emitters, provides a recoil identification of bette...

  19. Assessment of daylight quality in simple rooms

    DEFF Research Database (Denmark)

    Johnsen, Kjeld; Dubois, Marie-Claude; Sørensen, Karl Grau

    The present report documents the results of a study on daylight conditions in simple rooms of residential buildings. The overall objective of the study was to develop a basis for a method for the assessment of daylight quality in a room with simple geometry and window configurations. As a tool...... for the analyses the Radiance Lighting Simulation System was used. A large number of simulations were performed for 3 rooms (window configurations) under overcast, intermediate, and 40-50 sunny sky conditions for each window (7 months, three orientations and for every other hour with direct sun penetration through...... the windows). A number of light indicators allowed understanding and describing the geometry of daylight in the space in a very detailed and thorough manner. The inclusion of the daylight factor, horizontal illuminance, luminance distribution, cylindrical illuminance, the Daylight Glare Index, vertical...

  20. Simple gas chromatographic method for furfural analysis.

    Science.gov (United States)

    Gaspar, Elvira M S M; Lopes, João F

    2009-04-01

    A new, simple, gas chromatographic method was developed for the direct analysis of 5-hydroxymethylfurfural (5-HMF), 2-furfural (2-F) and 5-methylfurfural (5-MF) in liquid and water soluble foods, using direct immersion SPME coupled to GC-FID and/or GC-TOF-MS. The fiber (DVB/CAR/PDMS) conditions were optimized: pH effect, temperature, adsorption and desorption times. The method is simple and accurate (RSDHMF; GC-TOF-MS: 0.3, 1.2 and 0.9 ngmL(-1) for 2-F, 5-MF and 5-HMF, respectively). It was applied to different commercial food matrices: honey, white, demerara, brown and yellow table sugars, and white and red balsamic vinegars. This one-step, sensitive and direct method for the analysis of furfurals will contribute to characterise and quantify their presence in the human diet. PMID:18976770

  1. Thermoeconomic Analysis of Simple Trigeneration Systems

    OpenAIRE

    Miguel A. Lozano; Luis M. Serra; Carvalho, M.; J. C. Ramos

    2009-01-01

    Trigeneration is the combined production of heating, cooling and power from the same source of energy. In this paper, the operation of a simple trigeneration system is analyzed. The system is interconnected to the electric utility grid, both to receive electricity and to deliver surplus electricity. For any given demand required by the users, a great number of operating conditions are possible. The operational mode with the lowest variable cost is obtained through a linear programming model. ...

  2. Thermoeconomic Analysis of Simple Trigeneration Systems

    OpenAIRE

    Luis M. Serra; J. C. Ramos; Carvalho, M.; Miguel A. Lozano

    2009-01-01

    Trigeneration is the combined production of heating, cooling and power from the same source of energy. In this paper, the operation of a simple trigeneration system is analyzed. The system is interconnected to the electric utility grid, both to receive electricity and to deliver surplus electricity. For any given demand required by the users, a great number of operating conditions are possible. The operational mode with the lowest variable cost is obtained through a linear programmin...

  3. A Simple Experiment for Visualizing Diffusion

    Science.gov (United States)

    Helseth, L. E.

    2011-01-01

    We propose a simple and fascinating experiment for studying diffusion in gels using a pH-sensitive dye. By doping agar with methyl red, we obtain a gel which rapidly reacts to changes in pH by changing its absorption spectrum. The pH gradients can be followed using a digital camera, and we demonstrate here that the pH-sensitive colour changes can…

  4. Magnetic monopole interactions in simple atoms

    International Nuclear Information System (INIS)

    The excitation of simple atoms by slow moving massive monopoles is discussed. Previously presented results for a monopole of Dirac strength on hydrogen and helium are reviewed, and current efforts to refine the helium result are described. Helium proportional counters currently in operation which exploit this effect are briefly discussed. It is concluded that such counters are reliable and effective detectors for monopoles of arbitrary strength, and for negatively charged ions. (author)

  5. Insurance and Redistribution with Simple Tax Instruments

    OpenAIRE

    Sachs, Dominik; Findeisen, Sebastian

    2015-01-01

    We study optimal nonlinear taxation of labor income and linear taxation of capital income in a life-cycle framework with private information and idiosyncratic risk. We focus on simple history-independent tax instruments. We first analyze the welfare losses from this simplification as compared to optimal history-dependent policies. We find very small losses from restricting the complexity of savings wedges. Eliminating history dependence of labor wedges leads to larger welfare losses: moving f...

  6. The simple persistent unique digital store (SPUDS)

    OpenAIRE

    Gibson, Hilton

    2010-01-01

    This paper introduces the concept of the simple persistent unique digital store which is an attempt to provide a means of digital object storage that will survive one hundred years into the future using open standards , technologies and formats. In addition it will attempt to make the digital object store independent of the software used to ingest, store, manage and disseminate the objects. Doing this greatly eliminates the risk of the present interdependence of the digital object store with ...

  7. A simple model of quantum trajectories

    OpenAIRE

    Brun, Todd A.

    2001-01-01

    Quantum trajectory theory, developed largely in the quantum optics community to describe open quantum systems subjected to continuous monitoring, has applications in many areas of quantum physics. In this paper I present a simple model, using two-level quantum systems (q-bits), to illustrate the essential physics of quantum trajectories and how different monitoring schemes correspond to different ``unravelings'' of a mixed state master equation. I also comment briefly on the relationship of t...

  8. Simple Flame Test Techniques Using Cotton Swabs

    Science.gov (United States)

    Sanger, Michael J.; Phelps, Amy J.

    2004-07-01

    This article describes three new methods for performing simple flame tests using cotton swabs. The first method uses a Bunsen burner and solid metal salts; the second method uses a Bunsen burner and 1 M aqueous solutions of metal salts; and the third method uses candles, rubbing alcohol, and solid metal salts. These methods have the advantage of being easy to perform, require inexpensive and easily-obtained materials, and have easy cleanup and disposal methods. See the Discussion on this Tested Demonstation .

  9. A simple proof of Sarkozy's theorem

    CERN Document Server

    Lyall, Neil

    2011-01-01

    It is a striking and elegant fact (proved independently by Furstenberg and Sarkozy) that in any subset of the natural numbers of positive upper density there necessarily exist two distinct elements whose difference is given by a perfect square. In this article we present a new and simple proof of this result by adapting an argument originally developed by Croot and Sisask to give a new proof of Roth's theorem.

  10. Einstein solvmanifolds with a simple Einstein derivation

    OpenAIRE

    Nikolayevsky, Y.

    2007-01-01

    The structure of a solvable Lie groups admitting an Einstein left-invariant metric is, in a sense, completely determined by the nilradical of its Lie algebra. We give an easy-to-check necessary and sufficient condition for a nilpotent algebra to be an Einstein nilradical whose Einstein derivation has simple eigenvalues. As an application, we classify filiform Einstein nilradicals (modulo known classification results on filiform graded Lie algebras).

  11. Liouville Extensions of Artinian Simple Module Algebras

    OpenAIRE

    Amano, Katsutoshi

    2006-01-01

    In a previous article (Amano and Masuoka, 2005), the author and Masuoka developed a Picard-Vessiot theory for module algebras over a cocommutative pointed smooth Hopf algebra D. By using the notion of Artinian simple (AS)D-module algebras, it generalizes and unifies the standard Picard-Vessiot theories for linear differential and difference equations. The purpose of this article is to define the notion of Liouville extensions of AS D-module algebras and to characterize the corresponding Picar...

  12. Two simple models of classical heat pumps

    OpenAIRE

    Marathe, Rahul; Jayannavar, A. M.; Dhar, Abhishek

    2006-01-01

    Motivated by recent studies on models of particle and heat quantum pumps, we study similar simple classical models and examine the possibility of heat pumping. Unlike many of the usual ratchet models of molecular engines, the models we study do not have particle transport. We consider a two-spin system and a coupled oscillator system which exchange heat with multiple heat reservoirs and which are acted upon by periodic forces. The simplicity of our models allows accurate numerical and exact s...

  13. Multiphase Flow in Geometrically Simple Fracture Intersections

    Energy Technology Data Exchange (ETDEWEB)

    Hakan Basagaoglu; Paul Meakin; Sauro Succi; Timothy R. Ginn

    2006-03-01

    A two-dimensional lattice Boltzmann (LB) model with fluid-fluid and solid-fluid interaction potentials was used to Study gravity-driven flow in geometrically simple fracture intersections. simulated scenarios included fluid dripping from a fracture aperture, two-phase flow through intersecting fractures and thin-filin flow oil smooth and undulating solid surfaces. Qualitative comparisons with recently published experimental findings indicate that for these scenarios the LB model captured the underlying physics reasonably well.

  14. A simple electron-beam lithography system

    DEFF Research Database (Denmark)

    Mølhave, Kristian; Madsen, Dorte Nørgaard; Bøggild, Peter

    2005-01-01

    A large number of applications of electron-beam lithography (EBL) systems in nanotechnology have been demonstrated in recent years. In this paper we present a simple and general-purpose EBL system constructed by insertion of an electrostatic deflector plate system at the electron-beam exit of the...... be used to write three-dimensional nanostructures by electron-beam deposition. (C) 2004 Elsevier B.V. All rights reserved....

  15. A simple Cartesian scheme for compressible multimaterials

    CERN Document Server

    Gorsse, Yannick; Milcent, Thomas; TELIB, Haysam

    2014-01-01

    We present a simple numerical method to simulate the interaction of two non-miscible compressible materials separated by an interface. The media considered may have significantly different physical properties and constitutive laws, describing for example fluids or hyperelastic solids. The model is fully Eulerian and the scheme is the same for all materials. We show stiff numerical illustrations in case of gas--gas, gas--water, gas--elastic solid interactions in the large deformation regime.

  16. Simple models of evolution and extinction

    CERN Document Server

    Newman, M E J

    1999-01-01

    This article gives a brief introduction to the mathematical modeling of large-scale biological evolution and extinction. We give three examples of simple models in this field: the coevolutionary avalanche model of Bak and Sneppen, the environmental stress model of Newman, and the increasing fitness model of Sibani, Schmidt, and Alstrom. We describe the features of real evolution which these models are intended to explain and compare the results of simulations against data drawn from the fossil record.

  17. Simple models of evolution and extinction

    OpenAIRE

    Newman, M. E. J.

    1999-01-01

    This article gives a brief introduction to the mathematical modeling of large-scale biological evolution and extinction. We give three examples of simple models in this field: the coevolutionary avalanche model of Bak and Sneppen, the environmental stress model of Newman, and the increasing fitness model of Sibani, Schmidt, and Alstrom. We describe the features of real evolution which these models are intended to explain and compare the results of simulations against data drawn from the fossi...

  18. Multiphase flow in geometrically simple fracture intersections

    Science.gov (United States)

    Basagaoglu, H.; Meakin, P.; Green, C.T.; Mathew, M.

    2006-01-01

    A two-dimensional lattice Boltzmann (LB) model with fluid-fluid and solid-fluid interaction potentials was used to study gravity-driven flow in geometrically simple fracture intersections. Simulated scenarios included fluid dripping from a fracture aperture, two-phase flow through intersecting fractures and thin-film flow on smooth and undulating solid surfaces. Qualitative comparisons with recently published experimental findings indicate that for these scenarios the LB model captured the underlying physics reasonably well.

  19. RESULTS FROM A SIMPLE PREDICTION CONTEST

    OpenAIRE

    Calvin Blackwell

    2011-01-01

    In a prediction contest participants compete for a prize by submitting guesses regarding an unknown variable; the winner of the contest is the participant who submits the most accurate guess. In this paper the results of a simple prediction contest are reported. In the contest, certain members of the administration of a medium-sized university were asked to predict the number of freshmen deposits the university would receive by its spring deadline. Contest participants were told that the cont...

  20. Radioluminescence : A simple model for fluorescent layers

    OpenAIRE

    Lindström, Jan

    2011-01-01

    The aim of this thesis is to present a simple model for the radiation to light conversion processes in fluorescent layers as an aid in future developments and applications. Optimisation between sensitivity and spatial resolution for fluorescent layers in digital radiology is a delicate task where the extrinsic efficiency for various phosphors needs to be established for varying parameters. The extrinsic efficiency of a fluorescent layer can be expressed as the ratio of the light energy per un...

  1. Simple model of resource exploitation”

    OpenAIRE

    Reis, A. Heitor

    2010-01-01

    Here we present a simple model of finite resource exploitation that is parameterized by initial cost ratio, a technologic and management index m accounting for the rise of the exploitation cost with decrease of resource amount, plus another index  accounting for the avidity of the market to the resource. The analysis showed that the model captures essential features of finite resource exploitation, namely those concerning to oil exploitation. Scenarios for future oil exploitat...

  2. Star clusters as simple stellar populations

    OpenAIRE

    Bruzual, A. Gustavo

    2009-01-01

    In this paper, I review to what extent we can understand the photometric properties of star clusters, and of low-mass, unresolved galaxies, in terms of population synthesis models designed to describe `simple stellar populations' (SSPs), i.e., groups of stars born at the same time, in the same volume of space, and from a gas cloud of homogeneous chemical composition. The photometric properties predicted by these models do not readily match the observations of most star clusters, unless we pro...

  3. Simple Benchmark Specifications for Space Radiation Protection

    Science.gov (United States)

    Singleterry, Robert C. Jr.; Aghara, Sukesh K.

    2013-01-01

    This report defines space radiation benchmark specifications. This specification starts with simple, monoenergetic, mono-directional particles on slabs and progresses to human models in spacecraft. This report specifies the models and sources needed to what the team performing the benchmark needs to produce in a report. Also included are brief descriptions of how OLTARIS, the NASA Langley website for space radiation analysis, performs its analysis.

  4. A Simple Model for Faraday Waves

    OpenAIRE

    Bechhoefer, John; Johnson, Brad

    1996-01-01

    We show that the linear-stability analysis of the birth of Faraday waves on the surface of a fluid is simplified considerably when the fluid container is driven by a triangle waveform rather than by a sine wave. The calculation is simple enough to use in an undergraduate course on fluid dynamics or nonlinear dynamics. It is also an attractive starting point for a nonlinear analysis.

  5. A simple method for global sequence comparison.

    OpenAIRE

    Pizzi, E; Attimonelli, M; Liuni, S; Frontali, C.; Saccone, C.

    1992-01-01

    A simple method of sequence comparison, based on a correlation analysis of oligonucleotide frequency distributions, is here shown to be a reliable test of overall sequence similarity. The method does not involve sequence alignment procedures and permits the rapid screening of large amounts of sequence data. It identifies those sequences which deserve more careful analysis of sequence similarity at the level of resolution of the single nucleotide. It uses observed quantities only and does not ...

  6. Optimal Pension Systems with Simple Instruments

    OpenAIRE

    Mikhail Golosov; Ali Shourideh; Maxim Troshkin; Aleh Tsyvinski

    2013-01-01

    We analyze optimal pension systems relying on simple policy instruments in a lifecycle environment which admits endogenous decisions of how much to work as well as when to retire. The optimality in this context means the highest welfare that can be achieved within a restricted set of instruments, while keeping the total cost of the pension system unchanged. The policy instruments we consider are the optimized retirement benefit functions modeled after a stylized version of the current US Soci...

  7. Mathematical Management of Simple Inventory System

    OpenAIRE

    S.M. Seeletse

    2001-01-01

    The article discusses optimal inventory policy in a simple business organization that has a known or predictable factors. Optimal inventory policy implies cost saving in inventrory control, and achievement of maximum profits or/and to minimum costs. A mathematical model is used for this purpose and a case study adjusts mathematics (maths) results practically of a business situation. Theoretical optimization (maths optimization) and practical optimization (adjustment of maths results) are comp...

  8. Simple ablative implosion model: shell dynamics

    International Nuclear Information System (INIS)

    A simple model, derived from Newton's Second Law, for the ablative implosion of a thin spherical shell is presented. The scaling dependence of the implosion time, shell velocity, and mass loss on shell dimensions and the critical physical parameter, the ablation pressure, is derived. Finally, the model is used to examine implosion energy efficiency and to describe an interesting application, wall-recoil heating of a contained fuel gas

  9. Simple Euclidean arrangements with one (>=5)-gon

    CERN Document Server

    Leaños, Jesus; Rivera-Martinez, Luis Manuel

    2010-01-01

    Let L be a simple Euclidean arrangement of n pseudolines. It is shown that if L has exactly one (>=5)=gon P, and k is the number of edges of P that are adjacent to an unbounded cell of the subarrangement of L induced by the pseudolines in P, then L has exactly n-k triangles and k+n(n-5)/2 quadrilaterals. We also prove that if each pseudoline of L is adjacent to P then L is stretchable.

  10. Nonanonymity and sensitivity of computable simple games

    OpenAIRE

    H. Reiju Mihara

    2003-01-01

    This paper investigates algorithmic computability of simple games (voting games). It shows that (i) games with a finite carrier are computable, (ii) computable games have both finite winning coalitions and cofinite losing coalitions, and (iii) computable games violate any conceivable notion of anonymity, including finite anonymity and measurebased anonymity. The paper argues that computable games are excluded from the intuitive class of gnice h infinite games, employing the notion of ginsensi...

  11. Simple Growth Models of Rigid Multifilament Biopolymers

    OpenAIRE

    Stukalin, Evgeny B.; Kolomeisky, Anatoly B.

    2004-01-01

    The growth dynamics of rigid biopolymers, consisting of $N$ parallel protofilaments, is investigated theoretically using simple approximate models. In our approach, the structure of a polymer's growing end and lateral interactions between protofilaments are explicitly taken into account, and it is argued that only few conformations are important for biopolymer's growth. As a result, exact analytic expressions for growth velocity and dispersion are obtained for {\\it any} number of protofilamen...

  12. Behaviour of Polariton in a Simple Model

    Institute of Scientific and Technical Information of China (English)

    WAN Shao-Long; MA Shuang-Ge; WANG Ke-Lin

    2003-01-01

    Behaviour of a simple model polariton system is restudied. The distribution of phonons in polariton never is sub-Poisson given by computation of the thermal counterpart of the Q parameter and the matrix m'3\\ The polariton complex as a whole shows non-classical behaviour below a threshold temperature, which depends on the photon-phonon coupling strength, when the distribution of phonons is always classical at any temperature.

  13. SWiM: A Simple Window Mover

    OpenAIRE

    Chang, Tony; Cook, Damon; Su, Ramona

    2005-01-01

    As computers become more ubiquitous, traditional two-dimensional interfaces must be replaced with interfaces based on a three-dimensional metaphor. However, these interfaces must still be as simple and functional as their two-dimensional predecessors. This paper introduces SWiM, a new interface for moving application windows between various screens, such as wall displays, laptop monitors, and desktop displays, in a three-dimensional physical environment. SWiM was designed based on the results...

  14. Studying Organisational Topology with Simple Computational Models

    OpenAIRE

    Anthony Dekker

    2007-01-01

    The behaviour of many complex systems is influenced by the underlying network topology. In particular, this applies to social systems in which people or organisational units collaboratively solve problems. Network rewiring processes are one useful tool in understanding the relationship between network topology and behaviour. Here we use the Kawachi network rewiring process, together with three simple simulation models of organisational collaboration, to investigate the network characteristics...

  15. A Simple Repairable System with Warning Device

    OpenAIRE

    Zhang, Xiao; Guo, Lina

    2015-01-01

    This paper considers a simple repairable system with a warning device which can signal an alarm when the system is not in good condition and a repairman who can have delayed-multiple vacations. By using Markov renewal process theory and the probability analysis method, the system is first described into a group of integrodifferential equations. Then the unique existence and asymptotic stability, especially the exponential stability of the system dynamic solution, are studied by using the stro...

  16. The Simple Geometry of Perfect Information Games

    OpenAIRE

    Demichelis, Stefano; Ritzberger, Klaus; Swinkels, Jeroen M.

    2002-01-01

    Abstract: Perfect information games have a particularly simple structure of equilibria in the associated normal form. For generic such games each of the finitely many connected components of Nash equilibria is contractible. For every perfect information game there is a unique connected and contractible component of subgame perfect equilibria. Finally, the graph of the subgame perfect equilibrium correspondence, after a very mild deformation, looks like the space of perfect information extensi...

  17. APPLYING SIMPLE TECHNOLOGY ACCOMPLISHES VISUAL INSPECTION CHALLENGES

    Energy Technology Data Exchange (ETDEWEB)

    Robinson, C

    2007-07-21

    This paper discusses the successful implementation of simple video technologies at the Savannah River Site (SRS) to perform complex visual inspection, monitoring, and surveillance tasks. Because SRS facilities are similar to those of an industrial plant, the environmental and accessibility considerations for remote viewing are the primary determining factors in the selection of technology. The constraints and challenges associated with remote viewing are discussed, and examples of applications are given.

  18. Badlands: too complex to be simple?

    Science.gov (United States)

    Kuhn, Nikolaus J.

    2016-04-01

    Badlands are an intensively dissected barren landscape, devoid of soil cover, with a sparse or absent vegetation. The very high drainage densities, V-shaped valleys and steep slopes, have often led to believe that badlands represent a landscape where the frequency and magnitude of overland flow and erosion processes are very high, resulting in rapid landscape evolution and a close connection between form and process. This perceived proximity between form and process is the main reason why badlands have sometimes been regarded as "ideal field laboratories" for testing landscape evolution hypothesis. Recent research has shed a critical light on the "simple landscape" perspective. Two key issues support this change in persprective. First, the erosion rates and sediment yields observed badland areas vary widely. As a consequence, only weak relationships were found between average annual rainfall and average erosion rates for annual rainfalls in the wide range of 80-1250 mm. Both the spatial variability and the limited relationship to annual rainfall present a serious barrier for the extrapolation of erosion rates from the hill slope to catchment scales and certainly to landscape evolution over longer geological time scales under changing climatic conditions. A second reason contradicting the simple landscape assessment is the mismatch observed between current erosion rates and the long-term denudation rates, indicating a hiatus between a potentially short period of badland formation and the overall age of the landform. As a consequence, the actual meaning of badland has been questioned, ranging from a description for features to a more complex meaning including current erosion and complex interaction of processes, such as pipe and tunnel erosion. In the light of this critical assessment, the idea of badlands as a "natural and simple laboratory" for landscape development can be questioned because badlands are too complex to be simple. However, one could also wonder

  19. Rack Protection Monitor - A Simple System

    Energy Technology Data Exchange (ETDEWEB)

    Orr, S.

    1997-12-01

    The Rack Protection Monitor is a simple, fail-safe device to monitor smoke, temperature and ventilation sensors. It accepts inputs from redundant sensors and has a hardwired algorithm to prevent nuisance power trips due to random sensor failures. When a sensor is triggered the Rack Protection Monitor latches and annunicates the alarm. If another sensor is triggered, the Rack Protection Monitor locally shuts down the power to the relay rack and sends alarm to central control.

  20. A simple solution to Archimedes' cattle problem

    OpenAIRE

    Nygrén, A. (Antti)

    2001-01-01

    Abstract A simple solution to the classical Archimedes' cattle problem is given. Unlike the previous ones, this is mainly based on elementary mathematics which, at least in principle, would have been available to the mathematicians of the classical era. The solution applies linear transformation and infinite descent in solving quadratic Diophantine equations in a manner which does not explicitly take advantage of continued fractions. The idea is to create a sequence of tran...

  1. Radon in buildings: a simple detection method

    International Nuclear Information System (INIS)

    Natural background radiation inside buildings can be studied using this simple detection method. Contaminated dust particles adhere readily to a membrane made of soft toilet paper placed across the collection pipe of a vacuum cleaner. Indirect evidence for the abundance of radon in the air can be inferred from measuring the radon daughters on the membrane using a Geiger-Muller tube. Experimental results are presented and discussed. (UK)

  2. Embedding Orders Into Central Simple Algebras

    CERN Document Server

    Linowitz, Benjamin

    2010-01-01

    The question of embedding fields into central simple algebras $B$ over a number field $K$ was the realm of class field theory. The subject of embedding orders contained in the ring of integers of maximal subfields $L$ of such an algebra into orders in that algebra is more nuanced. The first such result along those lines is an elegant result of Chevalley \\cite{Chevalley-book} which says that with $B = M_n(K)$ the ratio of the number of isomorphism classes of maximal orders in $B$ into which the ring of integers of $L$ can be embedded (to the total number of classes) is $[L \\cap \\widetilde K : K]^{-1}$ where $\\widetilde K$ is the Hilbert class field of $K$. Chinburg and Friedman (\\cite{Chinburg-Friedman}) consider arbitrary quadratic orders in quaternion algebras satisfying the Eichler condition, and Arenas-Carmona \\cite{Arenas-Carmona} considers embeddings of the ring of integers into maximal orders in a broad class of higher rank central simple algebras. In this paper, we consider central simple algebras of d...

  3. Necessity of Antibiotics following Simple Exodontia.

    Science.gov (United States)

    Yousuf, Waqas; Khan, Moiz; Mehdi, Hasan; Mateen, Sana

    2016-01-01

    Introduction. The aim of our study is to assess the need for postoperative antibiotics following simple exodontia and determine its role in minimizing patient discomfort and postoperative complications. Material and Methods. All the patients undergoing simple extractions were grouped into two categories: Group 1, patients receiving antibiotics, and Group 2, patients receiving no antibiotics. Patients were recalled on the sixth day to assess postoperative complications. On recall, patients were evaluated for signs of persistent inflammation and signs of dry socket. Presence of persistent inflammation and/or suppuration on the 6th day was considered as wound infection. Results. A total of 146 patients were included in this study. Out of the total sample, 134 (91.8%) presented with no postoperative complications and 12 (8.2%) had postoperative complications, out of which 11 (7.5%) patients presented with dry socket (alveolar osteitis), 5 (3.4%) in the antibiotic group and 6 (4.1%) in the nonantibiotic group. Only 1 patient (0.7%) was reported with infection of the extraction socket in the nonantibiotic group, whereas no case of infection was found in the antibiotic group. Conclusion. Antibiotics are not required after simple extractions in patients who are not medically comprised nor do they have any role in preventing postoperative complications. PMID:27110426

  4. Modeling reproductive decisions with simple heuristics

    Directory of Open Access Journals (Sweden)

    Peter Todd

    2013-10-01

    Full Text Available BACKGROUND Many of the reproductive decisions that humans make happen without much planning or forethought, arising instead through the use of simple choice rules or heuristics that involve relatively little information and processing. Nonetheless, these heuristic-guided decisions are typically beneficial, owing to humans' ecological rationality - the evolved fit between our constrained decision mechanisms and the adaptive problems we face. OBJECTIVE This paper reviews research on the ecological rationality of human decision making in the domain of reproduction, showing how fertility-related decisions are commonly made using various simple heuristics matched to the structure of the environment in which they are applied, rather than being made with information-hungry mechanisms based on optimization or rational economic choice. METHODS First, heuristics for sequential mate search are covered; these heuristics determine when to stop the process of mate search by deciding that a good-enough mate who is also mutually interested has been found, using a process of aspiration-level setting and assessing. These models are tested via computer simulation and comparison to demographic age-at-first-marriage data. Next, a heuristic process of feature-based mate comparison and choice is discussed, in which mate choices are determined by a simple process of feature-matching with relaxing standards over time. Parental investment heuristics used to divide resources among offspring are summarized. Finally, methods for testing the use of such mate choice heuristics in a specific population over time are then described.

  5. Dynamic mental number line in simple arithmetic.

    Science.gov (United States)

    Yu, Xiaodan; Liu, Jie; Li, Dawei; Liu, Hang; Cui, Jiaxin; Zhou, Xinlin

    2016-05-01

    Studies have found that spatial-numerical associations could extend to arithmetic. Addition leads to rightward shift in spatial attention while subtraction leads to leftward shift (e.g., Knops et al. 2009; McCrink et al. 2007; Pinhas & Fischer 2008), which is consistent with the hypothesis of static mental number line (MNL) for arithmetic. The current investigation tested the hypothesis of dynamic mental number line which was shaped by the relative magnitudes of two operands in simple arithmetic. Horizontal and vertical electrooculograms (HEOG and VEOG) during simple arithmetic were recorded. Results showed that the direction of eye movements was dependent on the relative magnitudes of two operands. Subtraction was associated with larger rightward eye movements than addition (Experiment 1), and smaller-operand-first addition (e.g., 2+9) was associated with larger rightward eye movement than larger-operand-first addition (e.g., 9+2) only when the difference of two operands was large (Experiment 2). The results suggest that the direction of the mental number line could be dynamic during simple arithmetic, and that the eyes move along the dynamic mental number line to search for solutions. PMID:26645825

  6. A Simple Model for Quasar Demographics

    CERN Document Server

    Conroy, Charlie

    2012-01-01

    We present a simple model for the relationship between quasars, galaxies, and dark matter halos from 0simple "scattered" light bulb model for quasars is adopted, wherein BHs shine at a fixed fraction of the Eddington luminosity during accretion episodes, and Eddington ratios are drawn from a lognormal distribution that is redshift-independent. This model has two free, physically meaningful parameters at each redshift, the normalization of the M_BH-M_gal relation and the quasar duty cycle; these parameters are fit to the observed quasar luminosity function (LF) over the interval 0.5simple model provides an excellent fit to the LF at all epochs, and also successfully predicts the observed projected two-point correlation of quasars from 0.5

  7. A simple improvement in expression cloning.

    Science.gov (United States)

    Takemoto, Y; Furuta, M; Sato, M; Hashimoto, Y

    1997-06-01

    Expression cloning is an effective approach for isolating genes encoding proteins that associate with a target species. Several molecules have been isolated by expression cloning, including CRE-BP1 associating with Jun (Macgregor et al., 1990); Grb1, identical to p85 PI3-kinase, with the EGF receptor (Skolnik et al., 1991); and Max with Myc (Blackwood and Eisenman, 1991). Expression cloning involves induction of proteins from a lambda gt11 cDNA expression library and screening the proteins on nitrocellulose membranes using a peptide probe (Macgregor et al., 1990). With this method, we previously isolated an Lck tyrosine kinase-associated protein, LckBP1, which is identical to HS1 (Kitamura et al., 1989, 1995; Takemoto et al., 1995). In those experiments, we used a glutathione S-transferase (GST)-Lck SH3 domain fusion protein as a probe, followed by detection of the complex with anti-GST polyclonal antibody. Whereas the ease of obtaining the fusion construct and high-titer anti-GST polyclonal antibody represented clear advantages, the system suffered from high background and low sensitivity. Here we show that pretreatment of nitrocellulose filters with NaDodSO4 reduces background and, in turn, increases sensitivity. PMID:9212173

  8. IVOA Recommendation: SimpleDALRegExt: Describing Simple Data Access Services

    CERN Document Server

    Plante, Raymond; Harrison, Paul; Tody, Doug

    2014-01-01

    An application that queries or consumes descriptions of VO resources must be able to recognize a resource's support for standard IVOA protocols. This specification describes how to describe a service that supports any of the four fundamental data access protocols -- Simple Cone Search (SCS), Simple Image Access (SIA), Simple Spectral Access (SSA), Simple Line Access (SLA) -- using the VOResource XML encoding standard. A key part of this specification is the set of VOResource XML extension schemas that define new metadata that are specific to those protocols. This document describes in particular rules for describing such services within the context of IVOA Registries and data discovery as well as the VO Standard Interface (VOSI) and service self-description. In particular, this document spells out the essential markup needed to identify support for a standard protocol and the base URL required to access the interface that supports that protocol.

  9. Analysis of synergy between divergent simple retrovirus posttranscriptional control elements

    International Nuclear Information System (INIS)

    Mason-Pfizer monkey virus (MPMV) and spleen necrosis virus (SNV) are simple retroviruses that encode functionally divergent cis-acting RNA elements that use cellular proteins to facilitate nuclear export and translation of unspliced viral RNA. We tested the hypothesis that a combination of MPMV constitutive transport element (CTE) and SNV or MPMV RU5 translational enhancer on unspliced HIV-1 gag-pol reporter RNA synergistically augments Gag production. Results of transient transfection assays validate the hypothesis of synergistic augmentation in COS cells, but not 293 cells. RNA targeting experiments verified comparable responsiveness to CTE-interactive proteins tethered by RRE and RevM10Tap in COS and 293 cells. Exogeneous expression of Tap and NXT1 was necessary and sufficient to rescue Gag augmentation in 293 cells. Overexpression experiments established that CTE, but not RU5, confers the responsiveness to Tap and NXT1 and that CTE in conjunction with Tap and NXT1 conferred a 30-fold increase in translational utilization of the cytoplasmic RNA. Our results uncovered a previously unidentified role of CTE in conjunction with Tap and NXT1 in commitment to efficient cytoplasmic RNA utilization

  10. Simulated Evolution of Protein-Protein Interaction Networks with Realistic Topology

    OpenAIRE

    G Jack Peterson; Steve Pressé; Peterson, Kristin S.; Dill, Ken A.

    2012-01-01

    We model the evolution of eukaryotic protein-protein interaction (PPI) networks. In our model, PPI networks evolve by two known biological mechanisms: (1) Gene duplication, which is followed by rapid diversification of duplicate interactions. (2) Neofunctionalization, in which a mutation leads to a new interaction with some other protein. Since many interactions are due to simple surface compatibility, we hypothesize there is an increased likelihood of interacting with other proteins in the t...

  11. Physical fitness gains following simple environmental change.

    Science.gov (United States)

    Linenger, J M; Chesson, C V; Nice, D S

    1991-01-01

    Inactivity is the risk factor with potentially the greatest public health impact, according to the 1989 U.S. Preventive Services Task Force report. Our study reports changes in subjects' physical fitness level after simple changes aimed at enabling community members to adopt more easily active lifestyles. Simple environmental and social alterations occurred at a San Diego Naval air station. We administered to a cohort of active-duty personnel from within this community (n = 1,609) both a physical readiness test (PRT) and a lifestyle questionnaire at baseline and at one year. The PRT consisted of a 1.5-mile timed run, sit-ups, push-ups, and percentage body fat components, and the questionnaire addressed demographics, current exercise behavior, and attitudes toward exercise. We took similar measures within a comparison community cohort (n = 217) and within a Navy-wide sample cohort (n = 546). Both overall PRT category and 1.5-mile run time improved significantly (P less than .05) over time in the intervention community (0.3 category points and 18 seconds, respectively). The increase was significantly greater (P less than .01) than in either the control community or the Navy-wide sample. Subgroup analysis showed that, in the intervention community, 12.4% failed the overall fitness test in 1987, but only 5.1% failed in 1988. Similarly, the 1.5-mile run failures decreased from 8.4% to 4%. Reported leisure time kilocalorie expenditure showed no significant improvement. This simple program successfully improved fitness performance. The improvement was distributed throughout the community and included those who were substandard at baseline. Similar programs could easily be adopted in a variety of communities. PMID:1790036

  12. A 'simple' hybrid model for power derivatives

    International Nuclear Information System (INIS)

    This paper presents a method for valuing power derivatives using a supply-demand approach. Our method extends work in the field by incorporating randomness into the base load portion of the supply stack function and equating it with a noisy demand process. We obtain closed form solutions for European option prices written on average spot prices considering two different supply models: a mean-reverting model and a Markov chain model. The results are extensions of the classic Black-Scholes equation. The model provides a relatively simple approach to describe the complicated price behaviour observed in electricity spot markets and also allows for computationally efficient derivatives pricing. (author)

  13. A simple experiment for visualizing diffusion

    Energy Technology Data Exchange (ETDEWEB)

    Helseth, L E, E-mail: Lars.Helseth@ift.uib.no [Department of Physics and Technology, University of Bergen, Allegaten 55, N-5007 Bergen (Norway)

    2011-09-15

    We propose a simple and fascinating experiment for studying diffusion in gels using a pH-sensitive dye. By doping agar with methyl red, we obtain a gel which rapidly reacts to changes in pH by changing its absorption spectrum. The pH gradients can be followed using a digital camera, and we demonstrate here that the pH-sensitive colour changes can be used to print colour patterns in the gel which due to diffusion of ions may disappear entirely.

  14. A simple microprocessor for FASTBUS slave modules

    International Nuclear Information System (INIS)

    We describe a simple but powerful implementation of a microprocessor for use as an embedded processing engine in FASTBUS modules. This design uses a 16 MHz 68000 processor and 128 kilobytes of static random access memory, yet it is economical enough for use on boards which are produced in large quantities. The circuit contains 11 chips, draws less than 4 watts of power and costs less than $75 in parts. Software can be written using assembler or compiler/linker which can create Motorola S-code or an absolute binary image, and several tools exist to aid software development. (author). Abstract only

  15. A Simple Class of Measures of Skewness

    OpenAIRE

    ALTINAY, Galip

    2016-01-01

    In this paper, a simple class of measures for detecting skewness in samples is introduced. The new class of measures is based on a new definition of skewness that takes midrange into consideration. The proposed coefficients of skewness can be computed easily with only three of the summary statistics, i.e., the minimum value, the maximum value and the median (or the mode, or the mean). Another advantage of the new statistics is that they are bounded by -1 and +1, hence, the coefficients of ske...

  16. Theory of high pressure hydrogen, made simple

    CERN Document Server

    Magdau, Ioan B; Ackland, Graeme J

    2015-01-01

    Phase I of hydrogen has several peculiarities. Despite having a close-packed crystal structure, it is less dense than either the low temperature Phase II or the liquid phase. At high pressure, it transforms into either phase III or IV, depending on the temperature. Moreover, spectroscopy suggests that the quantum rotor behaviour disappears with pressurisation, without any apparent phase transition. Here we present a simple thermodynamic model for this behaviour based on packing atoms and molecules and discuss the thermodynamics of the phase boundaries. We also report first principles molecular dynamics calculations for a more detailed look at the same phase transitions.

  17. Transport theory studies of simple slab lattices

    International Nuclear Information System (INIS)

    Slab lattices with different numbers of identical cells have been studied using one-speed neutron transport theory. The numerical work was done with the Sn method using angular approximations up to 96th order. A simple scheme was used to obtain homogenized cross sections and diffusion coefficients as a function of the number of cells. The results were compared to those of the buckling approximation corrected for the fine structure in the neutron flux. It was found that at already lattices of a few cells this approximation gives satisfactory results. (author). 7 refs., 3 tabs

  18. A simple model of direct gauge mediation

    Energy Technology Data Exchange (ETDEWEB)

    Zheng Sibo, E-mail: sibozheng.zju@gmail.com [Department of Physics, Chongqing University, Chongqing 401331 (China); Yu Yao [Department of Physics, Chongqing University, Chongqing 401331 (China)

    2012-03-23

    In the context of direct gauge mediation Wess-Zumino models are very attractive in supersymmetry model building. Besides the spontaneous supersymmetry and R-symmetry breaking, the problems of small gaugino mass as well as {mu} and B{mu} terms should be solved so as to achieve a viable model. In this Letter, we propose a simple model as an existence proof, in which all these subjects are realized simultaneously, with no need of fine tuning. This completion also implies that much of parameter space for direct gauge mediation can be directly explored at LHC.

  19. A Simple Model of Direct Gauge Mediation

    OpenAIRE

    Zheng, Sibo; Yu, Yao

    2011-01-01

    In the context of direct gauge mediation Wess-Zumino models are very attractive in supersymmetry model building. Besides the spontaneous supersymmetry and R-symmetry breaking, the problems of small gaugino mass as well as {\\mu} and B{\\mu} terms should be solved so as to achieve a viable model. In this letter, we propose a simple model as an existence proof, in which all these subjects are realized simultaneously, with no need of fine tuning. This completion also implies that much of parameter...

  20. Backward Bifurcation in Simple SIS Model

    Institute of Scientific and Technical Information of China (English)

    Zhan-wei Wang

    2009-01-01

    We describe and analyze a simple SIS model with treatment.In particular,we give a completely qualitative analysis by means of the theory of asymptotically autonomous system.It is found that a backward bifurcation occurs if the adequate contact rate or the capacity is small.It is also found that there exists bistable endemic equilibria.In the case of disease-induced death,it is shown that the backward bifurcation also occurs.Moreover,there is no limit cycle under some conditions,and the subcritical Hopf bifurcation occurs under another conditions.

  1. Cut Times for Simple Random Walk

    OpenAIRE

    Lawler, Gregory

    1996-01-01

    Let $S(n)$ be a simple random walk taking values in $Z^d$. A time $n$ is called a cut time if \\[ S[0,n] \\cap S[n+1,\\infty) = \\emptyset . \\] We show that in three dimensions the number of cut times less than $n$ grows like $n^{1 - \\zeta}$ where $\\zeta = \\zeta_d$ is the intersection exponent. As part of the proof we show that in two or three dimensions \\[ P(S[0,n] \\cap S[n+1,2n] = \\emptyset ) \\sim n^{-\\zeta}, \\] where $\\sim$ denotes that each side is bounded by a constant times the other side.

  2. Simple orbital theory for the molecular electrician.

    Science.gov (United States)

    Ernzerhof, Matthias

    2011-07-01

    Theories of molecular electronic devices (MEDs) are quite involved in general. However, various prominent features of MEDs can be understood drawing only on elementary quantum theory. To support this point of view, we provide a two component orbital theory that enables one to reproduce various important features of MEDs. In this theory, the device orbitals are divided into two components, each of which is obtained from simple rules. To illustrate our two-component model, we apply it to explain, among other things, the conductance suppression in cross-conjugated systems and the dependence of the conductance on the contact position in aromatic systems. PMID:21744885

  3. Crawling on Simple Models of Web Graphs

    OpenAIRE

    Cooper, Colin; Frieze, Alan

    2003-01-01

    We consider the problem of searching a randomly growing graph by a random walk. In particular we consider two simple models of "web-graphs." Thus at each time step a new vertex is added and it is connected to the current graph by randomly chosen edges. At the same time a "spider" S makes a number of steps of a random walk on the current graph. The parameter we consider is the expected proportion of vertices that have been visited by S up to time t.

  4. Degenerate polygonal tilings in simple animal tissues

    Science.gov (United States)

    Ziherl, Primoz; Hocevar, Ana

    2009-03-01

    We study 2D polygonal tilings as models of the en-face structure of single-layer biological tissues. Using numerical simulations, we explore the phase diagram of equilibrium tilings of equal-area, equal-perimeter convex polygons whose energy is independent of their shape. We identify 3 distinct phases, which are all observed in simple epithelial tissues: The disordered phase of polygons with 4-9 sides, the hexatic phase, and the hexagonal phase with perfect 6-fold coordination. We quantify their structure using Edwards' statistical mechanics of cellular systems.

  5. Simple MCA supports a variety of applications

    International Nuclear Information System (INIS)

    A greatly enhanced version of the Violinist I, Simple Multichannel analyzer has been developed at Los Alamos. The new instrument includes a more powerful microprocessor, more memory, and a sophisticated set of I/O devices. The combination of these features allow the same basic electronics package to function in a variety of smart sophisticated monitoring instruments. Only the packaging, detector, and software need be changed to change the instrument from a field survey instrument for Pu contamination to a continuous air monitor to a neutron dosimeter. This instrument should spawn a new generation of user-friendly, highly effective instrumentation

  6. Mesmer et Mozart: un rapport (apparemment) simple

    OpenAIRE

    Stile, Alessandro

    2011-01-01

    [Mesmer and Mozart: an (apparently) simple relationship]. Moving from the evidences in the correspondence of the Mozart family, who used to attend the house of Anton Mesmer, the paper examines the relationship between W.A. Mozart and the German physician. Mozart was probably a direct witness of some cases in which “animal magnetism” was applied. The parodistic outline of magnetism in a famous scene of "Così fan tutte" was probably inspired by Mesmer’s professional and private vicissitudes as ...

  7. Simple model of stacking-fault energies

    DEFF Research Database (Denmark)

    Stokbro, Kurt; Jacobsen, Lærke Wedel

    1993-01-01

    metals, and thereby explain the pronounced differences in energetics in these two classes of metals. The model is discussed in the framework of the effective-medium theory where it is possible to find a functional form for the pair potential and relate the contribution associated with the fourth moment......A simple model for the energetics of stacking faults in fcc metals is constructed. The model contains third-nearest-neighbor pairwise interactions and a term involving the fourth moment of the electronic density of states. The model is in excellent agreement with recently published local...

  8. Understanding Social Preferences with Simple Tests

    OpenAIRE

    Charness, Gary; Rabin, Matthew

    2003-01-01

    Departures from self-interest in economic experiments have recently inspired models of “social preferences†. We design a range of simple experimental games that test these theories more directly than existing experiments. Our experiments show that subjects are more concerned with increasing social welfare—sacrificing to increase the payoffs for all recipients, especially low-payoff recipients—than with reducing differences in payoffs (as supposed in recent models). Subjects are also m...

  9. [Simple partial frontal nonconvulsive status epilepticus].

    Science.gov (United States)

    Thomas, P; Mottin, Y

    1997-07-01

    Non convulsive status epilepticus (NCSE) of frontal origin is a rare cause of mental confusion. The present case of possible frontal-onset NCSE proved to have a neuropsychological examination that was suggestive either of a disruption of attentional function or a left prefrontal dysfunction, exhibiting disturbances of immediate memory and logical programmation, perseverations and affective disinhibition. Vigilance was not impaired. This case was therefore, on a nosographic point of view, more consistent with a simple partial status epilepticus with cognitive and affective symptomatology rather than with a complex partial status epilepticus of extra-temporal origin. PMID:9684010

  10. Radon entry into a simple test structure

    DEFF Research Database (Denmark)

    Andersen, C.E.; Søgaard-Hansen, J.; Majborn, B.

    1992-01-01

    A simple test structure for studies of radon entry into houses has been constructed at a field site at Riso National Laboratory. It consists of a 40 1, stainless-steel cylinder placed in a 0.52 m deep quadratic excavation with a side length of 2.4 m. The excavation is lined with an airtight...... cylinder and in selected locations in the soil. In this paper, the test structure is described, and initial results concerning the transport of soil gas and radon under steady-state conditions are reported. It is found that the soil in the vicinity of the structure is partially depleted with respect to...

  11. Automatic generation of simple (statistical) exams

    OpenAIRE

    Grün, Bettina; Zeileis, Achim

    2008-01-01

    Package exams provides a framework for automatic generation of simple (statistical) exams. To employ the tools, users just need to supply a pool of exercises and a master file controlling the layout of the final PDF document. The exercises are specified in separate Sweave files (containing R code for data generation and LaTeX code for problem and solution description) and the master file is a LaTeX document with some additional control commands. This paper gives an overview on the main design...

  12. A simple model of direct gauge mediation

    International Nuclear Information System (INIS)

    In the context of direct gauge mediation Wess-Zumino models are very attractive in supersymmetry model building. Besides the spontaneous supersymmetry and R-symmetry breaking, the problems of small gaugino mass as well as μ and Bμ terms should be solved so as to achieve a viable model. In this Letter, we propose a simple model as an existence proof, in which all these subjects are realized simultaneously, with no need of fine tuning. This completion also implies that much of parameter space for direct gauge mediation can be directly explored at LHC.

  13. A simple proof of Bell's inequality

    Science.gov (United States)

    Maccone, Lorenzo

    2013-11-01

    Bell's theorem is a fundamental result in quantum mechanics: it discriminates between quantum mechanics and all theories where probabilities in measurement results arise from the ignorance of pre-existing local properties. We give an extremely simple proof of Bell's inequality; a single figure suffices. This simplicity may be useful in the unending debate over what exactly the Bell inequality means, because the hypotheses underlying the proof become transparent. It is also a useful didactic tool, as the Bell inequality can be explained in a single intuitive lecture.

  14. Semi-simple rings and commutativity

    OpenAIRE

    Giri, R. D.; Bujade, V. G.

    1992-01-01

    Sia R un anello semisemplice. Si prova che se per ogni coppia di elementi x, y in R esistono interi positivi m=m(x, y) ed n=(x, y) tali che $\\left[\\left[\\left(yxy\\right)^{m},\\left(x,y\\right)^{n}+\\left(y,x\\right)^{n}\\right],\\left(yxy\\right)\\right]=0$ allora R è commutativo. Let R be a semi-simple ring. We prove that if for any pair of elements x, y in R there exist positive integers m=m(x, y) and n=(x, y) such that $\\left[\\left[\\left(yxy\\right)^{m},\\left(x,y\\right)^{n}+\\left(...

  15. Simple multifunction discriminator for multichannel triggers

    International Nuclear Information System (INIS)

    A simple version of a multifunction timing discriminator using only two integrated circuits is presented. It can be configured as a leading edge, a constant fraction, a zero cross or a dual threshold timing discriminator. Since so few parts are used, it is well suited for building multichannel timing discriminators. Two versions of this circuit are described: a quadruple multifunction discriminator and an octal constant fraction trigger. The different compromises made in these units are discussed. Results for walk and jitter obtained with these are presented and possible improvements are disussed

  16. A simple multifunction discriminator for multichannel triggers

    International Nuclear Information System (INIS)

    A simple version of a multifunction timing discriminator using only two integrated circuits is presented. It can be configured as a leading edge, a constant fraction, a zero cross or a dual threshold timing discriminator. Since so few parts are used, it is well suited for building multichannel timing discriminators. Two versions of this circuit are described: a quadruple multifunction discriminator and an octal constant fraction trigger. The different compromises made in these units are discussed. Results for walk and jitter obtained with these are presented and possible improvements are discussed

  17. Algorithms for the Simple Equal Flow Problem

    OpenAIRE

    Ahuja, Ravindra K.; Orlin, James B.; Sechi, Giovanni M.; Paola Zuddas

    1999-01-01

    The minimum cost flow problem is to determine a least cost shipment of a commodity through a network G = (N, A) in order to satisfy demands at certain nodes from available supplies at other nodes. In this paper, we study a variant of the minimum cost flow problem where we are given a set R \\subseteq A of arcs and require that each arc in R must carry the same amount of flow. This problem, which we call the simple equal flow problem, arose while modeling a water resource system management in S...

  18. Chaos from simple models to complex systems

    CERN Document Server

    Cencini, Massimo; Vulpiani, Angelo

    2010-01-01

    Chaos: from simple models to complex systems aims to guide science and engineering students through chaos and nonlinear dynamics from classical examples to the most recent fields of research. The first part, intended for undergraduate and graduate students, is a gentle and self-contained introduction to the concepts and main tools for the characterization of deterministic chaotic systems, with emphasis to statistical approaches. The second part can be used as a reference by researchers as it focuses on more advanced topics including the characterization of chaos with tools of information theor

  19. A simple model of search engine pricing

    OpenAIRE

    Eliaz, Kfir; Spiegler, Ran

    2009-01-01

    We present a simple model of how a monopolistic search engine optimally determines the average quality of firms in its search pool. In our model, there is a continuum of consumers, who use the search engine’s pool, and there is a continuum of firms, whose entry to the pool is restricted by a price set by the search engine. We show that a monopolistic search engine may have an incentive to set a relatively low price that encouarges low-relevance advertisers to enter the searc...

  20. Simple Forest Canopy Thermal Exitance Model

    Science.gov (United States)

    Smith J. A.; Goltz, S. M.

    1999-01-01

    We describe a model to calculate brightness temperature and surface energy balance for a forest canopy system. The model is an extension of an earlier vegetation only model by inclusion of a simple soil layer. The root mean square error in brightness temperature for a dense forest canopy was 2.5 C. Surface energy balance predictions were also in good agreement. The corresponding root mean square errors for net radiation, latent, and sensible heat were 38.9, 30.7, and 41.4 W/sq m respectively.

  1. Simple heuristics for pricing VIX options

    OpenAIRE

    Juliusz Jabłecki; Ryszard Kokoszczyński; Paweł Sakowski; Robert Ślepaczuk; Piotr Wójcik

    2014-01-01

    The article presents a simple parameterization of the volatility surface for options on the S&P 500 volatility index, VIX. Specifically, we document the following features of VIX implied volatility: (i) VIX at-the-money (ATM) implied volatility correlates strongly with the volatility skew in S&P 500 options; (ii) VIX ATM implied volatility declines exponentially with options' time to expiry; (iii) a SABR-type model can be used to model the smile observed in VIX options. These observations lea...

  2. Mucociliary clearance in early simple chronic bronchitis

    International Nuclear Information System (INIS)

    Tracheobronchial mucociliary clearance was measured in 37 patients with early simple chronic bronchitis. A non-invasive radio-aerosol technique with inhalation of 99Tcm labelled 5-μm polystyrene particles followed by assessment of radio-nuclide distribution by posterior gamma-camera scans was employed. The mucociliary clearance of the bronchitics was significantly slower than clearance of a non-smoker control group. An interim analysis of the effect of treatment with a surfactant stimulating drug, ambroxol, suggested a dosage-dependent tendency to a faster mucociliary clearance than seen in placebo-treated bronchitics. (author)

  3. Which finite simple groups are unit groups?

    DEFF Research Database (Denmark)

    Davis, Christopher James; Occhipinti, Tommy

    2014-01-01

    We prove that if G is a finite simple group which is the unit group of a ring, then G is isomorphic to either (a) a cyclic group of order 2; (b) a cyclic group of prime order 2^k −1 for some k; or (c) a projective special linear group PSLn(F2) for some n ≥ 3. Moreover, these groups do all occur as...... unit groups. We deduce this classification from a more general result, which holds for groups G with no non-trivial normal 2-subgroup....

  4. Protein-protein interaction based on pairwise similarity

    Directory of Open Access Journals (Sweden)

    Zaki Nazar

    2009-05-01

    Full Text Available Abstract Background Protein-protein interaction (PPI is essential to most biological processes. Abnormal interactions may have implications in a number of neurological syndromes. Given that the association and dissociation of protein molecules is crucial, computational tools capable of effectively identifying PPI are desirable. In this paper, we propose a simple yet effective method to detect PPI based on pairwise similarity and using only the primary structure of the protein. The PPI based on Pairwise Similarity (PPI-PS method consists of a representation of each protein sequence by a vector of pairwise similarities against large subsequences of amino acids created by a shifting window which passes over concatenated protein training sequences. Each coordinate of this vector is typically the E-value of the Smith-Waterman score. These vectors are then used to compute the kernel matrix which will be exploited in conjunction with support vector machines. Results To assess the ability of the proposed method to recognize the difference between "interacted" and "non-interacted" proteins pairs, we applied it on different datasets from the available yeast saccharomyces cerevisiae protein interaction. The proposed method achieved reasonable improvement over the existing state-of-the-art methods for PPI prediction. Conclusion Pairwise similarity score provides a relevant measure of similarity between protein sequences. This similarity incorporates biological knowledge about proteins and it is extremely powerful when combined with support vector machine to predict PPI.

  5. Total protein

    Science.gov (United States)

    ... page: //medlineplus.gov/ency/article/003483.htm Total protein To use the sharing features on this page, please enable JavaScript. The total protein test measures the total amount of two classes ...

  6. Understanding target delineation using simple probabilistic modelling

    Science.gov (United States)

    Willis, Chris J.

    2015-10-01

    Performance assessment is carried out for a simple target delineation process based on thresholding and shape fitting. The method uses the information contained in Receiver Operating Characteristic curves together with basic observations regarding target sizes and shapes. Performance is gauged by considering the delineations that might result from having particular arrangements of detected pixels within the vicinity of a hypothesized target. In particular, the method considers the qualities of delineations generated when having various combinations of detected pixels at a number of locations around the inner and outer boundaries of the underlying object. Three distinct types of arrangement for pixels on the inner target boundary are considered. Each has the potential to lead to a good quality delineation in a thresholding and shape fitting scheme. The deleterious effect of false alarms within the surrounding local region is also taken into account. The resulting ensembles of detected pixels are treated using familiar rules for combination to form probabilities for the delineations as a whole. Example results are produced for simple target prototypes in cluttered SAR imagery.

  7. Simple replica micromolding of biocompatible styrenic elastomers.

    Science.gov (United States)

    Borysiak, Mark D; Bielawski, Kevin S; Sniadecki, Nathan J; Jenkel, Colin F; Vogt, Bryan D; Posner, Jonathan D

    2013-07-21

    In this work, we introduce a simple solvent-assisted micromolding technique for the fabrication of high-fidelity styrene-ethylene/butylene-styrene (SEBS) microfluidic devices with high polystyrene (PS) content (42 wt% PS, SEBS42). SEBS triblock copolymers are styrenic thermoplastic elastomers that exhibit both glassy thermoplastic and elastomeric properties resulting from their respective hard PS and rubbery ethylene/butylene segments. The PS fraction gives SEBS microdevices many of the appealing properties of pure PS devices, while the elastomeric properties simplify fabrication of the devices, similar to PDMS. SEBS42 devices have wettable, stable surfaces (both contact angle and zeta potential) that support cell attachment and proliferation consistent with tissue culture dish substrates, do not adsorb hydrophobic molecules, and have high bond strength to wide range of substrates (glass, PS, SEBS). Furthermore, SEBS42 devices are mechanically robust, thermally stable, as well as exhibit low auto-fluorescence and high transmissivity. We characterize SEBS42 surface properties by contact angle measurements, cell culture studies, zeta potential measurements, and the adsorption of hydrophobic molecules. The PS surface composition of SEBS microdevices cast on different substrates is determined by time-of-flight secondary ion mass spectrometry (ToF-SIMS). The attractive SEBS42 material properties, coupled with the simple fabrication method, make SEBS42 a quality substrate for microfluidic applications where the properties of PS are desired but the ease of PDMS micromolding is favoured. PMID:23670166

  8. A SIMPLE MODEL FOR QUASAR DEMOGRAPHICS

    International Nuclear Information System (INIS)

    We present a simple model for the relationship between quasars, galaxies, and dark matter halos from 0.5 BH-M gal relation and the quasar duty cycle; these parameters are fit to the observed quasar luminosity function (LF) over the interval 0.5 < z < 6. This simple model provides an excellent fit to the LF at all epochs and also successfully predicts the observed projected two-point correlation of quasars from 0.5 < z < 2.5. It is significant that a single quasar duty cycle at each redshift is capable of reproducing the extant observations. The data are therefore consistent with a scenario wherein quasars are equally likely to exist in galaxies, and therefore dark matter halos, over a wide range in masses. The knee in the quasar LF is a reflection of the knee in the stellar-mass-halo-mass relation. Future constraints on the quasar LF and quasar clustering at high redshift will provide strong constraints on the model. In the model, the autocorrelation function of quasars becomes a strong function of luminosity only at the very highest luminosities and will be difficult to observe because such quasars are so rare. Cross-correlation techniques may provide useful constraints on the bias of such rare objects. The simplicity of the model allows for rapid generation of quasar mock catalogs from N-body simulations that match the observed LF and clustering to high redshift.

  9. Simple Deterministically Constructed Recurrent Neural Networks

    Science.gov (United States)

    Rodan, Ali; Tiňo, Peter

    A large number of models for time series processing, forecasting or modeling follows a state-space formulation. Models in the specific class of state-space approaches, referred to as Reservoir Computing, fix their state-transition function. The state space with the associated state transition structure forms a reservoir, which is supposed to be sufficiently complex so as to capture a large number of features of the input stream that can be potentially exploited by the reservoir-to-output readout mapping. The largely "black box" character of reservoirs prevents us from performing a deeper theoretical investigation of the dynamical properties of successful reservoirs. Reservoir construction is largely driven by a series of (more-or-less) ad-hoc randomized model building stages, with both the researchers and practitioners having to rely on a series of trials and errors. We show that a very simple deterministically constructed reservoir with simple cycle topology gives performances comparable to those of the Echo State Network (ESN) on a number of time series benchmarks. Moreover, we argue that the memory capacity of such a model can be made arbitrarily close to the proved theoretical limit.

  10. Thermoeconomic Analysis of Simple Trigeneration Systems

    Directory of Open Access Journals (Sweden)

    Luis M. Serra

    2009-09-01

    Full Text Available

    Trigeneration is the combined production of heating, cooling and power from the same source of energy. In this paper, the operation of a simple trigeneration system is analyzed. The system is interconnected to the electric utility grid, both to receive electricity and to deliver surplus electricity. For any given demand required by the users, a great number of operating conditions are possible. The operational mode with the lowest variable cost is obtained through a linear programming model. Three different approaches to determine the costs of internal flows and final products of the simple trigeneration systems are presented: marginal costs corresponding to optimal operation, costs obtained when production costs are distributed to the final products according to their market prices, and internal costs corresponding to a thermoeconomic analysis of the operation mode of the system. As expected, the costs obtained with the approaches mentioned are different and it can be concluded that there are no general rules to decide which approach is best: it depends on the issue under investigation.

    • This paper is an updated version of a paper published in the ECOS'08 proceedings. 

  11. Simple Models of Many-Fermion Systems

    CERN Document Server

    Maruhn, Joachim Alexander; Suraud, Eric

    2010-01-01

    The purpose of this book is to provide a pedestrians route to the physics of many-particle systems. The material is developed along simple and generic models which allow to illuminate the basic mechanisms beyond each approach and which apply to broad variety of systems in different areas of physics and chemistry. The book is sorted in steps of slowly increasing complexity of the models. Complementing numerical tools help to carry on where analytical methods reach their limits. They provide at the same time a useful training for the typical numerical methods in many-body physics. In order to confine the huge field, we shall focus the discussions on finite systems wherefrom we take the examples of applications. This covers nuclei, atoms, molecules and clusters. The idea of this book is to concentrate first on the generic, robust and simple, approaches and show how they apply to several domains across the specific disciplines. On the other hand, we aim to establish contact with actual research by carrying forth ...

  12. Flexibility of Protein Secondary Structures

    Science.gov (United States)

    Emberly, Eldon; Mukhopadhyay, Ranjan; Tang, Chao; Wingreen, Ned

    2004-03-01

    Proteins consist of compact packings of secondary structural elements: helices and sheets comprised of strands. The deformations of these structures often play an important role in determining the final shape of the protein (i.e. coiled coils or beta-barrels). We have performed a principal component analysis on secondary structural elements extracted from the protein structure database to determine their flexible modes. For helices we find only two dominant internal modes: bend and twist. Sheets also only display two dominant modes: in-sheet bend and a spiral twist. We report on the scaling of these modes with secondary element size. For helices, the dynamic normal modes of a simple spring model are able to recapitulate the modes and scalings found. For sheets, we find different scaling behaviors for parallel and anti-parallel sheets and these differences can not be accounted for using a simple spring model.

  13. Proteins aggregation and human diseases

    Science.gov (United States)

    Hu, Chin-Kun

    2015-04-01

    Many human diseases and the death of most supercentenarians are related to protein aggregation. Neurodegenerative diseases include Alzheimer's disease (AD), Huntington's disease (HD), Parkinson's disease (PD), frontotemporallobar degeneration, etc. Such diseases are due to progressive loss of structure or function of neurons caused by protein aggregation. For example, AD is considered to be related to aggregation of Aβ40 (peptide with 40 amino acids) and Aβ42 (peptide with 42 amino acids) and HD is considered to be related to aggregation of polyQ (polyglutamine) peptides. In this paper, we briefly review our recent discovery of key factors for protein aggregation. We used a lattice model to study the aggregation rates of proteins and found that the probability for a protein sequence to appear in the conformation of the aggregated state can be used to determine the temperature at which proteins can aggregate most quickly. We used molecular dynamics and simple models of polymer chains to study relaxation and aggregation of proteins under various conditions and found that when the bending-angle dependent and torsion-angle dependent interactions are zero or very small, then protein chains tend to aggregate at lower temperatures. All atom models were used to identify a key peptide chain for the aggregation of insulin chains and to find that two polyQ chains prefer anti-parallel conformation. It is pointed out that in many cases, protein aggregation does not result from protein mis-folding. A potential drug from Chinese medicine was found for Alzheimer's disease.

  14. Protein Structure

    Science.gov (United States)

    Asmus, Elaine Garbarino

    2007-01-01

    Individual students model specific amino acids and then, through dehydration synthesis, a class of students models a protein. The students clearly learn amino acid structure, primary, secondary, tertiary, and quaternary structure in proteins and the nature of the bonds maintaining a protein's shape. This activity is fun, concrete, inexpensive and…

  15. Protein science research in China

    Institute of Scientific and Technical Information of China (English)

    Ming Sun; Rui-Ming Xu

    2010-01-01

    @@ Proteins are major executors of life processes, carrying out essential and nonessential functions inside and outside of the cell, in species ranging from simple unicellular organisms to mammals. Thus, not surpris-ingly, studies of structure and function of proteins span the entire spectrum of molecular biology and modern biomedical sciences in general. Due to historical rea-sons, protein science research in China was isolated and limited in scope until late 1970s. In the last two decades,China has seen an outburst of research activities,government initiatives, and aggregation of human talents in protein science research. This article provides an overview of major initiatives in research funding, invest-ment in infrastructures, and research forces for protein science research in China.

  16. Simple and Sensitive Detection of HBsAg by Using a Quantum Dots Nanobeads Based Dot-Blot Immunoassay

    OpenAIRE

    Zhang, Pengfei; Lu, Huiqi; Chen, Jia; HAN, HUANXING; MA, Wei

    2014-01-01

    Simple and sensitive detection of infectious disease at an affordable cost is urgently needed in developing nations. In this regard, the dot blot immunoassay has been used as a common protein detection method for detection of disease markers. However, the traditional signal reporting systems, such as those using enzymes or gold nanoparticles lack sensitivity and thus restrict the application of these methods for disease detection. In this study, we report a simple and sensitive detection meth...

  17. Discovering and Mining Links for Protein Databases

    OpenAIRE

    A.Immaculate Mercy; Padmavathi, S.

    2014-01-01

    protein database or a relational database generalizing simple correspondence analysis. It is based on extracting the links to the related protein database and malfunctioned protein database. The datasets are trained in order to find out missing interactions and the sequences related to them. Further the analysis of links proceeds by performing a random walk defining a Markov chain. The elements of interest a...

  18. Silver staining of proteins in polyacrylamide gels

    OpenAIRE

    Chevallet, Mireille; Luche, Sylvie; Rabilloud, Thierry

    2006-01-01

    International audience Silver staining is used to detect proteins after electrophoretic separation on polyacrylamide gels. It combines excellent sensitivity (in the low nanogram range) with the use of very simple and cheap equipment and chemicals. It is compatible with downstream processing, such as mass spectrometry analysis after protein digestion. The sequential phases of silver staining are protein fixation, then sensitization, then silver impregnation and finally image development. Se...

  19. Novel Technology for Protein-Protein Interaction-based Targeted Drug Discovery

    Directory of Open Access Journals (Sweden)

    Jung Me Hwang

    2011-12-01

    Full Text Available We have developed a simple but highly efficient in-cell protein-protein interaction (PPI discovery system based on the translocation properties of protein kinase C- and its C1a domain in live cells. This system allows the visual detection of trimeric and dimeric protein interactions including cytosolic, nuclear, and/or membrane proteins with their cognate ligands. In addition, this system can be used to identify pharmacological small compounds that inhibit specific PPIs. These properties make this PPI system an attractive tool for screening drug candidates and mapping the protein interactome.

  20. Oriented Protein Nanoarrays on Block Copolymer Template.

    Science.gov (United States)

    Shen, Lei; Zhu, Jintao

    2016-03-01

    Here, a simple yet robust method is developed to fabricate oriented protein nanoarrays by employing a block copolymer (BCP) template, which presents nano-scaled spot areas at high-density arrays. Unlike the conventional BCP nanolithography, the BCP platform described here resists nonspecific protein adsorption and prevents the denaturation of immobilized proteins in aqueous solution. The orderly arranged array areas are functionalized by linking chemistry which allows for the precise control of protein orientation. This approach allows us to generate potentially oriented protein nanoarrays at high-density array spots, which is useful for miniaturized nanoarrays within high-throughput proteomic applications. PMID:26785818

  1. A simple physical model predicts small exon length variations.

    Directory of Open Access Journals (Sweden)

    2006-04-01

    Full Text Available One of the most common splice variations are small exon length variations caused by the use of alternative donor or acceptor splice sites that are in very close proximity on the pre-mRNA. Among these, three-nucleotide variations at so-called NAGNAG tandem acceptor sites have recently attracted considerable attention, and it has been suggested that these variations are regulated and serve to fine-tune protein forms by the addition or removal of a single amino acid. In this paper we first show that in-frame exon length variations are generally overrepresented and that this overrepresentation can be quantitatively explained by the effect of nonsense-mediated decay. Our analysis allows us to estimate that about 50% of frame-shifted coding transcripts are targeted by nonsense-mediated decay. Second, we show that a simple physical model that assumes that the splicing machinery stochastically binds to nearby splice sites in proportion to the affinities of the sites correctly predicts the relative abundances of different small length variations at both boundaries. Finally, using the same simple physical model, we show that for NAGNAG sites, the difference in affinities of the neighboring sites for the splicing machinery accurately predicts whether splicing will occur only at the first site, splicing will occur only at the second site, or three-nucleotide splice variants are likely to occur. Our analysis thus suggests that small exon length variations are the result of stochastic binding of the spliceosome at neighboring splice sites. Small exon length variations occur when there are nearby alternative splice sites that have similar affinity for the splicing machinery.

  2. A SIMPLE EXPERIMENTAL MODEL OF HEAT SHOCK RESPONSE IN RATS

    Directory of Open Access Journals (Sweden)

    Tufi Neder Meyer

    1998-10-01

    Full Text Available Objective: To obtain a simple model for the elicitation of the heat shock response in rats. Design: Laboratory study. Setting: University research laboratories. Sample: Seventy-nine adult male albino rats (weight range 200 g to 570 g. Procedures: Exposure to heat stress by heating animals in a warm bath for 5 min after their rectal temperatures reached 107.60 F (420 C. Liver and lung samples were collected for heat-shock protein 70 (HSP70 detection (Western analysis. Results: Western analysis was positive for HSP70 in the liver and in the lungs of heated animals. There was a temporal correlation between heating and HSP70 detection: it was strongest 1 day after heating and reduced afterwards. No heated animals died. Conclusion: These data show that heating rats in a warm (45o C bath, according to parameters set in this model, elicits efficiently the heat shock response.OBJETIVO: Obter um modelo simples para tentar esclarecer a resposta ao choque térmico em ratos. LOCAL: Laboratório de pesquisa da Universidade. MÉTODO: Amostra: 79 ratos albinos, adultos, entre 200g a 570g. Procedimentos: Exposição ao calor, em banho quente, por 5 minutos, após a temperatura retal chegar a 42 graus centigrados. Biópsias de fígado e pulmão foram obtidas para detectar a proteina 70 (HSP 70, pelo "Western blot". RESULTADOS: As análises foram positivas nos animais aquecidos, com uma correlação entre aquecimento e constatação da HSP 70. Foi mais elevada no primeiro dia e não houve óbitos nos animais aquecidos. CONCLUSÃO: Os ratos aquecidos a 45 graus centígrados respondem eficientemente ao choque térmico.

  3. Tau protein

    DEFF Research Database (Denmark)

    Frederiksen, Jette Lautrup Battistini; Kristensen, Kim; Bahl, Jmc;

    2011-01-01

    Background: Tau protein has been proposed as biomarker of axonal damage leading to irreversible neurological impairment in MS. CSF concentrations may be useful when determining risk of progression from ON to MS. Objective: To investigate the association between tau protein concentration and 14...... the Department of Neurology of Glostrup Hospital, University of Copenhagen, Denmark, were included. CSF samples were analysed for tau protein and 14-3-3 protein, and clinical and paraclinical information was obtained from medical records. Results: The study shows a significantly increased...... concentration of tau protein in CSF from patients with relapsing-remitting MS and patients monosymptomatic at onset who progressed to MS, but interestingly no increased tau protein concentration in monosymptomatic ON. The concentration of tau protein was significantly correlated to Expanded Disability Status...

  4. The Structure of gr-simple Rings

    Institute of Scientific and Technical Information of China (English)

    朱彬

    2003-01-01

    A characterization of gr-simple rings is given by using the notion of componentwise-dense subrings of a full matrix ring over a division ring. As a conse-quence, any G-graded full matrix ring over a division ring is isomorphic to a dense subring of a full matrix ring with a good G-grading. Some conditions for a grading of a full matrix ring to be isomorphic to a good one are given, which generalize some results in: Dáscáscu, S., Lon, B., Niǎstǎsescu, C. and Montes, J. R., Group gradingson full matrix rings, J. Algebra, 220(1999), 709-728.

  5. Wobbling geometry in simple triaxial rotor

    CERN Document Server

    Shi, W X

    2014-01-01

    The spectroscopy properties and angular momentum geometry for the wobbling motion of a simple triaxial rotor are investigated within the triaxial rotor model up to spin $I=40\\hbar$. The obtained exact solutions of energy spectra and reduced quadrupole transition probabilities are compared to the approximate analytic solutions by harmonic approximation formula and Holstein-Primakoff formula. It is found that the low lying wobbling bands can be well described by the analytic formulas. The evolution of the angular momentum geometry as well as the $K$-distribution with respect to the rotation and the wobbling phonon excitation are studied in detail. It is demonstrated that with the increasing of wobbling phonon number, the triaxial rotor changes its wobbling motions along the axis with the largest moment of inertia to the axis with the smallest moment of inertia. In this process, a specific evolutionary track that can be used to depict the motion of a triaxial rotating nuclei is proposed.

  6. A Simple Weighing Method for Spherical Cells.

    Science.gov (United States)

    Zhao, Qili; Shirinzadeh, Bijan; Cui, Maosheng; Sun, Mingzhu; Zhao, Xin

    2015-08-01

    This article presents a simple weighing method for spherical cells to avoid the high cost of correlated devices in traditional cell-weighing methods. In this method, the constant falling speeds of the spherical objects in liquid are derived to estimate their masses online. Using this method, the detected density of one type of microbead is highly in accordance with the known value. This method is proved to be capable of detecting tiny variations of the cell mass (at least within 1% of the cell mass). Finally, the proposed method is applied in nuclear transplantation operations, and, for the first time, the proper amount of the removed cytoplasm in porcine enucleation is estimated. The proposed method is able to weigh cells with a success rate of 92% at an average speed of 22 s/cell, and it can be performed on traditional microoperation systems, which makes it easily applicable in biological applications. PMID:25911396

  7. Centralizers in simple locally finite groups

    Directory of Open Access Journals (Sweden)

    Mahmut Kuzucuoğlu

    2013-03-01

    Full Text Available This is a survey article on centralizers of finitesubgroups in locally finite, simple groups or LFS-groups as wewill call them. We mention some of the open problems aboutcentralizers of subgroups in LFS-groups and applications of theknown information about the centralizers of subgroups to thestructure of the locally finite group. We also prove thefollowing: Let $G$ be a countably infinite non-linear LFS-groupwith a Kegel sequence $mathcal{K}={(G_i,N_i | iinmathbf{N} }$. If there exists an upper bound for ${ |N_i| |iin mathbf{N} }$, then for any finite semisimplesubgroup $F$ in $G$ the subgroup $C_G(F$ has elements oforder $p_i$ for infinitely many distinct prime $p_i$. Inparticular $C_G(F$ is an infinite group. This answers Hartley'squestion provided that there exists a bound on ${ |N_i| | iin mathbf{N}$.

  8. Perturbed panel flutter : a simple model

    International Nuclear Information System (INIS)

    The effects of small periodic disturbances on the response of a two-degree-of-freedom, non-conservative, mechanical system are analyzed. The system is a simple model for panel flutter. The disturbance simulates the pressure fluctuations of a turbulent boundary layer on the panel. Asymptotic expansions of the solutions are obtained for small amplitude disturbances. The qualitative features of the response depend on the prescribed variation of the disrurbance frequency with the magnitude of the non-conservative applied force. The disturbance can induce a smooth transition to the fluttering states of the rods; or it may induce jump transitions. The results suggest a possible technique for delaying panel flutter, by applying periodic forcing functions with appropriate frequencies. (Author)

  9. Simple Lie groups without the approximation property

    DEFF Research Database (Denmark)

    Haagerup, Uffe; de Laat, Tim

    2013-01-01

    For a locally compact group G, let A(G) denote its Fourier algebra, and let M0A(G) denote the space of completely bounded Fourier multipliers on G. The group G is said to have the Approximation Property (AP) if the constant function 1 can be approximated by a net in A(G) in the weak-∗ topology...... on the space M0A(G). Recently, Lafforgue and de la Salle proved that SL(3,R) does not have the AP, implying the first example of an exact discrete group without it, namely, SL(3,Z). In this paper we prove that Sp(2,R) does not have the AP. It follows that all connected simple Lie groups with finite center...

  10. Simple chloride sensors for continuous groundwater monitoring

    DEFF Research Database (Denmark)

    Thorn, Paul; Mortensen, John

    2012-01-01

    The development of chloride sensors which can be used for continuous, on-line monitoring of groundwater could be very valuable in the management of our coastal water resources. However, sensor stability, drift, and durability all need to be addressed in order for the sensors to be used in continu......The development of chloride sensors which can be used for continuous, on-line monitoring of groundwater could be very valuable in the management of our coastal water resources. However, sensor stability, drift, and durability all need to be addressed in order for the sensors to be used...... sensor remained responsive even at low chloride concentrations, where the conductivity electrode was no longer responding to changing chloride levels. With the results, it is believed that the simple chloride sensor could be used for continuous monitoring of groundwater quality....

  11. A simple electron-beam lithography system

    DEFF Research Database (Denmark)

    Mølhave, Kristian; Madsen, Dorte Nørgaard; Bøggild, Peter

    2005-01-01

    A large number of applications of electron-beam lithography (EBL) systems in nanotechnology have been demonstrated in recent years. In this paper we present a simple and general-purpose EBL system constructed by insertion of an electrostatic deflector plate system at the electron-beam exit of the...... column of a scanning electron microscope (SEM). The system can easily be mounted on most standard SEM systems. The tested setup allows an area of up to about 50 x 50 pm to be scanned, if the upper limit for acceptable reduction of the SEM resolution is set to 10 run. We demonstrate how the EBL system can...... be used to write three-dimensional nanostructures by electron-beam deposition. (C) 2004 Elsevier B.V. All rights reserved....

  12. A Small Deformation of a Simple Theory

    CERN Document Server

    Buican, Matthew

    2016-01-01

    We study an interesting relevant deformation of the simplest interacting N=2 SCFT---the original Argyres-Douglas (AD) theory. We argue that, although this deformation is not strictly speaking Banks-Zaks like (certain operator dimensions change macroscopically), there are senses in which it constitutes a mild deformation of the parent AD theory: the exact change in the "a" anomaly is small and is essentially saturated at one loop. Moreover, contributions from IR operators that have a simple description in the UV theory reproduce a particular limit of the IR index to a remarkably high order. These results lead us to conclude that the IR theory is an N=1 SCFT with the smallest-known "a" and "c" central charges for an interacting SCFT in four dimensions.

  13. Density fluctuations in simple stochastic reactor models

    International Nuclear Information System (INIS)

    A method to study density fluctuations in a nuclear reactor simultaneously taking into account intrinsic fluctuations usually modelled by a master equation and parametric noise usually modelled by stochastic kinetic equations is presented. The mean density and density-fluctuations variance are calculated for a simple point-reactor model in the presence of Gaussian white-noise fluctuations in the fission, capture and source event rates. They are also calculated in the case of dichotomous noise fluctuations in the source event rate. 'Crossed fluctuation' contributions to the density fluctuations are found that only appear when considering simultaneously intrinsic and parametric noise. These contributions allow distinction to be made between reactivity fluctuations due to fission-rate and capture-rate fluctuations. (author)

  14. iPad 2 Made Simple

    CERN Document Server

    Mazo, Gary; Ritchie, Rene

    2011-01-01

    The iPad 2 is thinner, more powerful, intuitive and very fun for users of all ages. Your iPad can be used for reading, surfing the web, emailing, watching TV and movies, getting work done and much more. And with over 65,000 apps just for the iPad, as well as the ability to run over 30,000 iPhone apps, the possibilities are endless. iPad 2 Made Simple clarifies all of the key features on the iPad, introduces what's new, and also reveals dozens of time-saving shortcuts and techniques. The book has over 1,000 screen shots that are carefully annotated with step-by-step instructions. * Clear instru

  15. Simple methods for radiodating of limnological sediments

    International Nuclear Information System (INIS)

    New radiological routine methods for detecting sediment deposits and for absolute dating of sediment layers were developed and tested on the banks of a river of the Ruhr district (Lippe). The remarkably simple methods improve the well-known excess-210Pb-dating for the use to rivers in industrial regions and allow the preparation of load histories (chronologies) for the years since 1900 with a mean standard deviation less than 3 years. The chronologies of load with radionuclides of thorium, radium, lead and cesium are shown; preliminary chemical measurements for lead, zinc, arsenic, mercury, cadmium, barium, dioxins, PCB and EOX are reported. The new methods of dating are especially suitable for rivers with radioactivity from mines e.g. Mulde, Elbe and Oder. (orig.)

  16. A Simple Holographic Model of Nonlinear Conductivity

    CERN Document Server

    Horowitz, Gary T; Santos, Jorge E

    2013-01-01

    We present a simple analytic gravitational solution which describes the holographic dual of a 2+1-dimensional conductor which goes beyond the usual linear response. In particular it includes Joule heating. We find that the nonlinear frequency-dependent conductivity is a constant. Surprisingly, the pressure remains isotropic. We also apply an electric field to a holographic insulator and show that there is a maximum electric field below which it can remain an insulator. Above this critical value, we argue that it becomes a conductor due to pair creation of charged particles. Finally, we study 1+1 and 3+1 dimensional conductors at the nonlinear level; here exact solutions are not available and a perturbative analysis shows that the current becomes time dependent, but in a way that is captured by a time-dependent effective temperature.

  17. A simple law of star formation

    DEFF Research Database (Denmark)

    Padoan, Paolo; Haugbølle, Troels; Nordlund, Åke

    2012-01-01

    We show that supersonic MHD turbulence yields a star formation rate (SFR) as low as observed in molecular clouds, for characteristic values of the free-fall time divided by the dynamical time, t ff/t dyn, the Alfvénic Mach number, {\\cal M}_a, and the sonic Mach number, {\\cal M}_s. Using a very...... {\\cal M}_a by less than a factor of two. We propose a simple star formation law, based on the empirical fit to the minimum epsilonff, and depending only on t ff/t dyn: epsilonff ˜ epsilonwindexp (– 1.6 t ff/t dyn). Because it only depends on the mean gas density and rms velocity, this law is...

  18. Swarming behavior of simple model squirmers

    Energy Technology Data Exchange (ETDEWEB)

    Thutupalli, Shashi; Seemann, Ralf; Herminghaus, Stephan, E-mail: shashi.thutupalli@ds.mpg.de, E-mail: stephan.herminghaus@ds.mpg.de [Max Planck Institute for Dynamics and Self-Organization, Bunsenstrasse 10, 37073 Goettingen (Germany)

    2011-07-15

    We have studied experimentally the collective behavior of self-propelling liquid droplets, which closely mimic the locomotion of some protozoal organisms, the so-called squirmers. For the sake of simplicity, we concentrate on quasi-two-dimensional (2D) settings, although our swimmers provide a fully 3D propulsion scheme. At an areal density of 0.46, we find strong polar correlation of the locomotion velocities of neighboring droplets, which decays over less than one droplet diameter. When the areal density is increased to 0.78, distinct peaks show up in the angular correlation function, which point to the formation of ordered rafts. This shows that pronounced textures, beyond what has been seen in simulations so far, may show up in crowds of simple model squirmers, despite the simplicity of their (purely physical) mutual interaction.

  19. Simple nonlinear models suggest variable star universality

    CERN Document Server

    Lindner, John F; Kia, Behnam; Hippke, Michael; Learned, John G; Ditto, William L

    2015-01-01

    Dramatically improved data from observatories like the CoRoT and Kepler spacecraft have recently facilitated nonlinear time series analysis and phenomenological modeling of variable stars, including the search for strange (aka fractal) or chaotic dynamics. We recently argued [Lindner et al., Phys. Rev. Lett. 114 (2015) 054101] that the Kepler data includes "golden" stars, whose luminosities vary quasiperiodically with two frequencies nearly in the golden ratio, and whose secondary frequencies exhibit power-law scaling with exponent near -1.5, suggesting strange nonchaotic dynamics and singular spectra. Here we use a series of phenomenological models to make plausible the connection between golden stars and fractal spectra. We thereby suggest that at least some features of variable star dynamics reflect universal nonlinear phenomena common to even simple systems.

  20. Dynamics of a Simple Evolutionary Process

    Science.gov (United States)

    Stauffer, Dietrich; Newman, M. E. J.

    We study the simple evolutionary process in which we repeatedly find the least fit agent in a population of agents and give it a new fitness, which is chosen independently at random from a specified distribution. We show that many of the average properties of this process can be calculated exactly using analytic methods. In particular, we find the distribution of fitnesses at arbitrary time, and the distribution of the lengths of runs of hits on the same agent, the latter being found to follow a power law with exponent -1, similar to the distribution of times between evolutionary events in the Bak-Sneppen model and models based on the so-called record dynamics. We confirm our analytic results with extensive numerical simulations.

  1. Mesmer et Mozart: un rapport (apparemment simple

    Directory of Open Access Journals (Sweden)

    Stile, Alessandro

    2011-12-01

    Full Text Available [Mesmer and Mozart: an (apparently simple relationship]. Moving from the evidences in the correspondence of the Mozart family, who used to attend the house of Anton Mesmer, the paper examines the relationship between W.A. Mozart and the German physician. Mozart was probably a direct witness of some cases in which “animal magnetism” was applied. The parodistic outline of magnetism in a famous scene of "Così fan tutte" was probably inspired by Mesmer’s professional and private vicissitudes as well as Mozart’s experience. A more underground aspect of the relationship can be seen though. With regard to Così fan tutte it is possible to outline a kind of analogy between the link among the individuals claimed by the magnetism and the passions evoked in Mozart’s work, that go beyond the conventions and are designed to change the very setting of the vocal style of the XIX century.

  2. Multiple equilibria in a simple elastocapillary system

    KAUST Repository

    Taroni, Michele

    2012-09-28

    We consider the elastocapillary interaction of a liquid drop placed between two elastic beams, which are both clamped at one end to a rigid substrate. This is a simple model system relevant to the problem of surface-tension-induced collapse of flexible micro-channels that has been observed in the manufacture of microelectromechanical systems (MEMS). We determine the conditions under which the beams remain separated, touch at a point, or stick along a portion of their length. Surprisingly, we show that in many circumstances multiple equilibrium states are possible. We develop a lubrication-type model for the flow of liquid out of equilibrium and thereby investigate the stability of the multiple equilibria. We demonstrate that for given material properties two stable equilibria may exist, and show via numerical solutions of the dynamic model that it is the initial state of the system that determines which stable equilibrium is ultimately reached. © 2012 Cambridge University Press.

  3. A simple EHF hemispheric coverage antenna

    Science.gov (United States)

    Lee, J. C.

    1994-08-01

    A circulary polarized, axially symmetric, wide-beam radiator is required in many applications, including TT&C for UAV's and satellites. This report discusses some existing wide-beam antenna designs including divergent lenses and reflectors and introduces a new antenna design. Using a simple dielectric ring in conjunction with a dielectric loaded circular waveguide opening, a near ideal, axially symmetric, hemispheric coverage antenna with circular polarization of good axial ratio and wide-band impedance match is realized. Mechanically, the antenna is small, lightweight, and low cost. The dielectric used is the common Rexolite. Since no lossy materials or resonant scatterers are used, the antenna performance is inherently broadband and low loss. A K sub a-band prototype as well as compact designs for both Q- and K-bands are described.

  4. Learning from correlated patterns by simple perceptrons

    International Nuclear Information System (INIS)

    Learning behavior of simple perceptrons is analyzed for a teacher-student scenario in which output labels are provided by a teacher network for a set of possibly correlated input patterns, and such that the teacher and student networks are of the same type. Our main concern is the effect of statistical correlations among the input patterns on learning performance. For this purpose, we extend to the teacher-student scenario a methodology for analyzing randomly labeled patterns recently developed in Shinzato and Kabashima 2008 J. Phys. A: Math. Theor. 41 324013. This methodology is used for analyzing situations in which orthogonality of the input patterns is enhanced in order to optimize the learning performance

  5. Simple sequence repeats in bryophyte mitochondrial genomes.

    Science.gov (United States)

    Zhao, Chao-Xian; Zhu, Rui-Liang; Liu, Yang

    2016-01-01

    Simple sequence repeats (SSRs) are thought to be common in plant mitochondrial (mt) genomes, but have yet to be fully described for bryophytes. We screened the mt genomes of two liverworts (Marchantia polymorpha and Pleurozia purpurea), two mosses (Physcomitrella patens and Anomodon rugelii) and two hornworts (Phaeoceros laevis and Nothoceros aenigmaticus), and detected 475 SSRs. Some SSRs are found conserved during the evolution, among which except one exists in both liverworts and mosses, all others are shared only by the two liverworts, mosses or hornworts. SSRs are known as DNA tracts having high mutation rates; however, according to our observations, they still can evolve slowly. The conservativeness of these SSRs suggests that they are under strong selection and could play critical roles in maintaining the gene functions. PMID:24491104

  6. A Simple Sag Generator Using SSRs

    DEFF Research Database (Denmark)

    Senturk, Osman Selcuk; Hava, Ahmet M.

    2010-01-01

    conditions (critical loads) and this property often may not be accommodated inside the device itself and sag compensating power conditioners have been developed for such purposes. While in practice voltage sags are not wanted, generating sags becomes necessary for the purpose of experimentally verifying the...... performances of the equipment (both the equipment under sag condition and the sag compensating power conditioner) under sag conditions. In this work, a simple and economical, yet highly performing sag generator is developed, its design discussed, and its feasibility demonstrated by experiments. The proposed...... evaluated and finally the utilization of the sag generator in the test of a series active filter based power quality conditioner is demonstrated. The proposed approach provides an effective solution for voltage sag generation....

  7. Recursion Versus Replication in Simple Cryptographic Protocols

    DEFF Research Database (Denmark)

    Hüttel, Hans; Srba, Jiri

    2005-01-01

    We use some very recent techniques from process algebra to draw interesting conclusions about the well studied class of ping-pong protocols introduced by Dolev and Yao. In particular we show that all nontrivial properties, including reachability and equivalence checking wrt. the whole van Glabbeek......'s spectrum, become undecidable for a very simple recursive extension of the protocol. The result holds even if no nondeterministic choice operator is allowed. We also show that the extended calculus is capable of an implicit description of the active intruder, including full analysis and synthesis of...... messages in the sense of Amadio, Lugiez and Vanackere. We conclude by showing that reachability analysis for a replicative variant of the protocol becomes decidable....

  8. Recursion vs. Replication in Simple Cryptographic Protocols

    DEFF Research Database (Denmark)

    Huttel, Hans; Srba, Jiri

    2005-01-01

    We use some recent techniques from process algebra to draw several conclusions about the well studied class of ping-pong protocols introduced by Dolev and Yao. In particular we show that all nontrivial properties, including reachability and equivalence checking wrt. the whole van Glabbeek......'s spectrum, become undecidable for a very simple recursive extension of the protocol. The result holds even if no nondeterministic choice operator is allowed. We also show that the extended calculus is capable of an implicit description of the active intruder, including full analysis and synthesis of...... messages in the sense of Amadio, Lugiez and Vanackere. We conclude by showing that reachability analysis for a replicative variant of the protocol becomes decidable....

  9. Interpolation method in simple computed tomography scanner

    Science.gov (United States)

    Wiguna, Gede A.

    2015-03-01

    A method for sinogram data interpolation based on a sinusoidal pattern in computed tomography has been developed. Sampled sinograms were acquired based on angular interval scanning of 5o, 10o, and 20o. Then each resulted sinogram was interpolated following sinusoidal pattern to make a complete full scanning sinogram as if they were sampled at 1o. After that, a formal summation convolved filtered back projection was applied to each sinogram to yield a crosssectional image. This method was successfully interpolated limited number of projections data to obtained complete sinogram. It works for simple and homogenous object. However, for high variation of physical properties, e.g. linear attenuation coefficient values, this method needs more consideration on interpolation strategies to produce good image.

  10. A simple and reproducible capacitive electrode.

    Science.gov (United States)

    Spinelli, Enrique; Guerrero, Federico; García, Pablo; Haberman, Marcelo

    2016-03-01

    Capacitive Electrodes (CE) allow the acquisition of biopotentials through a dielectric layer, without the use of electrolytes, just by placing them on skin or clothing, but demands front-ends with ultra-high input impedances. This must be achieved while providing a path for bias currents, calling for ultra-high value resistors and special components and construction techniques. A simple CE that uses bootstrap techniques to avoid ultra-high value components and special materials is proposed. When electrodes are placed on the skin; that is, with coupling capacitances CS of around 100 pF, they present a noise level of 3.3 µVRMS in a 0.5-100 Hz bandwidth, which is appropriate for electrocardiography (ECG) measurements. Construction details of the CE and the complete circuit, including a fast recovery feature, are presented. PMID:26792172

  11. A simple apparatus for electrostatic force measurement

    Science.gov (United States)

    Hale, D. P.

    1981-01-01

    Electrostatic attraction can explain as a first approximation the binding of ionic solids. One of the two reasons for constructing the apparatus described was to demonstrate that electrostatic forces can be large, thus giving at least some plausibility to the theory of ionic solids. Secondly, it is an attempt to create a cheap and simple apparatus for measuring these forces and relating them to other physical quantities. An apparatus giving similar results of some precision has already been described (Hale 1978a). That was constructed by skilled instrument makers for undergraduate teaching, cost several hundred pounds and needed a considerable amount of time to iron out the problems encountered. The present apparatus was made in a few hours largely from scrap and using only ordinary hand tools. Although it is somewhat crude, quite acceptable results can be obtained from it. It could be used to advantage in courses dealing with fields and potential for example Nuffield advanced physics, unit 3.

  12. FSM Model of a Simple Photovoltaic System

    Directory of Open Access Journals (Sweden)

    Martina Latkova

    2015-01-01

    Full Text Available The paper describes a simulation model of a simple photovoltaic system intended as a tool for testing the use of finite state machines for simulations representing a long-term operation of renewable energy sources. The mathematical model of the photovoltaic system is described first. Then it is used to build a finite state machine model that calculates a power output of the photovoltaic system for changing values of a solar irradiance and a temperature. Data measured on a real photovoltaic installation are used to verify model’s accuracy through its comparison with a previously created and verified Matlab model. The finite state machine model presented in this paper was created using Ptolemy II software.

  13. Simple expressions for the long walk distance

    CERN Document Server

    Chebotarev, Pavel; Balaji, R

    2011-01-01

    The walk distances in graphs are defined as the result of appropriate transformations of the $\\sum_{k=0}^\\infty(tA)^k$ proximity measures, where $A$ is the weighted adjacency matrix of a connected weighted graph and $t$ is a sufficiently small positive parameter. The walk distances are graph-geodetic, moreover, they converge to the shortest path distance and to the so-called long walk distance as the parameter $t$ approaches its limiting values. In this paper, simple expressions for the long walk distance are obtained. They involve the generalized inverse, minors, and inverses of submatrices of the symmetric irreducible singular M-matrix ${\\cal L}=\\rho I-A,$ where $\\rho$ is the Perron root of $A.$

  14. Simple device for treating prolapsing loop colostomy.

    Science.gov (United States)

    Hsieh, Ming-Yu; Liu, Chinsu; Ho, Shin-Huei; Wung, Shin-Huev; Chin, Taiwai; Wei, Choufu

    2006-03-01

    Stoma prolapse is a common complication of intestinal stoma. Although various surgical methods yield satisfactory results, nonsurgical treatment may be better for a temporary stoma. We report a case of a patient with a distal limb prolapse of a right transverse colostomy who received nonsurgical treatment with satisfactory results. For the treatment of a temporary transverse loop colostomy with distal limb prolapse, we designed a simple device consisting of a pediatric plastic medicine cup, which was rolled into a towel to shape the bottom of the cup into a compressor. The towel was put on the stoma outside of the colostomy bag with the compressor above the prolapsing limb of the colostomy. An abdominal binder was applied to fix the towel. PMID:16599021

  15. Gauge invariance in simple mechanical systems

    International Nuclear Information System (INIS)

    This article discusses and explains the Hamiltonian formulation for a class of simple gauge invariant mechanical systems consisting of point masses and idealized rods. The study of these models may be helpful to advanced undergraduate or graduate students in theoretical physics to understand, in a familiar context, some concepts relevant to the study of classical and quantum field theories. We use a geometric approach to derive the Hamiltonian formulation for the model considered in the paper: four equal masses connected by six ideal rods. We obtain and discuss the meaning of several important elements, in particular, the constraints and the Hamiltonian vector fields that define the dynamics of the system, the constraint manifold, gauge symmetries, gauge orbits, gauge fixing, and the reduced phase space. (papers)

  16. A Simple HCCI Engine Model for Control

    Energy Technology Data Exchange (ETDEWEB)

    Killingsworth, N; Aceves, S; Flowers, D; Krstic, M

    2006-06-29

    The homogeneous charge compression ignition (HCCI) engine is an attractive technology because of its high efficiency and low emissions. However, HCCI lacks a direct combustion trigger making control of combustion timing challenging, especially during transients. To aid in HCCI engine control we present a simple model of the HCCI combustion process valid over a range of intake pressures, intake temperatures, equivalence ratios, and engine speeds. The model provides an estimate of the combustion timing on a cycle-by-cycle basis. An ignition threshold, which is a function of the in-cylinder motored temperature and pressure is used to predict start of combustion. This model allows the synthesis of nonlinear control laws, which can be utilized for control of an HCCI engine during transients.

  17. Versatile microrobotics using simple modular subunits.

    Science.gov (United States)

    Cheang, U Kei; Meshkati, Farshad; Kim, Hoyeon; Lee, Kyoungwoo; Fu, Henry Chien; Kim, Min Jun

    2016-01-01

    The realization of reconfigurable modular microrobots could aid drug delivery and microsurgery by allowing a single system to navigate diverse environments and perform multiple tasks. So far, microrobotic systems are limited by insufficient versatility; for instance, helical shapes commonly used for magnetic swimmers cannot effectively assemble and disassemble into different size and shapes. Here by using microswimmers with simple geometries constructed of spherical particles, we show how magnetohydrodynamics can be used to assemble and disassemble modular microrobots with different physical characteristics. We develop a mechanistic physical model that we use to improve assembly strategies. Furthermore, we experimentally demonstrate the feasibility of dynamically changing the physical properties of microswimmers through assembly and disassembly in a controlled fluidic environment. Finally, we show that different configurations have different swimming properties by examining swimming speed dependence on configuration size. PMID:27464852

  18. Simple operated multipurpose temperature control cryostat

    Institute of Scientific and Technical Information of China (English)

    ABBAS T.A.; OMAR M.S.

    2007-01-01

    A suitable simple optical cryostat for optical, magneto-optical, electrical and thermo-electrical measurements was designed. It is suitable for use in a magnetic pool gap as narrow as less than 1 cm. Throughout a long period of time, the heat diffusion process of the cryostat can be easily operated at slow increase in sample temperature in a range 1.25 K/min at 200 K that will be reduced gradually to 0.66 K at room temperature. Liquid nitrogen was used to cool down the temperature. During the operation, the change in the measured energy gap of a semiconductor sample and other physical parameters resulting from the change of temperature can be corrected through the temperature coefficient of that parameter at the corresponding temperature.The cryostat was successfully used for all experiments mentioned above to measure the properties of a single crystal of GaP (Gallium Phosphate) semiconductor.

  19. SIMPLE QUALITY ASSESSMENT FOR BINARY IMAGES

    Institute of Scientific and Technical Information of China (English)

    Zhang Chun'e; Qiu Zhengding

    2007-01-01

    Usually image assessment methods could be classified into two categories: subjective assessments and objective ones. The latter are judged by the correlation coefficient with subjective quality measurement MOS (Mean Opinion Score). This paper presents an objective quality assessment algorithm special for binary images. In the algorithm, noise energy is measured by Euclidean distance between noises and signals and the structural effects caused by noise are described by Euler number change. The assessment on image quality is calculated quantitatively in terms of PSNR (Peak Signal to Noise Ratio). Our experiments show that the results of the algorithm are highly correlative with subjective MOS and the algorithm is more simple and computational saving than traditional objective assessment methods.

  20. Genealogies in simple models of evolution

    International Nuclear Information System (INIS)

    We review the statistical properties of the genealogies of a few models of evolution. In the asexual case, selection leads to coalescence times which grow logarithmically with the size of the population, in contrast with the linear growth of the neutral case. Moreover for a whole class of models, the statistics of the genealogies are those of the Bolthausen–Sznitman coalescent rather than the Kingman coalescent in the neutral case. For sexual reproduction in the neutral case, the time to reach the first common ancestors for the whole population and the time for all individuals to have all their ancestors in common are also logarithmic in the population size, as predicted by Chang in 1999. We discuss how these times are modified by introducing selection in a simple way. (paper)

  1. Lensing and Dynamics in Two Simple Steps

    CERN Document Server

    Agnello, A; Evans, N W

    2012-01-01

    We present a ready-to-use method to constrain the density distribution in early-type galaxy lenses. Assuming a power-law density profile, then joint use of the virial theorem and the lens equation yields simple formulae for the power-law index (or logarithmic density gradient). Any dependence on orbital anisotropy can be tightly constrained or even erased completely. Our results rely just on surface brightnesses and line-of-sight kinematics, making deprojection unnecessary. We revisit three systems that have already been examined in the literature (the Cosmic Horseshoe, the Jackpot and B1608+656) and provide our estimates. Finally, we show that the method yields a good approximation for the density profile even when the true profile is a broken power-law, albeit with a mild bias towards isothermality.

  2. Star clusters as simple stellar populations

    CERN Document Server

    Bruzual, A Gustavo

    2009-01-01

    In this paper, I review to what extent we can understand the photometric properties of star clusters, and of low-mass, unresolved galaxies, in terms of population synthesis models designed to describe `simple stellar populations' (SSPs), i.e., groups of stars born at the same time, in the same volume of space, and from a gas cloud of homogeneous chemical composition. The photometric properties predicted by these models do not readily match the observations of most star clusters, unless we properly take into account the expected variation in the number of stars occupying sparsely populated evolutionary stages, due to stochastic fluctuations in the stellar initial mass function. In this case, population synthesis models reproduce remarkably well the full ranges of observed integrated colours and absolute magnitudes of star clusters of various ages and metallicities. The disagreement between the model predictions and observations of cluster colours and magnitudes may indicate problems with or deficiencies in the...

  3. A simple model of a swing

    Science.gov (United States)

    Mayer, V. V.; Varaksina, E. I.

    2016-07-01

    The paper presents a simple model of a swing meant for undergraduates’ educational experiments. The purpose of these experiments is the experimental study of physical principles of self-oscillations, free, forced and parametric oscillations. The model contains a pendulum. A coil with a movable steel core serves as its load. A neodymium magnet is placed at the lower end of the core. A magnetically operated sealed switch is stationed under the magnet at the equilibrium position of the pendulum. The switch is connected in series with the coil and a battery. If we displace the pendulum from the equilibrium position, the pendulum makes undamped oscillations. The system receives energy every time the core is drawn into the coil at the lower position of the pendulum.

  4. A simple framework for complex system improvement.

    Science.gov (United States)

    Kraft, Sally; Carayon, Pascale; Weiss, Jennifer; Pandhi, Nancy

    2015-05-01

    The need to rapidly improve health care value is unquestioned, but the means to accomplish this task is unknown. Improving performance at the level of the health care organization frequently involves multiple interventions, which must be coordinated and sequenced to fit the specific context. Those responsible for achieving large-scale improvements are challenged by the lack of a framework to describe and organize improvement strategies. Drawing from the fields of health services, industrial engineering, and organizational behavior, a simple framework was developed and has been used to guide and evaluate improvement initiatives at an academic health center. The authors anticipate that this framework will be helpful for health system leaders responsible for improving health care quality. PMID:24723664

  5. Spontaneous oscillations in simple fluid networks

    CERN Document Server

    Karst, Nathaniel J; Geddes, John B

    2013-01-01

    Nonlinear phenomena including multiple equilibria and spontaneous oscillations are common in fluid networks containing either multiple phases or constituent flows. In many systems, such behavior might be attributed to the complicated geometry of the network, the complex rheology of the constituent fluids, or, in the case of microvascular blood flow, biological control. In this paper we investigate two examples of a simple three-node fluid network containing two miscible Newtonian fluids of differing viscosities, the first modeling microvascular blood flow and the second modeling stratified laminar flow. We use a combination of analytic and numerical techniques to identify and track saddle-node and Hopf bifurcations through the large parameter space. In both models, we document sustained spontaneous oscillations and, for an experimentally relevant example of parameter analysis, investigate the sensitivity of these oscillations to changes in the viscosity contrast between the constituent fluids and the inlet fl...

  6. An assay for measurement of protein adsorption to glass vials.

    Science.gov (United States)

    Varmette, Elizabeth; Strony, Brianne; Haines, Daniel; Redkar, Rajendra

    2010-01-01

    Protein adsorption to primary packaging is one of the problems faced by biopharmaceutical drug companies. An assay was developed to quantify loss of proteins to glass vial surfaces. The assay involves the labeling of protein with a fluorescent dye, incubation of the labeled protein with the vial surface, elution of the adsorbed protein using a stripping buffer, and determination of fluorescence of the adsorbed protein using a fluorometer. The assay is simple to set up, accurate, sensitive, and flexible. The assay can be modified for indirect measurement of protein adsorption and offers an attractive alternative for researchers to quantify protein adsorption to glass vials and syringes. PMID:21502031

  7. Simple Check Valves for Microfluidic Devices

    Science.gov (United States)

    Willis, Peter A.; Greer, Harold F.; Smith, J. Anthony

    2010-01-01

    A simple design concept for check valves has been adopted for microfluidic devices that consist mostly of (1) deformable fluorocarbon polymer membranes sandwiched between (2) borosilicate float glass wafers into which channels, valve seats, and holes have been etched. The first microfluidic devices in which these check valves are intended to be used are micro-capillary electrophoresis (microCE) devices undergoing development for use on Mars in detecting compounds indicative of life. In this application, it will be necessary to store some liquid samples in reservoirs in the devices for subsequent laboratory analysis, and check valves are needed to prevent cross-contamination of the samples. The simple check-valve design concept is also applicable to other microfluidic devices and to fluidic devices in general. These check valves are simplified microscopic versions of conventional rubber- flap check valves that are parts of numerous industrial and consumer products. These check valves are fabricated, not as separate components, but as integral parts of microfluidic devices. A check valve according to this concept consists of suitably shaped portions of a deformable membrane and the two glass wafers between which the membrane is sandwiched (see figure). The valve flap is formed by making an approximately semicircular cut in the membrane. The flap is centered over a hole in the lower glass wafer, through which hole the liquid in question is intended to flow upward into a wider hole, channel, or reservoir in the upper glass wafer. The radius of the cut exceeds the radius of the hole by an amount large enough to prevent settling of the flap into the hole. As in a conventional rubber-flap check valve, back pressure in the liquid pushes the flap against the valve seat (in this case, the valve seat is the adjacent surface of the lower glass wafer), thereby forming a seal that prevents backflow.

  8. Simple emission metrics for climate impacts

    Directory of Open Access Journals (Sweden)

    B. Aamaas

    2013-06-01

    Full Text Available In the context of climate change, emissions of different species (e.g., carbon dioxide and methane are not directly comparable since they have different radiative efficiencies and lifetimes. Since comparisons via detailed climate models are computationally expensive and complex, emission metrics were developed to allow a simple and straightforward comparison of the estimated climate impacts of emissions of different species. Emission metrics are not unique and variety of different emission metrics has been proposed, with key choices being the climate impacts and time horizon to use for comparisons. In this paper, we present analytical expressions and describe how to calculate common emission metrics for different species. We include the climate metrics radiative forcing, integrated radiative forcing, temperature change and integrated temperature change in both absolute form and normalised to a reference gas. We consider pulse emissions, sustained emissions and emission scenarios. The species are separated into three types: CO2 which has a complex decay over time, species with a simple exponential decay, and ozone precursors (NOx, CO, VOC which indirectly effect climate via various chemical interactions. We also discuss deriving Impulse Response Functions, radiative efficiency, regional dependencies, consistency within and between metrics and uncertainties. We perform various applications to highlight key applications of emission metrics, which show that emissions of CO2 are important regardless of what metric and time horizon is used, but that the importance of short lived climate forcers varies greatly depending on the metric choices made. Further, the ranking of countries by emissions changes very little with different metrics despite large differences in metric values, except for the shortest time horizons (GWP20.

  9. A simple histone code opens many paths to epigenetics.

    Science.gov (United States)

    Sneppen, Kim; Dodd, Ian B

    2012-01-01

    Nucleosomes can be covalently modified by addition of various chemical groups on several of their exposed histone amino acids. These modifications are added and removed by enzymes (writers) and can be recognized by nucleosome-binding proteins (readers). Linking a reader domain and a writer domain that recognize and create the same modification state should allow nucleosomes in a particular modification state to recruit enzymes that create that modification state on nearby nucleosomes. This positive feedback has the potential to provide the alternative stable and heritable states required for epigenetic memory. However, analysis of simple histone codes involving interconversions between only two or three types of modified nucleosomes has revealed only a few circuit designs that allow heritable bistability. Here we show by computer simulations that a histone code involving alternative modifications at two histone positions, producing four modification states, combined with reader-writer proteins able to distinguish these states, allows for hundreds of different circuits capable of heritable bistability. These expanded possibilities result from multiple ways of generating two-step cooperativity in the positive feedback--through alternative pathways and an additional, novel cooperativity motif. Our analysis reveals other properties of such epigenetic circuits. They are most robust when the dominant nucleosome types are different at both modification positions and are not the type inserted after DNA replication. The dominant nucleosome types often recruit enzymes that create their own type or destroy the opposing type, but never catalyze their own destruction. The circuits appear to be evolutionary accessible; most circuits can be changed stepwise into almost any other circuit without losing heritable bistability. Thus, our analysis indicates that systems that utilize an expanded histone code have huge potential for generating stable and heritable nucleosome

  10. A simple histone code opens many paths to epigenetics.

    Directory of Open Access Journals (Sweden)

    Kim Sneppen

    Full Text Available Nucleosomes can be covalently modified by addition of various chemical groups on several of their exposed histone amino acids. These modifications are added and removed by enzymes (writers and can be recognized by nucleosome-binding proteins (readers. Linking a reader domain and a writer domain that recognize and create the same modification state should allow nucleosomes in a particular modification state to recruit enzymes that create that modification state on nearby nucleosomes. This positive feedback has the potential to provide the alternative stable and heritable states required for epigenetic memory. However, analysis of simple histone codes involving interconversions between only two or three types of modified nucleosomes has revealed only a few circuit designs that allow heritable bistability. Here we show by computer simulations that a histone code involving alternative modifications at two histone positions, producing four modification states, combined with reader-writer proteins able to distinguish these states, allows for hundreds of different circuits capable of heritable bistability. These expanded possibilities result from multiple ways of generating two-step cooperativity in the positive feedback--through alternative pathways and an additional, novel cooperativity motif. Our analysis reveals other properties of such epigenetic circuits. They are most robust when the dominant nucleosome types are different at both modification positions and are not the type inserted after DNA replication. The dominant nucleosome types often recruit enzymes that create their own type or destroy the opposing type, but never catalyze their own destruction. The circuits appear to be evolutionary accessible; most circuits can be changed stepwise into almost any other circuit without losing heritable bistability. Thus, our analysis indicates that systems that utilize an expanded histone code have huge potential for generating stable and heritable

  11. Protein - TP Atlas | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available otein information on other websites. Data file File name: tp_atlas_protein.zip Fi...le URL: ftp://ftp.biosciencedbc.jp/archive/tp_atlas/LATEST/tp_atlas_protein.zip File size: 49.8 KB Simple se...arch URL http://togodb.biosciencedbc.jp/togodb/view/tp_atlas_protein#en Data acquisition method - Data analy

  12. What is the protein design alphabet?

    Science.gov (United States)

    Dokholyan, Nikolay V

    2004-03-01

    Selecting a protein sequence that corresponds to a specific three-dimensional protein structure is known as the protein design problem. One principal bottleneck in solving this problem is our lack of knowledge of precise atomic interactions. Using a simple model of amino acid interactions, we determine three crucial factors that are important for solving the protein design problem. Among these factors is the protein alphabet-a set of sequence elements that encodes protein structure. Our model predicts that alphabet size is independent of protein length, suggesting the possibility of designing a protein of arbitrary length with the natural protein alphabet. We also find that protein alphabet size is governed by protein structural properties and the energetic properties of the protein alphabet units. We discover that the usage of average types of amino acid in proteins is less than expected if amino acids were chosen randomly with naturally occurring frequencies. We propose three possible scenarios that account for amino acid underusage in proteins. These scenarios suggest the possibility that amino acids themselves might not constitute the alphabet of natural proteins. PMID:14997558

  13. Heat Shock Proteins (HSPs: a Review

    Directory of Open Access Journals (Sweden)

    Jana Tkáčová

    2012-05-01

    Full Text Available Heat shock proteins (HSPs are a large class of proteins that have been conserved throughout evolution and exist by prokaryote and eukaryote organisms. Heat shock proteins play an important role in protein homeostasis. They can found in all major cellular compartments. The HSP90 family are important in the formation of the steroid receptor complex. The HSP70 family is necessary for protein synthesis, translocation, and folding. HSP60 family is important in protein stability. Many factors, e. g. heavy metals and organic toxic substances, elevated temperature in all cells responsive to the formation of proteins called stress proteins. This is happening with a simple bacterium and with complex of neurons too. The concentration of HSPs in muscle in young and adults birds is increasing rapidly in the cellular stress. Increasing HSPs leads to significant changes in gene expression, which lead to reconstruction of skeletal muscle.

  14. Protein politics

    OpenAIRE

    Vijver, Marike

    2005-01-01

    This study is part of the program of the interdisciplinary research group Profetas (protein foods, environment, technology and society). Profetas consists of technological, environmental and socio-economic research projects on protein food systems which result in the development of scenarios and strategies for guiding a shift towards a more plant protein based diet. The different research projects focus on the goal of identifying viable options for a more sustainable food system. Profetas aro...

  15. Principles of protein-protein interactions.

    OpenAIRE

    Jones, S; Thornton, J. M.

    1996-01-01

    This review examines protein complexes in the Brookhaven Protein Databank to gain a better understanding of the principles governing the interactions involved in protein-protein recognition. The factors that influence the formation of protein-protein complexes are explored in four different types of protein-protein complexes--homodimeric proteins, heterodimeric proteins, enzyme-inhibitor complexes, and antibody-protein complexes. The comparison between the complexes highlights differences tha...

  16. Creating Simple Admin Tools Using Info*Engine and Java

    Science.gov (United States)

    Jones, Corey; Kapatos, Dennis; Skradski, Cory; Felkins, J. D.

    2012-01-01

    PTC has provided a simple way to dynamically interact with Windchill using Info*Engine. This presentation will describe how to create a simple Info*Engine Tasks capable of saving Windchill 10.0 administration of tedious work.

  17. Simple queueing approach to segregation dynamics in Schelling model

    OpenAIRE

    Sobkowicz, Pawel

    2007-01-01

    A simple queueing approach for segregation of agents in modified one dimensional Schelling segregation model is presented. The goal is to arrive at simple formula for the number of unhappy agents remaining after the segregation.

  18. Hofmeister series of ions: A simple theory of a not so simple reality

    Czech Academy of Sciences Publication Activity Database

    Jungwirth, Pavel

    2013-01-01

    Roč. 4, č. 24 (2013), s. 4258-4259. ISSN 1948-7185 Institutional support: RVO:61388963 Keywords : Hofmeister series * ions * proteins Subject RIV: CF - Physical ; Theoretical Chemistry Impact factor: 6.687, year: 2013

  19. Polarization matrices in simple and transition metals

    International Nuclear Information System (INIS)

    Full text: The polarization of an inhomogeneous electron gas within a metal due to electron-electron correlations is fundamental for the prediction of inelastic electron scattering experiments such as energy-lose measurements and Compton profile studies. Moreover, the polarization matrix serves as starting point for many advanced theoretical topics as quasiparticle band structures, self energies and realistic electron momentum densities. For this contribution, we calculated polarization matrices for alkali metals, as well as for the complete serves from potassium (atomic number 19) to zinc (30) including all 3d transition metals. The main topic of our work is to study how the polarization is influenced by the fast that the correlating particles are 'Bloch electrons'. These influences become visible in the polarization matrices by (i) deviations of their diagonal elements with respect to the 'homogeneous case', and by (ii) the appearance of non-diagonal elements. We obtained an excellent agreement for the simple metals Na, K and Rb with 'jellium results', and found remarkable deviations for Li and Cs. Moreover, our results show that the non-uniform character of the 3d transition elements depends sensitively on the number of d-electrons and the energetic position of the d-bands with respect to the Fermi energy. (author)

  20. A scalable and operationally simple radical trifluoromethylation.

    Science.gov (United States)

    Beatty, Joel W; Douglas, James J; Cole, Kevin P; Stephenson, Corey R J

    2015-01-01

    The large number of reagents that have been developed for the synthesis of trifluoromethylated compounds is a testament to the importance of the CF3 group as well as the associated synthetic challenge. Current state-of-the-art reagents for appending the CF3 functionality directly are highly effective; however, their use on preparative scale has minimal precedent because they require multistep synthesis for their preparation, and/or are prohibitively expensive for large-scale application. For a scalable trifluoromethylation methodology, trifluoroacetic acid and its anhydride represent an attractive solution in terms of cost and availability; however, because of the exceedingly high oxidation potential of trifluoroacetate, previous endeavours to use this material as a CF3 source have required the use of highly forcing conditions. Here we report a strategy for the use of trifluoroacetic anhydride for a scalable and operationally simple trifluoromethylation reaction using pyridine N-oxide and photoredox catalysis to affect a facile decarboxylation to the CF3 radical. PMID:26258541

  1. Mass spectrometric analysis of simple hydrogen compounds

    International Nuclear Information System (INIS)

    A uranium furnace is inserted in the gas inlet line of a mass spectrometer between the leak and the source. The line is fed with simple hydrogen compounds (H2O, NH3, H2S) which are in this way reduced to hydrogen gas. Memory effects are largely avoided by heating the sample line to 90 deg. C. The speed of the isotopic analysis is only slightly less than that of hydrogen gas itself; the accuracy is better due to the reduction of fractionating effects in the leak. For the absolute measurements of deuterium in water, the presence of H3+ is a problem. Water samples, prepared by mixing an unknown light water sample with different amounts of heavy water, are equilibrated with hydrogen sulphide and analysis of the two phases of each sample enables the zero of the concentration scale to be determined from the point of intersection of the two curves obtained by plotting mixture composition against the observed isotope ratio in the two phases. The whole experiment can be carried out in the apparatus described which analyses hydrogen in H2S and H2O in the same way. (author)

  2. A simple model for biased divertors

    Energy Technology Data Exchange (ETDEWEB)

    Lachambre, J.-L.; Quirion, B.; Gunn, J.; Boucher, C.; Stansfield, B.; Gauvreau, J.-L. [Centre canadien de fusion magnetique, 1804, boulevard Lionel-Boulet, Varennes, Quebec, J3X 1S1 (Canada)

    1997-12-01

    Ionization near the target plate is shown to play an important role in biasing experiments. Our previous SOL model, which calculates the induced radial electric field, is found to be inadequate to treat the new divertor geometry of TdeV. When recycling is included via the measured D{sub {alpha}} emission near the plate, the upgraded model correctly reproduces all the observed electric currents and fields during biasing in the new divertor configuration. A simple divertor model using this calculated field has been developed to simulate the evolution of the divertor ion and neutral parameters under the action of neutralization plate biasing. Using a 1D adiabatic fluid model for the divertor ions, a 1D convective representation for the SOL neutrals and a 0D calculation for the plenum pressure, this divertor model satisfactorily simulates most of the TdeV biasing experiments at all biasing voltages and all toroidal field directions at low line-averaged densities. The weaker agreement at high densities is largely a consequence of the crudeness of the general divertor physics rather than of the deficiency of the biasing physics implemented in the model. The model is finally used to explain the polarity asymmetries observed in divertor efficiencies during biasing, and to demonstrate that no mechanism other than plate current saturation is required to interpret the saturation of toroidal rotation observed in the SOL at large biasing voltages of either polarity. (author)

  3. A simple deduction of the Lindblad equation

    CERN Document Server

    Brasil, Carlos Alexandre; Napolitano, Reginaldo de Jesus

    2011-01-01

    We present a deduction of the Lindblad equation that is accessible to students with a basic background on quantum mechanics. We consider a specific case, corresponding to a very simple situation, where a primary system interacts with a bath of harmonic oscillators at zero temperature, with an interaction Hamiltonian that resembles the Jaynes-Cummings format. We start with the Born-Markov equation and, tracing out the bath degrees of freedom, we obtain an equation in the Lindblad form. The speci?c situation is very instructive, for it makes it easy to realize that the Lindblads represent the e?ect on the main system caused by the interaction with the bath, and that the Markov approximation is a fundamental condition for the emergence of the Lindbladian operator. The formal derivation of the Lindblad equation for a more general case requires broader considerations regarding the environment, the temperature, and the use of quantum dynamical semi-groups than we have considered in the particular case treated here.

  4. Simple goiter in children and juveniles

    Energy Technology Data Exchange (ETDEWEB)

    Wiebel, J.

    1983-10-31

    Non-toxic, simple goiter is the most common cause of thyroid enlargement in adolescents and children. Although initially there are hardly any complaints it should be treated with l-thyroxine to prevent further enlargement, degenerative alterations, development of nodules, possible hyper- or hypothyroidism occurring with increasing age. Anamnesis and clinical features are as important for establishing the diagnosis as laboratory parameters, which are not always necessary. Thyroid nodules in children or adolescents are more likely to be malignant than in later life; their nature has to be clarified by sonography, scintigraphy, fine needle biopsy or even operation. After l-thyroxine therapy has normalized thyroid size (60-90%), goiter prophylaxis with iodine supplementation can be tried, since iodine deficiency exists throughout Germany. If the goiter reappears continuous l-thyroxine treatment is recommended. Following the general introduction of iodine prophylaxis using iodinized salt there has been a significant reduction in goiter incidence in Switzerland, Austria and other areas with iodine deficiency. New legislation in the FRG now allows for the general use of e.g., Bad Reichenhaller Jodsalz, Duera Vollsalz or Bayerisches Vollsalz to prevent the development of the majority of goiters in children and adolescents.

  5. Simple models of the hydrofracture process

    KAUST Repository

    Marder, M.

    2015-12-29

    Hydrofracturing to recover natural gas and oil relies on the creation of a fracture network with pressurized water. We analyze the creation of the network in two ways. First, we assemble a collection of analytical estimates for pressure-driven crack motion in simple geometries, including crack speed as a function of length, energy dissipated by fluid viscosity and used to break rock, and the conditions under which a second crack will initiate while a first is running. We develop a pseudo-three-dimensional numerical model that couples fluid motion with solid mechanics and can generate branching crack structures not specified in advance. One of our main conclusions is that the typical spacing between fractures must be on the order of a meter, and this conclusion arises in two separate ways. First, it arises from analysis of gas production rates, given the diffusion constants for gas in the rock. Second, it arises from the number of fractures that should be generated given the scale of the affected region and the amounts of water pumped into the rock.

  6. A simple model for studying interacting networks

    Science.gov (United States)

    Liu, Wenjia; Jolad, Shivakumar; Schmittmann, Beate; Zia, R. K. P.

    2011-03-01

    Many specific physical networks (e.g., internet, power grid, interstates), have been characterized in considerable detail, but in isolation from each other. Yet, each of these networks supports the functions of the others, and so far, little is known about how their interactions affect their structure and functionality. To address this issue, we consider two coupled model networks. Each network is relatively simple, with a fixed set of nodes, but dynamically generated set of links which has a preferred degree, κ . In the stationary state, the degree distribution has exponential tails (far from κ), an attribute which we can explain. Next, we consider two such networks with different κ 's, reminiscent of two social groups, e.g., extroverts and introverts. Finally, we let these networks interact by establishing a controllable fraction of cross links. The resulting distribution of links, both within and across the two model networks, is investigated and discussed, along with some potential consequences for real networks. Supported in part by NSF-DMR-0705152 and 1005417.

  7. Simple quantification of in planta fungal biomass.

    Science.gov (United States)

    Ayliffe, Michael; Periyannan, Sambasivam K; Feechan, Angela; Dry, Ian; Schumann, Ulrike; Lagudah, Evans; Pryor, Anthony

    2014-01-01

    An accurate assessment of the disease resistance status of plants to fungal pathogens is an essential requirement for the development of resistant crop plants. Many disease resistance phenotypes are partial rather than obvious immunity and are frequently scored using subjective qualitative estimates of pathogen development or plant disease symptoms. Here we report a method for the accurate comparison of total fungal biomass in plant tissues. This method, called the WAC assay, is based upon the specific binding of the plant lectin wheat germ agglutinin to fungal chitin. The assay is simple, high-throughput, and sensitive enough to discriminate between single Puccinia graminis f.sp tritici infection sites on a wheat leaf segment. It greatly lends itself to replication as large volumes of tissue can be pooled from independent experiments and assayed to provide truly representative quantification, or, alternatively, fungal growth on a single, small leaf segment can be quantified. In addition, as the assay is based upon a microscopic technique, pathogen infection sites can also be examined at high magnification prior to quantification if desired and average infection site areas are determined. Previously, we have demonstrated the application of the WAC assay for quantifying the growth of several different pathogen species in both glasshouse grown material and large-scale field plots. Details of this method are provided within. PMID:24643560

  8. A simple dynamic energy capacity model

    International Nuclear Information System (INIS)

    I develop a simple dynamic model showing how total energy capacity is allocated to two different uses and how these uses and their corresponding energy flows are related and behave through time. The control variable of the model determines the allocation. All the variables of the model are in terms of a composite energy equivalent measured in BTU's. A key focus is on the shadow price of energy capacity and its behavior through time. Another key focus is on the behavior of the control variable that determines the allocation of overall energy capacity. The matching or linking of the model's variables to real world U.S. energy data is undertaken. In spite of some limitations of the data, the model and its behavior fit the data fairly well. Some energy policy implications are discussed. - Highlights: ► The model shows how energy capacity is allocated to current output production versus added energy capacity production. ► Two variables in the allocation are the shadow price of capacity and the control variable that determines the allocation. ► The model was linked to U.S. historical energy data and fit the data quite well. ► In particular, the policy control variable was cyclical and consistent with the model. ► Policy implications relevant to the allocation of energy capacity are discussed briefly.

  9. Laparoscopic Pyloromyotomy: A Modified Simple Technique

    Directory of Open Access Journals (Sweden)

    Mohammed Omer Anwar

    2016-01-01

    Full Text Available Background: A modified laparoscopic pyloromyotomy (LP technique may provide an alternative to treating infantile hypertrophic pyloric stenosis (IHPS by improving operative timing with reduction of postoperative complication rates, compared with a three-port trocar system.Methods: Thirty-three infants were treated with IHPS at a single-centre between January 2002 and December 2011. The local surgical incision to the pylorus was performed according to Ramstedt’s pyloromyotomy; but with a two-port trocar system (umbilical and right lower abdominal crease ports, following a controlled stab wound into the epigastric region and a 3mm incision to allow introduction of ophthalmic knife. With the aid of atraumatic forceps and camera guidance, the ophthalmic knife was used to carefully incise the seromuscular layer, which allows improved manual tactile sensation compared to ergonomic laparoscopic spreaders. A Benson pyloric spreader was then used to further separate the pyloric muscle layer to complete the procedure.Results: In all 33 infants treated, LP was safely performed with no evidence of duodenal or mucosal perforation with complete pyloromyotomy achieved in each case. The postoperative course was rather uneventful apart from an umbilical wound infection.Conclusion: This modified approach is simple, safe and allows improved operative timing, whilst increasing surgeon’s confidence by tactile sensation.

  10. Simple Broadband Circular Polarizer in Oversized Waveguide

    Science.gov (United States)

    Stange, Torsten

    2016-02-01

    In this paper, a possibility is shown to realize a simple waveguide polarizer producing nearly the same circular polarization over a broad frequency range up to an octave. It is based upon the combination of two smoothly squeezed oversized waveguides with different diameters. The principle is similar to an achromatic lens in optics, where two counteracting lenses with differently sloped wavelength dependencies of the refractive index are combined to compensate the dispersion in the desired wavelength range. Consequently, two different wavelengths of light are brought into focus at the same plane. A waveguide for the transmission of microwaves has a similar frequency dependence of the refractive index resulting in a frequency-dependent phase shift between two propagating waves polarized along the symmetry axes of a waveguide with an elliptical cross section. For this reason, an incident wave with a linear polarization between the axes of symmetry can be only converted into a circularly polarized wave over a limited frequency range. However, the diameter and the shape along two counteracting squeezed waveguides can be adjusted in such a way that the frequency dependence of the resultant phase shift is finally canceled out.

  11. How simple regulations can deeply reduce inequality

    CERN Document Server

    Iglesias, J R

    2010-01-01

    Many models of market dynamics make use of the idea of wealth exchanges among economic agents. A simple analogy compares the wealth in a society with the energy in a physical system, and the trade between agents to the energy exchange between molecules during collisions. However, while in physical systems the equipartition of energy is valid, in most exchange models for economic markets the system converges to a very unequal "condensed" state, where one or a few agents concentrate all the wealth of the society and the wide majority of agents shares zero or a very tiny fraction of the wealth. Here we present an exchange model where the goal is not only to avoid condensation but also to reduce the inequality; to carry out this objective the choice of interacting agents is not at random, but follows an extremal dynamics regulated by the wealth of the agent. The wealth of the agent with the minimum capital is changed at random and the difference between the ancient and the new wealth of this poorest agent is take...

  12. Toward the Verification of a Simple Hypervisor

    CERN Document Server

    Dahlin, Mike; Krug, Robert Bellarmine; McCoyd, Michael; Young, William; 10.4204/EPTCS.70.3

    2011-01-01

    Virtualization promises significant benefits in security, efficiency, dependability, and cost. Achieving these benefits depends upon the reliability of the underlying virtual machine monitors (hypervisors). This paper describes an ongoing project to develop and verify MinVisor, a simple but functional Type-I x86 hypervisor, proving protection properties at the assembly level using ACL2. Originally based on an existing research hypervisor, MinVisor provides protection of its own memory from a malicious guest. Our long-term goal is to fully verify MinVisor, providing a vehicle to investigate the modeling and verification of hypervisors at the implementation level, and also a basis for further systems research. Functional segments of the MinVisor C code base are translated into Y86 assembly, and verified with respect to the Y86 model. The inductive assertions (also known as "compositional cutpoints") methodology is used to prove the correctness of the code. The proof of the code that sets up the nested page tabl...

  13. Scenarios selection for a simple concept landfill

    International Nuclear Information System (INIS)

    Scenarios are used to deal with uncertainty on the evolution of complex systems. The scenario selection methodologies also have to provide a basis for reflexion and traceability of the reasoning. A scenario selection method has been developed for the case of disposal of uranium mill tailings in a landfill site. In the case of a simple concept landfill, a methodology that fulfils these requirements has been developed. It distinguishes on the one hand the landfill evolution, and on the other hand, the human behavior evolution. It is based on three steps: (i) characterization of the landfill itself, in order to define situations leading to releases of radionuclides, (ii) characterization of the human behavior in order to define situations leading to intrusions, and (iii) characterization of the interfaces between the two subsystems, in order to identify situations which could lead to a radiological risk for man. The method, applied to performance assessment for landfill of uranium mill tailings, has led to one reference scenario, and five altered scenarios taking into account specific landfill evolutions such as loss of covering or loss of integrity of the dike, and human intrusions such as housing on the site of landfill or excavation of the site. Copyright (2001) Material Research Society

  14. A simple model of the slingshot effect

    CERN Document Server

    Fiore, Gaetano

    2015-01-01

    We present a detailed quantitative description of the recently proposed "slingshot effect" [Fiore, Fedele, De angelis 2014]. Namely, we determine a broad range of conditions under which the impact of a very short and intense laser pulse normally onto a plasma (or matter to be locally completely ionized into a plasma by the pulse) causes the expulsion of a bunch of surface electrons in the direction opposite to the one of propagation of the pulse, and the detailed, ready-for-experiments features of the expelled electrons (energy spectrum, collimation, etc). The effect is due to the combined actions of the ponderomotive force and the huge longitudinal field arising from charge separation. Our predictions are based on estimating 3D corrections to a simple, yet powerful plane magnetofluidodynamic model where the equations to be solved are reduced to a system of Hamilton equations in one dimension (or a collection of) which become autonomous after the pulse has overcome the electrons. Experimental tests seem to be...

  15. Star clusters as simple stellar populations.

    Science.gov (United States)

    Bruzual A, Gustavo

    2010-02-28

    In this paper, I review to what extent we can understand the photometric properties of star clusters, and of low-mass, unresolved galaxies, in terms of population-synthesis models designed to describe 'simple stellar populations' (SSPs), i.e. groups of stars born at the same time, in the same volume of space and from a gas cloud of homogeneous chemical composition. The photometric properties predicted by these models do not readily match the observations of most star clusters, unless we properly take into account the expected variation in the number of stars occupying sparsely populated evolutionary stages, owing to stochastic fluctuations in the stellar initial mass function. In this case, population-synthesis models reproduce remarkably well the full ranges of observed integrated colours and absolute magnitudes of star clusters of various ages and metallicities. The disagreement between the model predictions and observations of cluster colours and magnitudes may indicate problems with or deficiencies in the modelling, and does not necessarily tell us that star clusters do not behave like SSPs. Matching the photometric properties of star clusters using SSP models is a necessary (but not sufficient) condition for clusters to be considered SSPs. Composite models, characterized by complex star-formation histories, also match the observed cluster colours. PMID:20083506

  16. Two simple tools for industrial OR

    Directory of Open Access Journals (Sweden)

    K. Sandrock

    2003-12-01

    Full Text Available At the 1985 Annual Congress of the South African Production & Inventory Control Society it was pointed out that the productivity growth rate for South Africa is completely out of kilter with that for the western industrialised nations. The latter all display positive rates (some as high as that of Japan whereas the rate for South Africa is - NEGATIVE. Partly as a result of this situation, more and more attention is being given to quality control and reliability engineering by our industrialists in their attempts to improve productivity. This is going hand in hand with the introduction of better techniques and better use of the latest technology. We should also give attention to analytical tools that may be used in a simple inexpensive way to improve our methods of analysing industrial data, and in this way to improve our performance at little or no additional cost. To this end two tools are discussed. They are by means new. But it does seem as though they could be more widely applied in the industrial milieu.

  17. Simple light gas guns for hypervelocity studies

    International Nuclear Information System (INIS)

    Two-stage light guns are used extensively in hypervelocity research. The applications of this technology include impact studies and special materials development. Oak Ridge National Laboratory (ORNL) has developed two-stage guns that accelerate small projectiles (4-mm nominal diameter) to velocities of up to ∼5 km/s. These guns are relatively small and simple (thus, easy to operate), allowing a significant number of test shots to be carried out and data accumulated in a short time. Materials that have been used for projectiles include plastics, frozen isotopes of hydrogen, and lithium hydride. One gun has been used to demonstrate repetitive operation at a rate of 0.7 Hz; and, with a few design improvements, it appears capable of performing at firing frequencies of 1--2 Hz. A schematic of ORNL two-stage device is shown below. Unlike most such devices, no rupture disks are used. Instead, a fast valve (high-flow type) initiates the acceleration process in the first stage. Projectiles can be loaded into the gun breech via the slide mechanism; this action has been automated which allows repetitive firing. Alternatively, the device is equipped with ''pipe gun'' apparatus in which gas can be frozen in situ in the gun barrel to form the projectile. This equipment operates with high reliability and is well suited for small-scale testing at high velocity. 17 refs., 6 figs., 2 tabs

  18. Simple UV spectrophotometric assay of Mefenamic acid

    Directory of Open Access Journals (Sweden)

    Dr. Safila Naveed

    2014-07-01

    Full Text Available Mefenamic acid belongs to non-steroidal antiinflammatory drugs (NSAID.. It is being used widely for the treatment of analgesia. It is also used as antirheumatic and antipyretic drug. Our aim of study is to develop a efficient least time consuming and simple spectrophotometric method for the assay of mefenamic acid. Comparision of assay of three different brands of mefenamic acid (mefnac,ponstan,dolar available in public medical store of Karachi, Pakistan has also been done. The assay is based on the ultraviolet UV absorbance maxima at about 288nm wavelength of mefenamic acid, water is used as solvent. A sample of drug was dissolved in water to produce a solution containing mefenamic acid. Similarly, a sample of ground tablets of different brand were dissolved in water and various dilutions were made. The absorbance of sample preparation was measured at 288nm against the solvent blank and the assay was determined by comparing with the absorbance of available brand. Our results reveals that among all the three brands of mefenamic acid (mefnac,ponstan,dolar rosulin and rovista shows highest percentage assay 107.5%. xplended and rosubar shows percent assay of 106.25% and 103.75% while rovactor shows lowest value for percentage assay 98.75%.

  19. Simple models of the hydrofracture process

    Science.gov (United States)

    Marder, M.; Chen, Chih-Hung; Patzek, T.

    2015-12-01

    Hydrofracturing to recover natural gas and oil relies on the creation of a fracture network with pressurized water. We analyze the creation of the network in two ways. First, we assemble a collection of analytical estimates for pressure-driven crack motion in simple geometries, including crack speed as a function of length, energy dissipated by fluid viscosity and used to break rock, and the conditions under which a second crack will initiate while a first is running. We develop a pseudo-three-dimensional numerical model that couples fluid motion with solid mechanics and can generate branching crack structures not specified in advance. One of our main conclusions is that the typical spacing between fractures must be on the order of a meter, and this conclusion arises in two separate ways. First, it arises from analysis of gas production rates, given the diffusion constants for gas in the rock. Second, it arises from the number of fractures that should be generated given the scale of the affected region and the amounts of water pumped into the rock.

  20. A Simple Technique for Shoulder Arthrography

    International Nuclear Information System (INIS)

    Purpose: To present a systematic approach to teaching a technique for arthrography of the shoulder. Using an adhesive marker-plate with radiopaque coordinates, precise sites for puncture can be identified and the need for fluoroscopic guidance obviated. Material and Methods: Forty-six glenohumeral arthrograms were performed in 45 patients; in 1 case involving examination of both shoulders. The stages of the technique are described in detail, as are the fundamental aspects of achieving an effective glenohumeral injection. Pain intensity was measured in all patients using a verbal description scale. Results: Shoulder arthrography was successful in all cases. Average time taken for the procedure was 7 min, with no difference in the respective times required by an experienced radiologist and a resident. The procedure was well tolerated by most patients, with slight discomfort being observed in a very few cases. Conclusion: The arthrographic technique used in this study is simple, safe, rapid, and reproducible, and has the advantage of precise localization of the site for puncture without need for fluoroscopic guidance. The procedure described in this study can be of help in teaching residents and can reduce the learning curve for radiologists with no experience in arthrographic methods. It also reduces the time of exposure to fluoroscopy Keywords: Arthrography, joint, shoulder

  1. Simple goiter in children and juveniles

    International Nuclear Information System (INIS)

    Non-toxic, simple goitre is the most common cause of thyroid enlargement in adolescents and children. Although initially there are hardly any complaints it should be treated with l-thyroxine to prevent further enlargement, degenerative alterations, development of nodules, possible hyper- or hypothyroidism occurring with increasing age. Anamnesis and clinical features are as important for establishing the diagnosis as laboratory parameters, which are not always necessary. Thyroid nodules in children or adolescents are more likely to be malignant than in later life; their nature has to be clarified by sonography, scintigraphy, fine needle biopsy or even operation. After l-thyroxine therapy has normalized thyroid size (60-90%), goitre prophylaxis with iodine supplementation can be tried, since iodine deficiency exists throughout Germany. It the goiter reappears continuous l-thyroxine treatment is recommended. Following the general introduction of iodine prophylaxis using iodinized salt there has been a significant reduction in goitre incidence in Switzerland, Austria and other areas with iodine deficiency. New legislation in the FRG now allows for the general use of e.g. Bad Reichenhaller Jodsalz, Duera Vollsalz or Bayerisches Vollsalz to prevent the development of the majority of goitres in children and adolescents. (orig.)

  2. Simple models of the hydrofracture process.

    Science.gov (United States)

    Marder, M; Chen, Chih-Hung; Patzek, T

    2015-12-01

    Hydrofracturing to recover natural gas and oil relies on the creation of a fracture network with pressurized water. We analyze the creation of the network in two ways. First, we assemble a collection of analytical estimates for pressure-driven crack motion in simple geometries, including crack speed as a function of length, energy dissipated by fluid viscosity and used to break rock, and the conditions under which a second crack will initiate while a first is running. We develop a pseudo-three-dimensional numerical model that couples fluid motion with solid mechanics and can generate branching crack structures not specified in advance. One of our main conclusions is that the typical spacing between fractures must be on the order of a meter, and this conclusion arises in two separate ways. First, it arises from analysis of gas production rates, given the diffusion constants for gas in the rock. Second, it arises from the number of fractures that should be generated given the scale of the affected region and the amounts of water pumped into the rock. PMID:26764704

  3. A SIMPLE LAW OF STAR FORMATION

    International Nuclear Information System (INIS)

    We show that supersonic MHD turbulence yields a star formation rate (SFR) as low as observed in molecular clouds, for characteristic values of the free-fall time divided by the dynamical time, tff/tdyn, the Alfvénic Mach number, Ma, and the sonic Mach number, Ms. Using a very large set of deep adaptive-mesh-refinement simulations, we quantify the dependence of the SFR per free-fall time, εff, on the above parameters. Our main results are (1) that εff decreases exponentially with increasing tff/tdyn, but is insensitive to changes in Ms, for constant values of tff/tdyn and Ma. (2) Decreasing values of Ma (stronger magnetic fields) reduce εff, but only to a point, beyond which εff increases with a further decrease of Ma. (3) For values of Ma characteristic of star-forming regions, εff varies with Ma by less than a factor of two. We propose a simple star formation law, based on the empirical fit to the minimum εff, and depending only on tff/tdyn: εff ≈ εwindexp (– 1.6 tff/tdyn). Because it only depends on the mean gas density and rms velocity, this law is straightforward to implement in simulations and analytical models of galaxy formation and evolution.

  4. Simple fabrication of gold nanobelts and patterns.

    Directory of Open Access Journals (Sweden)

    Renyun Zhang

    Full Text Available Gold nanobelts are of interest in several areas; however, there are only few methods available to produce these belts. We report here on a simple evaporation induced self-assembly (EISA method to produce porous gold nanobelts with dimensions that scale across nanometer (thickness ∼80 nm and micrometer (width ∼20 µm, to decimeter (length ∼0.15 m. The gold nanobelts are well packed on the beaker wall and can be easily made to float on the surface of the solution for depositing onto other substrates. Microscopy showed that gold nanobelts had a different structure on the two sides of the belt; the density of gold nanowires on one side was greater than on the other side. Electrical measurements showed that these nanobelts were sensitive to compressive or tensile forces, indicating a potential use as a strain sensor. The patterned nanobelts were further used as a template to grow ZnO nanowires for potential use in applications such as piezo-electronics.

  5. Simple, parallel virtual machines for extreme computations

    Science.gov (United States)

    Chokoufe Nejad, Bijan; Ohl, Thorsten; Reuter, Jürgen

    2015-11-01

    We introduce a virtual machine (VM) written in a numerically fast language like Fortran or C for evaluating very large expressions. We discuss the general concept of how to perform computations in terms of a VM and present specifically a VM that is able to compute tree-level cross sections for any number of external legs, given the corresponding byte-code from the optimal matrix element generator, O'MEGA. Furthermore, this approach allows to formulate the parallel computation of a single phase space point in a simple and obvious way. We analyze hereby the scaling behavior with multiple threads as well as the benefits and drawbacks that are introduced with this method. Our implementation of a VM can run faster than the corresponding native, compiled code for certain processes and compilers, especially for very high multiplicities, and has in general runtimes in the same order of magnitude. By avoiding the tedious compile and link steps, which may fail for source code files of gigabyte sizes, new processes or complex higher order corrections that are currently out of reach could be evaluated with a VM given enough computing power.

  6. A simple theory of Rijke tube oscillation

    Institute of Scientific and Technical Information of China (English)

    Maa Dah-You

    2002-01-01

    A simple theory of Rijke tube oscillation is presented based on mathematical realization of Rayleigh's qualitative explanation of the mechanism of Rijke tube. This is done by assuming a single point of high temperature in an otherwise uniform tube and the sound source produced when cold air flows passing this point. The wave equation thus obtained is then rigorously solved. It is found that the Rijke tube oscillation is a feedback system. There is no feedback nor oscillation when the hot spot is at a node or antinode in the tube. The mean flow is necessary for the oscillation, the particle velocity of which is proportional to the mean velocity, and the ratio is proportional to the gauze temperature when the later is low and the feedback does not affect much the magnitude of the particle velocity. When the temperature is high, the feedback increases rapidly and the particle velocity might grow to several or even tens of times of the mean velocity, and almost indefinitely when the heater temperature is high enough. Otherwise the growth is rather slow, when the mean flow or high temperature is first applied. The oscillations stop immediately when the mean flow is stopped. If the mean flow is controlled by a valve or a paddle at one end of the tube, an interesting sound is produced.

  7. ZeroMQ: Messaging Made Simple

    CERN Document Server

    CERN. Geneva

    2013-01-01

    Since its inception in 2007, ZeroMQ has defined a new product category of thin, fast, open source message transports. This little library has now grown into a large, vibrant community of projects tied together with standard protocols and APIs. Applications, written in any language, talk to each other over TCP, multicast, or inproc transports, using a single socket-based API, and a set of "patterns" (pub-sub, request-reply, dealer-router, pipeline). ZeroMQ handles message framing, batching, and I/O, but ignores aspects like serialization and persistence. By focussing on the essentials, and acting as a toolkit rather than a pre-packaged solution, ZeroMQ turns the complex problem of distributed computing into a relatively simple recipe. About the speaker Pieter Hintjens is a writer, programmer, and public speaker who has spent decades building large software systems, organizations, and businesses. He designed the Advanced Message Queuing Protocol (AMQP) in 2006 for JPMorganChase and left ...

  8. Evolutionary dynamics in a simple model of self-assembly

    Science.gov (United States)

    Johnston, Iain G.; Ahnert, Sebastian E.; Doye, Jonathan P. K.; Louis, Ard A.

    2011-06-01

    We investigate the evolutionary dynamics of an idealized model for the robust self-assembly of two-dimensional structures called polyominoes. The model includes rules that encode interactions between sets of square tiles that drive the self-assembly process. The relationship between the model’s rule set and its resulting self-assembled structure can be viewed as a genotype-phenotype map and incorporated into a genetic algorithm. The rule sets evolve under selection for specified target structures. The corresponding complex fitness landscape generates rich evolutionary dynamics as a function of parameters such as the population size, search space size, mutation rate, and method of recombination. Furthermore, these systems are simple enough that in some cases the associated model genome space can be completely characterized, shedding light on how the evolutionary dynamics depends on the detailed structure of the fitness landscape. Finally, we apply the model to study the emergence of the preference for dihedral over cyclic symmetry observed for homomeric protein tetramers.

  9. Simple Ligand–Receptor Interaction Descriptor (SILIRID for alignment-free binding site comparison

    Directory of Open Access Journals (Sweden)

    Vladimir Chupakhin

    2014-06-01

    Full Text Available We describe SILIRID (Simple Ligand–Receptor Interaction Descriptor, a novel fixed size descriptor characterizing protein–ligand interactions. SILIRID can be obtained from the binary interaction fingerprints (IFPs by summing up the bits corresponding to identical amino acids. This results in a vector of 168 integer numbers corresponding to the product of the number of entries (20 amino acids and one cofactor and 8 interaction types per amino acid (hydrophobic, aromatic face to face, aromatic edge to face, H-bond donated by the protein, H-bond donated by the ligand, ionic bond with protein cation and protein anion, and interaction with metal ion. Efficiency of SILIRID to distinguish different protein binding sites has been examined in similarity search in sc-PDB database, a druggable portion of the Protein Data Bank, using various protein–ligand complexes as queries. The performance of retrieval of structurally and evolutionary related classes of proteins was comparable to that of state-of-the-art approaches (ROC AUC ≈ 0.91. SILIRID can efficiently be used to visualize chemogenomic space covered by sc-PDB using Generative Topographic Mapping (GTM: sc-PDB SILIRID data form clusters corresponding to different protein types.

  10. SIMPL enhancement of tumor necrosis factor-α dependent p65-MED1 complex formation is required for mammalian hematopoietic stem and progenitor cell function.

    Directory of Open Access Journals (Sweden)

    Weina Zhao

    Full Text Available Significant insight into the signaling pathways leading to activation of the Rel transcription factor family, collectively termed NF-κB, has been gained. Less well understood is how subsets of NF-κB-dependent genes are regulated in a signal specific manner. The SIMPL protein (signaling molecule that interacts with mouse pelle-like kinase is required for full Tumor Necrosis Factor-α (TNFα induced NF-κB activity. We show that SIMPL is required for steady-state hematopoiesis and the expression of a subset of TNFα induced genes whose products regulate hematopoietic cell activity. To gain insight into the mechanism through which SIMPL modulates gene expression we focused on the Tnf gene, an immune response regulator required for steady-state hematopoiesis. In response to TNFα SIMPL localizes to the Tnf gene promoter where it modulates the initiation of Tnf gene transcription. SIMPL binding partners identified by mass spectrometry include proteins involved in transcription and the interaction between SIMPL and MED1 was characterized in more detail. In response to TNFα, SIMPL is found in p65-MED1 complexes where SIMPL enhances p65/MED1/SIMPL complex formation. Together our results indicate that SIMPL functions as a TNFα-dependent p65 co-activator by facilitating the recruitment of MED1 to p65 containing transcriptional complexes to control the expression of a subset of TNFα-induced genes.

  11. A simple procedure for estimating soil porosity

    Science.gov (United States)

    Emmet-Booth, Jeremy; Forristal, Dermot; Fenton, Owen; Holden, Nick

    2016-04-01

    Soil degradation from mismanagement is of international concern. Simple, accessible tools for rapidly assessing impacts of soil management are required. Soil structure is a key component of soil quality and porosity is a useful indicator of structure. We outline a version of a procedure described by Piwowarczyk et al. (2011) used to estimate porosity of samples taken during a soil quality survey of 38 sites across Ireland as part of the Government funded SQUARE (Soil Quality Assessment Research) project. This required intact core (r = 2.5 cm, H = 5cm) samples taken at 5-10 cm and 10-20 cm depth, to be covered with muslin cloth at one end and secured with a jubilee clip. Samples were saturated in sealable water tanks for ≈ 64 hours, then allowed to drain by gravity for 24 hours, at which point Field Capacity (F.C.) was assumed to have been reached, followed by oven drying with weight determined at each stage. This allowed the calculation of bulk density and the estimation of water content at saturation and following gravitational drainage, thus total and functional porosity. The assumption that F.C. was reached following 24 hours of gravitational drainage was based on the Soil Moisture Deficit model used in Ireland to predict when soils are potentially vulnerable to structural damage and used nationally as a management tool. Preliminary results indicate moderately strong, negative correlations between estimated total porosity at 5-10 cm and 10-20 cm depth (rs = -0.7, P risk of damage owing to grazing animals? Soil Use and Management, 27, 255-263.

  12. Simple cost model for EV traction motors

    Science.gov (United States)

    Cuenca, R. M.

    1995-02-01

    A simple cost model has been developed that allows the calculation of the OEM (original equipment manufacturer) cost of electric traction motors of three different types, normalized as a function of power in order to accommodate different power and size. The model includes enough information on the various elements integrated in the motors to allow analysis of individual components and to factor-in the effects of changes in commodities prices. A scalable cost model for each of the main components of an electric vehicle (EV) is a useful tool that can have direct application in computer simulation or in parametric studies. For the cost model to have wide usefulness, it needs to be valid for a range of values of some parameter that determines the magnitude or size of the component. For instance, in the case of batteries, size may be determined by energy capacity, usually expressed in kilowatt-hours (kWh), while in the case of traction motors, size is better determined by rated power, usually expressed in kilowatts (kW). The simplest case is when the cost of the component in question is a direct function of its size; then cost is simply the product of its specific cost ($/unit size) and the number of units (size) in the vehicle in question. Batteries usually fall in this category (cost = energy capacity x $/kWh). But cost is not always linear with size or magnitude; motors (and controllers), for instance, become relatively less expensive as power rating increases. Traction motors, one of the main components for EV powertrains, are examined in this paper, and a simplified cost model is developed for the three most popular design variations.

  13. A simple tool for neuroimaging data sharing

    Directory of Open Access Journals (Sweden)

    Christian Haselgrove

    2014-05-01

    Full Text Available Data sharing is becoming increasingly common, but despite encouragement and facilitation by funding agencies, journals, and some research efforts, most neuroimaging data acquired today is still not shared due to political, financial, social, and technical barriers to sharing data that remain. In particular, technical solutions are few for researchers that are not a part of larger efforts with dedicated sharing infrastructures, and social barriers such as the time commitment required to share can keep data from becoming publicly available.We present a system for sharing neuroimaging data, designed to be simple to use and to provide benefit to the data provider. The system consists of a server at the International Neuroinformatics Coordinating Facility (INCF and user tools for uploading data to the server. The primary design principle for the user tools is ease of use: the user identifies a directory containing DICOM data, provides their INCF Portal authentication, and provides identifiers for the subject and imaging session. The user tool anonymizes the data and sends it to the server. The server then runs quality control routines on the data, and the data and the quality control reports are made public. The user retains control of the data and may change the sharing policy as they need. The result is that in a few minutes of the user’s time, DICOM data can be anonymized and made publicly available, and an initial quality control assessment can be performed on the data. The system is currently functional, and user tools and access to the public image database are available at http://xnat.incf.org/.

  14. A simple method for defining malaria seasonality

    Directory of Open Access Journals (Sweden)

    Smith Lucy

    2009-12-01

    Full Text Available Abstract Background There is currently no standard way of defining malaria seasonality, resulting in a wide range of definitions reported in the literature. Malaria cases show seasonal peaks in most endemic settings, and the choice and timing for optimal malaria control may vary by seasonality. A simple approach is presented to describe the seasonality of malaria, to aid localized policymaking and targeting of interventions. Methods A series of systematic literature reviews were undertaken to identify studies reporting on monthly data for full calendar years on clinical malaria, hospital admission with malaria and entomological inoculation rates (EIR. Sites were defined as having 'marked seasonality' if 75% or more of all episodes occurred in six or less months of the year. A 'concentrated period of malaria' was defined as the six consecutive months with the highest cumulative proportion of cases. A sensitivity analysis was performed based on a variety of cut-offs. Results Monthly data for full calendar years on clinical malaria, all hospital admissions with malaria, and entomological inoculation rates were available for 13, 18, and 11 sites respectively. Most sites showed year-round transmission with seasonal peaks for both clinical malaria and hospital admissions with malaria, with a few sites fitting the definition of 'marked seasonality'. For these sites, consistent results were observed when more than one outcome or more than one calendar year was available from the same site. The use of monthly EIR data was found to be of limited value when looking at seasonal variations of malaria transmission, particularly at low and medium intensity levels. Conclusion The proposed definition discriminated well between studies with 'marked seasonality' and those with less seasonality. However, a poor fit was observed in sites with two seasonal peaks. Further work is needed to explore the applicability of this definition on a wide-scale, using routine

  15. A SIMPLE LAW OF STAR FORMATION

    Energy Technology Data Exchange (ETDEWEB)

    Padoan, Paolo [ICREA and ICC, University of Barcelona, Marti i Franques 1, E-08028 Barcelona (Spain); Haugbolle, Troels [Centre for Star and Planet Formation, University of Copenhagen, Oestervoldgade 5-7., DK-1350, Copenhagen (Denmark); Nordlund, Ake, E-mail: ppadoan@icc.ub.edu, E-mail: haugboel@nbi.dk, E-mail: aake@nbi.dk [Centre for Star and Planet Formation and Niels Bohr Institute, University of Copenhagen, Juliane Maries Vej 30, DK-2100, Copenhagen (Denmark)

    2012-11-10

    We show that supersonic MHD turbulence yields a star formation rate (SFR) as low as observed in molecular clouds, for characteristic values of the free-fall time divided by the dynamical time, t{sub ff}/t{sub dyn}, the Alfvenic Mach number, M{sub a}, and the sonic Mach number, M{sub s}. Using a very large set of deep adaptive-mesh-refinement simulations, we quantify the dependence of the SFR per free-fall time, {epsilon}{sub ff}, on the above parameters. Our main results are (1) that {epsilon}{sub ff} decreases exponentially with increasing t{sub ff}/t{sub dyn}, but is insensitive to changes in M{sub s}, for constant values of t{sub ff}/t{sub dyn} and M{sub a}. (2) Decreasing values of M{sub a} (stronger magnetic fields) reduce {epsilon}{sub ff}, but only to a point, beyond which {epsilon}{sub ff} increases with a further decrease of M{sub a}. (3) For values of M{sub a} characteristic of star-forming regions, {epsilon}{sub ff} varies with M{sub a} by less than a factor of two. We propose a simple star formation law, based on the empirical fit to the minimum {epsilon}{sub ff}, and depending only on t{sub ff}/t{sub dyn}: {epsilon}{sub ff} Almost-Equal-To {epsilon}{sub wind}exp (- 1.6 t{sub ff}/t{sub dyn}). Because it only depends on the mean gas density and rms velocity, this law is straightforward to implement in simulations and analytical models of galaxy formation and evolution.

  16. Simple sequence repeats in mycobacterial genomes

    Indian Academy of Sciences (India)

    Vattipally B Sreenu; Pankaj Kumar; Javaregowda Nagaraju; Hampapathalu A Nagarajaram

    2007-01-01

    Simple sequence repeats (SSRs) or microsatellites are the repetitive nucleotide sequences of motifs of length 1–6 bp. They are scattered throughout the genomes of all the known organisms ranging from viruses to eukaryotes. Microsatellites undergo mutations in the form of insertions and deletions (INDELS) of their repeat units with some bias towards insertions that lead to microsatellite tract expansion. Although prokaryotic genomes derive some plasticity due to microsatellite mutations they have in-built mechanisms to arrest undue expansions of microsatellites and one such mechanism is constituted by post-replicative DNA repair enzymes MutL, MutH and MutS. The mycobacterial genomes lack these enzymes and as a null hypothesis one could expect these genomes to harbour many long tracts. It is therefore interesting to analyse the mycobacterial genomes for distribution and abundance of microsatellites tracts and to look for potentially polymorphic microsatellites. Available mycobacterial genomes, Mycobacterium avium, M. leprae, M. bovis and the two strains of M. tuberculosis (CDC1551 and H37Rv) were analysed for frequencies and abundance of SSRs. Our analysis revealed that the SSRs are distributed throughout the mycobacterial genomes at an average of 220–230 SSR tracts per kb. All the mycobacterial genomes contain few regions that are conspicuously denser or poorer in microsatellites compared to their expected genome averages. The genomes distinctly show scarcity of long microsatellites despite the absence of a post-replicative DNA repair system. Such severe scarcity of long microsatellites could arise as a result of strong selection pressures operating against long and unstable sequences although influence of GC-content and role of point mutations in arresting microsatellite expansions can not be ruled out. Nonetheless, the long tracts occasionally found in coding as well as non-coding regions may account for limited genome plasticity in these genomes.

  17. An Arduino Investigation of Simple Harmonic Motion

    Science.gov (United States)

    Galeriu, Calin; Edwards, Scott; Esper, Geoffrey

    2014-03-01

    We cannot hope for a new generation of scientists and engineers if we don't let our young students take ownership of their scientific and engineering explorations, if we don't let them enjoy the hands-on cycle of design and production, and if we don't let them implant their creativity into a technologically friendly environment. With this educational philosophy in mind, Massimo Banzi and his team have developed and popularized the open source Arduino microcontroller board. The Arduino board has helped countless people in their science, electronics, robotics, or engineering projects, allowing them to build things that we have not even dreamed of. Physics instructors have also realized the advantages of using Arduino boards for lab experiments. The schools are saving money because the homemade experimental equipment is much cheaper than the commercial alternatives. The students are thankful for an educational experience that is more interesting, more loaded with STEM content, and more fun. As further proof of this new trend in physics education, Vernier5 is now documenting the use of their probes with Arduino boards. This is why we have developed an Arduino-based physics investigation of the simple harmonic motion (SHM) of a mass on a spring. The experimental data are collected with the help of an ultrasonic distance sensor and an Arduino Uno board. The data are then graphed and analyzed using Origin 9. This rich cross-curricular STEM activity integrates electronics, computer programming, physics, and mathematics in a way that is both experimentally exciting and intellectually rewarding.

  18. Emergent biosynthetic capacity in simple microbial communities.

    Directory of Open Access Journals (Sweden)

    Hsuan-Chao Chiu

    2014-07-01

    Full Text Available Microbes have an astonishing capacity to transform their environments. Yet, the metabolic capacity of a single species is limited and the vast majority of microorganisms form complex communities and join forces to exhibit capabilities far exceeding those achieved by any single species. Such enhanced metabolic capacities represent a promising route to many medical, environmental, and industrial applications and call for the development of a predictive, systems-level understanding of synergistic microbial capacity. Here we present a comprehensive computational framework, integrating high-quality metabolic models of multiple species, temporal dynamics, and flux variability analysis, to study the metabolic capacity and dynamics of simple two-species microbial ecosystems. We specifically focus on detecting emergent biosynthetic capacity--instances in which a community growing on some medium produces and secretes metabolites that are not secreted by any member species when growing in isolation on that same medium. Using this framework to model a large collection of two-species communities on multiple media, we demonstrate that emergent biosynthetic capacity is highly prevalent. We identify commonly observed emergent metabolites and metabolic reprogramming patterns, characterizing typical mechanisms of emergent capacity. We further find that emergent secretion tends to occur in two waves, the first as soon as the two organisms are introduced, and the second when the medium is depleted and nutrients become limited. Finally, aiming to identify global community determinants of emergent capacity, we find a marked association between the level of emergent biosynthetic capacity and the functional/phylogenetic distance between community members. Specifically, we demonstrate a "Goldilocks" principle, where high levels of emergent capacity are observed when the species comprising the community are functionally neither too close, nor too distant. Taken together

  19. Controlling exposure to chemicals: a simple guide.

    Science.gov (United States)

    Hay, Alastair

    2006-09-01

    Controlling exposure to chemicals in the workplace has been made easier by the use of a guide published by the U.K. Health and Safety Executive (HSE). Known as COSHH (Control of Substances Hazardous to Health Regulations) Essentials, the guide is a simple five-step procedure to devise appropriate control strategies to reduce exposures to various substances under different conditions. U.K. health and safety law requires risk assessments prior to use of hazardous substances and installation of appropriate control strategies before work commences. A 1996 survey of 1500 safety managers and trade union safety representatives revealed that the majority had little understanding of occupational safety limits for chemicals. Small- and medium-sized companies had little understanding of limits, and most could not develop control strategies. A new approach was required. COSHH Essentials is it. Developed over 3 years by a working group of hygienists and toxicologists representing HSE, industry, trade unions, and independent experts, the guide is now available in both paper-based and internet versions. It applies a hazard banding approach validated by data for 111 substances that have well-founded U.K. occupational exposure limits. New users select an appropriate hazard band for chemicals based on risk phrases. Details about dustiness for powders or volatility for liquids are inserted, and the guide allocates substances to one of four exposure bands linked, in turn, to specific control strategies. Now accessible through the HSE web site, COSHH Essentials will offer control strategies for both single chemicals and whole processes. To date over 300,000 risk assessments have been carried out using the internet version of COSHH Essentials. PMID:17119256

  20. Thermal Forces in Simple and Complex Fluids

    Science.gov (United States)

    Piazza, Roberto; Giglio, Marzio

    2004-11-01

    This topical issue of The European Physical Journal E deals with mass transport effects driven by thermal gradients, or, as we shall call them, with “thermal forces”. In simple fluid mixtures, coupling of heat and mass diffusion is due to the Ludwig-Soret effect, also known as thermal diffusion. The Soret effect dramatically lowers the thermal convection threshold, since concentration gradients relax much more slowly than temperature gradients, due to the disparate values of the mass diffusion coefficient and of the thermal diffusivity. Therefore, thermal diffusion plays an important role in naturally occurring processes like thermohaline convection (“salt fingering”) in oceans, crystal growth, component segregation in metallic alloys, volcanic lava and the Earth crust. More recently, its has been shown that thermal diffusion is a very convenient process in the generation of giant non-equilibrium fluctuations in fluid mixtures. Thermophoresis is a closely akin process that takes place both in aerosols and in liquid suspensions, consisting in the drift of dispersed particles induced by thermal inhomogeneities. Thermophoresis of airborne particles has an important role in atmospheric physics and ambient pollution, and can seriously affect semiconductor manufacturing. In macromolecular solutions and colloidal suspensions, these “thermal forces” are generally much stronger than in simple mixtures or in gases: for instance, recent experiments on DNA solutions have shown that thermophoresis may concur with thermal convection in leading to patterns where the local macromolecular concentration is amplified up to a thousandfold. Although known since a long time and clearly framed in terms of non-equilibrium thermodynamics concepts, both the Soret effect and particle thermophoresis in liquids still lack a general microscopic picture. For instance, in most cases the denser component of a binary mixture drifts to the cold, but examples of reverse behaviour are