Sample records for bloodusing simple protein

  1. Simple rheology of mixed proteins (United States)

    Mixing different proteins to form strong gel networks for food applications may create synergistic increases in viscoelasticity that cannot be achieved with a single protein. In this study, small amplitude oscillatory shear analyses were used to investigate the rheology of calcium caseinate (CC), e...

  2. A simple theory of protein folding kinetics

    CERN Document Server

    Pande, Vijay S


    We present a simple model of protein folding dynamics that captures key qualitative elements recently seen in all-atom simulations. The goals of this theory are to serve as a simple formalism for gaining deeper insight into the physical properties seen in detailed simulations as well as to serve as a model to easily compare why these simulations suggest a different kinetic mechanism than previous simple models. Specifically, we find that non-native contacts play a key role in determining the mechanism, which can shift dramatically as the energetic strength of non-native interactions is changed. For protein-like non-native interactions, our model finds that the native state is a kinetic hub, connecting the strength of relevant interactions directly to the nature of folding kinetics.

  3. Simple sequence proteins in prokaryotic proteomes

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    Ramachandran Srinivasan


    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

  4. Simple micromechanical model of protein crystals for their mechanical characterizations

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    Na S.


    Full Text Available Proteins have been known to perform the excellent mechanical functions and exhibit the remarkable mechanical properties such as high fracture toughness in spider silk protein [1]. This indicates that the mechanical characterization of protein molecules and/or crystals is very essential to understand such remarkable mechanical function of protein molecules. In this study, for gaining insight into mechanical behavior of protein crystals, we developed the micromechanical model by using the empirical potential field prescribed to alpha carbon atoms of a protein crystal in a unit cell. We consider the simple protein crystals for their mechanical behavior under tensile loading to be compared with full atomic models

  5. A simple dependence between protein evolution rate and the number of protein-protein interactions

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    Hirsh Aaron E


    Full Text Available Abstract Background It has been shown for an evolutionarily distant genomic comparison that the number of protein-protein interactions a protein has correlates negatively with their rates of evolution. However, the generality of this observation has recently been challenged. Here we examine the problem using protein-protein interaction data from the yeast Saccharomyces cerevisiae and genome sequences from two other yeast species. Results In contrast to a previous study that used an incomplete set of protein-protein interactions, we observed a highly significant correlation between number of interactions and evolutionary distance to either Candida albicans or Schizosaccharomyces pombe. This study differs from the previous one in that it includes all known protein interactions from S. cerevisiae, and a larger set of protein evolutionary rates. In both evolutionary comparisons, a simple monotonic relationship was found across the entire range of the number of protein-protein interactions. In agreement with our earlier findings, this relationship cannot be explained by the fact that proteins with many interactions tend to be important to yeast. The generality of these correlations in other kingdoms of life unfortunately cannot be addressed at this time, due to the incompleteness of protein-protein interaction data from organisms other than S. cerevisiae. Conclusions Protein-protein interactions tend to slow the rate at which proteins evolve. This may be due to structural constraints that must be met to maintain interactions, but more work is needed to definitively establish the mechanism(s behind the correlations we have observed.

  6. Promoting protein crystallization using a plate with simple geometry. (United States)

    Chen, Rui-Qing; Yin, Da-Chuan; Liu, Yong-Ming; Lu, Qin-Qin; He, Jin; Liu, Yue


    Increasing the probability of obtaining protein crystals in crystallization screening is always an important goal for protein crystallography. In this paper, a new method called the cross-diffusion microbatch (CDM) method is presented, which aims to efficiently promote protein crystallization and increase the chance of obtaining protein crystals. In this method, a very simple crystallization plate was designed in which all crystallization droplets are in one sealed space, so that a variety of volatile components from one droplet can diffuse into any other droplet via vapour diffusion. Crystallization screening and reproducibility tests indicate that this method could be a potentially powerful technique in practical protein crystallization screening. It can help to obtain crystals with higher probability and at a lower cost, while using a simple and easy procedure.

  7. A simple probabilistic model of multibody interactions in proteins

    DEFF Research Database (Denmark)

    Johansson, Kristoffer Enøe; Hamelryck, Thomas


    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....... 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...

  8. A simple probabilistic model of multibody interactions in proteins. (United States)

    Johansson, Kristoffer Enøe; Hamelryck, Thomas


    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.

  9. A simple theory of motor protein kinetics and energetics. II. (United States)

    Qian, H


    A three-state stochastic model of motor protein [Qian, Biophys. Chem. 67 (1997) pp. 263-267] is further developed to illustrate the relationship between the external load on an individual motor protein in aqueous solution with various ATP concentrations and its steady-state velocity. A wide variety of dynamic motor behavior are obtained from this simple model. For the particular case of free-load translocation being the most unfavorable step within the hydrolysis cycle, the load-velocity curve is quasi-linear, V/Vmax = (cF/Fmax-c)/(1-c), in contrast to the hyperbolic relationship proposed by A.V. Hill for macroscopic muscle. Significant deviation from the linearity is expected when the velocity is less than 10% of its maximal (free-load) value--a situation under which the processivity of motor diminishes and experimental observations are less certain. We then investigate the dependence of load-velocity curve on ATP (ADP) concentration. It is shown that the free load Vmax exhibits a Michaelis-Menten like behavior, and the isometric Fmax increases linearly with ln([ATP]/[ADP]). However, the quasi-linear region is independent of the ATP concentration, yielding an apparently ATP-independent maximal force below the true isometric force. Finally, the heat production as a function of ATP concentration and external load are calculated. In simple terms and solved with elementary algebra, the present model provides an integrated picture of biochemical kinetics and mechanical energetics of motor proteins.

  10. Simple Protein Complex Purification and Identification Method Suitable for High- throughput Mapping of Protein Interaction Networks

    Energy Technology Data Exchange (ETDEWEB)

    Markillie, Lye Meng; Lin, Chiann Tso; Adkins, Joshua N.; Auberry, Deanna L.; Hill, Eric A.; Hooker, Brian S.; Moore, Priscilla A.; Moore, Ronald J.; Shi, Liang; Wiley, H. S.; Kery, Vladimir


    Most of the current methods for purification and identification of protein complexes use endogenous expression of affinity tagged bait, tandem affinity tag purification of protein complexes followed by specific elution of complexes from beads, gel separation, in-gel digestion and mass spectrometric analysis of protein interactors. We propose a single affinity tag in vitro pulldown assay with denaturing elution, trypsin digestion in organic solvent and LC ESI MS/MS protein identification using SEQUEST analysis. Our method is simple, easy to scale up and automate thus suitable for high throughput mapping of protein interaction networks and functional proteomics.

  11. Simple, yet powerful methodologies for conformational sampling of proteins. (United States)

    Harada, Ryuhei; Takano, Yu; Baba, Takeshi; Shigeta, Yasuteru


    Several biological functions, such as molecular recognition, enzyme catalysis, signal transduction, allosteric regulation, and protein folding, are strongly related to conformational transitions of proteins. These conformational transitions are generally induced as slow dynamics upon collective motions, including biologically relevant large-amplitude fluctuations of proteins. Although molecular dynamics (MD) simulation has become a powerful tool for extracting conformational transitions of proteins, it might still be difficult to reach time scales of the biological functions because the accessible time scales of MD simulations are far from biological time scales, even if straightforward conventional MD (CMD) simulations using massively parallel computers are employed. Thus, it is desirable to develop efficient methods to achieve canonical ensembles with low computational costs. From this perspective, we review several enhanced conformational sampling techniques of biomolecules developed by us. In our methods, multiple independent short-time MD simulations are employed instead of single straightforward long-time CMD simulations. Our basic strategy is as follows: (i) selection of initial seeds (initial structures) for the conformational sampling in restarting MD simulations. Here, the seeds should be selected as candidates with high potential to transit. (ii) Resampling from the selected seeds by initializing velocities in restarting short-time MD simulations. A cycle of these simple protocols might drastically promote the conformational transitions of biomolecules. (iii) Once reactive trajectories extracted from the cycles of short-time MD simulations are obtained, a free energy profile is evaluated by means of umbrella sampling (US) techniques with the weighted histogram analysis method (WHAM) as a post-processing technique. For the selection of the initial seeds, we proposed four different choices: (1) Parallel CaScade molecular dynamics (PaCS-MD), (2) Fluctuation

  12. 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: [Dipartimento di Fisica, Università di Palermo, Via Archirafi 36, 90123 Palermo (Italy)


    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.

  13. Improving protein coreference resolution by simple semantic classification

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    Nguyen Ngan


    Full Text Available Abstract Background Current research has shown that major difficulties in event extraction for the biomedical domain are traceable to coreference. Therefore, coreference resolution is believed to be useful for improving event extraction. To address coreference resolution in molecular biology literature, the Protein Coreference (COREF task was arranged in the BioNLP Shared Task (BioNLP-ST, hereafter 2011, as a supporting task. However, the shared task results indicated that transferring coreference resolution methods developed for other domains to the biological domain was not a straight-forward task, due to the domain differences in the coreference phenomena. Results We analyzed the contribution of domain-specific information, including the information that indicates the protein type, in a rule-based protein coreference resolution system. In particular, the domain-specific information is encoded into semantic classification modules for which the output is used in different components of the coreference resolution. We compared our system with the top four systems in the BioNLP-ST 2011; surprisingly, we found that the minimal configuration had outperformed the best system in the BioNLP-ST 2011. Analysis of the experimental results revealed that semantic classification, using protein information, has contributed to an increase in performance by 2.3% on the test data, and 4.0% on the development data, in F-score. Conclusions The use of domain-specific information in semantic classification is important for effective coreference resolution. Since it is difficult to transfer domain-specific information across different domains, we need to continue seek for methods to utilize such information in coreference resolution.

  14. Solvent Electrostatic Response: From Simple Solutes to Proteins (United States)

    Dinpajooh, Mohammadhasan

    How water behaves at interfaces is relevant to many scientific and technological applications; however, many subtle phenomena are unknown in aqueous solutions. In this work, interfacial structural transition in hydration shells of a polarizable solute at critical polarizabilities is discovered. The transition is manifested in maximum water response, the reorientation of the water dipoles at the interface, and an increase in the density of dangling OH bonds. This work also addresses the role of polarizability of the active site of proteins in biological catalytic reactions. For proteins, the hydration shell becomes very heterogeneous and involves a relatively large number of water molecules. The molecular dynamics simulations show that the polarizability, along with the atomic charge distribution, needs to be a part of the picture describing how enzymes work. Non Gaussian dynamics in time-resolved linear and nonlinear (correlation) 2D spectra are also analyzed. Additionally, a theoretical formalism is presented to show that when preferential orientations of water dipoles exist at the interface, electrophoretic charges can be produced without free charge carriers, i.e., neutral solutes can move in a constant electric field due to the divergence of polarization at the interface. Furthermore, the concept of interface susceptibility is introduced. It involves the fluctuations of the surface charge density caused by thermal motion and its correlation over the characteristic correlation length with the fluctuations of the solvent charge density. Solvation free energy and interface dielectric constant are formulated accordingly. Unlike previous approaches, the solvation free energy scales quite well in a broad range of ion sizes, namely in the range of 2-14 A. Interface dielectric constant is defined such that the boundary conditions in the Laplace equation describing a micro- or mesoscopic interface are satisfied. The effective dielectric constant of interfacial water is

  15. 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 ...

  16. A Simple and Efficient Method for Purification of Egg White Major Proteins Using Ion Exchange Chromatography


    Sh. Veisi; A. Mostafaie; Z. Mohammad Hasan


    Introduction & Objective: Egg white contains four high-quantity proteins which have numerous applications. In this research, a simple and efficient method for the purification of those proteins was designed and performed based on ion exchange chromatography.Materials & Methods: In this experimental study egg white was initially separated from insoluble substances by acidic pH. The resulting extract was isolated after two steps of ion exchange chromatography using CM-Sepharose and DEAE-Sepharo...

  17. Detection and characterization of protein interactions in vivo by a simple live-cell imaging method.

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    Oriol Gallego

    Full Text Available Over the last decades there has been an explosion of new methodologies to study protein complexes. However, most of the approaches currently used are based on in vitro assays (e.g. nuclear magnetic resonance, X-ray, electron microscopy, isothermal titration calorimetry etc. The accurate measurement of parameters that define protein complexes in a physiological context has been largely limited due to technical constrains. Here, we present PICT (Protein interactions from Imaging of Complexes after Translocation, a new method that provides a simple fluorescence microscopy readout for the study of protein complexes in living cells. We take advantage of the inducible dimerization of FK506-binding protein (FKBP and FKBP-rapamycin binding (FRB domain to translocate protein assemblies to membrane associated anchoring platforms in yeast. In this assay, GFP-tagged prey proteins interacting with the FRB-tagged bait will co-translocate to the FKBP-tagged anchor sites upon addition of rapamycin. The interactions are thus encoded into localization changes and can be detected by fluorescence live-cell imaging under different physiological conditions or upon perturbations. PICT can be automated for high-throughput studies and can be used to quantify dissociation rates of protein complexes in vivo. In this work we have used PICT to analyze protein-protein interactions from three biological pathways in the yeast Saccharomyces cerevisiae: Mitogen-activated protein kinase cascade (Ste5-Ste11-Ste50, exocytosis (exocyst complex and endocytosis (Ede1-Syp1.

  18. A simple method for the determination of reduction potentials in heme proteins. (United States)

    Efimov, Igor; Parkin, Gary; Millett, Elizabeth S; Glenday, Jennifer; Chan, Cheuk K; Weedon, Holly; Randhawa, Harpreet; Basran, Jaswir; Raven, Emma L


    We describe a simple method for the determination of heme protein reduction potentials. We use the method to determine the reduction potentials for the PAS-A domains of the regulatory heme proteins human NPAS2 (Em=-115 mV ± 2 mV, pH 7.0) and human CLOCK (Em=-111 mV ± 2 mV, pH 7.0). We suggest that the method can be easily and routinely applied to the determination of reduction potentials across the family of heme proteins.

  19. Assembly of transmembrane helices of simple polytopic membrane proteins from sequence conservation patterns. (United States)

    Park, Yungki; Helms, Volkhard


    The transmembrane (TM) domains of most membrane proteins consist of helix bundles. The seemingly simple task of TM helix bundle assembly has turned out to be extremely difficult. This is true even for simple TM helix bundle proteins, i.e., those that have the simple form of compact TM helix bundles. Herein, we present a computational method that is capable of generating native-like structural models for simple TM helix bundle proteins having modest numbers of TM helices based on sequence conservation patterns. Thus, the only requirement for our method is the presence of more than 30 homologous sequences for an accurate extraction of sequence conservation patterns. The prediction method first computes a number of representative well-packed conformations for each pair of contacting TM helices, and then a library of tertiary folds is generated by overlaying overlapping TM helices of the representative conformations. This library is scored using sequence conservation patterns, and a subsequent clustering analysis yields five final models. Assuming that neighboring TM helices in the sequence contact each other (but not that TM helices A and G contact each other), the method produced structural models of Calpha atom root-mean-square deviation (CA RMSD) of 3-5 A from corresponding crystal structures for bacteriorhodopsin, halorhodopsin, sensory rhodopsin II, and rhodopsin. In blind predictions, this type of contact knowledge is not available. Mimicking this, predictions were made for the rotor of the V-type Na(+)-adenosine triphosphatase without such knowledge. The CA RMSD between the best model and its crystal structure is only 3.4 A, and its contact accuracy reaches 55%. Furthermore, the model correctly identifies the binding pocket for sodium ion. These results demonstrate that the method can be readily applied to ab initio structure prediction of simple TM helix bundle proteins having modest numbers of TM helices.

  20. An extremely simple method for fabricating 3D protein microarrays with an anti-fouling background and high protein capacity. (United States)

    Lin, Zhifeng; Ma, Yuhong; Zhao, Changwen; Chen, Ruichao; Zhu, Xing; Zhang, Lihua; Yan, Xu; Yang, Wantai


    Protein microarrays have become vital tools for various applications in biomedicine and bio-analysis during the past decade. The intense requirements for a lower detection limit and industrialization in this area have resulted in a persistent pursuit to fabricate protein microarrays with a low background and high signal intensity via simple methods. Here, we report on an extremely simple strategy to create three-dimensional (3D) protein microarrays with an anti-fouling background and a high protein capacity by photo-induced surface sequential controlled/living graft polymerization developed in our lab. According to this strategy, "dormant" groups of isopropyl thioxanthone semipinacol (ITXSP) were first introduced to a polymeric substrate through ultraviolet (UV)-induced surface abstraction of hydrogen, followed by a coupling reaction. Under visible light irradiation, the ITXSP groups were photolyzed to initiate surface living graft polymerization of poly(ethylene glycol) methyl methacrylate (PEGMMA), thus introducing PEG brushes to the substrate to generate a full anti-fouling background. Due to the living nature of this graft polymerization, there were still ITXSP groups on the chain ends of the PEG brushes. Therefore, by in situ secondary living graft cross-linking copolymerization of glycidyl methacrylate (GMA) and polyethylene glycol diacrylate (PEGDA), we could finally plant height-controllable cylinder microarrays of a 3D PEG network containing reactive epoxy groups onto the PEG brushes. Through a commonly used reaction of amine and epoxy groups, the proteins could readily be covalently immobilized onto the microarrays. This delicate design aims to overcome two universal limitations in protein microarrays: a full anti-fouling background can effectively eliminate noise caused by non-specific absorption and a 3D reactive network provides a larger protein-loading capacity to improve signal intensity. The results of non-specific protein absorption tests

  1. A rapid and simple assay for growth hormone-binding protein activity in human plasma. (United States)

    Baumann, G; Shaw, M A; Amburn, K


    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 subjects 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.

  2. A simple atomic-level hydrophobicity scale reveals protein interfacial structure. (United States)

    Kapcha, Lauren H; Rossky, Peter J


    Many amino acid residue hydrophobicity scales have been created in an effort to better understand and rapidly characterize water-protein interactions based only on protein structure and sequence. There is surprisingly low consistency in the ranking of residue hydrophobicity between scales, and their ability to provide insightful characterization varies substantially across subject proteins. All current scales characterize hydrophobicity based on entire amino acid residue units. We introduce a simple binary but atomic-level hydrophobicity scale that allows for the classification of polar and non-polar moieties within single residues, including backbone atoms. This simple scale is first shown to capture the anticipated hydrophobic character for those whole residues that align in classification among most scales. Examination of a set of protein binding interfaces establishes good agreement between residue-based and atomic-level descriptions of hydrophobicity for five residues, while the remaining residues produce discrepancies. We then show that the atomistic scale properly classifies the hydrophobicity of functionally important regions where residue-based scales fail. To illustrate the utility of the new approach, we show that the atomic-level scale rationalizes the hydration of two hydrophobic pockets and the presence of a void in a third pocket within a single protein and that it appropriately classifies all of the functionally important hydrophilic sites within two otherwise hydrophobic pores. We suggest that an atomic level of detail is, in general, necessary for the reliable depiction of hydrophobicity for all protein surfaces. The present formulation can be implemented simply in a manner no more complex than current residue-based approaches.

  3. A Simple and Rapid Method for Preparing a Cell-Free Bacterial Lysate for Protein Synthesis (United States)

    Kaduri, Maya; Shainsky-Roitman, Janna; Goldfeder, Mor; Ivanir, Eran; Benhar, Itai; Shoham, Yuval; Schroeder, Avi


    Cell-free protein synthesis (CFPS) systems are important laboratory tools that are used for various synthetic biology applications. Here, we present a simple and inexpensive laboratory-scale method for preparing a CFPS system from E. coli. The procedure uses basic lab equipment, a minimal set of reagents, and requires less than one hour to process the bacterial cell mass into a functional S30-T7 extract. BL21(DE3) and MRE600 E. coli strains were used to prepare the S30-T7 extract. The CFPS system was used to produce a set of fluorescent and therapeutic proteins of different molecular weights (up to 66 kDa). This system was able to produce 40–150 μg-protein/ml, with variations depending on the plasmid type, expressed protein and E. coli strain. Interestingly, the BL21-based CFPS exhibited stability and increased activity at 40 and 45°C. To the best of our knowledge, this is the most rapid and affordable lab-scale protocol for preparing a cell-free protein synthesis system, with high thermal stability and efficacy in producing therapeutic proteins. PMID:27768741

  4. Electrostatics of cysteine residues in proteins: parameterization and validation of a simple model. (United States)

    Salsbury, Freddie R; Poole, Leslie B; Fetrow, Jacquelyn S


    One of the most popular and simple models for the calculation of pK(a) s from a protein structure is the semi-macroscopic electrostatic model MEAD. This model requires empirical parameters for each residue to calculate pK(a) s. Analysis of current, widely used empirical parameters for cysteine residues showed that they did not reproduce expected cysteine pK(a) s; thus, we set out to identify parameters consistent with the CHARMM27 force field that capture both the behavior of typical cysteines in proteins and the behavior of cysteines which have perturbed pK(a) s. The new parameters were validated in three ways: (1) calculation across a large set of typical cysteines in proteins (where the calculations are expected to reproduce expected ensemble behavior); (2) calculation across a set of perturbed cysteines in proteins (where the calculations are expected to reproduce the shifted ensemble behavior); and (3) comparison to experimentally determined pK(a) values (where the calculation should reproduce the pK(a) within experimental error). Both the general behavior of cysteines in proteins and the perturbed pK(a) in some proteins can be predicted reasonably well using the newly determined empirical parameters within the MEAD model for protein electrostatics. This study provides the first general analysis of the electrostatics of cysteines in proteins, with specific attention paid to capturing both the behavior of typical cysteines in a protein and the behavior of cysteines whose pK(a) should be shifted, and validation of force field parameters for cysteine residues.

  5. Structure, Function, Self-Assembly and Origin of Simple Membrane Proteins (United States)

    Pohorille, Andrew


    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

  6. Unraveling the Beautiful Complexity of Simple Lattice Model Polymers and Proteins Using Wang-Landau Sampling (United States)

    Wüst, T.; Li, Y. W.; Landau, D. P.


    We describe a class of "bare bones" models of homopolymers which undergo coil-globule collapse and proteins which fold into their native states in free space or into denatured states when captured by an attractive substrate as the temperature is lowered. We then show how, with the use of a properly chosen trial move set, Wang-Landau Monte Carlo sampling can be used to study the rough free energy landscape and ground (native) states of these intriguingly simple systems and thus elucidate their thermodynamic complexity.

  7. A Simple and Efficient Method for Purification of Egg White Major Proteins Using Ion Exchange Chromatography

    Directory of Open Access Journals (Sweden)

    Sh. Veisi


    Full Text Available Introduction & Objective: Egg white contains four high-quantity proteins which have numerous applications. In this research, a simple and efficient method for the purification of those proteins was designed and performed based on ion exchange chromatography.Materials & Methods: In this experimental study egg white was initially separated from insoluble substances by acidic pH. The resulting extract was isolated after two steps of ion exchange chromatography using CM-Sepharose and DEAE-Sepharose columns, respectively. Purification degree and yield of each fraction were analyzed by electrophoresis densitometry.Results: The results showed that purification degrees of ovalbumin, ovotransferrin, ovomucoid and lysozyme were 97, 98, 85 and 99 percent and their yields were 98, 98 95 and 99 percent, respectively.Conclusion: High yields, reproducibility and feasibility on low or high scales are considered as the strengths of this method.

  8. Simple horizontal magnetic tweezers for micromanipulation of single DNA molecules and DNA-protein complexes. (United States)

    McAndrew, Christopher P; Tyson, Christopher; Zischkau, Joseph; Mehl, Patrick; Tuma, Pamela L; Pegg, Ian L; Sarkar, Abhijit


    We report the development of a simple-to-implement magnetic force transducer that can apply a wide range of piconewton (pN) scale forces on single DNA molecules and DNA-protein complexes in the horizontal plane. The resulting low-noise force-extension data enable very high-resolution detection of changes in the DNA tether's extension: ~0.05 pN in force and DNA in near equilibrium conditions through the wide range of forces by ramping the force from low to high and back again, and observing minimal hysteresis in the molecule's force response. Using a calibration technique based on Stokes' drag law, we have confirmed our force measurements from DNA force-extension experiments obtained using the fluctuation-dissipation theorem applied to transverse fluctuations of the magnetic microsphere. We present data on the force-distance characteristics of a DNA molecule complexed with histones. The results illustrate how the tweezers can be used to study DNA binding proteins at the single molecule level.

  9. 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.

  10. Quantitation of changes in protein phosphorylation: A simple method based on stable isotope labeling and mass spectrometry


    Bonenfant, Débora; Schmelzle, Tobias; Jacinto, Estela; Crespo, José L; Mini, Thierry; Hall, Michael N.; Jenoe, Paul


    Reversible protein phosphorylation plays an important role in many cellular processes. However, a simple and reliable method to measure changes in the extent of phosphorylation is lacking. Here, we present a method to quantitate the changes in phosphorylation occurring in a protein in response to a stimulus. The method consists of three steps: (i) enzymatic digestion in H216O or isotopically enriched H218O to label individual pools of differentially phosphorylated proteins; (ii) affinity sele...

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

    Directory of Open Access Journals (Sweden)

    Berezovskaya Faina S


    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

  12. Dewetting of polystyrene thin films on poly(ethylene glycol)-modified surfaces as a simple approach for patterning proteins. (United States)

    Cai, Yangjun; Newby, Bi-min Zhang


    A simple technique for patterning proteins utilizing dewetted polystyrene (PS) droplets is demonstrated. A polystyrene thin film was spin coated on a poly(ethylene glycol) (PEG) silane-modified surface. As the PS film dewets from the surface, upon annealing, to form droplets, the PEG-silane-modified surface is exposed, which retains its capability to resist protein adsorption, and the PS droplets allow the selective adsorption of proteins. In contrast to the undewetted flat PS film, the droplet surface had a greater amount of adsorbed proteins. Atomic force microscopy scans reveal that the roughness of the droplet surface is higher, and a multilayer of proteins results on the droplet surface. Moreover, micro- and nanoscale droplet patterns can easily be achieved by tuning the thickness of PS thin films. Because dewetting approaches for generating ordered dewetting droplets have been successfully generated by others, those approaches could be easily combined with this technique to fabricate ordered protein patterns.

  13. A Simple Spreadsheet Program to Simulate and Analyze the Far-UV Circular Dichroism Spectra of Proteins (United States)

    Abriata, Luciano A.


    A simple algorithm was implemented in a spreadsheet program to simulate the circular dichroism spectra of proteins from their secondary structure content and to fit [alpha]-helix, [beta]-sheet, and random coil contents from experimental far-UV circular dichroism spectra. The physical basis of the method is briefly reviewed within the context of…

  14. 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


    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...

  15. Optimisation of a simple and reliable label-free methodology for the relative quantitation of raw pork meat proteins. (United States)

    Gallego, Marta; Mora, Leticia; Aristoy, M Concepción; Toldrá, Fidel


    Recent advances in proteomics have become an indispensable tool for a fast, precise and sensitive analysis of proteins in complex biological samples at both, qualitative and quantitative level. In this study, a label-free quantitative proteomic methodology has been optimised for the relative quantitation of proteins extracted from raw pork meat. So, after the separation of proteins by one-dimensional gel electrophoresis and trypsin digestion, their identification and quantitation have been done using nanoliquid chromatography coupled to a quadrupole/time-of-flight (Q/ToF) mass spectrometer. Relative quantitation has been based on the measurement of mass spectral peak intensities, which have been described that are correlated with protein abundances. The results obtained regarding linearity, robustness, repeatability and accuracy show that this procedure could be used as a fast, simple, and reliable method to quantify changes in protein abundance in meat samples.

  16. A simple quantitative model of macromolecular crowding effects on protein folding: Application to the murine prion protein(121-231) (United States)

    Bergasa-Caceres, Fernando; Rabitz, Herschel A.


    A model of protein folding kinetics is applied to study the effects of macromolecular crowding on protein folding rate and stability. Macromolecular crowding is found to promote a decrease of the entropic cost of folding of proteins that produces an increase of both the stability and the folding rate. The acceleration of the folding rate due to macromolecular crowding is shown to be a topology-dependent effect. The model is applied to the folding dynamics of the murine prion protein (121-231). The differential effect of macromolecular crowding as a function of protein topology suffices to make non-native configurations relatively more accessible.

  17. A simple MALDI plate functionalization by Vmh2 hydrophobin for serial multi-enzymatic protein digestions. (United States)

    Longobardi, Sara; Gravagnuolo, Alfredo Maria; Funari, Riccardo; Della Ventura, Bartolomeo; Pane, Francesca; Galano, Eugenio; Amoresano, Angela; Marino, Gennaro; Giardina, Paola


    The development of efficient and rapid methods for the identification with high sequence coverage of proteins is one of the most important goals of proteomic strategies today. The on-plate digestion of proteins is a very attractive approach, due to the possibility of coupling immobilized-enzymatic digestion with direct matrix-assisted laser desorption/ionization (MALDI)-time of flight (TOF)-mass spectrometry (MS) analysis. The crucial step in the development of on-plate immobilization is however the functionalization of the solid surface. Fungal self-assembling proteins, the hydrophobins, are able to efficiently functionalize surfaces. We have recently shown that such modified plates are able to absorb either peptides or proteins and are amenable to MALDI-TOF-MS analysis. In this paper, the hydrophobin-coated MALDI sample plates were exploited as a lab-on-plate for noncovalent immobilization of enzymes commonly used in protein identification/characterization, such as trypsin, V8 protease, PNGaseF, and alkaline phosphatase. Rapid and efficient on-plate reactions were performed to achieve high sequence coverage of model proteins, particularly when performing multiple enzyme digestions. The possibility of exploiting this direct on-plate MALDI-TOF/TOF analysis has been investigated on model proteins and, as proof of concept, on entire whey milk proteome.

  18. A simple pressure cell and delivery system for the preparation of Xe derivatives for protein crystallography

    Energy Technology Data Exchange (ETDEWEB)

    Stowell, M.H.; Soltis, S.M.; Kisker, C.; Peters, J.W.; Schindelin, H.; Rees, D.C.; Cascio, D.; Beamer, L.; Hart, J.; Whitby, F.G. [Carl F. and Winifred H. Braun Laboratories, Mail Stop 147-75CH, California Institute of Technology, Pasadena, CA 91125 (United States)]|[Stanford Synchrotron Radiation Laboratory, SLAC, P. O. Box 4349, Bin 69, Stanford University, CA 94309 (United States)]|[University of California Los Angeles, Institute of Molecular Biology, Department of Chemistry and Biochemistry, Los Angeles, CA 90024 (United States)]|[University of Utah Medical Center, Department of Biochemistry, 50 North Medical Drive, Salt Lake City, UT 84132 (United States)


    We have developed a simple device for preparing Xe derivatives under moderate gaseous pressure (1{endash}100 atm). The device employs a Cajon ultra-torr fitting to ensure a gas-tight seal around a standard x-ray capillary. As such, the cell can accommodate standard x-ray capillaries up to 1.5 mm in diameter without any modification. The device is straightforward to utilize, and samples can be mounted and pressurized in a matter of seconds. In addition, a simple and safe purging and pressurization system has been designed and constructed for the use at beamline 7-1 at the Stanford Synchrotron Radiation Laboratory (SSRL). We describe the construction of both the pressure cell and the delivery system and present results on the cells use in the preparation of xenon derivatives. {copyright} {ital 1996 American Institute of Physics.}

  19. 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.

  20. Physical origin of hydrophobicity studied in terms of cold denaturation of proteins: comparison between water and simple fluids. (United States)

    Yoshidome, Takashi; Kinoshita, Masahiro


    A clue to the physical origin of the hydrophobicity is in the experimental observations, which show that it is weakened at low temperatures. By considering a solvophobic model protein immersed in water and three species of simple solvents, we analyze the temperature dependence of the changes in free energy, energy, and entropy of the solvent upon protein unfolding. The angle-dependent and radial-symmetric integral equation theories and the morphometric approach are employed in the analysis. Each of the changes is decomposed into two terms, which depend on the excluded volume and on the area and curvature of the solvent-accessible surface, respectively. The excluded-volume term of the entropy change is further decomposed into two components representing the protein-solvent pair correlation and the protein-solvent-solvent triplet and higher-order correlation, respectively. We show that water crowding in the system becomes more serious upon protein unfolding but this effect becomes weaker as the temperature is lowered. If the hydrophobicity originated from the water structuring near a nonpolar solute, it would be strengthened upon lowering of the temperature. Among the three species of simple solvents, considerable weakening of the solvophobicity at low temperatures is observed only for the solvent where the particles interact through a strong attractive potential and the particle size is as small as that of water. Even in the case of this solvent, however, cold denaturation of a protein cannot be reproduced. It would be reproducible if the attractive potential was substantially enhanced, but such enhancement causes the appearance of the metastability limit for a single liquid phase.

  1. A simple strategy for the purification of native recombinant full-length human RPL10 protein from inclusion bodies. (United States)

    Pereira, Larissa M; Silva, Luana R; Alves, Joseane F; Marin, Nélida; Silva, Flavio Sousa; Morganti, Ligia; Silva, Ismael D C G; Affonso, Regina


    The L10 ribosomal protein (RPL10) plays a role in the binding of the 60 S and 40 S ribosomal subunits and in mRNA translation. The evidence indicates that RPL10 also has multiple extra-ribosomal functions, including tumor suppression. Recently, the presence of RPL10 in prostate and ovarian cancers was evaluated, and it was demonstrated to be associated with autistic disorders and premature ovarian failure. In the present work, we successfully cloned and expressed full-length human RPL10 (hRPL10) protein and isolated inclusion bodies containing this protein that had formed under mild growth conditions. The culture produced 376mg of hRPL10 protein per liter of induced bacterial culture, of which 102.4mg was present in the soluble fraction, and 25.6mg was recovered at approximately 94% purity. These results were obtained using a two-step process of non-denaturing protein extraction from pelleted inclusion bodies. We studied the characteristics of this protein using circular dichroism spectroscopy and by monitoring the changes induced by the presence or absence of zinc ions using fluorescence spectrometry. The results demonstrated that the protein obtained using these non-conventional methods retained its secondary and tertiary structure. The conformational changes induced by the incorporation of zinc suggested that this protein could interact with Jun or the SH3 domain of c-yes. The results suggested that the strategy used to obtain hRPL10 is simple and could be applied to obtaining other proteins that are susceptible to degradation.

  2. A simple, economical and reproducible protein extraction protocol for proteomics studies of soybean roots

    Directory of Open Access Journals (Sweden)

    Elisete Pains Rodrigues


    Full Text Available Sample preparation is a critical step in two-dimensional gel electrophoresis (2-DE of plant tissues. Here we describe a phenol/SDS procedure that, although greatly simplified, produced well-resolved and reproducible 2-DE profiles of protein extracts from soybean [Glycine max (L. Merril] roots. Extractions were made in three replicates using both the original and simplified procedure. To evaluate the quality of the extracted proteins, ten spots were randomly selected and identified by mass spectrometry (MS. The 2-DE gels were equally well resolved, with no streaks or smears, and no significant differences were observed in protein yield, reproducibility, resolution or number of spots. Mass spectra of the ten selected spots were compared with database entries and allowed high-quality identification of proteins. The simplified protocol described here presents considerable savings of time and reagents without compromising the quality of 2-DE protein profiles and compatibility with MS analysis, and may facilitate the progress of proteomics studies of legume-rhizobia interactions.

  3. A simple biosynthetic method for stereospecific resonance assignment of prochiral methyl groups in proteins

    Energy Technology Data Exchange (ETDEWEB)

    Plevin, Michael J., E-mail: [CEA, Institut de Biologie Structurale Jean-Pierre Ebel (France); Hamelin, Olivier [CNRS, Laboratoire de Chimie et Biologie des Metaux (France); Boisbouvier, Jerome; Gans, Pierre [CEA, Institut de Biologie Structurale Jean-Pierre Ebel (France)


    A new method for stereospecific assignment of prochiral methyl groups in proteins is presented in which protein samples are produced using U-[{sup 13}C]glucose and subsaturating amounts of 2-[{sup 13}C]methyl-acetolactate. The resulting non-uniform labeling pattern allows proR and proS methyl groups to be easily distinguished by their different phases in a constant-time two-dimensional {sup 1}H-{sup 13}C correlation spectra. Protein samples are conveniently prepared using the same media composition as the main uniformly-labeled sample and contain higher levels of isotope-enrichment than fractional labeling approaches. This new strategy thus represents an economically-attractive, robust alternative for obtaining isotopically-encoded stereospecific NMR assignments of prochiral methyl groups.

  4. Introducing Proteomics in the Undergraduate Curriculum: A Simple 2D Gel Electrophoresis Exercise with Serum Proteins (United States)

    Kim, Thomas D.; Craig, Paul A.


    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…

  5. Using Simple Manipulatives to Improve Student Comprehension of a Complex Biological Process: Protein Synthesis (United States)

    Guzman, Karen; Bartlett, John


    Biological systems and living processes involve a complex interplay of biochemicals and macromolecular structures that can be challenging for undergraduate students to comprehend and, thus, misconceptions abound. Protein synthesis, or translation, is an example of a biological process for which students often hold many misconceptions. This article…

  6. A simple Pichia pastoris fermentation and downstream processing strategy for making recombinant pandemic Swine Origin Influenza a virus Hemagglutinin protein. (United States)

    Athmaram, T N; Singh, Anil Kumar; Saraswat, Shweta; Srivastava, Saurabh; Misra, Princi; Kameswara Rao, M; Gopalan, N; Rao, P V L


    The present Influenza vaccine manufacturing process has posed a clear impediment to initiation of rapid mass vaccination against spreading pandemic influenza. New vaccine strategies are therefore needed that can accelerate the vaccine production. Pichia offers several advantages for rapid and economical bulk production of recombinant proteins and, hence, can be attractive alternative for producing an effective influenza HA based subunit vaccine. The recombinant Pichia harboring the transgene was subjected to fed-batch fermentation at 10 L scale. A simple fermentation and downstream processing strategy is developed for high-yield secretory expression of the recombinant Hemagglutinin protein of pandemic Swine Origin Influenza A virus using Pichia pastoris via fed-batch fermentation. Expression and purification were optimized and the expressed recombinant Hemagglutinin protein was verified by sodium dodecyl sulfate polyacrylamide gel electrophoresis, Western blot and MALDI-TOF analysis. In this paper, we describe a fed-batch fermentation protocol for the secreted production of Swine Influenza A Hemagglutinin protein in the P. pastoris GS115 strain. We have shown that there is a clear relationship between product yield and specific growth rate. The fed-batch fermentation and downstream processing methods optimized in the present study have immense practical application for high-level production of the recombinant H1N1 HA protein in a cost effective way using P. pastoris.

  7. P99-T A Simple Method to Quantitate Selenomethionine Incorporation into Proteins


    Fabrizio, L. A.; Tempst, P; Erdjument-Bromage, H.


    Selenomethionine substitution is the preferred method for preparing heavy-atom derivatives of proteins for crystal structure determination using the multi-wavelength anomalous diffraction phasing method. This approach allows researchers to take advantage of the anomalous signal from a number of diverse atoms. We recently published a protocol describing a number of variables that play a role in determining incorporation efficiency of selenomethionine into mammalian expression systems.1 Here we...

  8. A simple and efficient method for assembling TALE protein based on plasmid library.

    Directory of Open Access Journals (Sweden)

    Zhiqiang Zhang

    Full Text Available DNA binding domain of the transcription activator-like effectors (TALEs from Xanthomonas sp. consists of tandem repeats that can be rearranged according to a simple cipher to target new DNA sequences with high DNA-binding specificity. This technology has been successfully applied in varieties of species for genome engineering. However, assembling long TALE tandem repeats remains a big challenge precluding wide use of this technology. Although several new methodologies for efficiently assembling TALE repeats have been recently reported, all of them require either sophisticated facilities or skilled technicians to carry them out. Here, we described a simple and efficient method for generating customized TALE nucleases (TALENs and TALE transcription factors (TALE-TFs based on TALE repeat tetramer library. A tetramer library consisting of 256 tetramers covers all possible combinations of 4 base pairs. A set of unique primers was designed for amplification of these tetramers. PCR products were assembled by one step of digestion/ligation reaction. 12 TALE constructs including 4 TALEN pairs targeted to mouse Gt(ROSA26Sor gene and mouse Mstn gene sequences as well as 4 TALE-TF constructs targeted to mouse Oct4, c-Myc, Klf4 and Sox2 gene promoter sequences were generated by using our method. The construction routines took 3 days and parallel constructions were available. The rate of positive clones during colony PCR verification was 64% on average. Sequencing results suggested that all TALE constructs were performed with high successful rate. This is a rapid and cost-efficient method using the most common enzymes and facilities with a high success rate.

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

    Energy Technology Data Exchange (ETDEWEB)

    Cosnier, Serge [Laboratoire d' Electrochimie Organique et de Photochimie Redox, UMR CNRS 5630, Institut de Chimie Moleculaire de Grenoble, FR CNRS 2607, Universite Joseph Fourier, 38042 Grenoble cedex 9 (France)]. E-mail:; Molins, Carmen [Departamento Quimica Analitica, Universitat de Valencia (Spain); Mousty, Christine [Laboratoire d' Electrochimie Organique et de Photochimie Redox, UMR CNRS 5630, Institut de Chimie Moleculaire de Grenoble, FR CNRS 2607, Universite Joseph Fourier, 38042 Grenoble cedex 9 (France); Galland, Bruno [Laboratoire d' Electrochimie Organique et de Photochimie Redox, UMR CNRS 5630, Institut de Chimie Moleculaire de Grenoble, FR CNRS 2607, Universite Joseph Fourier, 38042 Grenoble cedex 9 (France); Lepellec, Arielle [Laboratoire d' Electrochimie Organique et de Photochimie Redox, UMR CNRS 5630, Institut de Chimie Moleculaire de Grenoble, FR CNRS 2607, Universite Joseph Fourier, 38042 Grenoble cedex 9 (France)


    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{sup -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.

  10. A Simple Method for Immunohistochemical Staining of Zebrafish Brain Sections for c-fos Protein Expression. (United States)

    Chatterjee, Diptendu; Tran, Steven; Shams, Soaleha; Gerlai, Robert


    Immediate early genes (IEGs) are transcription factors whose own transcription is initiated rapidly, for example, in the brain in response to environmental stimuli. c-fos is an IEG often used as a marker of neuronal activation. c-fos mRNA expression has started to be quantified and localized in the zebrafish brain following environmental manipulations but analysis of the expression of c-fos protein in the zebrafish brain has rarely been attempted. Here, we describe an immunofluorescence staining method for quantifying c-fos protein expression in different regions of the zebrafish brain. In addition, we expose zebrafish to caffeine, a positive control for c-fos activation in the brain. To confirm cell nucleus specific binding of the c-fos antibody, we counterstained brain sections with the nuclear fluorescent stain DAPI. Furthermore, we describe a method for reducing background autofluorescence often observed in zebrafish brain tissue. Our analysis showed that exposure to caffeine increased the number of c-fos protein-positive cells in specific zebrafish brain regions detected by the immunofluorescence method. Our results demonstrate the feasibility of immunofluorescence-based methods in the analysis of neuronal activation in the zebrafish brain, and reinforce the utility of the zebrafish in behavioral neuroscience research.

  11. Calretinin: from a simple Ca2+ buffer to a multifunctional protein implicated in many biological processes

    Directory of Open Access Journals (Sweden)

    Beat eSchwaller


    Full Text Available The hexa-EF-hand Ca2+-binding protein calretinin (CR is predominantly expressed in specific neurons of the central and peripheral nervous system. However, CR expression is also observed in non-neuronal cells, e.g. during embryonic development and in mesothelioma cells. Of the 6 EF-hand domains, 5 are functional; the first 4 domains form 2 pairs showing high cooperativity within a pair that results in non-linear modulation of intracellular Ca2+ signals by CR. EF-hand domain 5 has a low affinity and represents the identified interaction site with CR-binding partners present in mouse cerebellar granule cells. CR binding to other targets including the pore-forming α1 subunit of the Ca2+ channel CaV2.1, as well as to huntingtin indicates additional Ca2+ sensor functions besides the well-known Ca2+-buffering functions. The absence of CR in cerebellar granule cells of CR-/- mice results in increased excitability and altered firing of Purkinje cells and promotes cerebellar 160-Hz oscillations impairing motor coordination. The putative role of CR in neuroprotection is still highly discussed. Altogether, CR emerges as a multi-functional protein also associated with development, i.e. cell proliferation, differentiation and cell death.

  12. 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


    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

  13. A Simple Method for Discovering Druggable, Specific Glycosaminoglycan-Protein Systems. Elucidation of Key Principles from Heparin/Heparan Sulfate-Binding Proteins.

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    Aurijit Sarkar

    Full Text Available Glycosaminoglycans (GAGs affect human physiology and pathology by modulating more than 500 proteins. GAG-protein interactions are generally assumed to be ionic and nonspecific, but specific interactions do exist. Here, we present a simple method to identify the GAG-binding site (GBS on proteins that in turn helps predict high specific GAG-protein systems. Contrary to contemporary thinking, we found that the electrostatic potential at basic arginine and lysine residues neither identifies the GBS consistently, nor its specificity. GBSs are better identified by considering the potential at neutral hydrogen bond donors such as asparagine or glutamine sidechains. Our studies also reveal that an unusual constellation of ionic and non-ionic residues in the binding site leads to specificity. Nature engineers the local environment of Asn45 of antithrombin, Gln255 of 3-O-sulfotransferase 3, Gln163 and Asn167 of 3-O-sulfotransferase 1 and Asn27 of basic fibroblast growth factor in the respective GBSs to induce specificity. Such residues are distinct from other uncharged residues on the same protein structure in possessing a significantly higher electrostatic potential, resultant from the local topology. In contrast, uncharged residues on nonspecific GBSs such as thrombin and serum albumin possess a diffuse spread of electrostatic potential. Our findings also contradict the paradigm that GAG-binding sites are simply a collection of contiguous Arg/Lys residues. Our work demonstrates the basis for discovering specifically interacting and druggable GAG-protein systems based on the structure of protein alone, without requiring access to any structure-function relationship data.

  14. A Simple Method for Discovering Druggable, Specific Glycosaminoglycan-Protein Systems. Elucidation of Key Principles from Heparin/Heparan Sulfate-Binding Proteins. (United States)

    Sarkar, Aurijit; Desai, Umesh R


    Glycosaminoglycans (GAGs) affect human physiology and pathology by modulating more than 500 proteins. GAG-protein interactions are generally assumed to be ionic and nonspecific, but specific interactions do exist. Here, we present a simple method to identify the GAG-binding site (GBS) on proteins that in turn helps predict high specific GAG-protein systems. Contrary to contemporary thinking, we found that the electrostatic potential at basic arginine and lysine residues neither identifies the GBS consistently, nor its specificity. GBSs are better identified by considering the potential at neutral hydrogen bond donors such as asparagine or glutamine sidechains. Our studies also reveal that an unusual constellation of ionic and non-ionic residues in the binding site leads to specificity. Nature engineers the local environment of Asn45 of antithrombin, Gln255 of 3-O-sulfotransferase 3, Gln163 and Asn167 of 3-O-sulfotransferase 1 and Asn27 of basic fibroblast growth factor in the respective GBSs to induce specificity. Such residues are distinct from other uncharged residues on the same protein structure in possessing a significantly higher electrostatic potential, resultant from the local topology. In contrast, uncharged residues on nonspecific GBSs such as thrombin and serum albumin possess a diffuse spread of electrostatic potential. Our findings also contradict the paradigm that GAG-binding sites are simply a collection of contiguous Arg/Lys residues. Our work demonstrates the basis for discovering specifically interacting and druggable GAG-protein systems based on the structure of protein alone, without requiring access to any structure-function relationship data.

  15. 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


    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

  16. Soluble expression of human leukemia inhibitory factor with protein disulfide isomerase in Escherichia coli and its simple purification. (United States)

    Song, Jung-A; Jung, A Song; Koo, Bon-Kyung; Chong, Seon-Ha; Kim, Kyunhoo; Choi, Dong Kyu; Thi Vu, Thu Trang; Nguyen, Minh Tan; Jeong, Boram; Ryu, Han-Bong; Kim, Injune; Jang, Yeon Jin; Robinson, Robert Charles; Choe, Han


    Human leukemia inhibitory factor (hLIF) is a multifunctional cytokine that is essential for maintaining the pluripotency of embryonic stem cells. hLIF may be also be useful in aiding fertility through its effects on increasing the implantation rate of fertilized eggs. Thus these applications in biomedical research and clinical medicine create a high demand for bioactive hLIF. However, production of active hLIF is problematic since eukaryotic cells demonstrate limited expression and prokaryotic cells produce insoluble protein. Here, we have adopted a hybrid protein disulfide isomerase design to increase the solubility of hLIF in Escherichia coli. Low temperature expression of hLIF fused to the b'a' domain of protein disulfide isomerase (PDIb'a') increased the soluble expression in comparison to controls. A simple purification protocol for bioactive hLIF was established that includes removal of the PDIb'a' domain by cleavage by TEV protease. The resulting hLIF, which contains one extra glycine residue at the N-terminus, was highly pure and demonstrated endotoxin levels below 0.05 EU/μg. The presence of an intramolecular disulfide bond was identified using mass spectroscopy. This purified hLIF effectively maintained the pluripotency of a murine embryonic stem cell line. Thus we have developed an effective method to produce a pure bioactive version of hLIF in E. coli for use in biomedical research.

  17. Analysis of disordered proteins using a simple apparatus for millisecond quench-flow H/D exchange. (United States)

    Keppel, Theodore R; Weis, David D


    Measurement of amide H/D exchange on the ms time scale can provide valuable information about the dynamic behavior of the most flexible regions of proteins. We describe here a simple mixing apparatus, assembled solely from off-the-shelf components, that can be used for H/D exchange mass spectrometry to measure exchange on the 50-5000 ms time scale. Our apparatus utilizes flow-injection to minimize sample consumption. Although the mixer operates at low Reynolds numbers (less than 10(2)) where laminar flow is expected, H/D exchange kinetics were well-approximated using the assumption of plug-flow. We validated this approximation using fluorescence imaging of fluorescein-conjugated bovine serum albumin in the delay line and by demonstrating agreement between measured and calculated H/D exchange kinetics for a mixture of peptides. The performance of the apparatus was further validated by measuring rapid H/D exchange kinetics by an intrinsically disordered protein, murine CBP(2059-2117) (UniProt CBP_MOUSE). H/D exchange data from CBP, both free and in complex with human ACTR(1018-1088) (UniProt NCOA3_HUMAN), were consistent with previous biophysical studies of this protein.

  18. Simple Reversed-Phase HPLC Method with Spectrophotometric Detection for Measuring Acetaminophen-Protein Adducts in Rat Liver Samples

    Directory of Open Access Journals (Sweden)

    Miteshkumar Acharya


    Full Text Available A simple reversed-phase HPLC method for measuring hepatic levels of acetaminophen- (APAP- protein adduct following an overdose of APAP was developed. An aliquot of liver homogenate in phosphate-buffered saline pH 7.4 (PBS was placed on a Nanosep centrifugal device, which was centrifuged to obtain a protein residue. This residue was incubated with a solution of p-aminobenzoic acid (PABA, the internal standard, and bacterial protease in PBS, transferred to a Nanosep centrifugal device, and centrifuged. A 100 μL portion of the filtrate was analyzed on a YMC-Pack ODS-AMQ C18 column, using 100 mM potassium dihydrogen phosphate-methanol-acetic acid (100 : 0.6 : 0.1 as the mobile phase, a flow rate of 1 mL/min, and photometric detection at 254 nm. PABA and APAP-cystein-S-yl (APAP-Cys eluted at ~14.7 min and 22.7 min, respectively. Method linearity, based on on-column concentrations of APAP-Cys, was observed over the range 0.078–40 μg. Recoveries of APAP-Cys from spiked blank liver homogenates ranged from ~83% to 91%. Limits of detection and of quantification of APAP-Cys, based on column concentrations, were 0.06 μg and 0.14 μg, respectively. RSD values for interday and intraday analyses of a blank liver homogenate spiked with APAP-Cyst at three levels were, in all cases, ≤1.0% and <1.5%, respectively. The proposed method was found appropriate for comparing the antidotal properties of N-acetylcysteine and taurine in a rat model of APAP poisoning.

  19. A Simple HPLC-DAD Method for the Analysis of Melamine in Protein Supplements: Validation Using the Accuracy Profiles

    Directory of Open Access Journals (Sweden)

    Domenico Montesano


    Full Text Available The study presents a fully validated simple high-performance liquid chromatography method with diode array detection (HPLC-DAD, able to accurately determine the melamine, fraudulently added, in protein supplements, commonly used from healthy adults to enhance exercise or sport performance. The validation strategy was intentionally oriented towards routine use and the reliability of the method rather than extreme performance. For this reason, validation by accuracy profile, including estimation of uncertainty, was chosen. This procedure, based on the concept of total error (bias + standard deviation, clearly showed that this method was able to determine melamine over the range of 0.05–3.0 mg Kg−1, selected by taking into account the maximum residue levels (MRLs proposed by European legislation to distinguish between the unavoidable background presence of melamine and unacceptable adulteration. The accuracy profile procedure established that at least 95% of the future results obtained with the proposed method would be within the ±15% acceptance limits of the validated HPLC-DAD method over the whole defined concentration range.

  20. Advanced oxidation protein products (AOPP) for monitoring oxidative stress in critically ill patients: a simple, fast and inexpensive automated technique. (United States)

    Selmeci, László; Seres, Leila; Antal, Magda; Lukács, Júlia; Regöly-Mérei, Andrea; Acsády, György


    Oxidative stress is known to be involved in many human pathological processes. Although there are numerous methods available for the assessment of oxidative stress, most of them are still not easily applicable in a routine clinical laboratory due to the complex methodology and/or lack of automation. In research into human oxidative stress, the simplification and automation of techniques represent a key issue from a laboratory point of view at present. In 1996 a novel oxidative stress biomarker, referred to as advanced oxidation protein products (AOPP), was detected in the plasma of chronic uremic patients. Here we describe in detail an automated version of the originally published microplate-based technique that we adapted for a Cobas Mira Plus clinical chemistry analyzer. AOPP reference values were measured in plasma samples from 266 apparently healthy volunteers (university students; 81 male and 185 female subjects) with a mean age of 21.3 years (range 18-33). Over a period of 18 months we determined AOPP concentrations in more than 300 patients in our department. Our experiences appear to demonstrate that this technique is especially suitable for monitoring oxidative stress in critically ill patients (sepsis, reperfusion injury, heart failure) even at daily intervals, since AOPP exhibited rapid responses in both directions. We believe that the well-established relationship between AOPP response and induced damage makes this simple, fast and inexpensive automated technique applicable in daily routine laboratory practice for assessing and monitoring oxidative stress in critically ill or other patients.

  1. 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: [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)


    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.

  2. 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


    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.

  3. A simple model for DNA bridging proteins and bacterial or human genomes: bridging-induced attraction and genome compaction (United States)

    Johnson, J.; Brackley, C. A.; Cook, P. R.; Marenduzzo, D.


    We present computer simulations of the phase behaviour of an ensemble of proteins interacting with a polymer, mimicking non-specific binding to a piece of bacterial DNA or eukaryotic chromatin. The proteins can simultaneously bind to the polymer in two or more places to create protein bridges. Despite the lack of any explicit interaction between the proteins or between DNA segments, our simulations confirm previous results showing that when the protein-polymer interaction is sufficiently strong, the proteins come together to form clusters. Furthermore, a sufficiently large concentration of bridging proteins leads to the compaction of the swollen polymer into a globular phase. Here we characterise both the formation of protein clusters and the polymer collapse as a function of protein concentration, protein-polymer affinity and fibre flexibility.

  4. Clear & Simple (United States)

    ... Cultural Respect Language Access Talking to Your Doctor Research Underway Plain Language Clear & Simple What is Clear & Simple? Clear & Simple ... schedule? A: Pretesting need not be an elaborate, time-consuming research project and depends on: How quickly you work, ...

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

    CERN Document Server

    Kolossváry, István


    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.

  6. Overcoming inefficient secretion of recombinant VEGF-C in baculovirus expression vector system by simple purification of the protein from cell lysate. (United States)

    Klaus, Tomasz; Kulesza, Małgorzata; Bzowska, Monika; Wyroba, Barbara; Kilarski, Witold W; Bereta, Joanna


    The first reports about successfully expressed recombinant proteins with the use of a baculovirus vector were published over 30years ago. Despite the long time of refining this expression system, early problems with the production of baculovirus-derived secretory proteins are still not satisfactorily solved. The high expression level driven by baculoviral promoters often does not result in the desired yield of secreted recombinant proteins, which frequently accumulate inside insect cells and are only partially processed. During our attempts to produce vascular endothelial growth factor C (VEGF-C) with the use of a baculovirus vector we also faced an inefficient secretion of the recombinant protein to culture medium. We were not able to improve the outcome and obtain an acceptable concentration of VEGF-C in the medium by changing the culture conditions or utilizing different signal peptides. However, as a significant amount of native VEGF-C was detected inside the baculovirus-infected cells, we developed a simple method to purify recombinant, glycosylated VEGF-C from a lysate of the cells. The presented results indicate that the lack of a secretory protein in the insect cell culture medium after baculovirus infection does not necessarily signify failure in the production of the protein. As demonstrated by us and contrary to generally accepted views, the lysate of baculovirus-infected cells may constitute a valuable source of the biologically active, secretory protein.

  7. Simple, effective protein extraction method and proteomics analysis from polyunsaturated fatty acids-producing micro-organisms. (United States)

    Ling, Xueping; Guo, Jing; Zheng, Chuqiang; Ye, Chiming; Lu, Yinghua; Pan, Xueshan; Chen, Zhengqi; Ng, I-Son


    Polyunsaturated fatty acids (PUFAs) are valuable ingredients in the food and pharmaceutical products due to their beneficial influence on human health. Most studies paid attention on the production of PUFAs from oleaginous micro-organisms but seldom on the comparative proteomics of cells. In the study, three methods (i.e., cold shock, acetone precipitation and ethanol precipitation) for lipid removal from crude protein extracts were applied in different PUFAs-producing micro-organisms. Among the selective strains, Schizochytrium was used as an oleaginous strain with high lipid of 60.3 (w/w%) in biomass. The Mortierella alpina and Cunninghamella echinulata were chosen as the low-lipid-content strains with 25.8 (w/w%) and 21.8 (w/w%) of lipid in biomass, respectively. The cold shock resulted as the most effective method for lipid removed, thus obtained higher protein amount for Schizochytrium. Moreover, from the comparative proteomics for the three PUFAs-producing strains, it showed more significant proteins of up or down-regulation were explored under cold shock treatment. Therefore, the essential proteins (i.e., polyunsaturated fatty acid synthase) and regulating proteins were observed. In conclusion, this study provides a valuable and practical approach for analysis of high PUFAs-producing strains at the proteomics level, and would further accelerate the understanding of the metabolic flux in oleaginous micro-organisms.

  8. As Simple As Possible, but Not Simpler: Exploring the Fidelity of Coarse-Grained Protein Models for Simulated Force Spectroscopy (United States)

    Rottler, Jörg; Plotkin, Steven S.


    Mechanical unfolding of a single domain of loop-truncated superoxide dismutase protein has been simulated via force spectroscopy techniques with both all-atom (AA) models and several coarse-grained models having different levels of resolution: A Gō model containing all heavy atoms in the protein (HA-Gō), the associative memory, water mediated, structure and energy model (AWSEM) which has 3 interaction sites per amino acid, and a Gō model containing only one interaction site per amino acid at the Cα position (Cα-Gō). To systematically compare results across models, the scales of time, energy, and force had to be suitably renormalized in each model. Surprisingly, the HA-Gō model gives the softest protein, exhibiting much smaller force peaks than all other models after the above renormalization. Clustering to render a structural taxonomy as the protein unfolds showed that the AA, HA-Gō, and Cα-Gō models exhibit a single pathway for early unfolding, which eventually bifurcates repeatedly to multiple branches only after the protein is about half-unfolded. The AWSEM model shows a single dominant unfolding pathway over the whole range of unfolding, in contrast to all other models. TM alignment, clustering analysis, and native contact maps show that the AWSEM pathway has however the most structural similarity to the AA model at high nativeness, but the least structural similarity to the AA model at low nativeness. In comparison to the AA model, the sequence of native contact breakage is best predicted by the HA-Gō model. All models consistently predict a similar unfolding mechanism for early force-induced unfolding events, but diverge in their predictions for late stage unfolding events when the protein is more significantly disordered. PMID:27898663

  9. Simple machines

    CERN Document Server

    Graybill, George


    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

  10. Saturation-Transfer Difference (STD) NMR: A Simple and Fast Method for Ligand Screening and Characterization of Protein Binding (United States)

    Viegas, Aldino; Manso, Joao; Nobrega, Franklin L.; Cabrita, Eurico J.


    Saturation transfer difference (STD) NMR has emerged as one of the most popular ligand-based NMR techniques for the study of protein-ligand interactions. The success of this technique is a consequence of its robustness and the fact that it is focused on the signals of the ligand, without any need of processing NMR information about the receptor…

  11. 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

  12. A simple method for production and purification of soluble and biologically active recombinant human leukemia inhibitory factor (hLIF) fusion protein in Escherichia coli. (United States)

    Imsoonthornruksa, Sumeth; Noisa, Parinya; Parnpai, Rangsun; Ketudat-Cairns, Mariena


    Mouse embryonic stem cells (mESCs) rely on a cytokine named leukemia inhibitory factor (LIF) to maintain their undifferentiated state and pluripotency. However, the progress of mESC research is restricted and limited to highly funded laboratories due to the cost of commercial LIF. Here we presented the homemade hLIF which is biologically active. The hLIF cDNA was cloned into two different vectors in order to produce N-terminal His₆-tag and Trx-His₆-tag hLIF fusion proteins in Origami(DE3) Escherichia coli. The His₆-hLIF fusion protein was not as soluble as the Trx-His₆-hLIF fusion protein. One-step immobilized metal affinity chromatography (IMAC) was done to recover high purity (> 95% pure) His₆-hLIF and Trx-His₆-hLIF fusion proteins with the yields of 100 and 200 mg/l of cell culture, respectively. The hLIF fusion proteins were identified by Western blot and verified by mass spectrometry (LC/MS/MS). The hLIF fusion proteins specifically promote the proliferation of TF-1 cells in a dose-dependent manner. They also demonstrate the potency to retain the morphology of undifferentiated mESCs, in that they were positive for mESC markers (Oct-4, Sox-2, Nanog, SSEA-1 and alkaline phosphatase activity). These results demonstrated that the N-terminal fusion tags of the His₆-hLIF and Trx-His₆-hLIF fusion proteins do not interfere with their biological activity. This expression and purification approach to produce recombinant hLIF is a simple, reliable, cost effective and user-friendly method.

  13. Simple and accurate determination of global tau(R) in proteins using (13)C or (15)N relaxation data. (United States)

    Mispelter, J; Izadi-Pruneyre, N; Quiniou, E; Adjadj, E


    In the study of protein dynamics by (13)C or (15)N relaxation measurements different models from the Lipari-Szabo formalism are used in order to determine the motion parameters. The global rotational correlation time tau(R) of the molecule must be estimated prior to the analysis. In this Communication, the authors propose a new approach in determining an accurate value for tau(R) in order to realize the best fit of R(2) for the whole sequence of the protein, regardless of the different type of motions atoms may experience. The method first determines the highly structured regions of the sequence. For each corresponding site, the Lipari-Szabo parameters are calculated for R(1) and NOE, using an arbitrary value for tau(R). The chi(2) for R(2), summed over the selected sites, shows a clear minimum, as a function of tau(R). This minimum is used to better estimate a proper value for tau(R).

  14. A simple model-based control for Pichia pastoris allows a more efficient heterologous protein production bioprocess. (United States)

    Cos, Oriol; Ramon, Ramon; Montesinos, José Luis; Valero, Francisco


    A predictive control algorithm coupled with a PI feedback controller has been satisfactorily implemented in the heterologous Rhizopus oryzae lipase production by Pichia pastoris methanol utilization slow (Mut(s)) phenotype. This control algorithm has allowed the study of the effect of methanol concentration, ranging from 0.5 to 1.75 g/L, on heterologous protein production. The maximal lipolytic activity (490 UA/mL), specific yield (11,236 UA/g(biomass)), productivity (4,901 UA/L . h), and specific productivity (112 UA/g(biomass)h were reached for a methanol concentration of 1 g/L. These parameters are almost double than those obtained with a manual control at a similar methanol set-point. The study of the specific growth, consumption, and production rates showed different patterns for these rates depending on the methanol concentration set-point. Results obtained have shown the need of implementing a robust control scheme when reproducible quality and productivity are sought. It has been demonstrated that the model-based control proposed here is a very efficient, robust, and easy-to-implement strategy from an industrial application point of view.

  15. A simple sheathless CE-MS interface with a sub-micrometer electrical contact fracture for sensitive analysis of peptide and protein samples

    DEFF Research Database (Denmark)

    Nguyen, Tam T. T. N.; Petersen, Nickolaj J.; Rand, Kasper Dyrberg


    Online coupling of capillary electrophoresis (CE) to electrospray ionization mass spectrometry (MS) has shown considerable potential, however, technical challenges have limited its use. In this study, we have developed a simple and sensitive sheathless CE-MS interface based on the novel concept....... By analysis of a model peptide (leucine enkephalin), a limit of detection (LOD) of 0.045 pmol/μL (corresponding to 67 attomol in a sample volume of ∼15 nL) was obtained. The merit of the CE-MS approach was demonstrated by analysis of bovine serum albumin (BSA) tryptic peptides. A well-resolved separation...... profile was achieved and comparable sequence coverage was obtained by the CE-MS method (73%) compared to a representative UPLC-MS method (77%). The CE-MS interface was subsequently used to analyse a more complex sample of pharmaceutically relevant human proteins including insulin, tissue factor and α...

  16. Photoactivation of alkyl C-H and silanization: a simple and general route to prepare high-density primary amines on inert polymer surfaces for protein immobilization. (United States)

    Gan, Shenghua; Yang, Peng; Yang, Wantai


    Surface modification through implanting functional groups has been demonstrated to be extremely important to biomedical applications. The usage of organic polymer phase is often required to achieve satisfactory results. However, organic surfaces usually have poor chemical reactivity toward other reactants and target biomolecules because these surfaces usually only consist of simple alkyl (C-H) and/or alkyl ether (ROR') structures. For the first time, we here report the potential to perform silanization techniques on alkyl polymer surface, which provide a simple, fast, inexpensive, and general method to decorate versatile functional groups at the molecular level. As an example, high-density primary amines could be obtained on a model polymer, polypropylene substrate, through the reaction between amine-capped silane, 3-aminopropyltriethoxysilane (APTES) and hydroxylated polypropylene surface. A model protein, immunoglobulin (IgG), could be effectively immobilized on the surface after transforming amines to aldehydes by the aldehyde-amine condensation reaction between glutaraldehyde (GA) and amines. The routes we report here could directly make use of the benefits from well-developed silane chemistry, and hereby are capable of grafting any functionalities on inert alkyl surfaces via changing the terminal groups in silanes, which should instantly stimulate the development of many realms such as microarrays, immunoassays, biosensors, filtrations, and microseparation.

  17. Enhanced protein adsorption and cellular adhesion using transparent titanate nanotube thin films made by a simple and inexpensive room temperature process: application to optical biochips. (United States)

    Nador, Judit; Orgovan, Norbert; Fried, Miklos; Petrik, Peter; Sulyok, Attila; Ramsden, Jeremy J; Korosi, Laszlo; Horvath, Robert


    A new type of titanate nanotube (TNT) coating is investigated for exploitation in biosensor applications. The TNT layers were prepared from stable but additive-free sols without applying any binding compounds. The simple, fast spin-coating process was carried out at room temperature, and resulted in well-formed films around 10nm thick. The films are highly transparent as expected from their nanostructure and may, therefore, be useful as coatings for surface-sensitive optical biosensors to enhance the specific surface area. In addition, these novel coatings could be applied to medical implant surfaces to control cellular adhesion. Their morphology and structure was characterized by spectroscopic ellipsometry (SE) and atomic force microscopy (AFM), and their chemical state by X-ray photoelectron spectroscopy (XPS). For quantitative surface adhesion studies, the films were prepared on optical waveguides. The coated waveguides were shown to still guide light; thus, their sensing capability remains. Protein adsorption and cell adhesion studies on the titanate nanotube films and on smooth control surfaces revealed that the nanostructured titanate enhanced the adsorption of albumin; furthermore, the coatings considerably enhanced the adhesion of living mammalian cells (human embryonic kidney and preosteoblast).

  18. Targeted toxicological screening for acidic, neutral and basic substances in postmortem and antemortem whole blood using simple protein precipitation and UPLC-HR-TOF-MS. (United States)

    Telving, Rasmus; Hasselstrøm, Jørgen Bo; Andreasen, Mette Findal


    A broad targeted screening method based on broadband collision-induced dissociation (bbCID) ultra-performance liquid chromatography high-resolution time-of-flight mass spectrometry (UPLC-HR-TOF-MS) was developed and evaluated for toxicological screening of whole blood samples. The acidic, neutral and basic substances covered by the method were identified in postmortem and antemortem whole blood samples from forensic autopsy cases, clinical forensic cases and driving under the influence of drugs (DUID) cases by a reverse target database search. The screening method covered 467 substances. Validation was performed on spiked whole blood samples and authentic postmortem and antemortem whole blood samples. For most of the basic drugs, the established cut-off limits were very low, ranging from 0.25ng/g to 50ng/g. The established cut-off limits for most neutral and acidic drugs, were in the range from 50ng/g to 500ng/g. Sample preparation was performed using simple protein precipitation of 300μL of whole blood with acetonitrile and methanol. Ten microliters of the reconstituted extract were injected and separated within a 13.5min UPLC gradient reverse-phase run. Positive electrospray ionization (ESI) was used to generate the ions in the m/z range of 50-1000. Fragment ions were generated by bbCID. Identification was based on retention time, accurate mass, fragment ion(s) and isotopic pattern. A very sensitive broad toxicological screening method using positive electrospray ionization UPLC-HR-TOF-MS was achieved in one injection. This method covered basic substances, substances traditionally analyzed in negative ESI (e.g., salicylic acid), small highly polar substances such as beta- and gamma-hydroxybutyric acid (BHB and GHB, respectively) and highly non-polar substances such as amiodarone. The new method was shown to combine high sensitivity with a very broad scope that has not previously been reported in toxicological whole blood screening when using only one injection.

  19. 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


    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.

  20. Protein (United States)

    ... Food Service Resources Additional Resources About FAQ Contact Protein Protein is found throughout the body—in muscle, ... the heart and respiratory system, and death. All Protein Isn’t Alike Protein is built from building ...

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

    Energy Technology Data Exchange (ETDEWEB)

    Morgado, Leonor; Fernandes, Ana P. [Requimte-CQFB, Departamento de Quimica, Faculdade de Ciencias e Tecnologia, Universidade Nova de Lisboa, Campus Caparica, 2829-516 Caparica (Portugal); Londer, Yuri Y. [Biosciences Division, Argonne National Laboratory, Argonne, IL 60439 (United States); Bruix, Marta [Departamento de Espectroscopia y Estructura Molecular, Instituto de Quimica-Fisica ' Rocasolano' , CSIC, Serrano 119, 28006 Madrid (Spain); Salgueiro, Carlos A., E-mail: [Requimte-CQFB, Departamento de Quimica, Faculdade de Ciencias e Tecnologia, Universidade Nova de Lisboa, Campus Caparica, 2829-516 Caparica (Portugal)


    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 ({sup 13}C/{sup 15}N) the protein in its polypeptide chain, with the correct folding and heme post-translational modifications. The combined analysis of {sup 1}H-{sup 13}C 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.

  2. 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. (United States)

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


    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.

  3. A new simple tubular flow cell for use with variable angle spectroscopic ellipsometry: A high throughput in situ protein adsorption study (United States)

    Byrne, T. M.; Trussler, S.; McArthur, M. A.; Lohstreter, L. B.; Bai, Zhijun; Filiaggi, M. J.; Dahn, J. R.


    A simple and novel flow cell design is presented here for use with variable angle spectroscopic ellipsometry (VASE) to study the adsorption of liquid-borne species on reflective surfaces. The flow cell allows a sample as large as 6 mm × 75 mm to be probed point by point and at any common ellipsometric angle of incidence, unlike other designs. Using our flow cell system with VASE, combinatorial films of Al 1-xNb x, Al 1-xTa x, and Al 1-xTi x (0 ⩽ x ⩽ 1) were tested in situ for fibrinogen affinity along their 75 mm long compositional gradients. Fibrinogen adsorption on the films was found to be closely correlated to the various surface oxide fractions, with high alumina content at the surface leading to low amounts of adsorbed fibrinogen for each binary library. Adsorbed amounts measured in situ were in agreement with previously obtained values found using ex situ techniques.

  4. The molecular cell death machinery in the simple cnidarian Hydra includes an expanded caspase family and pro- and anti-apoptotic Bcl-2 proteins. (United States)

    Lasi, Margherita; Pauly, Barbara; Schmidt, Nikola; Cikala, Mihai; Stiening, Beate; Käsbauer, Tina; Zenner, Gerhardt; Popp, Tanja; Wagner, Anita; Knapp, Regina T; Huber, Andreas H; Grunert, Michaela; Söding, Johannes; David, Charles N; Böttger, Angelika


    The fresh water polyp Hydra belongs to the phylum Cnidaria, which diverged from the metazoan lineage before the appearance of bilaterians. In order to understand the evolution of apoptosis in metazoans, we have begun to elucidate the molecular cell death machinery in this model organism. Based on ESTs and the whole Hydra genome assembly, we have identified 15 caspases. We show that one is activated during apoptosis, four have characteristics of initiator caspases with N-terminal DED, CARD or DD domain and two undergo autoprocessing in vitro. In addition, we describe seven Bcl-2-like and two Bak-like proteins. For most of the Bcl-2 family proteins, we have observed mitochondrial localization. When expressed in mammalian cells, HyBak-like 1 and 2 strongly induced apoptosis. Six of the Bcl-2 family members inhibited apoptosis induced by camptothecin in mammalian cells with HyBcl-2-like 4 showing an especially strong protective effect. This protein also interacted with HyBak-like 1 in a yeast two-hybrid assay. Mutation of the conserved leucine in its BH3 domain abolished both the interaction with HyBak-like 1 and the anti-apoptotic effect. Moreover, we describe novel Hydra BH-3-only proteins. One of these interacted with Bcl-2-like 4 and induced apoptosis in mammalian cells. Our data indicate that the evolution of a complex network for cell death regulation arose at the earliest and simplest level of multicellular organization, where it exhibited a substantially higher level of complexity than in the protostome model organisms Caenorhabditis and Drosophila.

  5. Capillary electrophoresis analysis of different variants of the amyloidogenic protein β2 -microglobulin as a simple tool for misfolding and stability studies. (United States)

    Bertoletti, Laura; Bisceglia, Federica; Colombo, Raffaella; Giorgetti, Sofia; Raimondi, Sara; Mangione, P Patrizia; De Lorenzi, Ersilia


    Free solution capillary electrophoresis with UV detection is here used to retrieve information on the conformational changes of wild-type β2 -microglobulin and a series of naturally and artificially created variants known to have different stability and amyloidogenic potential. Under nondenaturing conditions, the resolution of at least two folding conformers at equilibrium is obtained and a third species is detected for the less stable isoforms. Partial denaturation by using chaotropic agents such as acetonitrile or trifluoroethanol reveals that the separated peaks are at equilibrium, as the presence of less structured species is either enhanced or induced at the expenses of the native form. Reproducible CE data allow to obtain an interesting semiquantitative correlation between the peak areas observed and the protein stability. Thermal unfolding over the range 25-42°C is induced inside the capillary for the two pathogenic proteins (wtβ2 -microglobulin and D76N variant): the large differences observed upon small temperature variation draw attention on the robustness of analytical methods when dealing with proteins prone to misfolding and aggregation.

  6. Evaluation of a simple protein extraction method for species identification of clinically relevant staphylococci by matrix-assisted laser desorption ionization-time of flight mass spectrometry. (United States)

    Matsuda, Naoto; Matsuda, Mari; Notake, Shigeyuki; Yokokawa, Hirohide; Kawamura, Yoshiaki; Hiramatsu, Keiichi; Kikuchi, Ken


    In clinical microbiology, bacterial identification is labor-intensive and time-consuming. A solution for this problem is the use of matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS). In this study, we evaluated a modified protein extraction method of identification performed on target plates (on-plate extraction method) with MALDI-TOF (Bruker Microflex LT with Biotyper version 3.0) and compared it to 2 previously described methods: the direct colony method and a standard protein extraction method (standard extraction method). We evaluated the species of 273 clinical strains and 14 reference strains of staphylococci. All isolates were characterized using the superoxide dismutase A sequence as a reference. For the species identification, the on-plate, standard extraction, and direct colony methods identified 257 isolates (89.5%), 232 isolates (80.8%), and 173 isolates (60.2%), respectively, with statistically significant differences among the three methods (P extraction method is at least as good as standard extraction in identification rate and has the advantage of a shorter processing time.

  7. Simple Epithelial Keratins. (United States)

    Strnad, Pavel; Guldiken, Nurdan; Helenius, Terhi O; Misiorek, Julia O; Nyström, Joel H; Lähdeniemi, Iris A K; Silvander, Jonas S G; Kuscuoglu, Deniz; Toivola, Diana M


    Simple epithelial keratins (SEKs) are the cytoplasmic intermediate filament proteins of single-layered and glandular epithelial cells as found in the liver, pancreas, intestine, and lung. SEKs have broad cytoprotective functions, which are facilitated by dynamic posttranslational modifications and interaction with associated proteins. SEK filaments are composed of obligate heteropolymers of type II (K7, K8) and type I (K18-K20, K23) keratins. The multifaceted roles of SEKs are increasingly appreciated due to findings obtained from transgenic mouse models and human studies that identified SEK variants in several digestive diseases. Reorganization of the SEK network into aggregates called Mallory-Denk bodies (MDBs) is characteristic for specific liver disorders such as alcoholic and nonalcoholic steatohepatitis. To spur further research on SEKs, we here review the methods and potential caveats of their isolation as well as possibilities to study them in cell culture. The existing transgenic SEK mouse models, their advantages and potential drawbacks are discussed. The tools to induce MDBs, ways of their visualization and quantification, as well as the possibilities to detect SEK variants in humans are summarized.

  8. Simple and green synthesis of protein-conjugated CdS nanoparticles and spectroscopic study on the interaction between CdS and zein (United States)

    Qin, Dezhi; Zhang, Li; Du, Xian; Wang, Yabo; Zhang, Qiuxia


    The present study demonstrates the role of zein molecules in synthesizing CdS nanoassemblies through protein-directed, green synthetic approach. Zein molecules can as capping ligand and stabilizing agent to regulate the nucleation and growth of CdS nanocrystals, and the obtained products are organic-inorganic nanocomposites. The analysis of surface charge and conductivity indicates that strong electrostatic force restricts mobility of ions, which creates a local supersaturation surrounding the binding sites of zein and reduces the activated energy of nucleation. The interaction between Cd2+/CdS and zein molecules was systematically investigated through spectroscopy techniques. Fourier transform infrared (FT-IR) spectra were used to envisage the binding of the functional groups of zein with the surface of CdS nanoparticles. Ultraviolet visible (UV-Vis) and photoluminescence (PL) spectra results show that Cd2+/CdS might interact with the aromatic amino acids of protein molecules and change its chemical microenvironment. The quantum-confined effect of nanocrystals is confirmed by optical absorption spectrum due to the small size (3-5 nm) of CdS particles. The data of circular dichroism (CD) spectra indicate that the formation of CdS nanocrystals could lead to the conformational change of zein molecules. Moreover, the possible mechanism of CdS nanocrystals growth in zein solution was also discussed. The weak interactions such as Van der Waals, hydrophobic forces and hydrogen bonds in zein molecules should play a crucial factor in the self-assembly of small nanoparticles.

  9. Idiopathic recurrent calcium urolithiasis (IRCU: variation of fasting urinary protein is a window to pathophysiology or simple consequence of renal stones in situ?

    Directory of Open Access Journals (Sweden)

    Schwille PO


    Full Text Available Abstract Background In IRCU it is uncertain whether variation of urinary protein, especially non-albumin protein (NAlb-P, is due to the presence of stones or reflects alteration of oxidative metabolism. Aims To validate in a tripartite cross-sectional study of 187 ambulatory male patients, undergoing a standardized laboratory programme, whether stones impact on N-Alb-P or the state of oxidative metabolism interferes with IRCU pathophysiology. Methods In part 1 the strata low and high of fasting urinary excretion rate per 2 h of N-Alb-P, malonedialdehyde, hypoxanthine, xanthine, pH and other urine components were compared, and association with renal stones in situ evaluated; in part 2 the co-variation of oxidatively modulated environment, fasting urinary pH, calcium (Ca salt crystallization risk and the number of patients with stones in situ was examined; in part 3, the nucleation of Ca oxalate and Ca phosphate was tested in undiluted postprandial urine of patients and related to the state of oxidative metabolism. Results In part 1, N-Alb-P excretion > 4.3 mg was associated with increase of blood pressure, excretion of total protein, hypoxanthine (a marker of tissue hypoxia, malonedialdehyde (a marker of lipid peroxidation, sodium, magnesium, citrate, uric acid, volume, pH, and increase of renal fractional excretion of both NAlb-P and uric acid; when stones were present, urinary pH was elevated but other parameters were unaffected. Significant predictors of N-Alb-P excretion were malonedialdehyde, fractional N-Alb-P and hypoxanthine. In part 2, urine pH > 6.14 was associated with unchanged blood pressure and plasma vasopressin, increase of blood pH, urinary volume, malonedialde hyde, fractional excretion of N-Alb-P, uric acid, Ca phosphate, but not Ca oxalate, supersaturation; this spectrum was accompanied by decrease of concentration of urinary total and free magnesium, total and complexed citrate, plasma uric acid (in humans the major

  10. A simple system for the identification of fluorescent dyes capable of reporting differences in secondary structure and hydrophobicity among amyloidogenic protein oligomers (United States)

    Yates, Emma


    Thioflavin T and Congo Red are fluorescent dyes that are commonly used to identify the presence of amyloid structures, ordered protein aggregates. Despite the ubiquity of their use, little is known about their mechanism of interaction with amyloid fibrils, or whether other dyes, whose photophysics indicate that they may be more responsive to differences in macromolecular secondary structure and hydrophobicity, would be better suited to the identification of pathologically relevant oligomeric species in amyloid diseases. In order to systematically address this question, we have designed a strategy that discretely introduces differences in secondary structure and hydrophobicity amidst otherwise identical polyamino acids. This strategy will enable us to quantify and compare the affinities of Thioflavin T, Congo Red, and other, incompletely explored, fluorescent dyes for different secondary structural elements and hydrophobic motifs. With this information, we will identify dyes that give the most robust and quantitative information about structural differences among the complex population of oligomeric species present along an aggregation pathway between soluble monomers and amyloid fibrils, and correlate the resulting structural information with differential oligomeric toxicity.

  11. A Simple Test Method of Whey Protein Denaturation and its Application%快速测定乳清蛋白变性程度方法的应用

    Institute of Scientific and Technical Information of China (English)

    曲冬梅; 许明向; 冯玉红; 姜胡兵


    采用一种较为简单的方法测定牛奶中乳清蛋白变性程度,探讨了不同的预热处理条件和UHT杀菌条件对乳清蛋白变性程度的影响,并测试了市售的全脂奶粉的乳清蛋白变性情况。同时,对比了不同热处理程度的奶粉在经过一定处理后罐装杀菌后的状态。结果表明,牛奶经过低热处理后,乳清蛋白变性程度只有0.15%;经过90℃/30s,110℃/15s,124℃/15s和135℃/15s等模拟鲜奶加工成奶粉过程中不同程度预热处理后,变性程度分别是16%,62%,75%和80%;鲜奶经过中性乳制品常用的不同UHT杀菌条件处理后,乳清蛋白变性程度基本在70%~80%之间。从检测情况来看,市售全脂奶粉一般为高热奶粉。乳清蛋白变性程度对奶粉的应用会有一定程度的影响。%A simple method for testing the denaturation level of whey proteinswas used to investigate the influence of preheat treatment and UHT treatment on the denaturation of whey protein. The denaturation of whey proteins in bovine milk after heat treatment and whey proteins in whole milk powder was measured using this method. The results showed that the whey proteins denatured about 16%,62%,75%,and 80% after heating at 90℃ for 30s,110℃ for 15s,124℃ for 15s,and 130℃for 15s respectively. The denaturation of whey proteins was between 70%and 80% after UHT treatment. In sum,intensive heat treatment has influence on the denaturation of whey proteins. This also indicates that the denaturation level of whey proteins may influence the application of whole milk powder as whole milk powder is normally produced with intensive heat treatment.

  12. A Simple "Tubeless" Telescope (United States)

    Straulino, S.; Bonechi, L.


    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,…

  13. Simple Machine Junk Cars (United States)

    Herald, Christine


    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,…

  14. Simple MHD Equilibria (United States)

    Schnack, Dalton D.

    In this lecture we will examine some simple examples of MHD equilibrium configurations. These will all be in cylindrical geometry. They form the basis for more complicated equilibrium states in toroidal geometry.

  15. Simple Ontology Format (SOFT)

    Energy Technology Data Exchange (ETDEWEB)


    Simple Ontology Format (SOFT) library and file format specification provides a set of simple tools for developing and maintaining ontologies. The library, implemented as a perl module, supports parsing and verification of the files in SOFt format, operations with ontologies (adding, removing, or filtering of entities), and converting of ontologies into other formats. SOFT allows users to quickly create ontologies using only a basic text editor, verify it, and portray it in a graph layout system using customized styles.

  16. Simple approach for ranking structure determining residues

    Directory of Open Access Journals (Sweden)

    Oscar D. Luna-Martínez


    Full Text Available Mutating residues has been a common task in order to study structural properties of the protein of interest. Here, we propose and validate a simple method that allows the identification of structural determinants; i.e., residues essential for preservation of the stability of global structure, regardless of the protein topology. This method evaluates all of the residues in a 3D structure of a given globular protein by ranking them according to their connectivity and movement restrictions without topology constraints. Our results matched up with sequence-based predictors that look up for intrinsically disordered segments, suggesting that protein disorder can also be described with the proposed methodology.

  17. Simple approach for ranking structure determining residues. (United States)

    Luna-Martínez, Oscar D; Vidal-Limón, Abraham; Villalba-Velázquez, Miryam I; Sánchez-Alcalá, Rosalba; Garduño-Juárez, Ramón; Uversky, Vladimir N; Becerril, Baltazar


    Mutating residues has been a common task in order to study structural properties of the protein of interest. Here, we propose and validate a simple method that allows the identification of structural determinants; i.e., residues essential for preservation of the stability of global structure, regardless of the protein topology. This method evaluates all of the residues in a 3D structure of a given globular protein by ranking them according to their connectivity and movement restrictions without topology constraints. Our results matched up with sequence-based predictors that look up for intrinsically disordered segments, suggesting that protein disorder can also be described with the proposed methodology.

  18. Excel 2010 Made Simple

    CERN Document Server

    Katz, Abbott


    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,

  19. Simple guide to Skype

    CERN Document Server

    Winter, Rick


    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!

  20. Droids Made Simple

    CERN Document Server

    Mazo, Gary


    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

  1. Beyond Simple Headquarters Configurations

    DEFF Research Database (Denmark)

    Dellestrand, Henrik; Kappen, Philip; Nell, Phillip Christopher

    -divisional importance and embeddedness effects are contingent on the overall complexity of the innovation project as signified by the size of the development network. The results lend support for the notion that parenting in complex structures entails complex headquarters structures and that we need to go beyond simple...

  2. Entropy Is Simple, Qualitatively. (United States)

    Lambert, Frank L.


    Suggests that qualitatively, entropy is simple. Entropy increase from a macro viewpoint is a measure of the dispersal of energy from localized to spread out at a temperature T. Fundamentally based on statistical and quantum mechanics, this approach is superior to the non-fundamental "disorder" as a descriptor of entropy change. (MM)

  3. A Simple Wave Driver (United States)

    Temiz, Burak Kagan; Yavuz, Ahmet


    This study was done to develop a simple and inexpensive wave driver that can be used in experiments on string waves. The wave driver was made using a battery-operated toy car, and the apparatus can be used to produce string waves at a fixed frequency. The working principle of the apparatus is as follows: shortly after the car is turned on, the…

  4. A Simple Hydrogen Electrode (United States)

    Eggen, Per-Odd


    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…

  5. The simple SDD. (United States)

    Fernandes, A C; Morlat, T; Felizardo, M; Collar, J I; Puibasset, J; Waysand, G; Miley, H S; Ramos, A R; Girard, T A; Giuliani, F; Limagne, D; Marques, J G; Martins, R C; Oliveira, C


    We describe the fabrication and characterisation of the SIMPLE superheated droplet detector, a 10 g active mass device of C(2)ClF(5) in 1-3% weight concentrations currently employed in a direct search for spin-dependent astroparticle dark matter candidates.

  6. Simple Waveforms, Simply Described (United States)

    Baker, John G.


    Since the first Lazarus Project calculations, it has been frequently noted that binary black hole merger waveforms are 'simple.' In this talk we examine some of the simple features of coalescence and merger waveforms from a variety of binary configurations. We suggest an interpretation of the waveforms in terms of an implicit rotating source. This allows a coherent description, of both the inspiral waveforms, derivable from post-Newtonian(PN) calculations, and the numerically determined merger-ringdown. We focus particularly on similarities in the features of various Multipolar waveform components Generated by various systems. The late-time phase evolution of most L these waveform components are accurately described with a sinple analytic fit. We also discuss apparent relationships among phase and amplitude evolution. Taken together with PN information, the features we describe can provide an approximate analytic description full coalescence wavefoRms. complementary to other analytic waveforns approaches.

  7. Central simple Poisson algebras

    Institute of Scientific and Technical Information of China (English)

    SU Yucai; XU Xiaoping


    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.

  8. Information technology made simple

    CERN Document Server

    Carter, Roger


    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

  9. Modern mathematics made simple

    CERN Document Server

    Murphy, Patrick


    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

  10. Simple Finite Jordan Pseudoalgebras

    Directory of Open Access Journals (Sweden)

    Pavel Kolesnikov


    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.

  11. Simple Finite Jordan Pseudoalgebras (United States)

    Kolesnikov, Pavel


    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.

  12. Applied mathematics made simple

    CERN Document Server

    Murphy, Patrick


    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

  13. Theory of simple liquids

    CERN Document Server

    Hansen, Jean-Pierre


    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

  14. Electronics made simple

    CERN Document Server

    Olsen, George H


    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

  15. Dimensional analysis made simple (United States)

    Lira, Ignacio


    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.

  16. A Simple Quintessence Model

    CERN Document Server

    Bento, M C; Santos, N M C


    A simple model of quintessential inflation with the modified exponential potential $e^{-\\alpha \\phi} [A+(\\phi-\\phi_0)^2]$ is analyzed in the braneworld context. Considering reheating via instant preheating, we conclude that the model exhibits transient acceleration at late times for $0.96 \\lesssim A \\alpha^2 \\lesssim 1.26$ and $271 \\lesssim \\phi_0 \\alpha \\lesssim 273$, while permanent acceleration is obtained for $2.3\\times10^{-8} \\lesssim A \\alpha^2 \\lesssim 0.98$ and $255 \\lesssim \\phi_0 \\alpha \\lesssim 273$. The steep parameter $\\alpha$ is constrained to be in the range $5.3 \\lesssim \\alpha \\lesssim 10.8$.

  17. Simple Autonomous Chaotic Circuits (United States)

    Piper, Jessica; Sprott, J.


    Over the last several decades, numerous electronic circuits exhibiting chaos have been proposed. Non-autonomous circuits with as few as two components have been developed. However, the operation of such circuits relies on the non-ideal behavior of the devices used, and therefore the circuit equations can be quite complex. In this paper, we present two simple autonomous chaotic circuits using only opamps and linear passive components. The circuits each use one opamp as a comparator, to provide a signum nonlinearity. The chaotic behavior is robust, and independent of nonlinearities in the passive components. Moreover, the circuit equations are among the algebraically simplest chaotic systems yet constructed.

  18. Data processing made simple

    CERN Document Server

    Wooldridge, Susan


    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

  19. ASP made simple

    CERN Document Server

    Deane, Sharon


    ASP Made Simple provides a brief introduction to ASP for the person who favours self teaching and/or does not have expensive computing facilities to learn on. The book will demonstrate how the principles of ASP can be learned with an ordinary PC running Personal Web Server, MS Access and a general text editor like Notepad.After working through the material readers should be able to:* Write ASP scripts that can display changing information on a web browser* Request records from a remote database or add records to it* Check user names & passwords and take this knowledge forward, either for their

  20. Simple stochastic simulation. (United States)

    Schilstra, Maria J; Martin, Stephen R


    Stochastic simulations may be used to describe changes with time of a reaction system in a way that explicitly accounts for the fact that molecules show a significant degree of randomness in their dynamic behavior. The stochastic approach is almost invariably used when small numbers of molecules or molecular assemblies are involved because this randomness leads to significant deviations from the predictions of the conventional deterministic (or continuous) approach to the simulation of biochemical kinetics. Advances in computational methods over the three decades that have elapsed since the publication of Daniel Gillespie's seminal paper in 1977 (J. Phys. Chem. 81, 2340-2361) have allowed researchers to produce highly sophisticated models of complex biological systems. However, these models are frequently highly specific for the particular application and their description often involves mathematical treatments inaccessible to the nonspecialist. For anyone completely new to the field to apply such techniques in their own work might seem at first sight to be a rather intimidating prospect. However, the fundamental principles underlying the approach are in essence rather simple, and the aim of this article is to provide an entry point to the field for a newcomer. It focuses mainly on these general principles, both kinetic and computational, which tend to be not particularly well covered in specialist literature, and shows that interesting information may even be obtained using very simple operations in a conventional spreadsheet.

  1. 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.


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


    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...

  2. On Simple Noetherian Rings

    Institute of Scientific and Technical Information of China (English)

    Somyot Plubtieng


    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.

  3. 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


    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.

  4. Molecular genetics made simple

    Directory of Open Access Journals (Sweden)

    Heba Sh. Kassem


    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.


    Directory of Open Access Journals (Sweden)

    Ahmet YILDIRIM


    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.

  6. Countable imaginary simple unidimensional theories

    CERN Document Server

    Shami, Ziv


    We prove that a countable simple unidimensional theory that eliminates hyperimaginaries is supersimple. This solves a problem of Shelah in the more general context of simple theories under weak assumptions.

  7. A Simple Accelerometer Calibrator (United States)

    Salam, R. A.; Islamy, M. R. F.; Munir, M. M.; Latief, H.; Irsyam, M.; Khairurrijal


    High possibility of earthquake could lead to the high number of victims caused by it. It also can cause other hazards such as tsunami, landslide, etc. In that case it requires a system that can examine the earthquake occurrence. Some possible system to detect earthquake is by creating a vibration sensor system using accelerometer. However, the output of the system is usually put in the form of acceleration data. Therefore, a calibrator system for accelerometer to sense the vibration is needed. In this study, a simple accelerometer calibrator has been developed using 12 V DC motor, optocoupler, Liquid Crystal Display (LCD) and AVR 328 microcontroller as controller system. The system uses the Pulse Wave Modulation (PWM) form microcontroller to control the motor rotational speed as response to vibration frequency. The frequency of vibration was read by optocoupler and then those data was used as feedback to the system. The results show that the systems could control the rotational speed and the vibration frequencies in accordance with the defined PWM.

  8. Oscillations of simple networks

    CERN Document Server

    Caputo, Jean-Guy; Simo, Elie


    To describe the flow of a miscible quantity on a network, we introduce the graph wave equation where the standard continuous Laplacian is replaced by the graph Laplacian. This is a natural description of an array of inductances and capacities, of fluid flow in a network of ducts and of a system of masses and springs. The structure of the graph influences strongly the dynamics which is naturally described using the basis of the eigenvectors. In particular, we show that if two outer nodes are connected to a common third node with the same coupling, then this coupling is an eigenvalue of the Laplacian. Assuming the graph is forced and damped at specific nodes, we derive the amplitude equations. These are analyzed for two simple non trivial networks: a tree and a graph with a cycle. Forcing the network at a resonant frequency reveals that damping can be ineffective if applied to the wrong node, leading to a disastrous resonance and destruction of the network. These results could be useful for complex physical net...

  9. IVOA Simple Image Access

    CERN Document Server

    Dowler, Patrick; Bonnarel, François


    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...

  10. Quasispecies made simple.

    Directory of Open Access Journals (Sweden)

    J J Bull


    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.

  11. The simple harmonic urn

    CERN Document Server

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


    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...

  12. Amazon SimpleDB LITE

    CERN Document Server

    Chaganti, Prabhakar


    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.

  13. Una historia muy simple

    Directory of Open Access Journals (Sweden)

    Miha Mazzini


    Full Text Available 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 interesada en hacer mi tesis sobre el perfil psicológico de los participantes de reality shows. Accedí para no tener que pensar en otro tema, aunque no veía mucho la televisión porque me pasaba las noches entre los libros de estudio. Enseguida me di cuenta de que, evidentemente, el profesor había firmado un contrato con la emisora: a él lo empleaban y y yo era la que iba a tener que trabajar, pero no me importaba. La tesis de licenciatura no es más que eso y hay que hacerla. Yo evaluaba los candidatos y elegía a los participantes que vivirían juntos duran- te algunos meses. Como hacían el programa con una licencia extranjera y ya sabían qué le interesaba a la audiencia, yo tenía preparados los rasgos de los perfiles psicológicos que en ese aislamiento colectivo no resultan bien. Tuve que elegir gente variada, pero dentro de la media; nunca nada verdaderamente especial. Cuando me gradué, tuve las noches libres: de pronto tenía mucho más tiempo y podía haber visto el programa, pero ya había terminado. Pero oí que había sido todo un éxito y que sobre todo a los chicos les había encantado el reality y los participantes elegidos.

  14. Simple Algebras of Invariant Operators

    Institute of Scientific and Technical Information of China (English)

    Xiaorong Shen; J.D.H. Smith


    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.

  15. On Simple-Injective Rings

    Institute of Scientific and Technical Information of China (English)

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


    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.

  16. Simple Distillation and Fractional Distillation

    Institute of Scientific and Technical Information of China (English)



    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.

  17. Establishment of a simple cell-based ELISA for the direct detection of abnormal isoform of prion protein from prion-infected cells without cell lysis and proteinase K treatment. (United States)

    Shan, Zhifu; Yamasaki, Takeshi; Suzuki, Akio; Hasebe, Rie; Horiuchi, Motohiro


    Prion-infected cells have been used for analyzing the effect of compounds on the formation of abnormal isoform of prion protein (PrP(Sc)). PrP(Sc) is usually detected using anti-prion protein (PrP) antibodies after the removal of the cellular isoform of prion protein (PrP(C)) by proteinase K (PK) treatment. However, it is expected that the PK-sensitive PrP(Sc) (PrP(Sc)-sen), which possesses higher infectivity and conversion activity than the PK-resistant PrP(Sc) (PrP(Sc)-res), is also digested through PK treatment. To overcome this problem, we established a novel cell-based ELISA in which PrP(Sc) can be directly detected from cells persistently infected with prions using anti-PrP monoclonal antibody (mAb) 132 that recognizes epitope consisting of mouse PrP amino acids 119-127. The novel cell-based ELISA could distinguish prion-infected cells from prion-uninfected cells without cell lysis and PK treatment. MAb 132 could detect both PrP(Sc)-sen and PrP(Sc)-res even if all PrP(Sc) molecules were not detected. The analytical dynamic range for PrP(Sc) detection was approximately 1 log. The coefficient of variation and signal-to-background ratio were 7%-11% and 2.5-3.3, respectively, demonstrating the reproducibility of this assay. The addition of a cytotoxicity assay immediately before PrP(Sc) detection did not affect the following PrP(Sc) detection. Thus, all the procedures including cell culture, cytotoxicity assay, and PrP(Sc) detection were completed in the same plate. The simplicity and non-requirement for cell lysis or PK treatment are advantages for the high throughput screening of anti-prion compounds.

  18. Simple algebras of Weyl type

    Institute of Scientific and Technical Information of China (English)


    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.

  19. The Simple Publishing Interface (SPI)

    NARCIS (Netherlands)

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


    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

  20. Simple suppression of radiation damping. (United States)

    Khitrin, A K; Jerschow, Alexej


    Radiation damping is known to cause line-broadening and frequency shifts of strong resonances in NMR spectra. While several techniques exist for the suppression of these effects, many require specialized hardware, or are only compatible with the presence of few strong resonances. We describe a simple pulse sequence for radiation damping suppression in spectra with many strong resonances. The sequence can be used as-is to generate simple spectra or as a signal excitation part in more advanced experiments.

  1. What constitutes a simple liquid?


    Ingebrigtsen, Trond S.; Schrøder, Thomas B.; Dyre, Jeppe C.


    Simple liquids are traditionally defined as many-body systems of classical particles interacting via radially symmetric pair potentials. We suggest that a simple liquid should be defined instead by the property of having strong correlation between virial and potential energy equilibrium fluctuations in the NVT ensemble. There is considerable overlap between the two definitions, but also some notable differences. For instance, in the new definition simplicity is not a property of the intermole...

  2. Simple machines made simple a teacher resource manual

    CERN Document Server

    Andre, Ralph E St


    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.

  3. Futur "simple" et futur "proche" ("Simple" Future and "Immediate" Future). (United States)

    Franckel, Jean-Jacques


    An analysis of the use of simple and immediate future tenses in French shows that the expression of time is controlled more by context and modals than by specifically temporal cues. The role of negation in this situation is discussed. (MSE)

  4. Complex Autocatalysis in Simple Chemistries. (United States)

    Virgo, Nathaniel; Ikegami, Takashi; McGregor, Simon


    Life on Earth must originally have arisen from abiotic chemistry. Since the details of this chemistry are unknown, we wish to understand, in general, which types of chemistry can lead to complex, lifelike behavior. Here we show that even very simple chemistries in the thermodynamically reversible regime can self-organize to form complex autocatalytic cycles, with the catalytic effects emerging from the network structure. We demonstrate this with a very simple but thermodynamically reasonable artificial chemistry model. By suppressing the direct reaction from reactants to products, we obtain the simplest kind of autocatalytic cycle, resulting in exponential growth. When these simple first-order cycles are prevented from forming, the system achieves superexponential growth through more complex, higher-order autocatalytic cycles. This leads to nonlinear phenomena such as oscillations and bistability, the latter of which is of particular interest regarding the origins of life.

  5. Acupuncture Treatment of Simple Obesity

    Institute of Scientific and Technical Information of China (English)

    Wei Qunli; Liu Zhicheng


    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.

  6. Contemporary physics in simple terms

    CERN Document Server

    Weisskopf, Victor Frederick


    With a view to emphasizing the basic principles involved, various topics in atomic and molecular physics are given a simple quantitative treatment using wave mechanics. Amongst the topics discussed are the size and energy of He, H and Ne atoms and Pauli's exclusion principle. Related subjects of discussion dealt with include binding energy of solids, lattice vibrations and the evaporation of solids.

  7. Keeping It Simple and Deep. (United States)

    Strong, Richard; Silver, Harvey; Perini, Matthew


    Like today's educators, Japanese haiku poets were caught between standards (like courtly love) and everyday realities. From this tension, they created a remarkable poetic form. Three examples from teachers' professional development work apply simple-and-deep principles to listening tasks, an assessment "deal," and curricular-standards…

  8. A simple electron plasma wave (United States)

    Brodin, G.; Stenflo, L.


    Considering a class of solutions where the density perturbations are functions of time, but not of space, we derive a new exact large amplitude wave solution for a cold uniform electron plasma. This result illustrates that most simple analytical solutions can appear even if the density perturbations are large.

  9. Phase Transitions of Simple Systems

    CERN Document Server

    Berry, Stephen


    This monograph develops a unified microscopic basis for phases and phase changes of bulk matter and small systems in terms of classical physics. The origins of such phase changes are derived from simple but physically relevant models of how transitions between rigid crystalline, glassy and fluid states occur, how phase equilibria arise, and how bulk properties evolve from those of small systems.

  10. Simple Games . . . or Are They? (United States)

    Arn, Susan Kyle


    Students today begin using computers and playing video games as early as two years old. The technology behind these games is more complicated than most people can imagine. In this article, the author presents some simple number games which seem easy at the beginning, but as the games are repeated, mathematical content becomes more of the focus…

  11. Determining Salinity by Simple Means. (United States)

    Schlenker, Richard M.

    This paper describes the construction and use of a simple salinometer. The salinometer is composed, mainly, of a milliammeter and a battery and uses the measurement of current flow to determine the salinity of water. A complete list of materials is given, as are details of construction and operation of the equipment. The use of the salinometer in…

  12. Solving Simple Kinetics without Integrals (United States)

    de la Pen~a, Lisandro Herna´ndez


    The solution of simple kinetic equations is analyzed without referencing any topic from differential equations or integral calculus. Guided by the physical meaning of the rate equation, a systematic procedure is used to generate an approximate solution that converges uniformly to the exact solution in the case of zero, first, and second order…

  13. A Simple Relativistic Bohr Atom (United States)

    Terzis, Andreas F.


    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…

  14. Simple Indolizidine and Quinolizidine Alkaloids. (United States)

    Michael, Joseph P


    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

  15. Protein inference: A protein quantification perspective. (United States)

    He, Zengyou; Huang, Ting; Liu, Xiaoqing; Zhu, Peijun; Teng, Ben; Deng, Shengchun


    In mass spectrometry-based shotgun proteomics, protein quantification and protein identification are two major computational problems. To quantify the protein abundance, a list of proteins must be firstly inferred from the raw data. Then the relative or absolute protein abundance is estimated with quantification methods, such as spectral counting. Until now, most researchers have been dealing with these two processes separately. In fact, the protein inference problem can be regarded as a special protein quantification problem in the sense that truly present proteins are those proteins whose abundance values are not zero. Some recent published papers have conceptually discussed this possibility. However, there is still a lack of rigorous experimental studies to test this hypothesis. In this paper, we investigate the feasibility of using protein quantification methods to solve the protein inference problem. Protein inference methods aim to determine whether each candidate protein is present in the sample or not. Protein quantification methods estimate the abundance value of each inferred protein. Naturally, the abundance value of an absent protein should be zero. Thus, we argue that the protein inference problem can be viewed as a special protein quantification problem in which one protein is considered to be present if its abundance is not zero. Based on this idea, our paper tries to use three simple protein quantification methods to solve the protein inference problem effectively. The experimental results on six data sets show that these three methods are competitive with previous protein inference algorithms. This demonstrates that it is plausible to model the protein inference problem as a special protein quantification task, which opens the door of devising more effective protein inference algorithms from a quantification perspective. The source codes of our methods are available at:

  16. Simple fixed functional space maintainer. (United States)

    Goenka, Puneet; Sarawgi, Aditi; Marwah, Nikhil; Gumber, Parvind; Dutta, Samir


    Premature loss of a primary tooth is one of the most common etiology for malocclusion. Space maintainers are employed to prevent this complication. In anterior region, esthetics is an important concern along with function and space management. Fiber-reinforced composite (FRC) retained space maintainer solves all these purposes ef ficiently and ef fectively. In addition, the technique is simple and the appliance is very comfortable inside the oral cavity. Here is a case of premature loss of anterior primary tooth which was replaced by FRC retained esthetic functional space maintainer. The appliance was found to be functioning satisfactorily inside the oral cavity till the last visit (1 Year). How to cite this article: Goenka P, Sarawgi A, Marwah N, Gumber P, Dutta S. Simple Fixed Functional Space Maintainer. Int J Clin Pediatr Dent 2014;7(3):225-228.


    Institute of Scientific and Technical Information of China (English)

    ZHANG Shunming


    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.

  18. Simple techniques can increase motivation

    Energy Technology Data Exchange (ETDEWEB)

    Smith, E.A.


    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).

  19. Instant simple botting with PHP

    CERN Document Server

    Anderson, Shay Michael


    do for you, and then get to work with the most important features and tasks. This book is a hands-on Starter guide that takes the reader from initialization to the coding and implementation of bot apps.Instant Simple Botting with PHP targets programmers of all levels who are familiar with common PHP functions and syntax, and who want to learn about bots and how to design and develop bots using objects.

  20. Simple and Realistic Data Generation

    DEFF Research Database (Denmark)

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


    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. Classification of simple current invariants

    CERN Document Server

    Gato-Rivera, Beatriz


    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.)

  2. Simple Fixed Functional Space Maintainer


    Goenka, Puneet; Sarawgi, Aditi; Marwah, Nikhil; Gumber, Parvind; Dutta, Samir


    ABSTRACT% Premature loss of a primary tooth is one of the most common etiology for malocclusion. Space maintainers are employed to prevent this complication. In anterior region, esthetics is an important concern along with function and space management. Fiber-reinforced composite (FRC) retained space maintainer solves all these purposes ef ficiently and ef fectively. In addition, the technique is simple and the appliance is very comfortable inside the oral cavity. Here is a case of premature ...

  3. Simple algebras of Weyl type

    Institute of Scientific and Technical Information of China (English)

    SU; Yucai(


    [1] Kawamoto, N., Generalizations of Witt algebras over a field of characteristic zero, Hiroshima Math. J., 1986, 16: 417.[2] Osborn, J. M., New simple infinite-dimensional Lie algebras of characteristic 0, J. Alg., 1996, 185: 820.[3] Dokovic, D. Z., Zhao, K., Derivations, isomorphisms, and second cohomology of generalized Witt algebras, Trans. of Amer. Math. Soc., 1998, 350(2): 643.[4] Dokovic, D. Z., Zhao, K., Generalized Cartan type W Lie algebras in characteristic zero, J. Alg., 1997, 195: 170.[5] Osborn, J. M., Zhao, K., Generalized Poisson bracket and Lie algebras of type H in characteristic 0, Math. Z., 1999, 230: 107.[6] Osborn, J. M., Zhao, K., Generalized Cartan type K Lie algebras in characteristic 0, Comm. Alg., 1997, 25: 3325.[7] Zhao, K., Isomorphisms between generalized Cartan type W Lie algebras in characteristic zero, Canadian J. Math., 1998, 50: 210.[8] Passman, D. P., Simple Lie algebras of Witt type, J. Algebra, 1998, 206: 682.[9] Jordan, D. A., On the simplicity of Lie algebras of derivations of commutative algebras, J. Alg., 2000, 206: 682.[10] Xu, X., New generalized simple Lie algebras of Cartan type over a field with characteristic 0, J. Alg., 2000, 244: 23.[11] Su, Y., Xu, X., Zhang, H., Derivation-simple algebras and the structures of Lie algebras of generalized Witt type, J. Alg., 2000, 233: 642.[12] Dixmer, J., Enveloping Algebras, Amsterdam: North Holland, 1977.

  4. Acute otitis media: a simple diagnosis, a simple treatment. (United States)

    Chhetri, S S


    To assess the symptoms and signs of acute otitis media and efficiency of simple antibiotics like amoxicillin in its treatment in the primary health care setup. This is a prospective longitudinal study including 204 patients from different institutions. Patients were diagnosed as suffering from acute otitis media when presented with earache, fever, fullness and or otorrhea. Patients were divided into two equal groups on basis of the treatment they received, Group A received only symptomatic treatment while Group B were given Amoxicillin (40 mg/kg/day) for 7 days. Acute otitis media was common in children under 15 years (64.7%). Patients presented with earache (100%), aural fullness (90.68%), fever (76.47%) associated with recent onset of upper respiratory tract infections (88.23%). In group A, improvement was noticed in 28.43% in 3 days while 35.29% in 7 days. In group B, improvement was noticed in 48.03% in day 3 while 86.27% in day 7. In countries where medical care is scarce, patients lost to follow up, it is wise to treat with simple antibiotics like amoxicillin in adequate dose than to treat only symptomatically. It prevents chronicity, early hearing impairments and reduces antibiotic resistance.

  5. What Is a Simple Liquid? (United States)

    Ingebrigtsen, Trond S.; Schrøder, Thomas B.; Dyre, Jeppe C.


    This paper is an attempt to identify the real essence of simplicity of liquids in John Locke’s understanding of the term. Simple liquids are traditionally defined as many-body systems of classical particles interacting via radially symmetric pair potentials. We suggest that a simple liquid should be defined instead by the property of having strong correlations between virial and potential-energy equilibrium fluctuations in the NVT ensemble. There is considerable overlap between the two definitions, but also some notable differences. For instance, in the new definition simplicity is not a direct property of the intermolecular potential because a liquid is usually only strongly correlating in part of its phase diagram. Moreover, not all simple liquids are atomic (i.e., with radially symmetric pair potentials) and not all atomic liquids are simple. The main part of the paper motivates the new definition of liquid simplicity by presenting evidence that a liquid is strongly correlating if and only if its intermolecular interactions may be ignored beyond the first coordination shell (FCS). This is demonstrated by NVT simulations of the structure and dynamics of several atomic and three molecular model liquids with a shifted-forces cutoff placed at the first minimum of the radial distribution function. The liquids studied are inverse power-law systems (r-n pair potentials with n=18,6,4), Lennard-Jones (LJ) models (the standard LJ model, two generalized Kob-Andersen binary LJ mixtures, and the Wahnstrom binary LJ mixture), the Buckingham model, the Dzugutov model, the LJ Gaussian model, the Gaussian core model, the Hansen-McDonald molten salt model, the Lewis-Wahnstrom ortho-terphenyl model, the asymmetric dumbbell model, and the single-point charge water model. The final part of the paper summarizes properties of strongly correlating liquids, emphasizing that these are simpler than liquids in general. Simple liquids, as defined here, may be characterized in three quite

  6. Systems analysis made simple computerbooks

    CERN Document Server

    Antill, Lyn


    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

  7. Computer electronics made simple computerbooks

    CERN Document Server

    Bourdillon, J F B


    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


    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. Wrist arthrography: a simple method

    Energy Technology Data Exchange (ETDEWEB)

    Berna-Serna, Juan D.; Reus, Manuel; Alonso, Jose [Virgen de la Arrixaca University Hospital, Department of Radiology, El Palmar (Murcia) (Spain); Martinez, Francisco; Domenech-Ratto, Gines [University of Murcia, Department of Human Anatomy, Faculty of Medicine, Murcia (Spain)


    A technique of wrist arthrography is presented using an adhesive marker-plate with radiopaque coordinates to identify precisely sites for puncture arthrography of the wrist and to obviate the need for fluoroscopic guidance. Radiocarpal joint arthrography was performed successfully in all 24 cases, 14 in the cadaveric wrists and 10 in the live patients. The arthrographic procedure described in this study is simple, safe, and rapid, and has the advantage of precise localisation of the site for puncture without need for fluoroscopic guidance. (orig.)

  10. A simple Cavendish experimental apparatus (United States)

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


    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. Paradox of simple limiter control. (United States)

    Hilker, Frank M; Westerhoff, Frank H


    Chaos control by simple limiters is an easy-to-implement and effective method of stabilizing irregular fluctuations. Here we show that applying limiter control to a state variable can significantly shift its mean value. In many situations, this is a countereffective as well as unexpected result, when the aim of control is also to restrict the dynamics. We discuss this effect on the basis of a model of population dynamics and conclude that it can have severe implications for the management of pest species and epidemic spread.

  12. Controlling chaos with simple limiters (United States)

    Corron; Pethel; Hopper


    New experimental results demonstrate that chaos control can be accomplished using controllers that are very simple relative to the system being controlled. Chaotic dynamics in a driven pendulum and a double scroll circuit are controlled using an adjustable, passive limiter-a weight for the pendulum and a diode for the circuit. For both experiments, multiple unstable periodic orbits are selectively controlled using minimal perturbations. These physical examples suggest that chaos control can be practically applied to a much wider array of important problems than initially thought possible.

  13. A Simple Theory for Waterspouts. (United States)

    Rennó, Nilton O.; Bluestein, Howard B.


    It is shown that the simple thermodynamic theory for dust devils, proposed by Rennó et al., also applies to waterspouts. The theory is based on the thermodynamics of heat engines and predicts the central pressure and the wind speed of these convective vortices. Moreover, it provides a simple physical interpretation of their general characteristics. In particular, the heat engine theory shows that convective vortices are more likely to form in the regions where the occurrence of the warmest and moistest updrafts and the coldest and driest downdrafts are supported by the local environment. These are the regions where both the heat input into the convective heat engine is maximum and the solenoidal generation of vorticity is the greatest. This explains why waterspouts are frequently observed near the boundaries between relatively warm and relatively cold waters. Moreover, since the work done by the convective heat engine is equal to the total heat input multiplied by the thermodynamic efficiency, the theory shows that another necessary condition for the formation of intense vortices is the presence of intense convection.

  14. Supernova Feedback Keeps Galaxies Simple

    CERN Document Server

    Chakraborti, Sayan


    Galaxies evolve continuously under the influence of self-gravity, rotation, accretion, mergers and feedback. The currently favored cold dark matter cosmological framework, suggests a hierarchical process of galaxy formation, wherein the present properties of galaxies are decided by their individual histories of being assembled from smaller pieces. However, recent studies have uncovered surprising correlations among the properties of galaxies, to the extent of forming a one-parameter set lying on a single fundamental line. It has been argued in the literature that such simplicity is hard to explain within the paradigm of hierarchical galaxy mergers. One of the puzzling results, is the simple linear correlation between the neutral hydrogen mass and the surface area, implying that widely different galaxies share very similar neutral hydrogen surface densities. In this work we show that self-regulated star formation, driven by the competition between gravitational instabilities and mechanical feedback from supern...

  15. Simple cyst of urinary bladder. (United States)

    Bo, Yang


    Simple cysts are rare in the urinary bladder and can pose a diagnostic dilemma to both the urologist and the histopathologist. No case study was found in the database of Elsevier Science Direct, Spring-Link, or PubMed. We present two cases of subserous cyst in the bladder and discuss the diagnosis and treatment of the condition. The cystic lesion at bladder dome was detected by radiologic examination and confirmed by cystoscopy. In case 1, transurethral resection was first performed which was followed by partial cystectomy; In case 2, the cyst was removed with the urachus using laparoscopic surgery. The patients recovered uneventfully and the histopathology showed cysts in subserous layer of urinary bladder. The bladder cyst should be distinguished from urachal tumor, and laparoscopic partial cystectomy is the preferred operative procedure.

  16. Methadone radioimmunoassay: two simple methods

    Energy Technology Data Exchange (ETDEWEB)

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


    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.

  17. Simple thermodynamics of jet engines (United States)

    Patrício, Pedro; Tavares, José M.


    We use the first and second laws of thermodynamics to analyze the behavior of an ideal jet engine. Simple analytical expressions for the thermal efficiency, the overall efficiency, and the reduced thrust are derived. We show that the thermal efficiency depends only on the compression ratio r and on the velocity of the aircraft. The other two performance measures depend also on the ratio of the temperature at the turbine to the inlet temperature in the engine, T3/Ti. An analysis of these expressions shows that it is not possible to choose an optimal set of values of r and T3/Ti that maximize both the overall efficiency and thrust. We study how irreversibilities in the compressor and the turbine decrease the overall efficiency of jet engines and show that this effect is more pronounced for smaller T3/Ti.

  18. iPad Made Simple

    CERN Document Server

    Trautschold, Martin; Learning, MSL Made Simple


    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

  19. Simple refutation of Joy Christian's simple refutation of Bell's simple theorem

    CERN Document Server

    Gill, Richard D


    I point out a simple algebraic error in Joy Christian's refutation of Bell's theorem. In substituting the result of multiplying some derived bivectors with one another by consultation of their multiplication table, he confuses the generic vectors which he used to define the table, with other specific vectors having a special role in the paper, which had been introduced earlier. The result should be expressed in terms of the derived bivectors which indeed do follow this multiplication table. When correcting this calculation, the result is not the singlet correlation any more. Moreover, curiously, his normalized correlations are independent of the number of measurements and certainly do not require letting n converge to infinity. On the other hand his unnormalized or raw correlations are identically equal to -1, independently of the number of measurements too. Correctly computed, his standardized correlations are the bivectors - a . b - a x b, and they find their origin entirely in his normalization or standard...

  20. Two Simple Models for Fracking (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

  1. A simple quantum heat engine

    CERN Document Server

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


    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...

  2. Acanthamoeba castellanii STAT Protein


    Anna Kicinska; Jacek Leluk; Wieslawa Jarmuszkiewicz


    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 Dictyos...

  3. Protein crystallization with paper (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


    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.

  4. Synthetically simple, highly resilient hydrogels. (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


    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.

  5. Efficacy comparison between simple mixed-dilution and simple mid-dilution on-line hemodiafiltration techniques: a crossover study. (United States)

    Susantitaphong, Paweena; Tiranathanagul, Khajohn; Katavetin, Pisut; Hanwiwatwong, Orawadee; Wittayalertpanya, Supeecha; Praditpornsilpa, Kearkiat; Tungsanga, Kriang; Eiam-Ong, Somchai


    Mid-dilution and mixed-dilution on-line hemodiafiltration (OL-HDF) techniques are innovated to overcome the limitations of two standard techniques including predilution and postdilution. Unfortunately, the head-to-head comparisons between these two novel techniques in the same study are still limited. Moreover, the original mid-dilution and mixed-dilution OL-HDF need special dialyzers and special machines. In the present study, simple mid-dilution and simple mixed-dilution OL-HDF were settled with the aim for clinical use in general hemodialysis (HD) centers. The efficacies of uremic toxins removal between both modalities were measured and compared. This prospective randomized crossover study was conducted on 12 stable HD patients undergoing simple mixed-dilution and simple mid-dilution OL-HDF techniques. HD prescriptions were similar in both techniques. The dialysis efficacies were determined by calculating small- (urea, creatinine, and phosphate) and middle-molecule (beta-2 microglobulin [β2M]) removal. Moreover, potential complications such as high transmembrane pressure (TMP) and protein loss were also observed. Simple mixed-dilution OL-HDF provided significantly greater clearances of urea, creatinine, and β2M when compared with the simple mid-dilution OL-HDF techniques. Phosphate clearances in both techniques were comparable. In addition, TMP and dialysate albumin loss were not different. There were no intradialytic complications in both techniques. Simple mixed-dilution OL-HDF could provide greater efficacy for small- and middle-molecule clearances and acceptable potential risks, while phosphate removal is comparable.

  6. On Dedekind's problem for complete simple games

    CERN Document Server

    Kurz, Sascha


    We combine the parametric Barvinok algorithm with a generation algorithm for a finite list of suitably chosen discrete sub-cases on the enumeration of complete simple games, i.e. a special subclass of monotone Boolean functions. Recently, Freixas et al. have proven an enumeration formula for complete simple games with two types of voters. We will provide a shorter proof and an enumeration formula for complete simple games with two shift-minimal winning coalitions.

  7. Sunspots and Their Simple Harmonic Motion (United States)

    Ribeiro, C. I.


    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.

  8. The Fluid Foil: The Seventh Simple Machine (United States)

    Mitts, Charles R.


    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,…

  9. Stochastic Programming with Simple Integer Recourse

    NARCIS (Netherlands)

    Louveaux, François V.; van der Vlerk, Maarten H.


    Stochastic integer programs are notoriously difficult. Very few properties are known and solution algorithms are very scarce. In this paper, we introduce the class of stochastic programs with simple integer recourse, a natural extension of the simple recourse case extensively studied in stochastic c

  10. A simple phenomenology for 2 γ+ states (United States)

    Zamfir, N. V.; Bucurescu, D.; Casten, R. F.; Ivascu, M.


    Based on the microscopic structure of the first gamma vibrational state, a simple but efficient parametrization for the energies of the 2 γ+ states in all (non-magic) nuclei with Z>20 is introduced. A simple analytic formula, similar to that existing for the 3 1- -states, with mass and total active nucleon number dependence, fits the 2 γ+ energies rather well.

  11. Simple utility functions with Giffen demand

    DEFF Research Database (Denmark)

    Sørensen, Peter Norman


    Simple utility functions with the Giffen property are presented: locally, the demand curve for a good is upward sloping. The utility functions represent continuous, monotone, convex preferences......Simple utility functions with the Giffen property are presented: locally, the demand curve for a good is upward sloping. The utility functions represent continuous, monotone, convex preferences...

  12. A simple approach to nonlinear oscillators (United States)

    Ren, Zhong-Fu; He, Ji-Huan


    A very simple and effective approach to nonlinear oscillators is suggested. Anyone with basic knowledge of advanced calculus can apply the method to finding approximately the amplitude-frequency relationship of a nonlinear oscillator. Some examples are given to illustrate its extremely simple solution procedure and an acceptable accuracy of the obtained solutions.

  13. Entropy production by simple electrical circuits

    CERN Document Server

    Miranda, E N


    The entropy production by simple electrical circuits (R, RC, RL) is analyzed. It comes out that the entropy production is minimal, in agreement with a well known theorem due to Prigogine. In this way, it is wrong a recent result by Zupanovic, Juretic and Botric (Physica Review E 70, 056198) who claimed that the entropy production in simple electrical circuits is a maximum


    Directory of Open Access Journals (Sweden)

    Nicoleta Mincǎ


    Full Text Available In English, most simple sentences of more than one word consist of two nuclei. The copula “to be” serves only as a link between the subject and the nominal part of the predicate. There are attributive adjuncts that qualify nouns, predicative adjuncts that qualify nouns and pronouns, and adverbial adjuncts which qualify verbs, adjectives, and adverbs. Simple sentences may be divided into: declarative, interrogative, commands and exclamatory. In Romanian, the traditional classification of the sentences is made according to their communicative purpose and to the number of their structural units. Sentences can be one-member and bi-member; simple un-extended and simple extended; and nominal and verbal. The simple sentence does not contain secondary parts of the sentence.

  15. Simple Current Actions of Cyclic Groups

    CERN Document Server

    Varga, T


    Permutation actions of simple currents on the primaries of a Rational Conformal Field Theory are considered in the framework of admissible weighted permutation actions. The solution of admissibility conditions is presented for cyclic quadratic groups: an irreducible WPA corresponds to each subgroup of the quadratic group. As a consequence, the primaries of a RCFT with an order n integral or half-integral spin simple current may be arranged into multiplets of length k^2 (where k is a divisor of n) or 3k^2 if the spin of the simple current is half-integral and k is odd.

  16. Simple bone cysts of two brothers

    Energy Technology Data Exchange (ETDEWEB)

    An, Seo Young; An, Chang Hyeon; Choi, Karp Shik [Department of Oral and Maxillofacial Radiology, School of Dentistry, Kyungpook National University, Daegu (Korea, Republic of)


    17-year-old and 14-year-old brothers were referred for evaluation of the cystic lesions on the mandibular anterior area with no symptoms. Neither their mother nor the brothers could recall any past trauma to those areas. Panoramic and intraoral radiographs revealed moderately defined cystic lesions on their mandibular anterior areas. Biopsies on both lesions revealed simple bone cysts. Hereditary cause or familial history of simple bone cysts could not be found in literature review. This case may have been a coincidence. However, further investigation is needed to find the cause of simple bone cysts occurring in patients those are closely related.

  17. Thirty Simple Ideas for Interactive Whiteboards (United States)

    Adams, Caralee


    This article presents thirty simple ideas for interactive whiteboards and how IWB can make one's teaching life easier. These teaching ideas for the interactive whiteboard can be used by teachers every day. Tips for classroom management are also presented.

  18. Simple and Clear Proofs of Stirling's Formula (United States)

    Niizeki, Shozo; Araki, Makoto


    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.

  19. A simple method for medial canthal reconstruction

    NARCIS (Netherlands)

    Wittkampf, ARM; Mourits, MP


    A simple method for medical canthal wiring reconstruction with the help of a homolaterally fixed osteosynthesis plate and a metal wire is presented. This avoids transnasal wiring and gives superior control when correcting the position of the lacerated Omedial canthus.

  20. Simple Perturbation Example for Quantum Chemistry. (United States)

    Goodfriend, P. L.


    Presents a simple example that illustrates various aspects of the Rayleigh-Schrodinger perturbation theory. The example is a particularly good one because it is straightforward and can be compared with both the exact solution and with experimental data. (JN)

  1. Simple shear of deformable square objects (United States)

    Treagus, Susan H.; Lan, Labao


    Finite element models of square objects in a contrasting matrix in simple shear show that the objects deform to a variety of shapes. For a range of viscosity contrasts, we catalogue the changing shapes and orientations of objects in progressive simple shear. At moderate simple shear ( γ=1.5), the shapes are virtually indistinguishable from those in equivalent pure shear models with the same bulk strain ( RS=4), examined in a previous study. In theory, differences would be expected, especially for very stiff objects or at very large strain. In all our simple shear models, relatively competent square objects become asymmetric barrel shapes with concave shortened edges, similar to some types of boudin. Incompetent objects develop shapes surprisingly similar to mica fish described in mylonites.

  2. Optimized chaos control with simple limiters. (United States)

    Wagner, C; Stoop, R


    We present an elementary derivation of chaos control with simple limiters using the logistic map and the Henon map as examples. This derivation provides conditions for optimal stabilization of unstable periodic orbits of a chaotic attractor.

  3. A simple method of chaos control

    CERN Document Server

    Shahverdiev, E M


    A simple method to perform chaos control without the need of complex numerical and analytical calculations is proposed. The method works for dynamical systems with bounded solutions and in the trivial case of constant Jacobians.

  4. Simple Signal Source based Micro Controller

    Institute of Scientific and Technical Information of China (English)


    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.

  5. Generalized Inflations of Completely Simple Semigroups

    Institute of Scientific and Technical Information of China (English)

    Qiang Wang; Shelly L. Wismath


    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.

  6. Infinitivo simple y compuesto con predicados declarativos


    Rodríguez Espiñeira, María José


    Este trabajo se centra en las diferencias semánticas y sintácticas que presentan las construcciones de infinitivo simple y compuesto que actúan como objeto directo de predicados declarativos. El tema despierta interés por varios motivos: (1) Se trata de un subconjunto de verbos que subordinan infinitivos simples de un elenco restringido, pero que admiten regularmente infinitivos compuestos.

  7. Simple Current Actions of Cyclic Groups


    Varga, Tamas


    Permutation actions of simple currents on the primaries of a Rational Conformal Field Theory are considered in the framework of admissible weighted permutation actions. The solution of admissibility conditions is presented for cyclic quadratic groups: an irreducible WPA corresponds to each subgroup of the quadratic group. As a consequence, the primaries of a RCFT with an order n integral or half-integral spin simple current may be arranged into multiplets of length k^2 (where k is a divisor o...

  8. Signed Young Modules and Simple Specht Modules


    Danz, Susanne; Lim, Kay Jin


    By a result of Hemmer, every simple Specht module of a finite symmetric group over a field of odd characteristic is a signed Young module. While Specht modules are parametrized by partitions, indecomposable signed Young modules are parametrized by certain pairs of partitions. The main result of this article establishes the signed Young module labels of simple Specht modules. Along the way we prove a number of results concerning indecomposable signed Young modules that are of independent inter...

  9. Robotic-Assisted Simple Prostatectomy: An Overview. (United States)

    Holden, Marc; Parsons, J Kellogg


    Despite widespread use of medical therapy for benign prostatic hyperplasia, a need remains for robust surgical therapy in select patients. Robotic-assisted simple prostatectomy (RASP) is an efficacious and safe therapy for patients with bladder outlet obstruction owing to large volume prostates. Data from 13 published cohorts suggest functional outcomes equivalent to open simple prostatectomy with substantially decreased length of hospital stay and risk of transfusion. However, there are few longer term data.

  10. Force, motion & simple machines big book

    CERN Document Server

    Graybill, George


    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.

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

    Directory of Open Access Journals (Sweden)

    Lai Luhua


    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.

  12. The Design of SimpleITK

    Directory of Open Access Journals (Sweden)

    Bradley Christopher Lowekamp


    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

  13. Steinitz theorems for simple orthogonal polyhedra

    Directory of Open Access Journals (Sweden)

    David Eppstein


    Full Text Available We define a simple orthogonal polyhedron to be a three-dimensional polyhedron with the topology of a sphere in which three mutually-perpendicular edges meet at each vertex.By analogy to Steinitz's theorem characterizing the graphs of convex polyhedra, we find graph-theoretic characterizations of three classes of simple orthogonal polyhedra: corner polyhedra, which can be drawn by isometric projection in the plane with only one hidden vertex, xyz polyhedra, in which each axis-parallel line through a vertex contains exactly one other vertex, and arbitrary simple orthogonal polyhedra. In particular, the graphs of xyz polyhedra are exactly the bipartite cubic polyhedral graphs, and every bipartite cubic polyhedral graph with a 4-connected dual graph is the graph of a corner polyhedron. Based on our characterizations we find efficient algorithms for constructing orthogonal polyhedra from their graphs.

  14. A simple model for turbulence intermittencies

    CERN Document Server

    Rimbert, Nicolas


    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.

  15. TRSkit: A Simple Digital Library Toolkit (United States)

    Nelson, Michael L.; Esler, Sandra L.


    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.

  16. Protein-protein interactions

    DEFF Research Database (Denmark)

    Byron, Olwyn; Vestergaard, Bente


    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......, are reported. The aim is to depict how the elucidation of the interplay of structures requires the interplay of methods....

  17. Water: Simple Experiments for Young Scientists. (United States)

    White, Larry

    This book contains simple experiments and projects through which students can learn about water and its properties. Some of the topics discussed include acid rain, dehydration, distillation, electrons, tidal waves, and the water cycle. Experiments include: finding out about the amount of water in the body; why there is water in the body; how to…

  18. Learning in a Simple Motor System (United States)

    Broussard, Dianne M.; Kassardjian, Charles D.


    Motor learning is a very basic, essential form of learning that appears to share common mechanisms across different motor systems. We evaluate and compare a few conceptual models for learning in a relatively simple neural system, the vestibulo-ocular reflex (VOR) of vertebrates. We also compare the different animal models that have been used to…

  19. A simple system of parenteral nutrition.



    The practical problems involved in the preparation and delivery of parenteral nutrition may result in such treatment being withheld from patients who would benefit from it. A simple and reliable system is described which has been developed to overcome the more common problems.

  20. Special Relativity as a Simple Geometry Problem (United States)

    de Abreu, Rodrigo; Guerra, Vasco


    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…



    Lema C,Rodrigo; Ricci A,Paolo; Solà D,Vicente; Contreras M,Luis


    Presentamos un caso de liquen simple crónico vulvar izquierdo, en una paciente con diagnóstico psiquiátrico de trastorno bipolar, tratado repetidamente como micosis. Se realizó biopsia que confirmó el diagnóstico y se trató exitosamente con antihistamínicos orales y corticoides tópicos

  2. Simple classical approach to spin resonance phenomena

    DEFF Research Database (Denmark)

    Gordon, R A


    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...

  3. A Study of Simple Diffraction Models

    DEFF Research Database (Denmark)

    Agerkvist, Finn

    In this paper two simple methods for cabinet edge diffraction are examined. Calculations with both models are compared with more sophisticated theoretical models and with measured data. The parameters involved are studied and their importance for normal loudspeaker box designs is examined....

  4. A Simple Sketch Symbolizing Self-Reliance

    Centers for Disease Control (CDC) Podcasts


    EID Managing Editor, Byron Breedlove, reads his cover art story, A Simple Sketch Symbolizing Self-Reliance.  Created: 2/16/2017 by National Center for Emerging and Zoonotic Infectious Diseases (NCEZID).   Date Released: 2/16/2017.

  5. Simple Activity Demonstrates Wind Energy Principles (United States)

    Roman, Harry T.


    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.)

  6. Scarring for Quantum Maps with Simple Spectrum

    CERN Document Server

    Kelmer, Dubi


    We previously introduced a family of symplectic maps of the torus whose quantization exhibits scarring on invariant co-isotropic submanifolds. The purpose of this note is to show that in contrast to other examples, where failure of Quantum Unique Ergodicity is attributed to high multiplicities in the spectrum, for these examples the spectrum is (generically) simple.

  7. Hooked… make it simple and easy

    Directory of Open Access Journals (Sweden)

    Sheetal Potnis


    Full Text Available Temporary anchorage devices (TADs have solved a lot of orthodontic treatment dilemmas. Attachment of elastomers to these TADs is sometimes difficult, especially with embedded microimplants like in the infrazygomatic area. Here, a simple modification has been made in the attachment of elastomeric chain to ligature wire for ease of replacing the elastomeric chain.

  8. Extremely simple holographic projection of color images (United States)

    Makowski, Michal; Ducin, Izabela; Kakarenko, Karol; Suszek, Jaroslaw; Kolodziejczyk, Andrzej; Sypek, Maciej


    A very simple scheme of holographic projection is presented with some experimental results showing good quality image projection without any imaging lens. This technique can be regarded as an alternative to classic projection methods. It is based on the reconstruction real images from three phase iterated Fourier holograms. The illumination is performed with three laser beams of primary colors. A divergent wavefront geometry is used to achieve an increased throw angle of the projection, compared to plane wave illumination. Light fibers are used as light guidance in order to keep the setup as simple as possible and to provide point-like sources of high quality divergent wave-fronts at optimized position against the light modulator. Absorbing spectral filters are implemented to multiplex three holograms on a single phase-only spatial light modulator. Hence color mixing occurs without any time-division methods, which cause rainbow effects and color flicker. The zero diffractive order with divergent illumination is practically invisible and speckle field is effectively suppressed with phase optimization and time averaging techniques. The main advantages of the proposed concept are: a very simple and highly miniaturizable configuration; lack of lens; a single LCoS (Liquid Crystal on Silicon) modulator; a strong resistance to imperfections and obstructions of the spatial light modulator like dead pixels, dust, mud, fingerprints etc.; simple calculations based on Fast Fourier Transform (FFT) easily processed in real time mode with GPU (Graphic Programming).

  9. Energy: Simple Experiments for Young Scientists. (United States)

    White, Larry

    This book contains simple experiments through which students can learn about the properties of energy. These experiments include making a kitchen "volcano," a soda-pop "cannon," and a puffed-rice "scooter." Topics include: energy and work, fossil fuels, solar energy, kinetic energy, potential energy, mechanical energy, heat energy, sound energy,…


    Institute of Scientific and Technical Information of China (English)

    Yan Guangwu; Hu Shouxin


    A lattice Boltzmann model with 5-bit lattice for traffic flows is proposed.Using the Chapman-Enskog expansion and multi-scale technique,we obtain the higher-order moments of equilibrium distribution function.A simple traffic light problem is simulated by using the present lattice Boltzmann model,and the result agrees well with analytical solution.

  11. Nature versus Nurture: The Simple Contrast (United States)

    Davidoff, Jules; Goldstein, Julie; Roberson, Debi


    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.)

  12. Insights into Biological Complexity from Simple Foundations. (United States)

    Albergante, L; Liu, D; Palmer, S; Newman, T J


    We discuss an overtly "simple approach" to complex biological systems borrowing selectively from theoretical physics. The approach is framed by three maxims, and we show examples of its success in two different applications: investigating cellular robustness at the level of gene regulatory networks and quantifying rare events of DNA replication errors.

  13. The Berry Phase for Simple Harmonic Oscillators

    CERN Document Server

    Suslov, Sergei K


    We evaluate the Berry phase for a "missing" family of the square integrable wavefunctions for the linear harmonic oscillator, which cannot be derived by the separation of variables. It is obtained by the action of the maximal kinematical invariance group on the standard solutions. An explicit simple formula for the phase is found by integration with the help of a computer algebra system.

  14. Geometric classification of simple graph algebras

    DEFF Research Database (Denmark)

    Sørensen, Adam Peder Wie


    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...

  15. A Simple and Efficient Kinetic Spanner

    DEFF Research Database (Denmark)

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


    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 spanne...

  16. SLURM: Simple Linux Utility for Resource Management

    Energy Technology Data Exchange (ETDEWEB)

    Jette, M; Grondona, M


    Simple Linux Utility for Resource Management (SLURM) is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for Linux clusters of thousands of nodes. Components include machine status, partition management, job management, scheduling and stream copy modules. This paper presents an overview of the SLURM architecture and functionality.

  17. From Complex to Simple: Interdisciplinary Stochastic Models (United States)

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


    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…

  18. Current-induced forces: a simple derivation

    DEFF Research Database (Denmark)

    Todorov, Tchavdar N.; Dundas, Daniel; Lü, Jing-Tao;


    We revisit the problem of forces on atoms under current in nanoscale conductors. We derive and discuss the five principal kinds of force under steady-state conditions from a simple standpoint that-with the help of background literature-should be accessible to physics undergraduates. The discussion...

  19. Strong Bisimilarity of Simple Process Algebras

    DEFF Research Database (Denmark)

    Srba, Jirí


    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) ...

  20. A Simple Method for Collecting Airborne Pollen (United States)

    Kevan, Peter G.; DiGiovanni, Franco; Ho, Rong H.; Taki, Hisatomo; Ferguson, Kristyn A.; Pawlowski, Agata K.


    Pollination is a broad area of study within biology. For many plants, pollen carried by wind is required for successful seed set. Airborne pollen also affects human health. To foster studies of airborne pollen, we introduce a simple device--the "megastigma"--for collecting pollen from the air. This device is flexible, yielding easily obtained data…

  1. A novel and simple atrial retractor. (United States)

    Kofidis, Theo; Lee, Chuen Neng


    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.

  2. Testing theory in practice: a simple experiment

    NARCIS (Netherlands)

    Terpstra, R.; Ferreira Pires, L.; Heerink, A.W.; Tretmans, G.J.; Brezocnik, Z.; Kapus, T.


    In this paper we discuss the experiences gained in conducting a simple testing experiment. The goal of this experiment is to apply the abstract, formal testing framework [8] in a practical setting, and to indicate the critical aspects in its application to realistic testing situations. For that purp

  3. A Simple Technique for High Resistance Measurement (United States)

    Aguilar, Horacio Munguia; Landin, Ramon Ochoa


    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.…

  4. A simple law of star formation

    DEFF Research Database (Denmark)

    Padoan, Paolo; Haugbølle, Troels; Nordlund, Åke


    with {\\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...

  5. Simple Obstacle Avoidance Algorithm for Rehabilitation Robots

    NARCIS (Netherlands)

    Stuyt, F.H.A.; Römer, G.R.B.; Stuyt, H.J.A.


    The efficiency of a rehabilitation robot is improved by offering record-and-replay to operate the robot. While automatically moving to a stored target (replay) collisions of the robot with obstacles in its work space must be avoided. A simple, though effective, generic and deterministic algorithm fo

  6. Studying the Greenhouse Effect: A Simple Demonstration. (United States)

    Papageorgiou, G.; Ouzounis, K.


    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)

  7. Simple Demonstration of the Seebeck Effect (United States)

    Molki, Arman


    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.)

  8. Microwave Radiometer Linearity Measured by Simple Means

    DEFF Research Database (Denmark)

    Skou, Niels


    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...

  9. Simple Analysis of Historical Lime Mortars (United States)

    Pires, Joa~o


    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…

  10. Earthways: Simple Environmental Activities for Young Children. (United States)

    Petrash, Carol

    This book presents simple environmental activities designed for young children. The contents are organized seasonally and each section features subsections: The Whole Earth Home and Classroom, Bringing Nature In, The Season Garden, Seasonal Crafts, and Supplying the Missing Links. These sections provide information on how to set up an indoor…

  11. Simple concurrent garbage collection almost without synchronization

    NARCIS (Netherlands)

    Hesselink, Wim H.; Lali, M.I.


    We present two simple mark and sweep algorithms, A and B, for concurrent garbage collection by a single collector running concurrently with a number of mutators that concurrently modify shared data. Both algorithms are based on the ideas of Ben-Ari's classical algorithm for on-the-fly garbage collec

  12. A simple method for complex eigenvalues

    Energy Technology Data Exchange (ETDEWEB)

    Killingbeck, John P [Mathematics Department, University of Hull, Hull HU6 7RX (United Kingdom); Grosjean, Alain [Laboratoire d' Astrophysique de l' Observatoire de Besancon, CNRS, UMR 6091, 41 bis Avenue de l' Observatoire, BP1615, 25010 Besancon Cedex (France); Jolicard, Georges [Laboratoire d' Astrophysique de l' Observatoire de Besancon, CNRS, UMR 6091, 41 bis Avenue de l' Observatoire, BP1615, 25010 Besancon Cedex (France)


    A simple iterative method is described for finding the eigenvalues of a general square complex matrix. Several numerical examples involving complex symmetric matrices are treated. In particular, it is found that a naive matrix calculation without complex rotation produces resonant state energies in accord with those given by the recently introduced naive complex hypervirial perturbation theory. (letter to the editor)

  13. Building systems from simple hyperbolic ones

    NARCIS (Netherlands)

    Zwart, H.; Le Gorrec, Y.; Maschke, B.


    In this article we introduce a technique that derives from the existence and uniqueness of solutions to a simple hyperbolic partial differential equation (p.d.e.) the existence and uniqueness of solutions to hyperbolic and parabolic p.d.e.’s. Among others, we show that starting with an impedance pas

  14. Population Monotonic Path Schemes for Simple Games

    NARCIS (Netherlands)

    Ciftci, B.B.; Borm, P.E.M.; Hamers, H.J.M.


    A path scheme for a simple game is composed of a path, i.e., a sequence of coalitions that is formed during the coalition formation process and a scheme, i.e., a payoff vector for each coalition in the path.A path scheme is called population monotonic if a player's payoff does not decrease as the pa

  15. A Simple ELISA Exercise for Undergraduate Biology. (United States)

    Baker, William P.; Moore, Cathy R.

    Understanding of immunological techniques such as the Enzyme Linked Immuno Sorbent Assay (ELISA) is an important part of instructional units in human health, developmental biology, microbiology, and biotechnology. This paper describes a simple ELISA exercise for undergraduate biology that effectively simulates the technique using a paper model.…

  16. Simple adaptive tracking control for mobile robots (United States)

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


    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.


    Institute of Scientific and Technical Information of China (English)

    丁晓曼; 冷金花; 郎景和; 李华军


    Objective. To evaluate the surgery in simple ovarian cysts.Methods. From Jan. 1994 to Dec. 1999, 221 women with simple ovarian cysts were admitted into ourhospital. The diameter of cysts was <5 cm in 76 cases, and was≥5 cm in 145 cases ultrasonically.One hundred and eighty-four patients underwent laparosocopy, and thirty-seven underwent laparotomy.Results. Histological findings showed no malignancy in this series. Simple cysts, paraovarian cystsand corpus luteum were found histologically in 90.8% of cases with cysts <5 cm, and 60% of those withcysts >7 cm respectively, their difference was significant (X2=-37.13, P<0.001). The simple cysts, paraovar-ian cysts and corpus luteum cysts were found in 81.5% of postmenopausal women and 84.0% of pre-menopausal women. Conclusion. Patients with cysts >7 cm are indicated for surgical procedures, while a period of fol-lowup is acceptable for patients with cysts <7 cm, and surgery is advisable if the cyst is persistent dur-ing followup. Postmenopausal women with cysts should have operations.

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

    Energy Technology Data Exchange (ETDEWEB)

    Gubala, Vladimir, E-mail: [Biomedical Diagnostics Institute (BDI), National Centre for Sensor Research (NCSR), Dublin City University, Dublin 9 (Ireland); Medway School of Pharmacy, University of Kent, Central Avenue, Anson 120, Chatham Maritime, Kent ME4 4TB (United Kingdom); Siegrist, Jonathan; Monaghan, Ruairi; O' Reilly, Brian; Gandhiraman, Ram Prasad [Biomedical Diagnostics Institute (BDI), National Centre for Sensor Research (NCSR), Dublin City University, Dublin 9 (Ireland); Daniels, Stephen [Biomedical Diagnostics Institute (BDI), National Centre for Sensor Research (NCSR), Dublin City University, Dublin 9 (Ireland); National Centre for Plasma Science and Technology (NCPST), Dublin City University, Dublin 9 (Ireland); Williams, David E. [Biomedical Diagnostics Institute (BDI), National Centre for Sensor Research (NCSR), Dublin City University, Dublin 9 (Ireland); MacDiarmid Institute for Advanced Materials and Nanotechnology, School of Chemical Sciences, University of Auckland, Auckland 1142 (New Zealand); Ducree, Jens [Biomedical Diagnostics Institute (BDI), National Centre for Sensor Research (NCSR), Dublin City University, Dublin 9 (Ireland)


    Highlights: Black-Right-Pointing-Pointer A simple tool to assess biomolecule adsorption onto the surfaces of microchannels. Black-Right-Pointing-Pointer Development for dilution by surface-adsorption based depletion of protein samples. Black-Right-Pointing-Pointer It can easily be done using a readily available apparatus like a spin-coater. Black-Right-Pointing-Pointer The assessment tool is facile and quantitative. Black-Right-Pointing-Pointer 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{sup Registered-Sign }) substrates which are widely used in microfluidic lab-on-a-chip devices. These Zeonor{sup Registered-Sign} 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{sup Registered-Sign }, 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

  19. Cuentos Faciles. Habia una vez.... (Simple Stories. There was a Time....) (Presenting Simple Stories in Spanish.) (United States)

    Arroyo, Nancy; And Others

    For Spanish-speaking children, simple stories in Spanish, told in a natural language suitable for their age, are not only entertaining, but a means of developing vocabulary and concepts. Non-Spanish-speaking children, too, need exposure to more language than they can understand word for word. However, the simple stories for the Spanish speaker…

  20. 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.

  1. Acanthamoeba castellanii STAT protein. (United States)

    Kicinska, Anna; Leluk, Jacek; Jarmuszkiewicz, Wieslawa


    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.


    Institute of Scientific and Technical Information of China (English)

    L(U) Jinhu


    This paper reviews and introduces some simple switching piecewise-linear controllers, which can generate complex chaotic behaviors from simple switching systems. The mechanism of simple switching rules creating complex chaotic behaviors is further investigated.

  3. A simple assay for measurement of ovotransferrin - a marker of inflammation and infection in birds

    NARCIS (Netherlands)

    Horrocks, N.P.C.; Tieleman, B.I.; Matson, K.D.


    1. Ovotransferrin is an acute-phase protein with iron-binding and immunomodulatory functions. In poultry, ovotransferrin levels increase in response to inflammation or infection, but little is known about responses in wild bird species. 2. We present a simple assay for the determination of ovotransf

  4. Biomedical sensors for disease detection made simple

    DEFF Research Database (Denmark)

    Veldhuis, Djuke


    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....

  5. Simple model of stacking-fault energies

    DEFF Research Database (Denmark)

    Stokbro, Kurt; Jacobsen, Lærke Wedel


    -density calculations of stacking-fault energies, and gives a simple way of understanding the calculated energy contributions from the different atomic layers in the stacking-fault region. The two parameters in the model describe the relative energy contributions of the s and d electrons in the noble and transition......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...... 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...

  6. Simple gas chromatographic method for furfural analysis. (United States)

    Gaspar, Elvira M S M; Lopes, João F


    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 (RSDTOF-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.

  7. On Nichols algebras associated to simple racks

    CERN Document Server

    Andruskiewitsch, N; Garcia, G A; Vendramin, L


    This is a report on the present state of the problem of determining the dimension of the Nichols algebra associated to a rack and a cocycle. This is relevant for the classification of finite-dimensional complex pointed Hopf algebras whose group of group-likes is non-abelian. We deal mainly with simple racks. We recall the notion of rack of type D, collect the known lists of simple racks of type D and include preliminary results for the open cases. This notion is important because the Nichols algebra associated to a rack of type D and any cocycle has infinite dimension. For those racks not of type D, the computation of the cohomology groups is needed. We discuss some techniques for this problem and compute explicitly the cohomology groups corresponding to some conjugacy classes in symmetric or alternating groups of low order.

  8. Estimation of the simple correlation coefficient. (United States)

    Shieh, Gwowen


    This article investigates some unfamiliar properties of the Pearson product-moment correlation coefficient for the estimation of simple correlation coefficient. Although Pearson's r is biased, except for limited situations, and the minimum variance unbiased estimator has been proposed in the literature, researchers routinely employ the sample correlation coefficient in their practical applications, because of its simplicity and popularity. In order to support such practice, this study examines the mean squared errors of r and several prominent formulas. The results reveal specific situations in which the sample correlation coefficient performs better than the unbiased and nearly unbiased estimators, facilitating recommendation of r as an effect size index for the strength of linear association between two variables. In addition, related issues of estimating the squared simple correlation coefficient are also considered.

  9. Simple chloride sensors for continuous groundwater monitoring

    DEFF Research Database (Denmark)

    Thorn, Paul; Mortensen, John


    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 continuous application. This study looks at the development of a simple, inexpensive chloride electrode, and evaluates its performance under continuous use, both in the laboratory and in a field test in a monitoring well. The results from the study showed a consistent response to changing chloride...... 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....

  10. A simple solution of the proton crisis

    CERN Document Server

    Pankovic, Vladan


    In this work we suggest a simple theoretical model of the proton able to effectively solve proton spin crisis. Within domain of applicability of this simple model proton consists only of two u quarks and one d quarks (two of which have spin opposite to proton and one identical to proton) and one neutral vector phi meson (with spin two times larger than proton spin and directed identically to proton spin). This model is in full agreement not only with existing DIS experiments, but also with spin and electric charge conservation as well as in a satisfactory agreement with rest mass-energy conservation (since phi meson mass is close to proton rest mass). Our model opens an interesting possibility of the solution of the quarks and leptons families problem (proton is not an absolutely non-strange particle, but only a particle with almost totally effectively hidden strange).

  11. Molecular implementation of simple logic programs (United States)

    Ran, Tom; Kaplan, Shai; Shapiro, Ehud


    Autonomous programmable computing devices made of biomolecules could interact with a biological environment and be used in future biological and medical applications. Biomolecular implementations of finite automata and logic gates have already been developed. Here, we report an autonomous programmable molecular system based on the manipulation of DNA strands that is capable of performing simple logical deductions. Using molecular representations of facts such as Man(Socrates) and rules such as Mortal(X) system can answer molecular queries such as Mortal(Socrates)? (Is Socrates Mortal?) and Mortal(X)? (Who is Mortal?). This biomolecular computing system compares favourably with previous approaches in terms of expressive power, performance and precision. A compiler translates facts, rules and queries into their molecular representations and subsequently operates a robotic system that assembles the logical deductions and delivers the result. This prototype is the first simple programming language with a molecular-scale implementation.

  12. Simple approach to study biomolecule adsorption in polymeric microfluidic channels. (United States)

    Gubala, Vladimir; Siegrist, Jonathan; Monaghan, Ruairi; O'Reilly, Brian; Gandhiraman, Ram Prasad; Daniels, Stephen; Williams, David E; Ducrée, Jens


    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, microfluidic systems. This method provides a straightforward and rapid way to screen surface compositions and chemistry, and relate these to their effects on the sensitivity and resistance to non-specific binding of bioassays using them. In an additional set of experiments, the surface area of the channels in this universal microfluidic chip was increased by precision milling of microscale

  13. A Simple Analysis on Business English Translation

    Institute of Scientific and Technical Information of China (English)

    Jiang Yue


    With the development of economic globalization, foreign business activities have penetrated into all aspects of the society. Meanwhile business English translation plays an indispensable role in foreign business communication as a bridge. This paper carries out a simple analysis about business English translation based on three aspects: linguistic features of business English, translation methods of business English, criteria in business English translation. Based on the analysis, some feasible suggestions have been proposed for business English translators.

  14. A Simple Experiment for Visualizing Diffusion (United States)

    Helseth, L. E.


    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…

  15. 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


    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.

  16. Estimation for the simple linear Boolean model



    We consider the simple linear Boolean model, a fundamental coverage process also known as the Markov/General/infinity queue. In the model, line segments of independent and identically distributed length are located at the points of a Poisson process. The segments may overlap, resulting in a pattern of "clumps"-regions of the line that are covered by one or more segments-alternating with uncovered regions or "spacings". Study and application of the model have been impeded by the difficult...

  17. Sincerity in Simple and Complex Voting Mechanisms


    Ballester, Miguel Angel; Rey-Biel, Pedro


    We discuss sincere voting when voters have cardinal preferences over alternatives. We interpret sincerity as opposed to strategic voting, and thus define sincerity as the optimal behavior when conditions to vote strategically diminish. When voting mechanisms allow for only one message type (simple voting mechanisms) we show that eliminating some conditions for strategic voting, individuals' optimal behavior coincides with an intuitive and common definition of sincerity. In order to obtain a p...

  18. Which finite simple groups are unit groups?

    DEFF Research Database (Denmark)

    Davis, Christopher James; Occhipinti, Tommy


    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 a...

  19. SLURM: Simple Linux Utility for Resource Management

    Energy Technology Data Exchange (ETDEWEB)

    Jette, M; Dunlap, C; Garlick, J; Grondona, M


    Simple Linux Utility for Resource Management (SLURM) is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for Linux clusters of thousands of nodes. Components include machine status, partition management, job management, scheduling and stream copy modules. The design also includes a scalable, general-purpose communication infrastructure. This paper presents a overview of the SLURM architecture and functionality.

  20. The Annulus Property of Simple Holomorphic Discs

    CERN Document Server

    Zehmisch, Kai


    We show that any simple holomorphic disc admits the annulus property, i.e., each interior point is surrounded by an arbitrary small annulus consisting entirely of injective points. As an application we show that interior singularities of holomorphic discs can be resolved after slight perturbation of the involved almost complex structure. Moreover, for boundary points the analogue notion, the half-annulus property, is introduced and studied in detail.

  1. The annulus property of simple holomorphic discs


    Zehmisch, Kai


    We show that any simple holomorphic disc admits the annulus property, i.e., each interior point is surrounded by an arbitrary small annulus consisting entirely of injective points. As an application we show that interior singularities of holomorphic discs can be resolved after slight perturbation of the almost complex structure. Moreover, for boundary points the analogue notion, the half-annulus property, is introduced and studied in detail.


    Energy Technology Data Exchange (ETDEWEB)

    Robinson, C


    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.

  3. Simple system for locating ground loops. (United States)

    Bellan, P M


    A simple low-cost system for rapid identification of the cables causing ground loops in complex instrumentation configurations is described. The system consists of an exciter module that generates a 100 kHz ground loop current and a detector module that determines which cable conducts this test current. Both the exciter and detector are magnetically coupled to the ground circuit so there is no physical contact to the instrumentation system under test.

  4. Reanalysis of the equation for simple action


    Warren-Boulton, Frederick R.; Silberberg, Alan; Gray, Michael; Ollom, Randolph


    De Villiers and Herrnstein (1976) have shown that the equation for simple action, derived from the matching law, predicts change in behavioral output for some 40 experiments in which the value of a single source of reinforcement has been varied. Using only the positive-reinforcement studies they cite that used five or more different reinforcement values, we found the high percentage of variance they report accommodated by this equation (94%) is predicated on instances of averaging rates of be...

  5. A simple analytic model of wormhole formations

    CERN Document Server

    Maeda, Hideki


    An explicit and simple solution representing the wormhole formation is presented. The spacetime is constructed by gluing the Minkowski and Roberts spacetimes at null hypersurfaces in a regular manner. The parameters in the Roberts solution are required to give the negative kinetic term for the massless scalar field. Although a curvature singularity appears at the moment of the wormhole formation, it disappears instantaneously. This instantaneous singularity is weak in the both senses of Tipler and Kr\\'{o}lak along radial causal geodesics.

  6. The Design of SimpleITK


    Bradley Christopher Lowekamp; Chen, David T.; Luis eIbanez; Daniel eBlezek


    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 ...

  7. Einstein solvmanifolds with a simple Einstein derivation


    Nikolayevsky, Y.


    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).

  8. A simple model of bedform migration

    DEFF Research Database (Denmark)

    Bartholdy, Jesper; Ernstsen, Verner Brandbyge; Flemming, Burg W;


    and width) of naturally-packed bed material on the bedform lee side, qb(crest). The model is simple, built on a rational description of simplified sediment mechanics, and its calibration constant can be explained in accordance with estimated values of the physical constants on which it is based. Predicted...... values of qb(crest) correlate with measured values of bedform height multiplied by bedform migration rate with R-2 = 0.83. Copyright (C) 2010 John Wiley & Sons, Ltd...

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

    CERN Document Server

    Leaños, Jesus; Rivera-Martinez, Luis Manuel


    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. Central odontogenic fibroma of the simple type

    Energy Technology Data Exchange (ETDEWEB)

    Hwang, Eui Hwan; Lee, Sang Rae [Department of Oral and Maxillofacial Radiology, College of Dentistry, Kyung Hee University, Seoul (Korea, Republic of)


    The central odontogenic fibroma is a rare benign neoplasm, and considered to be derived from the mesenchymal tissue of dental origin. It is a poorly defined tumor of the jawbones which has only been infrequently reported in the literature. We report a histologically proven case of simple-type central odontogenic fibroma, which affected the left canine-premolar region of the maxilla in a 52-year-old woman.

  11. A simple solution to Archimedes' cattle problem


    Nygrén, A. (Antti)


    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...

  12. Entropy estimates for simple random fields

    DEFF Research Database (Denmark)

    Forchhammer, Søren; Justesen, Jørn


    We consider the problem of determining the maximum entropy of a discrete random field on a lattice subject to certain local constraints on symbol configurations. The results are expected to be of interest in the analysis of digitized images and two dimensional codes. We shall present some examples...... of binary and ternary fields with simple constraints. Exact results on the entropies are known only in a few cases, but we shall present close bounds and estimates that are computationally efficient...

  13. A Simple Analytic Solution for Tachyon Condensation

    CERN Document Server

    Erler, Theodore


    In this paper we present a new and simple analytic solution for tachyon condensation in open bosonic string field theory. Unlike the B_0 gauge solution, which requires a carefully regulated discrete sum of wedge states subtracted against a mysterious "phantom" counter term, this new solution involves a continuous integral of wedge states, and no regularization or phantom term is necessary. Moreover, we can evaluate the action and prove Sen's conjecture in a mere few lines of calculation.

  14. A simple model of aggregate pension expenditure


    Fuente, Ángel de la


    This paper develops a simple model that can be used to analyze the long-term sustainability of the contributive pension system and the steady-state response of pension expenditure to changes in some key demographic and economic variables, in the characteristics of the average pensioner an d in the parameters that describe how pensions are calculated in Spain as a function of workers’ Social Security contribution histories.

  15. Cities in Space: Three Simple Models


    Paul Krugman


    Urban agglomerations arise at least in part out of the interaction between economies of scale in production and market size effects. This paper develops a simple spatial framework to develop illustrative models of the determinants of urban location, of the number and size of cities, and of the degree of urbanization. A Central theme is the probable existence of multiple equilibria, and the dependence of the range of potential outcomes on a few key parameters.

  16. Simple Benchmark Specifications for Space Radiation Protection (United States)

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


    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.

  17. A simple electron-beam lithography system

    DEFF Research Database (Denmark)

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


    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....

  18. Curvature of spacetime: A simple student activity (United States)

    Wood, Monika; Smith, Warren; Jackson, Matthew


    The following is a description of an inexpensive and simple student experiment for measuring the differences between the three types of spacetime topology—Euclidean (flat), Riemann (spherical), and Lobachevskian (saddle) curvatures. It makes use of commonly available tools and materials, and requires only a small amount of construction. The experiment applies to astronomical topics such as gravity, spacetime, general relativity, as well as geometry and mathematics.

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

    Directory of Open Access Journals (Sweden)

    Xiaodong eChen


    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.

  20. BASIC: A Simple and Accurate Modular DNA Assembly Method. (United States)

    Storch, Marko; Casini, Arturo; Mackrow, Ben; Ellis, Tom; Baldwin, Geoff S


    Biopart Assembly Standard for Idempotent Cloning (BASIC) is a simple, accurate, and robust DNA assembly method. The method is based on linker-mediated DNA assembly and provides highly accurate DNA assembly with 99 % correct assemblies for four parts and 90 % correct assemblies for seven parts [1]. The BASIC standard defines a single entry vector for all parts flanked by the same prefix and suffix sequences and its idempotent nature means that the assembled construct is returned in the same format. Once a part has been adapted into the BASIC format it can be placed at any position within a BASIC assembly without the need for reformatting. This allows laboratories to grow comprehensive and universal part libraries and to share them efficiently. The modularity within the BASIC framework is further extended by the possibility of encoding ribosomal binding sites (RBS) and peptide linker sequences directly on the linkers used for assembly. This makes BASIC a highly versatile library construction method for combinatorial part assembly including the construction of promoter, RBS, gene variant, and protein-tag libraries. In comparison with other DNA assembly standards and methods, BASIC offers a simple robust protocol; it relies on a single entry vector, provides for easy hierarchical assembly, and is highly accurate for up to seven parts per assembly round [2].

  1. The Monash University Interactive Simple Climate Model (United States)

    Dommenget, D.


    The Monash university interactive simple climate model is a web-based interface that allows students and the general public to explore the physical simulation of the climate system with a real global climate model. It is based on the Globally Resolved Energy Balance (GREB) model, which is a climate model published by Dommenget and Floeter [2011] in the international peer review science journal Climate Dynamics. The model simulates most of the main physical processes in the climate system in a very simplistic way and therefore allows very fast and simple climate model simulations on a normal PC computer. Despite its simplicity the model simulates the climate response to external forcings, such as doubling of the CO2 concentrations very realistically (similar to state of the art climate models). The Monash simple climate model web-interface allows you to study the results of more than a 2000 different model experiments in an interactive way and it allows you to study a number of tutorials on the interactions of physical processes in the climate system and solve some puzzles. By switching OFF/ON physical processes you can deconstruct the climate and learn how all the different processes interact to generate the observed climate and how the processes interact to generate the IPCC predicted climate change for anthropogenic CO2 increase. The presentation will illustrate how this web-base tool works and what are the possibilities in teaching students with this tool are.

  2. A discerning approach to simple aesthetic orthodontics. (United States)

    Noar, J H; Sharma, S; Roberts-Harry, D; Qureshi, T


    There is currently considerable interest from general dental practitioners (GDPs) in the use of simple orthodontics to treat adult malocclusions. There is controversy in this, particularly in relation to 'quick fixes', simple orthodontics and 'straight teeth in six months' as opposed to more conventional treatment where the whole malocclusion is treated. This article will present a case for the use of simple aesthetic adult orthodontics in a measured and planned way. It will discuss the processes, planning and the importance of consent. It will also highlight how digital technology is used to preview, consent and execute an aesthetic result. Many of the recent systems emerging, have been as a result of the demand and supply of cosmetic dentistry. This, to a degree, has not helped since the implication of a 'quick-fix' is associated with this field. There has also been discussion on what the limits of GDP orthodontics should be. There is variability in how GDPs approach orthodontics, their experience, skill and ability to treat to an acceptable standard. Short courses may be one way of delivering orthodontic training but some of these courses are not regulated and the amount of internal mentoring is variable. This article highlights some of the systems in use, and potential upsides and downsides of this approach.

  3. Modeling reproductive decisions with simple heuristics

    Directory of Open Access Journals (Sweden)

    Peter Todd


    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.

  4. Ultrafiltration of pegylated proteins (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

  5. A simple fibril and lectin model for cyst walls of Entamoeba and perhaps Giardia. (United States)

    Samuelson, John; Robbins, Phillips


    Cyst walls of Entamoeba and Giardia protect them from environmental insults, stomach acids, and intestinal proteases. Each cyst wall contains a sugar homopolymer: chitin in Entamoeba and a unique N-acetylgalactosamine (GalNAc) homopolymer in Giardia. Entamoeba cyst wall proteins include Jacob lectins (carbohydrate-binding proteins) that crosslink chitin, chitinases that degrade chitin, and Jessie lectins that make walls impermeable. Giardia cyst wall proteins are also lectins that bind fibrils of the GalNAc homopolymer. Although many of the details remain to be determined for the cyst wall of Giardia, current data suggest a relatively simple fibril and lectin model for the Entamoeba cyst wall.

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

    CERN Document Server

    Plante, Raymond; Harrison, Paul; Tody, Doug


    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.

  7. Flowering Buds of Globular Proteins: Transpiring Simplicity of Protein Organization (United States)

    Berezovsky, Igor N.


    Structural and functional complexity of proteins is dramatically reduced to a simple linear picture when the laws of polymer physics are considered. A basic unit of the protein structure is a nearly standard closed loop of 25–35 amino acid residues, and every globular protein is built of consecutively connected closed loops. The physical necessity of the closed loops had been apparently imposed on the early stages of protein evolution. Indeed, the most frequent prototype sequence motifs in prokaryotic proteins have the same sequence size, and their high match representatives are found as closed loops in crystallized proteins. Thus, the linear organization of the closed loop elements is a quintessence of protein evolution, structure and folding. PMID:18629251

  8. Mathematical methods for protein science

    Energy Technology Data Exchange (ETDEWEB)

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


    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.

  9. Protein Condensation (United States)

    Gunton, James D.; Shiryayev, Andrey; Pagan, Daniel L.


    Preface; 1. Introduction; 2. Globular protein structure; 3. Experimental methods; 4. Thermodynamics and statistical mechanics; 5. Protein-protein interactions; 6. Theoretical studies of equilibrium; 7. Nucleation theory; 8. Experimental studies of nucleation; 9. Lysozyme; 10. Some other globular proteins; 11. Membrane proteins; 12. Crystallins and cataracts; 13. Sickle hemoglobin and sickle cell anemia; 14, Alzheimer's disease; Index.

  10. A Simple Fuzzy Time Series Forecasting Model

    DEFF Research Database (Denmark)

    Ortiz-Arroyo, Daniel


    In this paper we describe a new first order fuzzy time series forecasting model. We show that our automatic fuzzy partitioning method provides an accurate approximation to the time series that when combined with rule forecasting and an OWA operator improves forecasting accuracy. Our model does...... not attempt to provide the best results in comparison with other forecasting methods but to show how to improve first order models using simple techniques. However, we show that our first order model is still capable of outperforming some more complex higher order fuzzy time series models....

  11. Understanding the tsunami with a simple model

    CERN Document Server

    Helene, O


    In this paper, we use the approximation of shallow water waves (Margaritondo G 2005 Eur. J. Phys. 26 401) to understand the behaviour of a tsunami in a variable depth. We deduce the shallow water wave equation and the continuity equation that must be satisfied when a wave encounters a discontinuity in the sea depth. A short explanation about how the tsunami hit the west coast of India is given based on the refraction phenomenon. Our procedure also includes a simple numerical calculation suitable for undergraduate students in physics and engineering.

  12. Biogas Digester with Simple Solar Heater


    Kh S Karimov; Muhammad Abid


    ABSTRACT: In this research work, the design, fabrication and investigation of a biogas digester with simple solar heater are presented. For the solar heater, a built-in reverse absorber type heater was used. The maximum temperature (50°C) inside the methane tank was taken as a main parameter for the design of the digester. Then, the energy balance equation for the case of a static mass of fluid being heated was used to model the process. The parameters of thermal insulation of the methane tan...

  13. A simple experiment for visualizing diffusion

    Energy Technology Data Exchange (ETDEWEB)

    Helseth, L E, E-mail: [Department of Physics and Technology, University of Bergen, Allegaten 55, N-5007 Bergen (Norway)


    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. Simple Unawareness in Dynamic Psychological Games

    DEFF Research Database (Denmark)

    Sebald, Alexander Christopher; Nielsen, Carsten Søren


    Building on Battigalli and Dufwenberg (2009)’s framework of dynamic psychological games and the progress in the modeling of dynamic unawareness by Heifetz, Meier, and Schipper (2013a) we model and analyze the impact of asymmetric awareness in the strategic interaction of players motivated...... by reciprocity and guilt. Specifically we characterize extensive-form games with psychological payoffs and simple unawareness, define extensive-form rationalizability and, using this, show that unawareness has a pervasive impact on the strategic interaction of psychologically motivated players. Intuitively...

  15. A simple ear splint for microtia patients. (United States)

    Krishnan, C J Venkata; Balaji, S M; Jain, Ashish R


    Microtia is a congenital anomaly of the ear can occur as an isolated birth defect or as part of a spectrum of anomalies or as a syndrome. Microtia is often associated with impaired hearing and or total loss of hearing. Such patients typically require treatment for surgical ear reconstruction and for hearing impairment. Maintenance of ear projection and post auricular sulcus in staged ear reconstruction in microtia is a trying problem. So also is the maintenance of the patency of the external auditory meatus following recanalization and meatoplasty.This case report describes a simple effective way of fabrication of ear splint prosthesis.

  16. Simple MCA supports a variety of applications

    Energy Technology Data Exchange (ETDEWEB)

    Wolf, M.A.; Staley, H.C.


    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.

  17. Simple MCA supports a variety of applications

    Energy Technology Data Exchange (ETDEWEB)

    Wolf, M.A.; Staley, H.C.


    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.

  18. Simple permutations with order $4n + 2$

    CERN Document Server

    Acosta-Humánez, Primitivo B


    The problem of genealogy of permutations has been solved partially by Stefan (odd order) and Acosta-Hum\\'anez & Bernhardt (power of two). It is well known that Sharkovskii's theorem shows the relationship between the cardinal of the set of periodic points of a continuous map, but simple permutations will show the behavior of those periodic points. This paper studies the structure of permutations of mixed order $4n+2$, its properties and a way to describe its genealogy by using Pasting and Reversing.

  19. A study of a simple gyrotron equation

    Energy Technology Data Exchange (ETDEWEB)

    Goetz, Markus [Max-Planck-Institut fuer Plasmaphysik, EURATOM-Association, D-85748 Garching (Germany); Meyer-Spasche, Rita [Max-Planck-Institut fuer Plasmaphysik, EURATOM-Association, D-85748 Garching (Germany); Weitzner, Harold [New York University, Courant Institute of Mathematical Sciences, New York, NY 10012 (United States)


    A simple standard equation for the evolution of the electrons and electromagnetic fields in a gyrotron cavity is studied. A number of mathematical properties are shown: existence and uniqueness of solutions for a limited axial extent and existence and uniqueness for all axial lengths in one case of particular interest. A Poynting theorem is obtained directly from the model and the Hamiltonian character of the electron motion is demonstrated. The start-up and final state in the gyrotron cavity are also examined. The efficiency of energy flux transfer from the electron beam to the wave is estimated.

  20. Simple grading model for financial markets (United States)

    Thuy Anh, Chu; Lan, Nguyen Tri; Viet, Nguyen Ai


    A simple way to estimate and grade a financial market by comparison the evolution process and the shape of distribution functions was proposed. In normal working state of financial market, the shape of distribution functions have one-peak form and change from Boltzmann-like to Gaussian-like distributions, while in risk moment might have two-peak form. The grad of financial markets was characterized by overlap area of initial and final distribution functions, and for risk degree by the separation between two shoulders of distribution function. The meaning of Levi tails of distribution and laws of general entropy and information was discussed.

  1. Neutrosophic Correlation and Simple Linear Regression

    Directory of Open Access Journals (Sweden)

    A. A. Salama


    Full Text Available Since the world is full of indeterminacy, the neutrosophics found their place into contemporary research. The fundamental concepts of neutrosophic set, introduced by Smarandache. Recently, Salama et al., introduced the concept of correlation coefficient of neutrosophic data. In this paper, we introduce and study the concepts of correlation and correlation coefficient of neutrosophic data in probability spaces and study some of their properties. Also, we introduce and study the neutrosophic simple linear regression model. Possible applications to data processing are touched upon.

  2. Chaos and irreversibility in simple model systems. (United States)

    Hoover, Wm. G.; Posch, Harald A.


    The multifractal link between chaotic time-reversible mechanics and thermodynamic irreversibility is illustrated for three simple chaotic model systems: the Baker Map, the Galton Board, and many-body color conductivity. By scaling time, or the momenta, or the driving forces, it can be shown that the dissipative nature of the three thermostated model systems has analogs in conservative Hamiltonian and Lagrangian mechanics. Links between the microscopic nonequilibrium Lyapunov spectra and macroscopic thermodynamic dissipation are also pointed out. (c) 1998 American Institute of Physics.

  3. A simple ear splint for microtia patients

    Directory of Open Access Journals (Sweden)

    C J Venkata Krishnan


    Full Text Available Microtia is a congenital anomaly of the ear can occur as an isolated birth defect or as part of a spectrum of anomalies or as a syndrome. Microtia is often associated with impaired hearing and or total loss of hearing. Such patients typically require treatment for surgical ear reconstruction and for hearing impairment. Maintenance of ear projection and post auricular sulcus in staged ear reconstruction in microtia is a trying problem. So also is the maintenance of the patency of the external auditory meatus following recanalization and meatoplasty.This case report describes a simple effective way of fabrication of ear splint prosthesis.

  4. A simple proof of Bell's inequality (United States)

    Maccone, Lorenzo


    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.

  5. Simple Creep Test For Ceramic Fibers (United States)

    Dicarlo, James A.; Morscher, Gregory N.


    Simple bend-stress-relaxation test yields information on creep-related properties of polycrystalline ceramic fibers. Determination of these properties important part of efforts to develop ceramic composite materials that retain mechanical strength and resistance to creep at high temperatures. Present test measures effects of time, temperature, and applied strain on creep-related relaxation of bend stress in ceramic fiber of almost any diameter in almost any environment, without need for contact sensors. Degree of relaxation of bend stress determined from radii of curvature.

  6. Simple laboratory determination of excess oligosacchariduria. (United States)

    Sewell, A C


    I describe a simple set of procedures for the screening of patients' urine to detect oligosaccharide-storage diseases. Urines from patients with mucolipidosis I, mannosidosis, fucosidosis, aspartylglycosaminuria, and type VI glycogen-storage disease can be distinguished by thin-layer chromatography. Patients with beta-galactosidase deficiency can be detected by use of a combination of ion-exchange and thin-layer chromatography. Excess sialyloligosaccharide excretion is detected by using gel filtration and a quantitative assay for neuraminic acid. The advantages of the system are detection of virtually all known disorders in which oligosaccharides are over-excreted, production of characteristic patterns, and small sample requirement.

  7. A simple model of direct gauge mediation

    Energy Technology Data Exchange (ETDEWEB)

    Zheng Sibo, E-mail: [Department of Physics, Chongqing University, Chongqing 401331 (China); Yu Yao [Department of Physics, Chongqing University, Chongqing 401331 (China)


    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.

  8. A simple method for focal length measurement (United States)

    Ma, Hua; Ren, Huan; Zhang, Lin; Shi, Zhengdong; Yuan, Quan; Yang, Yi


    A simple method for focal length measurement based on image processing is demonstrated and discussed. The collimated beam, detector, motorized translation stage and computer make up of this test system. The two spots pass through the tested lens is accepted by detector, which is transferred twice by motorized translation stage. By acquired the difference of two spots by image processing, the focal length of the tested lens can be gained. The error sources in the measurement are analyzed. Then the results of experiment show that the relative error was 0.1%. This method can be used in workshop and labs for its convenience and low cost.

  9. Theory of high pressure hydrogen, made simple

    CERN Document Server

    Magdau, Ioan B; Ackland, Graeme J


    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.

  10. A simple asynchronous replica-exchange implementation

    CERN Document Server

    Bussi, Giovanni


    We discuss the possibility of implementing asynchronous replica-exchange (or parallel tempering) molecular dynamics. In our scheme, the exchange attempts are driven by asynchronous messages sent by one of the computing nodes, so that different replicas are allowed to perform a different number of time-steps between subsequent attempts. The implementation is simple and based on the message-passing interface (MPI). We illustrate the advantages of our scheme with respect to the standard synchronous algorithm and we benchmark it for a model Lennard-Jones liquid on an IBM-LS21 blade center cluster.

  11. Simple Approach to Superamphiphobic Overhanging Silicon Nanostructures

    DEFF Research Database (Denmark)

    Kumar, Rajendra; Mogensen, Klaus Bo; Bøggild, Peter


    Superhydrophobic silicon nanostructures were fabricated by anisotropic etching of silicon coated with a thin hydrophobic layer. At certain etch parameters, overhanging nanostructures form at the apexes of the rod-shaped tips, This leads to superoleophobic behavior for several oily liquids...... with contact angles up to 152 degrees and roll-off angle down to 8 degrees. Such nonlithographic nanoscale overhanging Structures can also be added to silicon nanograss by deposition of a thin SiO2 layer, which equips the silicon rods with 100-300 nm sized overhanging Structures. This is a simple, fast...

  12. Chaos from simple models to complex systems

    CERN Document Server

    Cencini, Massimo; Vulpiani, Angelo


    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

  13. Simple method for purification of enterotoxigenic Escherichia coli fimbriae. (United States)

    Curtis, Brittany; Grassel, Christen; Laufer, Rachel S; Sears, Khandra T; Pasetti, Marcela F; Barry, Eileen M; Simon, Raphael


    Enterotoxigenic Escherichia coli (ETEC) are endemic pathogens in the developing world. They frequently cause illness in travelers, and are among the most prevalent causes of diarrheal disease in children. Pathogenic ETEC strains employ fimbriae as adhesion factors to bind the luminal surface of the intestinal epithelium and establish infection. Accordingly, there is marked interest in immunoprophylactic strategies targeting fimbriae to protect against ETEC infections. Multiple strategies have been reported for purification of ETEC fimbriae, however none is ideal. Purification has typically involved the use of highly virulent wild-type strains. We report here a simple and improved method to purify ETEC fimbriae, which was applied to obtain two different Class 5 fimbriae types of clinical relevance (CFA/I and CS4) expressed recombinantly in E. coli production strains. Following removal from cells by shearing, fimbriae proteins were purified by orthogonal purification steps employing ultracentrifugation, precipitation, and ion-exchange membrane chromatography. Purified fimbriae demonstrated the anticipated size and morphology by electron microscopy analysis, contained negligible levels of residual host cell proteins, nucleic acid, and endotoxin, and were recognized by convalescent human anti-sera.

  14. Simple SO(10) GUT in five dimensions (United States)

    Fukuyama, Takeshi; Okada, Nobuchika


    A simple supersymmetric SO(10) grand unified theory (GUT) in five dimensions is considered. The fifth dimension is compactified on the S1/(Z2×Z2') orbifold possessing two inequivalent fixed points. In our setup, all matter and Higgs multiplets reside on one brane (PS brane) where the original SO(10) gauge group is broken down to the Pati-Salam (PS) gauge group, SU(4)c×SU(2)L×SU(2)R, by the orbifold boundary condition, while only the SO(10) gauge multiplet resides in the bulk. The further breaking of the PS symmetry to the standard model gauge group is realized by Higgs multiplets on the PS brane as usual in four-dimensional models. Proton decay is fully suppressed. In our simple setup, the gauge coupling unification is realized after incorporating threshold corrections of Kaluza-Klein modes. When supersymmetry is assumed to be broken on the other brane, supersymmetry breaking is transmitted to the PS brane through the gaugino mediation with the bulk gauge multiplet.

  15. On Simple Graphs Arising from Exponential Congruences

    Directory of Open Access Journals (Sweden)

    M. Aslam Malik


    Full Text Available We introduce and investigate a new class of graphs arrived from exponential congruences. For each pair of positive integers a and b, let G(n denote the graph for which V={0,1,…,n−1} is the set of vertices and there is an edge between a and b if the congruence ax≡b (mod n is solvable. Let n=p1k1p2k2⋯prkr be the prime power factorization of an integer n, where p1simple graph G(p2 is a tree with root at zero, and if n is a Fermat's prime, then the component Γϕ(n of the simple graph G(n is complete.

  16. A Simple Test for Causality in Volatility

    Directory of Open Access Journals (Sweden)

    Chia-Lin Chang


    Full Text Available An early development in testing for causality (technically, Granger non-causality in the conditional variance (or volatility associated with financial returns was the portmanteau statistic for non-causality in the variance of Cheng and Ng (1996. A subsequent development was the Lagrange Multiplier (LM test of non-causality in the conditional variance by Hafner and Herwartz (2006, who provided simulation results to show that their LM test was more powerful than the portmanteau statistic for sample sizes of 1000 and 4000 observations. While the LM test for causality proposed by Hafner and Herwartz (2006 is an interesting and useful development, it is nonetheless arbitrary. In particular, the specification on which the LM test is based does not rely on an underlying stochastic process, so the alternative hypothesis is also arbitrary, which can affect the power of the test. The purpose of the paper is to derive a simple test for causality in volatility that provides regularity conditions arising from the underlying stochastic process, namely a random coefficient autoregressive process, and a test for which the (quasi- maximum likelihood estimates have valid asymptotic properties under the null hypothesis of non-causality. The simple test is intuitively appealing as it is based on an underlying stochastic process, is sympathetic to Granger’s (1969, 1988 notion of time series predictability, is easy to implement, and has a regularity condition that is not available in the LM test.

  17. Uniones adhesivas de traslape simple de compuestos

    Directory of Open Access Journals (Sweden)

    Peter Alvarado Prieto


    Full Text Available El siguiente artículo muestra un estudio de uniones de traslape simple de materiales compuestos, con y sin modificación. La falla de este tipo de uniones es causada por el alto esfuerzo de despegue en dirección perpendicular a la aplicación de la fuerza presentado en la singularidad geométrica. Se muestra que la resistencia de la unión es afectada por factores como la preparación de la superficie, el proceso de curado del adhesivo, y la limpieza. Ambas configuraciones, con y sin modificación, son comparadas. Se muestra que la unión de traslape simple modificada, tiene una mayor resistencia que sin modificación cuando se remueve el exceso de adhesivo en la singularidad geométrica. Sin embargo, el bajo incremento en la resistencia de la unión y la complejidad para manufactura, deja a consideración del fabricante la decisión respecto a qué tipo de unión usar.

  18. Simple Models of Many-Fermion Systems

    CERN Document Server

    Maruhn, Joachim Alexander; Suraud, Eric


    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 ...

  19. The clinical features of simple myopic astigmatism

    Directory of Open Access Journals (Sweden)

    S. I. Abramov


    Full Text Available Purpose: Evaluation of the clinical features of simple myopic astigmatism.Methods: In the framework of the follow-up observation of surveyed 64 patients (128 eyes with the phenomena of simple myopic astigmatism in both eyes without concomitant ocular pathology.Results: the most common are weak (up to 1.0 D — 42%, 1.25-2.0 D — 28% of the value, expressed astigmatism (more than 2.0 D is observed in 30% of cases. In terms of direct myopic astigmatism up to 1.0 D the most characteristic visual acuity is 0.6-0.7, when the value of astigmatism from 1.25 up to 2.0 D the most frequently noted visual acuity is 0.3-0.5. the indicator of «primary use» statistically significantly depended on the indicator «astenopic complaints» (correlation coefficient was 0.59 is 0.72, p<0.0001.Conclusion: the emergence of the patient with visually-intensive work (especially working in conditions of shortage of time re- quires of excimer laser correction for the preservation of visual capacity and the required level of professional reliability, as well as the extension of the professional longevity of the body of view.

  20. The clinical features of simple myopic astigmatism

    Directory of Open Access Journals (Sweden)

    S. I. Abramov


    Full Text Available Purpose: Evaluation of the clinical features of simple myopic astigmatism.Methods: In the framework of the follow-up observation of surveyed 64 patients (128 eyes with the phenomena of simple myopic astigmatism in both eyes without concomitant ocular pathology.Results: the most common are weak (up to 1.0 D — 42%, 1.25-2.0 D — 28% of the value, expressed astigmatism (more than 2.0 D is observed in 30% of cases. In terms of direct myopic astigmatism up to 1.0 D the most characteristic visual acuity is 0.6-0.7, when the value of astigmatism from 1.25 up to 2.0 D the most frequently noted visual acuity is 0.3-0.5. the indicator of «primary use» statistically significantly depended on the indicator «astenopic complaints» (correlation coefficient was 0.59 is 0.72, p<0.0001.Conclusion: the emergence of the patient with visually-intensive work (especially working in conditions of shortage of time re- quires of excimer laser correction for the preservation of visual capacity and the required level of professional reliability, as well as the extension of the professional longevity of the body of view.

  1. Preparation and properties of monoclonal antibodies to individual prekeratins of simple rat epithelium

    Energy Technology Data Exchange (ETDEWEB)

    Troyanovskii, S.M.; Krutovskikh, V.A.; Bannikov, G.A.


    The authors study the properties of a series of hybridoma clones producing antibodies to individual prekeratins (PK) from simple types of epithelium. BALB/c mice were immunized with a preparation of intermediate filaments isolated from the mucosa of the rat large intestine. The specificity of the five clones studied was studied by monoautoradiography. For a more detailed study of the specificity of the experimentally obtained antibodies, the authors used the same immunoautoradiographic method to study their reaction with proteins of cells of other types. The authors have obtained monoclonal antibodies to three individual PK of simple types of rat epithelium: PK40, PK49, and PK55.

  2. A NASA Recipe for Protein Crystallography. Educational Brief. (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)


    Institute of Scientific and Technical Information of China (English)

    Zhang Chun'e; Qiu Zhengding


    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.

  4. A simple nasal anemometer for clinical purposes. (United States)

    Hutters, B; Brøndsted, K


    There is a need for clinical methods which give more direct information about the behaviour of the velopharyngeal mechanism in natural speech than do the examination methods normally applied to patients suffering from velopharyngeal insufficiency. One possibility is the recording of nasal airflow in order to detect nasal emission of air. The purpose of the present study is to examine the qualities and the characteristics of a simple and cheap nasal anemometer. As this type of flowmeter is considered less reliable than most other flowmeters, its limitations must be clearly understood and accounted for in drawing conclusions. Therefore, nasal airflow in speech obtained with this flowmeter is discussed in relation to nasal airflow obtained by the more reliable pneumotachograph and in relation to nasal airflow data found in the literature. The tests made here suggest that, at least for the type of speech material and measurements used in the present study, reliable nasal airflow data can be obtained by the anemometer.

  5. Simple nonlinear models suggest variable star universality

    CERN Document Server

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


    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.

  6. Simple noninvasive measurement of skin autofluorescence. (United States)

    Meerwaldt, Robbert; Links, Thera; Graaff, Reindert; Thorpe, Suzannne R; Baynes, John W; Hartog, Jasper; Gans, Reinold; Smit, Andries


    Accumulation of advanced glycation end products (AGEs) is thought to play a role in the pathogenesis of chronic complications of diabetes mellitus and renal failure. Several studies indicate that AGE accumulation in tissue may reflect the cumulative effect of hyperglycemia and oxidative stress over many years. Simple quantitation of AGE accumulation in tissue could provide a tool for assessing the risk of long-term complications. Because several AGEs exhibit autofluorescence, we developed a noninvasive autofluorescence reader (AFR). Skin autofluorescence measured with the AFR correlates with collagen-linked fluorescence and specific skin AGE levels from skin biopsy samples. Furthermore, skin autofluorescence correlates with long-term glycemic control and renal function, and preliminary results show correlations with the presence of long-term complications in diabetes. The AFR may be useful as a clinical tool for rapid assessment of risk for AGE-related long-term complications in diabetes and in other conditions associated with AGE accumulation.

  7. A simple model of bank bankruptcies (United States)

    Aleksiejuk, Agata; Hołyst, Janusz A.


    Interbank deposits (loans and credits) are quite common in banking system all over the world. Such interbank co-operation is profitable for banks but it can also lead to collective financial failures. In this paper, we introduce a new model of directed percolation as a simple representation for contagion process and mass bankruptcies in banking systems. Directed connections that are randomly distributed between junctions of bank lattice simulate flows of money in our model. Critical values of a mean density of interbank connections as well as static and dynamic scaling laws for the statistics of avalanche bankruptcies are found. Results of computer simulations for the universal profile of bankruptcies spreading are in a qualitative agreement with the third wave of bank suspensions during The Great Depression in USA.

  8. Simple Waves in Ideal Radiation Hydrodynamics

    CERN Document Server

    Johnson, Bryan M


    In the dynamic diffusion limit of radiation hydrodynamics, advection dominates diffusion; the latter primarily affects small scales and has negligible impact on the large scale flow. The radiation can thus be accurately regarded as an ideal fluid, i.e., radiative diffusion can be neglected along with other forms of dissipation. This viewpoint is applied here to an analysis of simple waves in an ideal radiating fluid. It is shown that much of the hydrodynamic analysis carries over by simply replacing the material sound speed, pressure and index with the values appropriate for a radiating fluid. A complete analysis is performed for a centered rarefaction wave, and expressions are provided for the Riemann invariants and characteristic curves of the one-dimensional system of equations. The analytical solution is checked for consistency against a finite difference numerical integration, and the validity of neglecting the diffusion operator is demonstrated. An interesting physical result is that for a material comp...

  9. A Simple Holographic Model of Nonlinear Conductivity

    CERN Document Server

    Horowitz, Gary T; Santos, Jorge E


    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.

  10. Simple Resonance Hierarchy for Surmounting Quantum Uncertainty (United States)

    Amoroso, Richard L.


    For a hundred years violation or surmounting the Quantum Uncertainty Principle has remained a Holy Grail of both theoretical and empirical physics. Utilizing an operationally completed form of Quantum Theory cast in a string theoretic Higher Dimensional (HD) form of Dirac covariant polarized vacuum with a complex Einstein energy dependent spacetime metric, M̂4±C4 with sufficient degrees of freedom to be causally free of the local quantum state, we present a simple empirical model for ontologically surmounting the phenomenology of uncertainty through a Sagnac Effect RF pulsed Laser Oscillated Vacuum Energy Resonance hierarchy cast within an extended form of a Wheeler-Feynman-Cramer Transactional Calabi-Yau mirror symmetric spacetime bachcloth.

  11. Cosmological perturbations through a simple bounce

    CERN Document Server

    Allen, L E


    We present a detailed study of a simple scalar field model that yields non-singular cosmological solutions. We study both the qualitative dynamics of the homogeneous and isotropic background and the evolution of inhomogeneous linear perturbations. We calculate the spectrum of perturbations generated on super-Hubble scales during the collapse phase from initial vacuum fluctuations on small scales and then evolve these numerically through the bounce. We show there is a gauge that remains well-defined throughout the bounce, even though other commonly used gauges break down. We show that the comoving curvature perturbation calculated during the collapse phase provides a good estimate of the resulting large scale adiabatic perturbation in the expanding phase while the Bardeen metric potential is dominated by what becomes a decaying mode after the bounce. We show that a power-law collapse phase with scale factor proportional $(-t)^{2/3}$ can yield a scale-invariant spectrum of adiabatic scalar perturbations in the ...

  12. Centralizers in simple locally finite groups

    Directory of Open Access Journals (Sweden)

    Mahmut Kuzucuoğlu


    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 ${ |N_i| | iin mathbf{N}$.

  13. The Power of Simple Tabulation Hashing

    CERN Document Server

    Patrascu, Mihai


    Randomized algorithms are often enjoyed for their simplicity, but the hash functions used to yield the desired theoretical guarantees are often neither simple nor practical. Here we show that the simplest possible tabulation hashing provides unexpectedly strong guarantees. The scheme itself dates back to Carter and Wegman (STOC'77). Keys are viewed as consisting of c characters. We initialize c tables T_1, ..., T_c mapping characters to random hash codes. A key x=(x_1, ..., x_q) is hashed to T_1[x_1] xor ... xor T_c[x_c]. While this scheme is not even 4-independent, we show that it provides many of the guarantees that are normally obtained via higher independence, e.g., Chernoff-type concentration, min-wise hashing for estimating set intersection, and cuckoo hashing.

  14. Simple expressions for the long walk distance

    CERN Document Server

    Chebotarev, Pavel; Balaji, R


    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 $A.$

  15. Genealogies in simple models of evolution (United States)

    Brunet, Éric; Derrida, Bernard


    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.

  16. iPad 2 Made Simple

    CERN Document Server

    Mazo, Gary; Ritchie, Rene


    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

  17. FSM Model of a Simple Photovoltaic System

    Directory of Open Access Journals (Sweden)

    Martina Latkova


    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.

  18. Simple Scaling Relationships For Stellar Dynamos (United States)

    Augustson, Kyle; Mathis, Stéphane; Brun, Allan Sacha


    This paper provides a brief overview of dynamo scaling relationships for the degree of equipartition between magnetic and kinetic energies. Three basic approaches are adopted to explore these scaling relationships, with a first look at two simple models: one assuming magnetostrophy and another that includes the effects of inertia. Next, a third scaling relationship is derived that utilizes the assumptions that the dynamo possesses two integral spatial scales and that it is driven by the balance of buoyancy work and ohmic dissipation as studied in Davidson 2013. The results of which are then compared to a suite of convective dynamo simulations that possess a fully convective domain with a weak density stratification and that captured the behavior of the resulting dynamo for a range of convective Rossby numbers (Augustson et al. 2016).

  19. Star clusters as simple stellar populations

    CERN Document Server

    Bruzual, A Gustavo


    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...

  20. SLURM: Simple Linux Utility for Resource Management

    Energy Technology Data Exchange (ETDEWEB)

    Jette, M; Dunlap, C; Garlick, J; Grondona, M


    Simple Linux Utility for Resource Management (SLURM) is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for Linux clusters of thousands of nodes. Components include machine status, partition management, job management, and scheduling modules. The design also includes a scalable, general-purpose communication infrastructure. Development will take place in four phases: Phase I results in a solid infrastructure; Phase II produces a functional but limited interactive job initiation capability without use of the interconnect/switch; Phase III provides switch support and documentation; Phase IV provides job status, fault-tolerance, and job queuing and control through Livermore's Distributed Production Control System (DPCS), a meta-batch and resource management system.

  1. Versatile microrobotics using simple modular subunits (United States)

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


    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.

  2. Simple scaling of catastrophic landslide dynamics. (United States)

    Ekström, Göran; Stark, Colin P


    Catastrophic landslides involve the acceleration and deceleration of millions of tons of rock and debris in response to the forces of gravity and dissipation. Their unpredictability and frequent location in remote areas have made observations of their dynamics rare. Through real-time detection and inverse modeling of teleseismic data, we show that landslide dynamics are primarily determined by the length scale of the source mass. When combined with geometric constraints from satellite imagery, the seismically determined landslide force histories yield estimates of landslide duration, momenta, potential energy loss, mass, and runout trajectory. Measurements of these dynamical properties for 29 teleseismogenic landslides are consistent with a simple acceleration model in which height drop and rupture depth scale with the length of the failing slope.

  3. A simple Proof of Stolarsky's Invariance Principle

    CERN Document Server

    Brauchart, Johann S


    Stolarsky [Proc. Amer. Math. Soc. 41 (1973), 575--582] showed a beautiful relation that balances the sums of distances of points on the unit sphere and their spherical cap $\\mathbb{L}_2$-discrepancy to give the distance integral of the uniform measure on the sphere a potential-theoretical quantity (Bj{\\"o}rck [Ark. Mat. 3 (1956), 255--269]). Read differently it expresses the worst-case numerical integration error for functions from the unit ball in a certain Hilbert space setting in terms of the $\\mathbb{L}_2$-discrepancy and vice versa (first author and Womersley [Preprint]). In this note we give a simple proof of the invariance principle using reproducing kernel Hilbert spaces.

  4. Versatile microrobotics using simple modular subunits. (United States)

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


    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.

  5. A Simple Global View of Fuel Burnup (United States)

    Sekimoto, Hiroshi


    Reactor physics and fuel burnup are discussed in order to obtain a simple global view of the effects of nuclear reactor characteristics to fuel cycle system performance. It may provide some idea of free thinking and overall vision, though it is still a small part of nuclear energy system. At the beginning of this lecture, governing equations for nuclear reactors are presented. Since the set of these equations is so big and complicated, it is simplified by imposing some extreme conditions and the nuclear equilibrium equation is derived. Some features of future nuclear equilibrium state are obtained by solving this equation. The contribution of a nucleus charged into reactor core to the system performance indexes such as criticality is worth for understanding the importance of each nuclide. It is called nuclide importance and can be evaluated by using the equations adjoint to the nuclear equilibrium equation. Examples of some importances and their application to criticalily search problem are presented.

  6. A Simple Sag Generator Using SSRs

    DEFF Research Database (Denmark)

    Senturk, Osman Selcuk; Hava, Ahmet M.


    Power line voltage sags are among the most frequent and costly power quality problems. Most equipment must be designed such that they can tolerate voltage sags (within limits defined according to some standards). Furthermore, some equipment must continue proper operation even under extreme sag...... 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...

  7. A Simple Sag Generator Using SSRs

    DEFF Research Database (Denmark)

    Senturk, Osman Selcuk; Hava, Ahmet M.


    Power line voltage sags are among the most frequent and costly power quality problems. Most equipment must be designed such that they can tolerate voltage sags (within limits defined according to some standards). Furthermore, some equipment must continue proper operation even under extreme sag...... 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...

  8. Swarming behavior of simple model squirmers

    Energy Technology Data Exchange (ETDEWEB)

    Thutupalli, Shashi; Seemann, Ralf; Herminghaus, Stephan, E-mail:, E-mail: [Max Planck Institute for Dynamics and Self-Organization, Bunsenstrasse 10, 37073 Goettingen (Germany)


    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.

  9. Simple driven chaotic oscillators with complex variables. (United States)

    Marshall, Delmar; Sprott, J C


    Despite a search, no chaotic driven complex-variable oscillators of the form z+f(z)=e(iOmegat) or z+f(z)=e(iOmegat) are found, where f is a polynomial with real coefficients. It is shown that, for analytic functions f(z), driven complex-variable oscillators of the form z+f(z)=e(iOmegat) cannot have chaotic solutions. Seven simple driven chaotic oscillators of the form z+f(z,z)=e(iOmegat) with polynomial f(z,z) are given. Their chaotic attractors are displayed, and Lyapunov spectra are calculated. Attractors for two of the cases have symmetry across the x=-y line. The systems' behavior with Omega as a control parameter in the range of Omega=0.1-2.0 is examined, revealing cases of period doubling, intermittency, chaotic transients, and period adding as routes to chaos. Numerous cases of coexisting attractors are also observed.

  10. Multiple equilibria in a simple elastocapillary system

    KAUST Repository

    Taroni, Michele


    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.

  11. Simple operated multipurpose temperature control cryostat

    Institute of Scientific and Technical Information of China (English)



    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.

  12. A simple multi-scroll hyperchaotic system

    Energy Technology Data Exchange (ETDEWEB)

    Ahmad, Wajdi M. [Electrical and Computer Engineering Department, University of Sharjah, P.O. Box 27272, Sharjah (United Arab Emirates)] e-mail:


    We propose a simple autonomous hyperchaotic system that can generate multi-scroll attractors. The proposed system has a canonical structure, one control parameter, and a switching-type nonlinearity. If multiple breakpoints are added to the system nonlinearity, multi-scroll behavior can be obtained. We numerically demonstrate hyperchaotic behavior of the proposed system, under different nonlinearities, as its control parameter is changed. Furthermore, we study hyperchaos in the proposed system when it assumes a fractional order, and demonstrate that hyperchaotic behavior can be obtained in systems less than fourth order. Throughout the study, hyperchaos is verified by examining the Lyapunov spectrum, where the presence of multiple positive Lyapunov exponents in the spectrum is indicative of hyperchaos.

  13. The Structure of gr-simple Rings

    Institute of Scientific and Technical Information of China (English)



    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.

  14. A Small Deformation of a Simple Theory

    CERN Document Server

    Buican, Matthew


    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.

  15. Protein - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available File size: 1.4 KB Simple search URL Da... mRNA sequence GI number of the mRNA sequence (Link to the NCBI Nucleotide in the Simple search site) protei...n sequence GI number of the Amino Acid sequence (Link to the NCBI Protein in the Simple


    Directory of Open Access Journals (Sweden)

    Tufi Neder Meyer


    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.

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

    Directory of Open Access Journals (Sweden)


    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.

  18. Simple synthesis of radiolabelled bromoacetic acid

    Energy Technology Data Exchange (ETDEWEB)

    Abrams, D.N.; Gaudreault, R.C.; Noujaim, A.A.

    Bromoacetic acid has been used as a chemical precursor in the synthesis of a large number of biologically active compounds including uracil (1) and malonic acid. We required /sup 3/H and /sup 14/C labelled bromoacetic acid as an intermediate in the preparation of new bifunctional chelating agents for dual label studies with proteins and monoclonal antibodies. The sulfur catalyzed bromination of acetic acid proved to be a facile synthesis of radiolabelled bromoacetic acid directly from /sup 3/H and /sup 14/C sodium acetate.

  19. Creating Simple Admin Tools Using Info*Engine and Java (United States)

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


    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.

  20. A simple mixture to enhance muscle transmittance (United States)

    Oliveira, Luís; Lage, Armindo; Clemente, Manuel Pais; Tuchin, Valery V.


    Skeletal muscle is a fibrous tissue composed by muscle fibers and interstitial fluid. Due to this constitution, the muscle presents a non uniform refractive index profile that origins strong light scattering. One way to improve tissue transmittance is to reduce this refractive index mismatch by immersing the muscle in an optical clearing agent. As a consequence of such immersion tissue also suffers dehydration. The study of the optical clearing effect created by a simple mixture composed by ethanol, glycerol and distilled water has proven its effectiveness according to the variations observed in the parameters under study. The effect was characterized in terms of its magnitude, time duration and histological variations. The applied treatment has created a small reduction of the global sample refractive index that is justified by the long time rehydration caused by water in the immersing solution. From the reduction in sample pH we could also identify the dehydration process created in the sample. The immersion treatment has originated fiber bundle contraction and a spread distribution of the muscle fiber bundles inside. New studies with the mixture used, or with other combinations of its constituents might be interesting to perform with the objective to develop new clinical procedures.

  1. A simple model for studying interacting networks (United States)

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


    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.

  2. A Simple, Inexpensive Acoustic Levitation Apparatus (United States)

    Schappe, R. Scott; Barbosa, Cinthya


    Acoustic levitation uses a resonant ultrasonic standing wave to suspend small objects; it is used in a variety of research disciplines, particularly in the study of phase transitions and materials susceptible to contamination, or as a stabilization mechanism in microgravity environments. The levitation equipment used for such research is quite costly; we wanted to develop a simple, inexpensive system to demonstrate this visually striking example of standing waves. A search of the literature produced only one article relevant to creating such an apparatus, but the authors' approach uses a test tube, which limits the access to the standing wave. Our apparatus, shown in Fig. 1, can levitate multiple small (1-2 mm) pieces of expanded polystyrene (Styrofoam) using components readily available to most instructors of introductory physics. Acoustic levitation occurs in small, stable equilibrium locations where the weight of the object is balanced by the acoustic radiation force created by an ultrasonic standing wave; these locations are slightly below the pressure nodes. The levitation process also creates a horizontal restoring force. Since the pressure nodes are also velocity antinodes, this transverse stability may be analogous to the effect of an upward air stream supporting a ball.

  3. Toward the Verification of a Simple Hypervisor

    Directory of Open Access Journals (Sweden)

    Mike Dahlin


    Full Text Available 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 tables is described. We compare this project to related efforts in systems code verification and outline some useful steps forward.

  4. Comparing Simple Flood Reservoir Operation Rules

    Directory of Open Access Journals (Sweden)

    James Connaughton


    Full Text Available The effectiveness of three simple flood operating rules in reducing the peak flow is compared for four simplified hydrograph shapes. The Minimize Flood Peak rule uses available flood storage capacity to store peak flows from an accurate hydrograph forecast. The less demanding Minimize Flooding Frequency operating rule releases water at or below channel capacity until the flood storage pool is filled and outflows are forced to exceed the channel capacity. The Short Forecast Peak Minimization rule minimizes flood peak over a short foreseeable future with existing flood storage capacity. Four simplified hydrograph shapes (triangular, abrupt wave, flood pulse and broad peak were used. The Minimize Flood Peak rule reduces peak flows better than alternatives, but is often impractical. The Short Forecast Peak Minimization rule reduces peak flows for a wide range of conditions. The Minimize Flood Frequency rule may be more relevant where damages occur abruptly, as in many leveed systems. All rules reduce peak outflow more efficiently for more steeply rising hydrographs. The approach suggests some general insights for flood operations of reservoirs.

  5. Simple benchmark for complex dose finding studies. (United States)

    Cheung, Ying Kuen


    While a general goal of early phase clinical studies is to identify an acceptable dose for further investigation, modern dose finding studies and designs are highly specific to individual clinical settings. In addition, as outcome-adaptive dose finding methods often involve complex algorithms, it is crucial to have diagnostic tools to evaluate the plausibility of a method's simulated performance and the adequacy of the algorithm. In this article, we propose a simple technique that provides an upper limit, or a benchmark, of accuracy for dose finding methods for a given design objective. The proposed benchmark is nonparametric optimal in the sense of O'Quigley et al. (2002, Biostatistics 3, 51-56), and is demonstrated by examples to be a practical accuracy upper bound for model-based dose finding methods. We illustrate the implementation of the technique in the context of phase I trials that consider multiple toxicities and phase I/II trials where dosing decisions are based on both toxicity and efficacy, and apply the benchmark to several clinical examples considered in the literature. By comparing the operating characteristics of a dose finding method to that of the benchmark, we can form quick initial assessments of whether the method is adequately calibrated and evaluate its sensitivity to the dose-outcome relationships.

  6. Simple mathematical law benchmarks human confrontations (United States)

    Johnson, Neil F.; Medina, Pablo; Zhao, Guannan; Messinger, Daniel S.; Horgan, John; Gill, Paul; Bohorquez, Juan Camilo; Mattson, Whitney; Gangi, Devon; Qi, Hong; Manrique, Pedro; Velasquez, Nicolas; Morgenstern, Ana; Restrepo, Elvira; Johnson, Nicholas; Spagat, Michael; Zarama, Roberto


    Many high-profile societal problems involve an individual or group repeatedly attacking another - from child-parent disputes, sexual violence against women, civil unrest, violent conflicts and acts of terror, to current cyber-attacks on national infrastructure and ultrafast cyber-trades attacking stockholders. There is an urgent need to quantify the likely severity and timing of such future acts, shed light on likely perpetrators, and identify intervention strategies. Here we present a combined analysis of multiple datasets across all these domains which account for >100,000 events, and show that a simple mathematical law can benchmark them all. We derive this benchmark and interpret it, using a minimal mechanistic model grounded by state-of-the-art fieldwork. Our findings provide quantitative predictions concerning future attacks; a tool to help detect common perpetrators and abnormal behaviors; insight into the trajectory of a `lone wolf' identification of a critical threshold for spreading a message or idea among perpetrators; an intervention strategy to erode the most lethal clusters; and more broadly, a quantitative starting point for cross-disciplinary theorizing about human aggression at the individual and group level, in both real and online worlds.

  7. Simple Colorimetric Sensor for Trinitrotoluene Testing (United States)

    Samanman, S.; Masoh, N.; Salah, Y.; Srisawat, S.; Wattanayon, R.; Wangsirikul, P.; Phumivanichakit, K.


    A simple operating colorimetric sensor for trinitrotoluene (TNT) determination using a commercial scanner as a captured image was designed. The sensor is based on the chemical reaction between TNT and sodium hydroxide reagent to produce the color change within 96 well plates, which observed finally, recorded using a commercial scanner. The intensity of the color change increased with increase in TNT concentration and could easily quantify the concentration of TNT by digital image analysis using the Image J free software. Under optimum conditions, the sensor provided a linear dynamic range between 0.20 and 1.00 mg mL-1(r = 0.9921) with a limit of detection of 0.10± 0.01 mg mL-1. The relative standard deviation for eight experiments for the sensitivity was 3.8%. When applied for the analysis of TNT in two soil extract samples, the concentrations were found to be non-detectable to 0.26±0.04 mg mL-1. The obtained recovery values (93-95%) were acceptable for soil samples tested.

  8. A simple theory of Rijke tube oscillation

    Institute of Scientific and Technical Information of China (English)

    Maa Dah-You


    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.

  9. A simple model of the slingshot effect

    CERN Document Server

    Fiore, Gaetano


    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...

  10. Simple models of the hydrofracture process

    KAUST Repository

    Marder, M.


    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.

  11. Simple, Script-Based Science Processing Archive (United States)

    Lynnes, Christopher; Hegde, Mahabaleshwara; Barth, C. Wrandle


    The Simple, Scalable, Script-based Science Processing (S4P) Archive (S4PA) is a disk-based archival system for remote sensing data. It is based on the data-driven framework of S4P and is used for data transfer, data preprocessing, metadata generation, data archive, and data distribution. New data are automatically detected by the system. S4P provides services such as data access control, data subscription, metadata publication, data replication, and data recovery. It comprises scripts that control the data flow. The system detects the availability of data on an FTP (file transfer protocol) server, initiates data transfer, preprocesses data if necessary, and archives it on readily available disk drives with FTP and HTTP (Hypertext Transfer Protocol) access, allowing instantaneous data access. There are options for plug-ins for data preprocessing before storage. Publication of metadata to external applications such as the Earth Observing System Clearinghouse (ECHO) is also supported. S4PA includes a graphical user interface for monitoring the system operation and a tool for deploying the system. To ensure reliability, S4P continuously checks stored data for integrity, Further reliability is provided by tape backups of disks made once a disk partition is full and closed. The system is designed for low maintenance, requiring minimal operator oversight.

  12. Fermionic realisations of simple Lie algebras

    CERN Document Server

    de Azcárraga, J A


    We study the representation ${\\cal D}$ of a simple compact Lie algebra $\\g$ of rank l constructed with the aid of the hermitian Dirac matrices of a (${\\rm dim} \\g$)-dimensional euclidean space. The irreducible representations of $\\g$ contained in ${\\cal D}$ are found by providing a general construction on suitable fermionic Fock spaces. We give full details not only for the simplest odd and even cases, namely su(2) and su(3), but also for the next (${dim} \\g$)-even case of su(5). Our results are far reaching: they apply to any $\\g$-invariant quantum mechanical system containing ${\\rm dim} \\g$ fermions. Another reason for undertaking this study is to examine the role of the $\\g$-invariant fermionic operators that naturally arise. These are given in terms of products of an odd number of gamma matrices, and include, besides a cubic operator, (l-1) fermionic scalars of higher order. The latter are constructed from the Lie algebra cohomology cocycles, and must be considered to be of theoretical significance simila...

  13. A simple subspace approach for speech denoising. (United States)

    Manfredi, C; Daniello, M; Bruscaglioni, P


    For pathological voices, hoarseness is mainly due to airflow turbulence in the vocal tract and is often referred to as noise. This paper focuses on the enhancement of speech signals that are supposedly degraded by additive white noise. Speech enhancement is performed in the time-domain, by means of a fast and reliable subspace approach. A low-order singular value decomposition (SVD) allows separating the signal and the noise contribution in subsequent data frames of the analysed speech signal. The noise component is thus removed from the signal and the filtered signal is reconstructed along the directions spanned by the eigenvectors associated with the signal subspace eigenvalues only, thus giving enhanced voice quality. This approach was tested on synthetic data, showing higher performance in terms of increased SNR when compared with linear prediction (LP) filtering. It was also successfully applied to real data, from hoarse voices of patients that had undergone partial cordectomisation. The simple structure of the proposed technique allows a real-time implementation, suitable for portable device realisation, as an aid to dysphonic speakers. It could be useful for reducing the effort in speaking, which is closely related to social problems due to awkwardness of voice.

  14. A simple deduction of the Lindblad equation

    CERN Document Server

    Brasil, Carlos Alexandre; Napolitano, Reginaldo de Jesus


    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.

  15. Managing Cancer Pain - Simple Rules, Major Benefits

    Directory of Open Access Journals (Sweden)

    Dwight E Moulin


    Full Text Available In the developed world, approximately one in three individuals will be diagnosed with cancer and one-half of those will die of progressive disease (1. At least 75% of patients with cancer develop pain before death. It is therefore not surprising that pain is one of the most feared consequences of cancer for both patients and families (2. The good news is that cancer pain can be controlled with relatively simple means in more than 80% of cases based on guidelines from the World Health Organization (3. Mild pain can be treated with acetaminophen or nonsteroidal anti-inflammatory drugs (Step 1 of the analgesic ladder. Moderate pain requires the addition of a 'minor' opioid such as codeine (Step 2, and severe pain mandates the use of a major opioid analgesic such as morphine (Step 3. In this issue of Pain Research & Management, Gallagher et al (pages 188-194 highlight some of the barriers to adequate cancer pain management based on a cross-sectional survey of British Columbian physicians. The survey response rate of 69% attests to the validity of their findings.

  16. A simple algorithm for averaging spike trains. (United States)

    Julienne, Hannah; Houghton, Conor


    Although spike trains are the principal channel of communication between neurons, a single stimulus will elicit different spike trains from trial to trial. This variability, in both spike timings and spike number can obscure the temporal structure of spike trains and often means that computations need to be run on numerous spike trains in order to extract features common across all the responses to a particular stimulus. This can increase the computational burden and obscure analytical results. As a consequence, it is useful to consider how to calculate a central spike train that summarizes a set of trials. Indeed, averaging responses over trials is routine for other signal types. Here, a simple method for finding a central spike train is described. The spike trains are first mapped to functions, these functions are averaged, and a greedy algorithm is then used to map the average function back to a spike train. The central spike trains are tested for a large data set. Their performance on a classification-based test is considerably better than the performance of the medoid spike trains.

  17. A simple model of ostracism formation.

    Directory of Open Access Journals (Sweden)

    Pilwon Kim

    Full Text Available We study formation of ostracism in a society from a game theoretical perspective. The dynamics of group formation is complicated in that the choices of the individuals and the form of the groups mutually affect each other in the process. A suggested simple model shows that individual efforts to increase his/her own sense of belonging is responsible for both growth of groups and creation of an outcast. Once a person happens to get behind in synchronizing with others, tendency to alienate him may grow among others, possibly making him left out in the end. Alienating minority occurs even when there is a penalty for disliking and people are encouraged to favor others. Considering that the target is accidentally picked, we can understand ostracism as an inherent part of the group formation, rather than a result of specific discrepancy among people. Another finding is that a single individual who seeks for unconditional unification of the society ("philanthropist" likely invites his/her own isolation from the society, while the existence of such person generally promotes coalition of others.

  18. A simple model of ostracism formation. (United States)

    Kim, Pilwon


    We study formation of ostracism in a society from a game theoretical perspective. The dynamics of group formation is complicated in that the choices of the individuals and the form of the groups mutually affect each other in the process. A suggested simple model shows that individual efforts to increase his/her own sense of belonging is responsible for both growth of groups and creation of an outcast. Once a person happens to get behind in synchronizing with others, tendency to alienate him may grow among others, possibly making him left out in the end. Alienating minority occurs even when there is a penalty for disliking and people are encouraged to favor others. Considering that the target is accidentally picked, we can understand ostracism as an inherent part of the group formation, rather than a result of specific discrepancy among people. Another finding is that a single individual who seeks for unconditional unification of the society ("philanthropist") likely invites his/her own isolation from the society, while the existence of such person generally promotes coalition of others.

  19. Simple mathematical models of gene regulatory dynamics

    CERN Document Server

    Mackey, Michael C; Tyran-Kamińska, Marta; Zeron, Eduardo S


    This is a short and self-contained introduction to the field of mathematical modeling of gene-networks in bacteria. As an entry point to the field, we focus on the analysis of simple gene-network dynamics. The notes commence with an introduction to the deterministic modeling of gene-networks, with extensive reference to applicable results coming from dynamical systems theory. The second part of the notes treats extensively several approaches to the study of gene-network dynamics in the presence of noise—either arising from low numbers of molecules involved, or due to noise external to the regulatory process. The third and final part of the notes gives a detailed treatment of three well studied and concrete examples of gene-network dynamics by considering the lactose operon, the tryptophan operon, and the lysis-lysogeny switch. The notes contain an index for easy location of particular topics as well as an extensive bibliography of the current literature. The target audience of these notes are mainly graduat...

  20. A Simple Technique for Shoulder Arthrography

    Energy Technology Data Exchange (ETDEWEB)

    Berna-Serna, J.D.; Redondo, M.V.; Martinez, F.; Reus, M.; Alonso, J.; Parrilla, A.; Campos, P.A. [Virgen de la Arrixaca Univ. Hospital, El Palmar, Murcia (Spain). Dept. of Radiology


    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

    Energy Technology Data Exchange (ETDEWEB)

    Wiebel, J.


    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.

  2. A simple method of selective bronchography

    Energy Technology Data Exchange (ETDEWEB)

    Han, Man Chung; Ha, Sung Whan [College of Medicine, Seoul National University, Seoul (Korea, Republic of)


    The value of bronchography in the diagnosis of pulmonary diseases, especially of bronchial diseases, is well known and bronchography is an essential procedure for evaluation of bronchial diseases. And, by visualization of a selected bronchial tree, lobar or segmental, we can obtain roentgenograms of superior quality and of higher diagnostic accuracy. In addition, the procedure can be carried out safely in patients with low respiratory reserve and samples for pathology and bacteriology can be obtained. And there is another therapeutic possibility of introducing drugs intrabronchially through the catheter. Authors introduce a simple new technique of selective bronchography which is a combination of transglottic intubation and Seldinger method. The technique is summarized as follows, 1. Anesthetize oral cavity, pharynx and larynx with 2% lidocaine. 2. Under fluoroscopic control, Nelaton catheter is introduced over a wire mandarin, as authors previously reported. 3. After removal of wire mandarin, angiographic guide wire is inserted through the catheter into the trachea. 4. Then, the Nelaton catheter is withdrawn and is changed with preshaped angiographic catheter, just as in introduction of catheter in arteriography. We carried out 18 cases of selective bronchography with this technique and selection of lobar, segmental and subsegmental bronchi was carried out without difficulty.

  3. Simple models of assortment through environmental feedback. (United States)

    Pepper, John W


    Social evolution depends critically on assortment, or segregation versus even mixing, between cooperators and noncooperators. Altruistic traits, which reduce the absolute fitness of their bearers, cannot evolve without positive assortment (excess segregation). The question of how positive assortment can arise has been controversial, but most evolutionary biologists believe that common descent is the only effective general mechanism. Here I investigate another recently proposed mechanism for generating nonrandom assortment, termed environmental feedback. This requires only that two forms of a trait affect the quality of the local environment differently in such a way that all individuals are more likely to leave low-quality locales. Experiments with simple computational models confirm that environmental feedback generates significant levels of genetic similarity among non-kin within locales. The mechanism is fairly general, and can under some conditions produce levels of genetic similarity comparable to those resulting from close genealogical relationship. Environmental feedback can also generate the negative assortment necessary for the evolution of spiteful traits. Environmental feedback is expected to create positive frequency-dependent selection, which thus favor any social trait that becomes common in the population. Results from this stylized model suggest that environmental feedback could be important in the evolution of both cooperation and spite, within as well as between species.

  4. Scheduling Simple Linear Deteriorating Jobs with Rejection

    Directory of Open Access Journals (Sweden)

    Juan Zou


    Full Text Available We consider the problems of scheduling deteriorating jobs with release dates on a single machine (parallel machines and jobs can be rejected by paying penalties. The processing time of a job is a simple linear increasing function of its starting time. For a single machine model, the objective is to minimize the maximum lateness of the accepted jobs plus the total penalty of the rejected jobs. We show that the problem is NP-hard in the strong sense and presents a fully polynomial time approximation scheme to solve it when all jobs have agreeable release dates and due dates. For parallel-machine model, the objective is to minimize the maximum delivery completion time of the accepted jobs plus the total penalty of the rejected jobs. When the jobs have identical release dates, we first propose a fully polynomial time approximation scheme to solve it. Then, we present a heuristic algorithm for the case where all jobs have to be accepted and evaluate its efficiency by computational experiments.

  5. ZeroMQ: Messaging Made Simple

    CERN Document Server

    CERN. Geneva


    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 ...

  6. Two simple tools for industrial OR

    Directory of Open Access Journals (Sweden)

    K. Sandrock


    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.

  7. Polarization dependent particle dynamics in simple traps (United States)

    Yifat, Yuval; Sule, Nishant; Figliozzi, Patrick; Scherer, Norbert F.


    Optical trapping has proved to be a valuable research tool in a wide range of fields including physics, chemistry, biological and materials science. The ability to precisely localize individual colloidal particles in a three-dimensional location has been highly useful for understanding soft matter phenomena and inter-particle interactions. It also holds great promise for nanoscale fabrication and ultra-sensitive sensing by enabling precise positioning of specific material building blocks. In this presentation we discuss our research on the effect of the polarization state of the incident laser on the trapping of nanoscale particles. The polarization of the incident light has a pronounced effect on particle behavior even for the simple case of two plasmonic silver nano-particles in a Gaussian trap,. When the incident light is linearly polarized, the particles form an optically induced dimer that is stably oriented along the direction of polarization. However, nanoparticle dimers and trimmers exhibit structural instabilities and novel dynamics when trapped with focused beams of circularly polarized light. The observed dynamics suggest electrodynamic and hydrodynamic coupling. We explore the electrodynamic phenomena experimentally and theoretically and discuss further examples of polarization controlled trapping.

  8. Toward the Verification of a Simple Hypervisor

    CERN Document Server

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


    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...

  9. [Horseshoe kidney: not a simple fusion anomaly]. (United States)

    Caccetta, Francesco; Caroppo, Maurizio; Musio, Fernando; Mudoni, Anna; Accogli, Antonella; Zacheo, Maria Dolores; Burzo, Domenica; Bramato, Daniele; Carluccio, Giancamillo; Nuzzo, Vitale


    The horseshoe kidney is a congenital anatomical defect of the kidney that occurs in 0,25% of the population and is generally characterized by the fusion of the lower poles of the two kidneys through an isthmus and to which may be associated with urogenital and renal vascular anomalies. Asymptomatic in 1/3 of the cases and, most of time, accidentally discovered during a radiological examination, promotes nephrolithiasis, ureteropelvic junction obstruction, hydronephrosis, vesicoureteral reflux and pyelonephritis. We report two cases of patients with kidney horseshoe, characterized by the abrupt onset of a septic state with oligo-anuric acute renal failure, electrolyte and acid-base abnormalities, rapid decay of the general conditions, with detection of nephrolithiasis, hydronephrosis and acute pyelonephritis and whose clinical management resulted in a significant and synergistic nefro-urology involvment. The kidney horseshoe not represent so only a simple fusion anomaly but rather an important anatomical condition that, once diagnosed, it would be worthy of a careful clinical, radiological and laboratory surveillance, in order to prevent the potential complications that may be also particularly severe.

  10. Simple Low-Frequency Beam Pickup

    Energy Technology Data Exchange (ETDEWEB)

    Novokhatski, A.; Heifets, S.; /SLAC; Aleksandrov, A.; /Oak Ridge


    Detection of the field induced by a beam outside of the beam pipe can be used as a beam diagnostic. Wires placed in longitudinal slots in the outside wall of the beam pipe can be used as a beam pickup. This has a very small beam-coupling impedance and avoids complications of having a feedthrough. The signal can be reasonably high at low frequencies. We present a field waveform at the outer side of a beam pipe, obtained as a result of calculations and measurements. We calculate the beam-coupling impedance due to a long longitudinal slot in the resistive wall and the signal induced in a wire placed in such a slot and shielded by a thin screen from the beam. These results should be relevant for impedance calculations of the slot in an antechamber and for slots in the PEP-II distributed ion pump screens. The design of the low-frequency beam position monitor is very simple. It can be used in storage rings, synchrotron light sources, and free electron lasers, like LINAC coherent light source.

  11. Laparoscopic Pyloromyotomy: A Modified Simple Technique

    Directory of Open Access Journals (Sweden)

    Mohammed Omer Anwar


    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.

  12. 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.

  13. Mining the O-glycoproteome using zinc-finger nuclease-glycoengineered SimpleCell lines

    DEFF Research Database (Denmark)

    Steentoft, Catharina; Vakhrushev, Sergey Y; Vester-Christensen, Malene B;


    -glycopeptides from total cell lysates using lectin chromatography and nanoflow liquid chromatography-mass spectrometry (nLC-MS/MS) with electron transfer dissociation fragmentation. We identified >100 O-glycoproteins with >350 O-glycan sites (the great majority previously unidentified), including a GalNAc O......-glycan linkage to a tyrosine residue. The SimpleCell method should facilitate analyses of important functions of protein glycosylation. The strategy is also applicable to other O-glycoproteomes....

  14. Simple yet Hidden Counterexamples in Undergraduate Real Analysis (United States)

    Shipman, Barbara A.; Shipman, Patrick D.


    We study situations in introductory analysis in which students affirmed false statements as true, despite simple counterexamples that they easily recognized afterwards. The study draws attention to how simple counterexamples can become hidden in plain sight, even in an active learning atmosphere where students proposed simple (as well as more…

  15. A simple and efficient DNA isolation method for Salvia officinalis. (United States)

    Aleksić, Jelena M; Stojanović, Danilo; Banović, Bojana; Jančić, Radiša


    We report an efficient, simple, and cost-effective protocol for the isolation of genomic DNA from an aromatic medicinal plant, common sage (Salvia officinalis L.). Our modification of the standard CTAB protocol includes two polyphenol adsorbents (PVP 10 and activated charcoal), high NaCl concentrations (4 M) for removing polysaccharides, and repeated Sevag treatment to remove proteins and other carbohydrate contaminants. The mean DNA yield obtained with our Protocol 2 was 330.6 μg DNA g(-1) of dry leaf tissue, and the absorbance ratios 260/280 and 260/230 nm averaged 1.909 and 1.894, respectively, revealing lack of contamination. PCR amplifications of one nuclear (26S rDNA) and one chloroplast (rps16-trnK) locus indicated that our DNA isolation protocol may be used in common sage and other aromatic and medicinal plants containing essential oil for molecular biologic and biotechnological studies and for population genetics, phylogeographic, and conservation surveys in which nuclear or chloroplast genomes would be studied in large numbers of individuals.

  16. A novel and simple method for construction of recombinant adenoviruses. (United States)

    Tan, Rong; Li, Chunhua; Jiang, Sijing; Ma, Lixin


    Recombinant adenoviruses have been widely used for various applications, including protein expression and gene therapy. We herein report a new and simple cloning approach to an efficient and robust construction of recombinant adenoviral genomes based on the mating-assisted genetically integrated cloning (MAGIC) strategy. The production of recombinant adenovirus serotype 5-based vectors was greatly facilitated by the use of the MAGIC procedure and the development of the Adeasy adenoviral vector system. The recombinant adenoviral plasmid can be generated by a direct and seamless substitution, which replaces the stuff fragment in a full-length adenoviral genome with the gene of interest in a small plasmid in Escherichia coli. Recombinant adenoviral plasmids can be rapidly constructed in vivo by using the new method, without manipulations of the large adenoviral genome. In contrast to other traditional systems, it reduces the need for multiple in vitro manipulations, such as endonuclease cleavage, ligation and transformation, thus achieving a higher efficiency with negligible background. This strategy has been proven to be suitable for constructing an adenoviral cDNA expression library. In summary, the new method is highly efficient, technically less demanding and less labor-intensive for constructing recombinant adenoviruses, which will be beneficial for functional genomic and proteomic researches in mammalian cells.

  17. Protein-protein interaction based on pairwise similarity

    Directory of Open Access Journals (Sweden)

    Zaki Nazar


    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.

  18. Parvoviruses: Small Does Not Mean Simple. (United States)

    Cotmore, Susan F; Tattersall, Peter


    Parvoviruses are small, rugged, nonenveloped protein particles containing a linear, nonpermuted, single-stranded DNA genome of ∼5 kb. Their limited coding potential requires optimal adaptation to the environment of particular host cells, where entry is mediated by a variable program of capsid dynamics, ultimately leading to genome ejection from intact particles within the host nucleus. Genomes are amplified by a continuous unidirectional strand-displacement mechanism, a linear adaptation of rolling circle replication that relies on the repeated folding and unfolding of small hairpin telomeres to reorient the advancing fork. Progeny genomes are propelled by the viral helicase into the preformed capsid via a pore at one of its icosahedral fivefold axes. Here we explore how the fine-tuning of this unique replication system and the mechanics that regulate opening and closing of the capsid fivefold portals have evolved in different viral lineages to create a remarkably complex spectrum of phenotypes.

  19. Emergent biosynthetic capacity in simple microbial communities.

    Directory of Open Access Journals (Sweden)

    Hsuan-Chao Chiu


    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

  20. Simple sequence repeats in mycobacterial genomes

    Indian Academy of Sciences (India)

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


    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.

  1. Simple and advanced ferromagnet/molecule spinterfaces (United States)

    Gruber, M.; Ibrahim, F.; Djedhloul, F.; Barraud, C.; Garreau, G.; Boukari, S.; Isshiki, H.; Joly, L.; Urbain, E.; Peter, M.; Studniarek, M.; Da Costa, V.; Jabbar, H.; Bulou, H.; Davesne, V.; Halisdemir, U.; Chen, J.; Xenioti, D.; Arabski, J.; Bouzehouane, K.; Deranlot, C.; Fusil, S.; Otero, E.; Choueikani, F.; Chen, K.; Ohresser, P.; Bertran, F.; Le Fèvre, P.; Taleb-Ibrahimi, A.; Wulfhekel, W.; Hajjar-Garreau, S.; Wetzel, P.; Seneor, P.; Mattana, R.; Petroff, F.; Scheurer, F.; Weber, W.; Alouani, M.; Beaurepaire, E.; Bowen, M.


    Spin-polarized charge transfer between a ferromagnet and a molecule can promote molecular ferromagnetism 1, 2 and hybridized interfacial states3, 4. Observations of high spin-polarization of Fermi level states at room temperature5 designate such interfaces as a very promising candidate toward achieving a highly spin-polarized, nanoscale current source at room temperature, when compared to other solutions such as half-metallic systems and solid-state tunnelling over the past decades. We will discuss three aspects of this research. 1) Does the ferromagnet/molecule interface, also called an organic spinterface, exhibit this high spin-polarization as a generic feature? Spin-polarized photoemission experiments reveal that a high spin-polarization of electronics states at the Fermi level also exist at the simple interface between ferromagnetic cobalt and amorphous carbon6. Furthermore, this effect is general to an array of ferromagnetic and molecular candidates7. 2) Integrating molecules with intrinsic properties (e.g. spin crossover molecules) into a spinterface toward enhanced functionality requires lowering the charge transfer onto the molecule8 while magnetizing it1,2. We propose to achieve this by utilizing interlayer exchange coupling within a more advanced organic spinterface architecture. We present results at room temperature across the fcc Co(001)/Cu/manganese phthalocyanine (MnPc) system9. 3) Finally, we discuss how the Co/MnPc spinterface's ferromagnetism stabilizes antiferromagnetic ordering at room temperature onto subsequent molecules away from the spinterface, which in turn can exchange bias the Co layer at low temperature10. Consequences include tunnelling anisotropic magnetoresistance across a CoPc tunnel barrier11. This augurs new possibilities to transmit spin information across organic semiconductors using spin flip excitations12.

  2. An Arduino Investigation of Simple Harmonic Motion (United States)

    Galeriu, Calin; Edwards, Scott; Esper, Geoffrey


    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.

  3. Simple Simulation Algorithms and Sample Applications (United States)

    Kröger, Martin

    This section offers basic recipes and sample applications which allow the reader to immediately start his/her own simulation project on topics we dealt with in this book. Concerning molecular dynamics and Monte Carlo simulation there are, of course, several useful books already available which describe the ‘art of simulation‘ [141, 156, 256] in an exhaustive way. The reason we print some simple codes is that we skipped algorithmic details in the foregoing chapters. Simulations are always performed using dimensionless numbers, and all dimensional quantities can be expressed in terms of reduced units, cf. Sect. 4.3 for conventional Lennard Jones units. In this chapter, we concentrate on the necessary, and skip anything more sophisticated. Codes have been used in classrooms, they are obviously open for modifications and extensions, and offer not only an executable, but all necessary formulas for doing simulations in the correct (which is often essential) order. The overall spirit is as follows: codes are short, run without changes, demonstrate the main principle in a modular fashion, and are thus in particular open regarding efficiency issues and extensions. Algorithms are presented in the MatlabTM language, which is mostly directly portable to programming languages like fortran, c, or MathematicaTM. For an introduction we refer to [423]. Additional commands needed to visualize the results are given in the figure title for each application. Simulation codes, in a less modular fashion, are also available online at Functions are shared over sections, for that reason we begin with an alphabetic list of all (nonbuiltin) functions in this chapter.

  4. Keeping it simple: flowering plants tend to retain, and revert to, simple leaves. (United States)

    Geeta, R; Dávalos, Liliana M; Levy, André; Bohs, Lynn; Lavin, Mathew; Mummenhoff, Klaus; Sinha, Neelima; Wojciechowski, Martin F


    • A wide range of factors (developmental, physiological, ecological) with unpredictable interactions control variation in leaf form. Here, we examined the distribution of leaf morphologies (simple and complex forms) across angiosperms in a phylogenetic context to detect patterns in the directions of changes in leaf shape. • Seven datasets (diverse angiosperms and six nested clades, Sapindales, Apiales, Papaveraceae, Fabaceae, Lepidium, Solanum) were analysed using maximum likelihood and parsimony methods to estimate asymmetries in rates of change among character states. • Simple leaves are most frequent among angiosperm lineages today, were inferred to be ancestral in angiosperms and tended to be retained in evolution (stasis). Complex leaves slowly originated ('gains') and quickly reverted to simple leaves ('losses') multiple times, with a significantly greater rate of losses than gains. Lobed leaves may be a labile intermediate step between different forms. The nested clades showed mixed trends; Solanum, like the angiosperms in general, had higher rates of losses than gains, but the other clades had higher rates of gains than losses. • The angiosperm-wide pattern could be taken as a null model to test leaf evolution patterns in particular clades, in which patterns of variation suggest clade-specific processes that have yet to be investigated fully.

  5. Thermal Forces in Simple and Complex Fluids (United States)

    Piazza, Roberto; Giglio, Marzio


    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

  6. Total protein (United States)

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

  7. 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.

  8. Protein Structure (United States)

    Asmus, Elaine Garbarino


    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…

  9. Protein science research in China

    Institute of Scientific and Technical Information of China (English)

    Ming Sun; Rui-Ming Xu


    @@ 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.

  10. How fast is protein hydrophobic collapse?


    Sadqi, Mourad; Lapidus, Lisa J.; Muñoz, Victor


    One of the most recurring questions in protein folding refers to the interplay between formation of secondary structure and hydrophobic collapse. In contrast with secondary structure, it is hard to isolate hydrophobic collapse from other folding events. We have directly measured the dynamics of protein hydrophobic collapse in the absence of competing processes. Collapse was triggered with laser-induced temperature jumps in the acid-denatured form of a simple protein and monitored by fluoresce...

  11. A simple procedure for estimating soil porosity (United States)

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


    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 soil quality scores of the Visual Evaluation of Soil Structure (VESS) method which was conducted at each survey site. Estimated functional porosity at 5-10 cm depth was found to moderately, negatively correlate with VESS scores (rs = - 0.5, P indicating porosity of a large quantity of samples taken at numerous sites or if done periodically, temporal changes in porosity at a field scale, indicating the impacts of soil management. Reference Piwowarczyk, A., Giuliani, G. & Holden, N.M. 2011. Can soil

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

    Directory of Open Access Journals (Sweden)

    Jung Me Hwang


    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.

  13. Exploring the repeat protein universe through computational protein design. (United States)

    Brunette, T J; Parmeggiani, Fabio; Huang, Po-Ssu; Bhabha, Gira; Ekiert, Damian C; Tsutakawa, Susan E; Hura, Greg L; Tainer, John A; Baker, David


    A central question in protein evolution is the extent to which naturally occurring proteins sample the space of folded structures accessible to the polypeptide chain. Repeat proteins composed of multiple tandem copies of a modular structure unit are widespread in nature and have critical roles in molecular recognition, signalling, and other essential biological processes. Naturally occurring repeat proteins have been re-engineered for molecular recognition and modular scaffolding applications. Here we use computational protein design to investigate the space of folded structures that can be generated by tandem repeating a simple helix-loop-helix-loop structural motif. Eighty-three designs with sequences unrelated to known repeat proteins were experimentally characterized. Of these, 53 are monomeric and stable at 95 °C, and 43 have solution X-ray scattering spectra consistent with the design models. Crystal structures of 15 designs spanning a broad range of curvatures are in close agreement with the design models with root mean square deviations ranging from 0.7 to 2.5 Å. Our results show that existing repeat proteins occupy only a small fraction of the possible repeat protein sequence and structure space and that it is possible to design novel repeat proteins with precisely specified geometries, opening up a wide array of new possibilities for biomolecular engineering.

  14. Stability and Folding Behavior Analysis of Zinc-Finger Using Simple Models

    Directory of Open Access Journals (Sweden)

    Xu-Hong Tian


    Full Text Available Zinc-fingers play crucial roles in regulating gene expression and mediating protein-protein interactions. In this article, two different proteins (Sp1f2 and FSD-1 are investigated using the Gaussian network model and anisotropy elastic network model. By using these simple coarse-grained methods, we analyze the structural stabilization and establish the unfolding pathway of the two different proteins, in good agreement with related experimental and molecular dynamics simulation data. From the analysis, it is also found that the folding process of the zinc-finger motif is predominated by several factors. Both the zinc ion and C-terminal loop affect the folding pathway of the zinc-finger motif. Knowledge about the stability and folding behavior of zinc-fingers may help in understanding the folding mechanisms of the zinc-finger motif and in designing new zinc-fingers. Meanwhile, these simple coarse-grained analyses can be used as a general and quick method for mechanistic studies of metalloproteins.

  15. Was ist Really Simple Syndication - RSS? / What is Really Simple Syndication - RSS?

    Directory of Open Access Journals (Sweden)

    Obst, Oliver


    Full Text Available The new magic word for efficient information exchange is RSS - Really Simple Syndication. Within a short time, RSS experienced a rapid spreading to become the fourth exchange form for information in the Internet - beside E-Mail, HTML, and PDF. RSS is based on XML and - according to Wikipedia - comes first at the area of the semantic Web. With RSS the reversal and control of the information flow are possible. Numerous libraries and scientist make usage of Weblogs or RSS feeds for communication with their customers and colleagues.

  16. Biogas Digester with Simple Solar Heater

    Directory of Open Access Journals (Sweden)

    Kh S Karimov


    Full Text Available ABSTRACT: In this research work, the design, fabrication and investigation of a biogas digester with simple solar heater are presented. For the solar heater, a built-in reverse absorber type heater was used. The maximum temperature (50°C inside the methane tank was taken as a main parameter for the design of the digester. Then, the energy balance equation for the case of a static mass of fluid being heated was used to model the process. The parameters of thermal insulation of the methane tank were also included in the calculations. The biogas digester consisted of a methane tank with built-in solar reverse absorber heater to harness the radiant solar energy for heating the slurry comprising of different organic wastes (dung, sewage, food wastes etc.. The methane tank was initially filled to 70% of its volume with organic wastes from the GIK institute’s sewage. The remaining volume was filled with sewage and cow dung from other sources. During a three month period (October-December, 2009 and another two month period (February-March, 2010, the digester was investigated. The effects of solar radiation on the absorber, the slurry’s temperature, and the ambient temperature were all measured during these investigations. It was found that using sewage only and sewage with cow dung in the slurry resulted in retention times of four and two weeks, respectively. The corresponding biogas produced was 0.4 m3 and 8.0 m3, respectively. Finally, this paper also elaborates on the upgradation of biogas through the removal of carbon dioxide, hydrogen sulphide and water vapour, and also the process of conversion of biogas energy into electric powerABSTRAK: Kajian ini membentangkan rekabentuk, fabrikasi dan penyelidikan tentang pencerna biogas dengan pemanas solar ringkas. Sebagai pemanas solar, ia dilengkapkan dengan penyerap pemanas beralik. Suhu maksimum(50oC di dalam tangki metana telah diambil sebagai parameter utama rekabentuk pencerna. Dengan menggunakan

  17. A simple approach to the solvent reorganisation Gibbs free energy in electron transfer reactions of redox metalloproteins

    DEFF Research Database (Denmark)

    Ulstrup, Jens


    We discuss a simple model for the environmental reorganisation Gibbs free energy, E-r, in electron transfer between a metalloprotein and a small reaction partner. The protein is represented as a dielectric globule with low dielectric constant, the metal centres as conducting spheres, all embedded...

  18. Design, properties, and applications of protein micro- and nanoparticles

    NARCIS (Netherlands)

    Saglam, D.; Venema, P.; Linden, van der E.; Vries, de R.J.


    The design of protein particles with tailored properties has received an increased attention recently. Several approaches, from simple heat treatment in dilute systems to the combination of heat and mechanical treatments in concentrated protein solutions, have been used to obtain protein particles w

  19. 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: Fi...le URL: File size: 49.8 KB Simple se...arch URL Data acquisition method - Data analy

  20. Protein - AT Atlas | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available eins Research Program (TPRP). Data file File name: File URL:... File size: 1.13 KB Simple search UR...L Data acquisition method - Data analysis met

  1. Small-scale extraction of recombinant proteins from bacteria. (United States)

    Simpson, Richard J


    Bacteria are particularly convenient for producing recombinant proteins for purification purposes. To monitor induction as well as the levels of recombinant protein expression, it is important to have a rapid, simple method for estimating bacterial protein expression. This protocol describes the preparation of small-scale bacterial extracts using cell lysis with 0.5% Triton X-100.

  2. Development of a simple estimation tool for LMFBR construction cost

    Energy Technology Data Exchange (ETDEWEB)

    Yoshida, Kazuo; Kinoshita, Izumi [Central Research Inst. of Electric Power Industry, Komae, Tokyo (Japan). Komae Research Lab


    A simple tool for estimating the construction costs of liquid-metal-cooled fast breeder reactors (LMFBRs), 'Simple Cost' was developed in this study. Simple Cost is based on a new estimation formula that can reduce the amount of design data required to estimate construction costs. Consequently, Simple cost can be used to estimate the construction costs of innovative LMFBR concepts for which detailed design has not been carried out. The results of test calculation show that Simple Cost provides cost estimations equivalent to those obtained with conventional methods within the range of plant power from 325 to 1500 MWe. Sensitivity analyses for typical design parameters were conducted using Simple Cost. The effects of four major parameters - reactor vessel diameter, core outlet temperature, sodium handling area and number of secondary loops - on the construction costs of LMFBRs were evaluated quantitatively. The results show that the reduction of sodium handling area is particularly effective in reducing construction costs. (author)

  3. Clustered Simple Cell Mapping: An extension to the Simple Cell Mapping method (United States)

    Gyebrószki, Gergely; Csernák, Gábor


    When a dynamical system has a complex structure of fixed points, periodic cycles or even chaotic attractors, Cell Mapping methods are excellent tools to discover and thoroughly analyse all features in the state space. These methods discretize a region of the state space into cells and examine the dynamics in the cell state space. By determining one or more image cells for each cell, the global behaviour within the region can be quickly determined. In the simplest case - Simple Cell Mapping (SCM) method - only one image corresponds to a cell and usually a rectangular grid of cells is used. In typical applications the grid of cells is refined at specific locations. This paper, however, introduces a different approach, which is useful to expand the analysed state space region to include all features which properly characterize the global dynamics of the system. Instead of refining the initial cell state space, we start with a small initial state space region, analyse other interesting regions of the state space and incorporate them into a cluster of cell mapping solutions. By this approach, trajectories escaping the original state space region can be followed automatically and additional objects in the state space can be discovered. To illustrate the benefits of the method, we present the exploration of the phase-space of the micro-chaos map - a simple model of digitally controlled systems.

  4. [Leptin in persons with simple obesity]. (United States)

    Stejskal, D; Růzicka, V; Hrubísková, L; Hrebícek, J; Bartek, J; Franková, M; Pastorková, R; Mohapl, P; Vávrová, J


    Obesity is a disease with distinct genetic determination and its phenotype is defined by the still unknown number of genes whose expression can be influenced by environmental factors. Several years ago, "obesity gene" was isolated in animals. This gene, coding protein which consists of 165 amino acids, is called leptin. Leptin is supposed to be a key substance controlling homeostasis of body weight and energy balance; it is produced by adipocytes and its value correlates highly significantly with anthropometric parameters that characterize physical constitution and amount of subcutaneous fatty tissue. The obese individuals often display hyperleptinemia which is frequently caused by a postreceptor disorder; sporadically, a different leptin structure or hypoleptinemia (caused by genetic anomaly) are reported. It is supposed that either absolute or relative leptin deficiency in obese persons are associated with causal obesity (e.g. appetite stimulation). Leptinemia values correlate with percentage of subcutaneous fatty tissue, insulinemia and sometimes with glycemia. In our study we examined 200 probands, patients of the Metabolic and Diabetologic Out-Patient Department, Hospital in Sternberk. A very close correlation between the amount of subcutaneous fatty tissue (measured by a caliper in 10 skinfolds) and the leptine serum concentration was found. The values of leptinemia in men of normal constitution ranged within 1-11 ng/ml, non-obese women had 3-4 times higher values. Leptinemia in some obese individuals reached up to 70 ng/ml. However, the currently calculated and reported parameters of physical constitution (BMI, WHR, Grant index) did not correlate significantly with leptinemia. Similarly, biochemical parameters considered as general markers of insulin resistance (often associated with obesity) did not correlate significantly with leptinemia. This finding indicates that some calculated parameters, quantifying and gualifying physical constitution, may be

  5. The New Enhanced Simple Authenticated Key Agreement Algorithm

    Institute of Scientific and Technical Information of China (English)


    Simple authenticated key agreement algorithm is one of the Diffie-Hellman key agreement variations. It prevents man-inthe-middle attack with only two more packets required to agree on the secret session key, but it has some weaknesses. In this paper, a new enhanced simple authenticated key agreement algorithm is proposed to overcome these weaknesses on the basis of analyzing the weaknesses of the related protocols. The new enhanced simple authenticated key agreement algorithm can get over replay attack and password guessing attack, provide perfect forward secrecy, and hold the merits of the simple authenticated key agreement algorithm.

  6. Simple Type Theory as Framework for Combining Logics

    CERN Document Server

    Benzmueller, Christoph


    Simple type theory is suited as framework for combining classical and non-classical logics. This claim is based on the observation that various prominent logics, including (quantified) multimodal logics and intuitionistic logics, can be elegantly embedded in simple type theory. Furthermore, simple type theory is sufficiently expressive to model combinations of embedded logics and it has a well understood semantics. Off-the-shelf reasoning systems for simple type theory exist that can be uniformly employed for reasoning within and about combinations of logics.

  7. A Simple Hydraulic Analog Model of Oxidative Phosphorylation. (United States)

    Willis, Wayne T; Jackman, Matthew R; Messer, Jeffrey I; Kuzmiak-Glancy, Sarah; Glancy, Brian


    Mitochondrial oxidative phosphorylation is the primary source of cellular energy transduction in mammals. This energy conversion involves dozens of enzymatic reactions, energetic intermediates, and the dynamic interactions among them. With the goal of providing greater insight into the complex thermodynamics and kinetics ("thermokinetics") of mitochondrial energy transduction, a simple hydraulic analog model of oxidative phosphorylation is presented. In the hydraulic model, water tanks represent the forward and back "pressures" exerted by thermodynamic driving forces: the matrix redox potential (ΔGredox), the electrochemical potential for protons across the mitochondrial inner membrane (ΔGH), and the free energy of adenosine 5'-triphosphate (ATP) (ΔGATP). Net water flow proceeds from tanks with higher water pressure to tanks with lower pressure through "enzyme pipes" whose diameters represent the conductances (effective activities) of the proteins that catalyze the energy transfer. These enzyme pipes include the reactions of dehydrogenase enzymes, the electron transport chain (ETC), and the combined action of ATP synthase plus the ATP-adenosine 5'-diphosphate exchanger that spans the inner membrane. In addition, reactive oxygen species production is included in the model as a leak that is driven out of the ETC pipe by high pressure (high ΔGredox) and a proton leak dependent on the ΔGH for both its driving force and the conductance of the leak pathway. Model water pressures and flows are shown to simulate thermodynamic forces and metabolic fluxes that have been experimentally observed in mammalian skeletal muscle in response to acute exercise, chronic endurance training, and reduced substrate availability, as well as account for the thermokinetic behavior of mitochondria from fast- and slow-twitch skeletal muscle and the metabolic capacitance of the creatine kinase reaction.

  8. A Simple Metallothionein-Based Biosensor for Enhanced Detection of Arsenic and Mercury

    Directory of Open Access Journals (Sweden)

    Gordon W. Irvine


    Full Text Available Metallothioneins (MTs are a family of cysteine-rich proteins whose biological roles include the regulation of essential metal ions and protection against the harmful effects of toxic metals. Due to its high affinity for many toxic, soft metals, recombinant human MT isoform 1a was incorporated into an electrochemical-based biosensor for the detection of As3+ and Hg2+. A simple design was chosen to maximize its potential in environmental monitoring and MT was physically adsorbed onto paper discs placed on screen-printed carbon electrodes (SPCEs. This system was tested with concentrations of arsenic and mercury typical of contaminated water sources ranging from 5 to 1000 ppb. The analytical performance of the MT-adsorbed paper discs on SPCEs demonstrated a greater than three-fold signal enhancement and a lower detection limit compared to blank SPCEs, 13 ppb for As3+ and 45 ppb for Hg2+. While not being as low as some of the recommended drinking water limits, the sensitivity of the simple MT-biosensor would be potentially useful in monitoring of areas of concern with a known contamination problem. This paper describes the ability of the metal binding protein metallothionein to enhance the effectiveness of a simple, low-cost electrochemical sensor.

  9. A Simple Metallothionein-Based Biosensor for Enhanced Detection of Arsenic and Mercury (United States)

    Irvine, Gordon W.; Tan, Swee Ngin; Stillman, Martin J.


    Metallothioneins (MTs) are a family of cysteine-rich proteins whose biological roles include the regulation of essential metal ions and protection against the harmful effects of toxic metals. Due to its high affinity for many toxic, soft metals, recombinant human MT isoform 1a was incorporated into an electrochemical-based biosensor for the detection of As3+ and Hg2+. A simple design was chosen to maximize its potential in environmental monitoring and MT was physically adsorbed onto paper discs placed on screen-printed carbon electrodes (SPCEs). This system was tested with concentrations of arsenic and mercury typical of contaminated water sources ranging from 5 to 1000 ppb. The analytical performance of the MT-adsorbed paper discs on SPCEs demonstrated a greater than three-fold signal enhancement and a lower detection limit compared to blank SPCEs, 13 ppb for As3+ and 45 ppb for Hg2+. While not being as low as some of the recommended drinking water limits, the sensitivity of the simple MT-biosensor would be potentially useful in monitoring of areas of concern with a known contamination problem. This paper describes the ability of the metal binding protein metallothionein to enhance the effectiveness of a simple, low-cost electrochemical sensor. PMID:28335390

  10. Whey Protein (United States)

    ... Fraction de Lactosérum, Fraction de Petit-Lait, Goat Milk Whey, Goat Whey, Isolat de Protéine de Lactosérum, Isolat ... Lactosérum de Lait de Chèvre, MBP, Milk Protein, Milk Protein Isolate, Mineral Whey Concentrate, Proteínas del Suero de la Leche, Protéine ...

  11. Geometry of the energy landscape and folding transition in a simple model of a protein. (United States)

    Mazzoni, Lorenzo N; Casetti, Lapo


    A geometric analysis of the global properties of the energy landscape of a minimalistic model of a polypeptide is presented, which is based on the relation between dynamical trajectories and geodesics of a suitable manifold, whose metric is completely determined by the potential energy. We consider different sequences, some with a definite proteinlike behavior, a unique native state and a folding transition, and others undergoing a hydrophobic collapse with no tendency to a unique native state. The global geometry of the energy landscape appears to contain relevant information on the behavior of the various sequences: in particular, the fluctuations of the curvature of the energy landscape, measured by means of numerical simulations, clearly mark the folding transition and allow the proteinlike sequences to be distinguished from the others.

  12. Design and self-assembly of simple coat proteins for artificial viruses

    NARCIS (Netherlands)

    Hernandez-Garcia, Armando; Kraft, Daniela J.; Janssen, Anne F. J.; Bomans, Paul H. H.; Sommerdijk, Nico A. J. M.; Thies-Weesie, Dominique M. E.; Favretto, Marco E.; Brock, Roland; de Wolf, Frits A.; Werten, Marc W. T.; van der Schoot, Paul; Stuart, Martien Cohen; de Vries, Renko


    Viruses are among the simplest biological systems and are highly effective vehicles for the delivery of genetic material into susceptible host cells(1). Artificial viruses can be used as model systems for providing insights into natural viruses and can be considered a testing ground for developing a

  13. Simple Pleasures, Small Annoyances, and Goal Progress in Daily Life

    NARCIS (Netherlands)

    N.L. Mead (Nicole); V.M. Patrick (Vanessa); M.P. Gunadi (Manissa); W. Hofmann (Wilhelm)


    textabstractDespite the explosion of research on goal pursuit, relatively little is known about the shaping of goal progress by the simple experiences that characterize everyday life. Two literatures furnish competing predictions about the relationship between pleasant daily experiences (simple plea

  14. Simple models of two-dimensional information sources and codes

    DEFF Research Database (Denmark)

    Justesen, Jørn; Shtarkov, Y. M.


    We consider discrete random fields which have simple descriptions of rows and columns. We present constructions which combine high entropy with simple means of generating the fields and analyzing the probability distribution. Hidden state Markov sources are an essential tool in the construction...

  15. Misconceptions of Mexican Teachers in the Solution of Simple Pendulum (United States)

    Garcia Trujillo, Luis Antonio; Ramirez Díaz, Mario H.; Rodriguez Castillo, Mario


    Solving the position of a simple pendulum at any time is apparently one of the most simple and basic problems to solve in high school and college physics courses. However, because of this apparent simplicity, teachers and physics texts often assume that the solution is immediate without pausing to reflect on the problem formulation or verifying…

  16. Secondary School Students' Misconceptions about Simple Electric Circuits (United States)

    Küçüközer, Hüseyin; Kocakülah, Sabri


    The aim of this study is to reveal secondary school students' misconceptions about simple electric circuits and to define whether specific misconceptions peculiar to Turkish students exist within those identified. Data were obtained with a conceptual understanding test for simple electric circuits and semi-structured interviews. Conceptual…

  17. Haptics-Augmented Simple-Machine Educational Tools. (United States)

    Williams, Robert L., II; Chen, Meng-Yun; Seaton, Jeffrey M.


    Describes a unique project using commercial haptic interfaces to augment the teaching of simple machines in elementary school. Suggests that the use of haptics in virtual simple-machine simulations has the potential for deeper, more engaging learning. (Contains 13 references.) (Author/YDS)

  18. Early Prediction of Reading Comprehension within the Simple View Framework (United States)

    Catts, Hugh W.; Herrera, Sarah; Nielsen, Diane Corcoran; Bridges, Mindy Sittner


    The simple view of reading proposes that reading comprehension is the product of word reading and language comprehension. In this study, we used the simple view framework to examine the early prediction of reading comprehension abilities. Using multiple measures for all constructs, we assessed word reading precursors (i.e., letter knowledge,…

  19. Design and Implementation of a Simple Web Search Engine

    CERN Document Server

    Mirzal, Andri


    We present a simple web search engine for indexing and searching html documents using python programming language. Because python is well known for its simple syntax and strong support for main operating systems, we hope it will be beneficial for learning information retrieval techniques, especially web search engine technology.

  20. Validating SimpleBox-Computed Steady-State Concentration Ratios

    NARCIS (Netherlands)

    Bakker J; Brandes LJ; Hollander HA den; Meent D van de; Struijs J; SEC; IMP; LER


    The validity of the multi-media model SimpleBox version 2.0 with respect to its specific use in the procedure of testing the coherence of independently derived environmental quality objectives is evaluated. The SimpleBox procedure for testing the coherence of environmental quality objectives has bee

  1. Using "Tracker" to Prove the Simple Harmonic Motion Equation (United States)

    Kinchin, John


    Simple harmonic motion (SHM) is a common topic for many students to study. Using the free, though versatile, motion tracking software; "Tracker", we can extend the students experience and show that the general equation for SHM does lead to the correct period of a simple pendulum.

  2. The plasma-solid transition two simple examples

    CERN Document Server

    Celebonovic, V


    Using a simple criterion proposed by Kirzhnitz,we have discussed the plasma-solid transition in two simple model cases: the Fermi-Dirac and Bose Einstein gas.Some possibilities of astrophysical applications of our results are also indicated.

  3. Solving Simple Stochastic Games with Few Random Vertices

    NARCIS (Netherlands)

    Gimbert, H.; Horn, F.


    Simple stochastic games are two-player zero-sum stochastic games with turn-based moves, perfect information, and reachability winning conditions. We present two new algorithms computing the values of simple stochastic games. Both of them rely on the existence of optimal permutation strategies, a cla

  4. Infinitary Term Graph Rewriting is Simple, Sound and Complete

    DEFF Research Database (Denmark)

    Bahr, Patrick


    Based on a simple metric and a simple partial order on term graphs, we develop two infinitary calculi of term graph rewriting. We show that, similarly to infinitary term rewriting, the partial order formalisation yields a conservative extension of the metric formalisation of the calculus. By show...

  5. 10 CFR 436.23 - Estimated simple payback time. (United States)


    ... 10 Energy 3 2010-01-01 2010-01-01 false Estimated simple payback time. 436.23 Section 436.23 Energy DEPARTMENT OF ENERGY ENERGY CONSERVATION FEDERAL ENERGY MANAGEMENT AND PLANNING PROGRAMS Methodology and Procedures for Life Cycle Cost Analyses § 436.23 Estimated simple payback time. The...

  6. Energy and linear and angular momenta in simple electromagnetic systems

    CERN Document Server

    Mansuripur, Masud


    We present examples of simple electromagnetic systems in which energy, linear momentum, and angular momentum exhibit interesting behavior. The systems are sufficiently simple to allow exact solutions of Maxwell's equations in conjunction with the electrodynamic laws of force, torque, energy, and momentum. In all the cases examined, conservation of energy and momentum is confirmed.

  7. Fully Consistent SIMPLE-Like Algorithms on Collocated Grids

    DEFF Research Database (Denmark)

    Kolmogorov, Dmitry; Shen, Wen Zhong; Sørensen, Niels N.;


    To increase the convergence rate of SIMPLE-like algorithms on collocated grids, a compatibility condition between mass flux interpolation methods and SIMPLE-like algorithms is presented. Results of unsteady flow computations show that the SIMPLEC algorithm, when obeying the compatibility conditio...

  8. Using Tracker to prove the simple harmonic motion equation (United States)

    Kinchin, John


    Simple harmonic motion (SHM) is a common topic for many students to study. Using the free, though versatile, motion tracking software; Tracker, we can extend the students experience and show that the general equation for SHM does lead to the correct period of a simple pendulum.

  9. Tau protein

    DEFF Research Database (Denmark)

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


    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......-3-3 protein in the cerebrospinal fluid (CSF) of patients with monosymptomatic optic neuritis (ON) versus patients with monosymptomatic onset who progressed to multiple sclerosis (MS). To evaluate results against data found in a complete literature review. Methods: A total of 66 patients with MS and/or ON from...... 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...

  10. A simple method of catalase purification for the undergraduate experimental course. (United States)

    Chen, Qian; Cheng, Meng; Wang, Yinnan; Yao, Ming; Chen, Yongchun; Gao, Yuan; Ding, Wenyuan


    Catalase is a characteristic enzyme of peroxisomes, of which it is the most abundant protein. This enzyme serves as a typical example of a peroxisomal enzyme and is important in the teaching of biochemistry and molecular biology. Although there is substantial information regarding catalase purification, purifying catalase for the junior‑grade undergraduate experimental course face challenges in obtaining materials and increasingly expensive purification equipment. This study presents a simple method for the purification of mouse liver catalase using ethanol‑chloroform treatment, sodium sulfate fractionation, dialysis and Sephadex G‑200 gel filtration chromatography. Catalase was purified 31.8‑fold with an 18.3% yield. The advantages of this method were its low operating environment requirements, simple procedure and reduced cost. Furthermore, the method was designed to improve students' comprehensive ability and manipulative ability and to introduce a sense of innovation in the fields of biochemistry and molecular biology during their junior year.

  11. Measuring protein-protein and protein-nucleic Acid interactions by biolayer interferometry. (United States)

    Sultana, Azmiri; Lee, Jeffrey E


    Biolayer interferometry (BLI) is a simple, optical dip-and-read system useful for measuring interactions between proteins, peptides, nucleic acids, small molecules, and/or lipids in real time. In BLI, a biomolecular bait is immobilized on a matrix at the tip of a fiber-optic sensor. The binding between the immobilized ligand and another molecule in an analyte solution produces a change in optical thickness at the tip and results in a wavelength shift proportional to binding. BLI provides direct binding affinities and rates of association and dissociation. This unit describes an efficient approach using streptavidin-based BLI to analyze DNA-protein and protein-protein interactions. A quantitative set of equilibrium binding affinities (K(d)) and rates of association and dissociation (k(a)/k(d)) can be measured in minutes using nanomole quantities of sample.

  12. Modulation of extracellular conditions prevents the multilayering of the simple epithelium. (United States)

    Mizutani, Takeomi; Takeda, Kazuki; Haga, Hisashi; Todo, Mitsugu; Kawabata, Kazushige


    Simple epitheliums in normal glandular systems are regulated not to stratify even though the constituent cells proliferate and will rise from the epithelium. Since epithelial cells have the potential to establish cell-cell adhesions, the avoidance of stratification must be related to the intracellular signal cascades and the extracellular conditions. The contributions of the former are becoming clarified, but the influence of the latter is poorly understood. In the present study, we examined whether the frequency of cell-on-cell adhesion, which mimics the early stage of multilayering, is dependent on the type of the extracellular scaffold protein. Wild-type epithelial cells were cultured on E-cadherin-Fc (a cell-cell adhesion protein) or collagen (an extracellular matrix protein), and then, green fluorescent protein (GFP)-positive cells were seeded onto these wild-type cells. We observed that the cell-on-cell adhesion (adhesion of the GFP-positive cell to the wild-type cells) was more frequent in the E-cadherin-Fc treatment than the collagen treatment. The cell-on-cell adhesions that were observed in the E-cadherin treatment were transient and decreased in frequency to that of the collagen treatment after the 12 h of cell culture. We observed the disappearance of E-cadherin-Fc but not collagen during cell culture. These results suggest that transient multilayering in simple epithelium is possible, depending on the types of extracellular scaffold protein, and they imply that cells can modify the extracellular conditions to meet normal cellular conditions.

  13. Absolute quantitation of endogenous proteins with precision and accuracy using a capillary western system


    Chen, Jin-Qiu; Heldman, Madeleine R.; Herrmann, Michelle A.; Kedei, Noemi; Woo, Wonhee; Blumberg, Peter M.; Goldsmith, Paul K.


    Precise and accurate quantification of protein expression levels in a complex biological setting is challenging. Here, we describe a method for absolute quantitation of endogenous proteins in cell lysates using an automated capillary immunoassay system (the size-based Simple Western system, ProteinSimple, CA). The method was able to accurately measure the absolute amounts of target proteins at picogram or sub-picogram levels per nanogram of cell lysates. The measurements were independent of t...

  14. An improved Bradford protein assay for collagen proteins. (United States)

    López, J M; Imperial, S; Valderrama, R; Navarro, S


    A modification of the protein determination method of Bradford adapted for collagen-rich samples is described. The use of Coomassie-based protein determination methods is limited by the great variation in colour yield obtained for different proteins. This is especially important in samples containing significant amounts of collagen where direct application of the methods of Lowry and Bradford results in underestimated values. Addition of small amounts of sodium dodecyl sulphate (SDS) (0.0035%) to the diluted solutions of Coomassie Brilliant Blue G used as dye reagent in the Bradford colorimetric assay caused a 4-fold increase in the colour response of three collagen proteins (Col I, III and IV) and a decrease in absorbance for various non-collagen proteins. The presence of SDS in the reagent did not result in a significant metachromatic shift of the collagen-dye complexes. This simple modification in the preparation of the reagent for the Bradford assay allows similar response curves to be obtained for collagen and non-collagen proteins, making the modified assay of potential use for protein determination in collagen-rich samples such as pancreatic extracts.

  15. Analysis of protein folds using protein contact networks

    Indian Academy of Sciences (India)

    Pankaj Barah; Somdatta Sinha


    Proteins are important biomolecules, which perform diverse structural and functional roles in living systems. Starting from a linear chain of amino acids, proteins fold to different secondary structures, which then fold through short- and long-range interactions to give rise to the final three-dimensional shapes useful to carry out the biophysical and biochemical functions. Proteins are defined as having a common `fold' if they have major secondary structural elements with same topological connections. It is known that folding mechanisms are largely determined by a protein's topology rather than its interatomic interactions. The native state protein structures can, thus, be modelled, using a graph-theoretical approach, as coarse-grained networks of amino acid residues as `nodes' and the inter-residue interactions/contacts as `links'. Using the network representation of protein structures and their 2D contact maps, we have identified the conserved contact patterns (groups of contacts) representing two typical folds – the EF-hand and the ubiquitin-like folds. Our results suggest that this direct and computationally simple methodology can be used to infer about the presence of specific folds from the protein's contact map alone.

  16. Topological relations between directed lines and simple geometries

    Institute of Scientific and Technical Information of China (English)


    Directed lines are fundamental geometric elements to represent directed linear en-tities. The representations of their topological relations are so different from those of simple lines that they cannot be solved exactly with normal methods. In this paper,a new model based on point-set topology is defined to represent the topo-logical relations between directed lines and simple geometries. Through the inter-sections between the start-points,end-points,and interiors of the directed lines and the interiors,boundaries,and exteriors of the simple geometries,this model identifies 5 cases of topological relations between directed lines and points,39 cases of simple lines,and 26 cases of simple polygons. Another 4 cases of simple lines and one case of simple polygons are distinguished if considering the exteri-ors of the directed lines. All possible cases are furthermore grouped into an exclu-sive and complete set containing 11 named predicts. And the conceptual neigh-borhood graph is set up to illustrate their relationship and similarity. This model can provide a basis for natural language description and spatial query language to present the dynamic semantics of directed lines relative to the background fea-tures.

  17. Cellufine sulfate column chromatography as a simple, rapid, and effective method to purify dengue virus. (United States)

    Kanlaya, Rattiyaporn; Thongboonkerd, Visith


    Conventional method to purify/concentrate dengue virus (DENV) is time-consuming with low virus recovery yield. Herein, we applied cellufine sulfate column chromatography to purify/concentrate DENV based on the mimicry between heparan sulfate and DENV envelope protein. Comparative analysis demonstrated that this new method offered higher purity (as determined by less contamination of bovine serum albumin) and recovery yield (as determined by greater infectivity). Moreover, overall duration used for cellufine sulfate column chromatography to purify/concentrate DENV was approximately 1/20 of that of conventional method. Therefore, cellufine sulfate column chromatography serves as a simple, rapid, and effective alternative method for DENV purification/concentration.

  18. Recursion relations and branching rules for simple Lie algebras

    CERN Document Server

    Lyakhovsky, V D


    The branching rules between simple Lie algebras and its regular (maximal) simple subalgebras are studied. Two types of recursion relations for anomalous relative multiplicities are obtained. One of them is proved to be the factorized version of the other. The factorization property is based on the existence of the set of weights \\Gamma specific for each injection. The structure of \\Gamma is easily deduced from the correspondence between the root systems of algebra and subalgebra. The recursion relations thus obtained give rise to simple and effective algorithm for branching rules. The details are exposed by performing the explicit decomposition procedure for A_{3} \\oplus u(1) \\rightarrow B_{4} injection.

  19. Generalized Lotka—Volterra systems connected with simple Lie algebras (United States)

    Charalambides, Stelios A.; Damianou, Pantelis A.; Evripidou, Charalambos A.


    We devise a new method for producing Hamiltonian systems by constructing the corresponding Lax pairs. This is achieved by considering a larger subset of the positive roots than the simple roots of the root system of a simple Lie algebra. We classify all subsets of the positive roots of the root system of type An for which the corresponding Hamiltonian systems are transformed, via a simple change of variables, to Lotka-Volterra systems. For some special cases of subsets of the positive roots of the root system of type An, we produce new integrable Hamiltonian systems.

  20. Simple mucin-type carbohydrate antigens in major salivary glands

    DEFF Research Database (Denmark)

    Therkildsen, M H; Mandel, U; Thorn, J


    -defined monoclonal antibodies (MAb) on frozen and paraffin-embedded normal salivary gland tissue from 22 parotid, 14 submandibular, six sublingual, and 13 labial glands to elucidate the simple mucin-type glycosylation pattern in relation to cyto- and histodifferentiation. The investigated carbohydrate structures......Simple mucin-type carbohydrate antigens Tn, sialosyl-Tn and T are often markers of neoplastic transformation and have very limited expression in normal tissues. We performed an immunohistological study of simple mucin-type carbohydrate antigens, including H and A variants, with well...... antigens indicates that these structures may be of value as markers of salivary gland tumors....

  1. Lift-off dynamics in a simple jumping robot

    CERN Document Server

    Aguilar, Jeffrey; Wiesenfeld, Kurt; Goldman, Daniel I


    We study vertical jumping in a simple robot comprising an actuated mass-spring arrangement. The actuator frequency and phase are systematically varied to find optimal performance. Optimal jumps occur above and below (but not at) the robot's resonant frequency $f_0$. Two distinct jumping modes emerge: a simple jump which is optimal above $f_0$ is achievable with a squat maneuver, and a peculiar stutter jump which is optimal below $f_0$ is generated with a counter-movement. A simple dynamical model reveals how optimal lift-off results from non-resonant transient dynamics.

  2. Protein-Protein Interaction Databases

    DEFF Research Database (Denmark)

    Szklarczyk, Damian; Jensen, Lars Juhl


    of research are explored. Here we present an overview of the most widely used protein-protein interaction databases and the methods they employ to gather, combine, and predict interactions. We also point out the trade-off between comprehensiveness and accuracy and the main pitfall scientists have to be aware......Years of meticulous curation of scientific literature and increasingly reliable computational predictions have resulted in creation of vast databases of protein interaction data. Over the years, these repositories have become a basic framework in which experiments are analyzed and new directions...

  3. Highly Informative Simple Sequence Repeat (SSR) Markers for Fingerprinting Hazelnut (United States)

    Simple sequence repeat (SSR) or microsatellite markers have many applications in breeding and genetic studies of plants, including fingerprinting of cultivars and investigations of genetic diversity, and therefore provide information for better management of germplasm collections. They are repeatab...

  4. A Simple Illustration for the Need of Multiple Comparison Procedures (United States)

    Carter, Rickey E.


    Statistical adjustments to accommodate multiple comparisons are routinely covered in introductory statistical courses. The fundamental rationale for such adjustments, however, may not be readily understood. This article presents a simple illustration to help remedy this.

  5. Simple Experiments on the Physics of Vision: The Retina (United States)

    Cortel, Adolf


    Many simple experiments can be performed in the classroom to explore the physics of vision. Students can learn of the two types of receptive cells (rods and cones), their distribution on the retina and the existence of the blind spot.

  6. A simple technique to assess bacterial attachment to metal surfaces

    Digital Repository Service at National Institute of Oceanography (India)

    Sonak, S.; Bhosle, N.B.

    . Therefore, a simple spectrophotometric method was developed to evaluate bacterial adhesion to metal surface. The method was calibrated using a bacterium Vibrio sp. and aluminium as a model organism and substratum, respectively. The method involves staining...

  7. Two simple amine hydrochlorides from the soft coral Lobophytum strictum

    Digital Repository Service at National Institute of Oceanography (India)

    Parameswaran, P.S.; Naik, C.G.; Das, B.; Kamat, S.Y.

    Two simple amine hydrochlorides, viz., 1-amino-1, 1-dimethyl-3-oxo-butane hydrochloride (1) (Diacetonamine) and 2, 2, 6, 6-tetramethylpiperidone hydrochloride (2) have been isolated from the fraction of the methanolic extract of the soft coral...

  8. Cavilaciones sobre el interés simple


    Leonor Cabeza de Vergara


    Como producto de las reflexiones sobre la conceptualización del interés simple surgieron dos preguntas a nivel de clase: ¿Por qué, bajo la modalidad del interés simple, el presente de cada una de las cuotas constantes vencidas no es igual al presente de la anualidad vencida?, y ¿Qué porción de una cuota vencida bajo el interés simple se asigna a interés y a capital? Para trabajar estos interrogantes se partió de un caso práctico y con el soporte conceptual de interés simple, series, serie arm...

  9. Publishing on the WWW. Part 6 - Simple graphic manipulation


    Grech, V


    Modern graphic manipulation software is quick and simple to use, and allows medical quality graphics to be produced for online publication. This article demonstrates, step by step, how submitted images are processed by the journal in preparation for publication.


    Directory of Open Access Journals (Sweden)

    Farhad HEYDARIAN


    Full Text Available ObjectiveTo evaluate the serum zinc level of the patients with simple febrile seizure and compare them with febrile children without seizure.Materials & MethodsThis prospective case - control study was performed on 60 patients aged 6 months to 6 years from Apr. 2009 to Jan.2010 in Ghaem, Imam Reza and Dr. Sheikh Hospitals in Mashhad. The serum zinc level was assessed and compared between the cases (30 individuals who suffered from simple febrile seizure and the controls (30 individuals who had fever without seizure.ResultsMean serum zinc level was 663.7 µg /l and 758.33  µg /l in the case group and the control group, respectively (PConclusionIt was revealed that the serum level of zinc was significantly lower in children with simple febrile seizure in comparison with febrile children without seizure.Keywords: Simple febrile seizure, children, zinc, CSF (cerebrospinal fluid

  11. A Simple Parallel Photochemical Reactor for Photodecomposition Studies (United States)

    Xiaobo Chen; Halasz, Sarah M.; Giles, Eric C.; Mankus, Jessica V.; Johnson, Joseph C.; Burda, Clemens


    A simple and useful parallel photochemical reactor intended to study the photodecomposition of dyes using semiconductor photocatalysis is presented. The photochemical reactions are followed through time-dependent changes in the ground-state absorption spectra of the dyes.

  12. Simple, Micro-Miniature Total Organic Carbon Analyzer Project (United States)

    National Aeronautics and Space Administration — Development of a simple method for on-orbit or advanced mission Total Organic Carbon (TOC) monitoring has been a goal for many years. This proposal seeks to develop...

  13. A simple convex optimization problem with many applications

    DEFF Research Database (Denmark)

    Vidal, Rene Victor Valqui


    This paper presents an algorithm for the solution of a simple convex optimization problem. This problem is a generalization of several other optimization problems which have applications to resource allocation, optimal capacity expansion, and vehicle scheduling. The algorithm is based...

  14. A Simple Experimental Demonstration of Microbial Growth and Interaction. (United States)

    Wainwright, Milton


    Described is a simple, safe, and inexpensive experiment which allows secondary school pupils to observe how fungi and bacteria grow and interact with each other. Included are discussions of materials, methods, observations, and a historical comment. (Author/CW)

  15. Genetic Algorithm for Solving Simple Mathematical Equality Problem


    Hermawanto, Denny


    This paper explains genetic algorithm for novice in this field. Basic philosophy of genetic algorithm and its flowchart are described. Step by step numerical computation of genetic algorithm for solving simple mathematical equality problem will be briefly explained

  16. Simple neoclassical point model for transport and scaling in EBT

    Energy Technology Data Exchange (ETDEWEB)

    Hedrick, C.L.; Jaeger, E.F.; Spong, D.A.; Guest, G.E.; Krall, N.A.; McBride, J.B.; Stuart, G.W.


    A simple neoclassical point model is presented for the ELMO Bumpy Torus experiment. Solutions for steady state are derived. Comparison with experimental observations is made and reasonable agreement is obtained.

  17. Simple measurements for prediction of drug release from polymer matrices - Solubility parameters and intrinsic viscosity

    DEFF Research Database (Denmark)

    Madsen, Claus G; Skov, Anders; Baldursdottir, Stefania;


    (dl-lactide-co-glycolide) (PLGA) were cast with bovine serum albumin (BSA) as a model drug using different solvents (acetone, dichloromethane, ethanol and water). The amount of released protein from the different matrices was correlated with the Hildebrand and Hansen solubility parameters of the solvents, and the intrinsic......PURPOSE: This study describes how protein release from polymer matrices correlate with simple measurements on the intrinsic viscosity of the polymer solutions used for casting the matrices and calculations of the solubility parameters of polymers and solvents used. METHOD: Matrices of poly...... from PLGA matrices varied depending on the solvent used for casting. The maximum amount of released BSA decreased with higher intrinsic viscosity, and increased with solubility parameter difference between the solvent and polymer used. The solvent used also had an effect on the matrix microstructure...


    Institute of Scientific and Technical Information of China (English)

    江五贵; 黄明挥


    Jaumann rate, generalized Jaumann rate, Fu rate and Wu rate were incorporated into endochronic equations forfinite plastic deformation to analyze simple shear finite deformation. The results show that an oscillatory shear stress and normal stress response to a monotonically increasing shear strain occurs when Jaumann rate objective model is adopted for hypoelastic or endochronic materials. The oscillatory response is dependent on objective rate adopted, independent on elastoplastic models. Normal stress is unequal to zero during simple shear finite deformation.

  19. Drift Intermittent Synchronization and Controllability in a Simple Model

    Institute of Scientific and Technical Information of China (English)

    XIE Bai-Song; YU Ming-Young


    A simple model of three coupled oscillators as an approximation of main modes behaviors in a spatial extended system is proposed. Multi-looping generalized synchronization and drift intermittent lag phase synchronization phenomena are found in this simple model. For a certain of parameters in which chaotic-like intermittent behavior exhibit the amplitudes and phases of three modes are controlled to be synchronized states via coupling them with an external periodic mode.

  20. A Simple Current-Mode Quadrature Oscillator Using Single CDTA

    Directory of Open Access Journals (Sweden)

    D. Biolek


    Full Text Available This article presents a simple current-mode quadrature oscillator using a single Current Differencing Transconductance Amplifier (CDTA as the active element. The oscillation condition and oscillation frequency can be electronically controlled. The circuit structure is very simple, consisting of merely one CDTA, one resistor and two capacitors. The proposed circuit is suitable for IC architecture. The PSpice simulation and experimental results are shown, and the results agree well with the theoretical assumptions.