WorldWideScience

Sample records for 4fe-4s cluster assembly

  1. Structure and Function of a Bacterial Microcompartment Shell Protein Engineered to Bind a [4Fe-4S] Cluster.

    Aussignargues, Clément; Pandelia, Maria-Eirini; Sutter, Markus; Plegaria, Jefferson S; Zarzycki, Jan; Turmo, Aiko; Huang, Jingcheng; Ducat, Daniel C; Hegg, Eric L; Gibney, Brian R; Kerfeld, Cheryl A

    2016-04-27

    Bacterial microcompartments (BMCs) are self-assembling organelles composed of a selectively permeable protein shell and encapsulated enzymes. They are considered promising templates for the engineering of designed bionanoreactors for biotechnology. In particular, encapsulation of oxidoreductive reactions requiring electron transfer between the lumen of the BMC and the cytosol relies on the ability to conduct electrons across the shell. We determined the crystal structure of a component protein of a synthetic BMC shell, which informed the rational design of a [4Fe-4S] cluster-binding site in its pore. We also solved the structure of the [4Fe-4S] cluster-bound, engineered protein to 1.8 Å resolution, providing the first structure of a BMC shell protein containing a metal center. The [4Fe-4S] cluster was characterized by optical and EPR spectroscopies; it has a reduction potential of -370 mV vs the standard hydrogen electrode (SHE) and is stable through redox cycling. This remarkable stability may be attributable to the hydrogen-bonding network provided by the main chain of the protein scaffold. The properties of the [4Fe-4S] cluster resemble those in low-potential bacterial ferredoxins, while its ligation to three cysteine residues is reminiscent of enzymes such as aconitase and radical S-adenosymethionine (SAM) enzymes. This engineered shell protein provides the foundation for conferring electron-transfer functionality to BMC shells. PMID:26704697

  2. Dispensability of the [4Fe-4S] cluster in novel homologues of adenine glycosylase MutY.

    Trasviña-Arenas, Carlos H; Lopez-Castillo, Laura M; Sanchez-Sandoval, Eugenia; Brieba, Luis G

    2016-02-01

    7,8-Dihydro-8-deoxyguanine (8oG) is one of the most common oxidative lesions in DNA. DNA polymerases misincorporate an adenine across from this lesion. Thus, 8oG is a highly mutagenic lesion responsible for G:C→T:A transversions. MutY is an adenine glycosylase, part of the base excision repair pathway that removes adenines, when mispaired with 8oG or guanine. Its catalytic domain includes a [4Fe-4S] cluster motif coordinated by cysteinyl ligands. When this cluster is absent, MutY activity is depleted and several studies concluded that the [4Fe-4S] cluster motif is an indispensable component for DNA binding, substrate recognition and enzymatic activity. In the present study, we identified 46 MutY homologues that lack the canonical cysteinyl ligands, suggesting an absence of the [4Fe-4S] cluster. A phylogenetic analysis groups these novel MutYs into two different clades. One clade is exclusive of the order Lactobacillales and another clade has a mixed composition of anaerobic and microaerophilic bacteria and species from the protozoan genus Entamoeba. Structural modeling and sequence analysis suggests that the loss of the [4Fe-4S] cluster is compensated by a convergent solution in which bulky amino acids substitute the [4Fe-4S] cluster. We functionally characterized MutYs from Lactobacillus brevis and Entamoeba histolytica as representative members from each clade and found that both enzymes are active adenine glycosylases. Furthermore, chimeric glycosylases, in which the [4Fe-4S] cluster of Escherichia coli MutY is replaced by the corresponding amino acids of LbY and EhY, are also active. Our data indicates that the [4Fe-4S] cluster plays a structural role in MutYs and evidences the existence of alternative functional solutions in nature. PMID:26613369

  3. DNA Repair Glycosylases with a [4Fe-4S] Cluster: A Redox Cofactor for DNA-mediated Charge Transport?

    Boal, Amie K.; Yavin, Eylon; Barton, Jacqueline K.

    2007-01-01

    The [4Fe-4S] cluster is ubiquitous to a class of base excision repair enzymes, in organisms ranging from bacteria to man, and was first considered as a structural element, owing to its redox stability under physiological conditions. When studied bound to DNA, two of these repair proteins (MutY and Endonuclease III from Escherichia coli) display DNA-dependent reversible electron transfer with characteristics typical of high potential iron proteins. These results have inspired a reexamination o...

  4. Transcription factor NsrR from Bacillus subtilis senses nitric oxide with a 4Fe-4S cluster

    Yukl, Erik T.; Elbaz, Mohamed A.; Nakano, Michiko M; Moënne-Loccoz, Pierre

    2008-01-01

    In Bacillus subtilis, NsrR is required for the upregulation of ResDE-dependent genes in the presence of nitric oxide (NO). NsrR was shown to bind to the promoters of these genes and inhibit their transcription in vitro. NO relieves this inhibition by an unknown mechanism. Here we use spectroscopic techniques (UV-vis, resonance Raman, and EPR) to show that anaerobically isolated NsrR from B. subtilis contains a [4Fe-4S]2+ cluster which reacts with NO to form dinitrosyl iron complexes. This met...

  5. Bacillus cereus Fnr binds a [4Fe-4S] cluster and forms a ternary complex with ResD and PlcR

    Esbelin Julia

    2012-06-01

    Full Text Available Abstract Background Bacillus cereus is a facultative anaerobe that causes diarrheal disease in humans. Diarrheal syndrome may result from the secretion of various virulence factors including hemolysin BL and nonhemolytic enterotoxin Nhe. Expression of genes encoding Hbl and Nhe is regulated by the two redox systems, ResDE and Fnr, and the virulence regulator PlcR. B. cereus Fnr is a member of the Crp/Fnr family of iron-sulfur (Fe-S proteins. Only its apo-form has so far been studied. A major goal in deciphering the Fnr-dependent regulation of enterotoxin genes is thus to obtain and characterize holoFnr. Results Fnr has been subjected to in vitro Fe-S cluster reconstitution under anoxic conditions. UV-visible and EPR spectroscopic analyses together with the chemical estimation of the iron content indicated that Fnr binds one [4Fe-4S]2+ cluster per monomer. Atmospheric O2 causes disassembly of the Fe-S cluster, which exhibited a half-life of 15 min in air. Holo- and apoFnr have similar affinities for the nhe and hbl promoter regions, while holoFnr has a higher affinity for fnr promoter region than apoFnr. Both the apo- and holo-form of Fnr interact with ResD and PlcR to form a ternary complex. Conclusions Overall, this work shows that incorporation of the [4Fe-4S]2+ cluster is not required for DNA binding of Fnr to promoter regions of hbl and nhe enterotoxin genes or for the formation of a ternary complex with ResD and PlcR. This points to some new unusual properties of Fnr that may have physiological relevance in the redox regulation of enterotoxin gene regulation.

  6. A de novo designed 2[4Fe-4S] ferredoxin mimic mediates electron transfer.

    Roy, Anindya; Sommer, Dayn Joseph; Schmitz, Robert Arthur; Brown, Chelsea Lynn; Gust, Devens; Astashkin, Andrei; Ghirlanda, Giovanna

    2014-12-10

    [Fe-S] clusters, nature's modular electron transfer units, are often arranged in chains that support long-range electron transfer. Despite considerable interest, the design of biomimetic artificial systems emulating multicluster-binding proteins, with the final goal of integrating them in man-made oxidoreductases, remains elusive. Here, we report a novel bis-[4Fe-4S] cluster binding protein, DSD-Fdm, in which the two clusters are positioned within a distance of 12 Å, compatible with the electronic coupling necessary for efficient electron transfer. The design exploits the structural repeat of coiled coils as well as the symmetry of the starting scaffold, a homodimeric helical protein (DSD). In total, eight hydrophobic residues in the core of DSD were replaced by eight cysteine residues that serve as ligands to the [4Fe-4S] clusters. Incorporation of two [4Fe-4S] clusters proceeds with high yield. The two [4Fe-4S] clusters are located in the hydrophobic core of the helical bundle as characterized by various biophysical techniques. The secondary structure of the apo and holo proteins is conserved; further, the incorporation of clusters results in stabilization of the protein with respect to chemical denaturation. Most importantly, this de novo designed protein can mimic the function of natural ferredoxins: we show here that reduced DSD-Fdm transfers electrons to cytochrome c, thus generating the reduced cyt c stoichiometrically. PMID:25437708

  7. Atomic structure of the DNA repair [4Fe-4S] enzyme endonuclease III.

    Kuo, C F; McRee, D E; Fisher, C L; O'Handley, S F; Cunningham, R P; Tainer, J A

    1992-10-16

    The crystal structure of the DNA repair enzyme endonuclease III, which recognizes and cleaves DNA at damaged bases, has been solved to 2.0 angstrom resolution with an R factor of 0.185. This iron-sulfur [4Fe-4S] enzyme is elongated and bilobal with a deep cleft separating two similarly sized domains: a novel, sequence-continuous, six-helix domain (residues 22 to 132) and a Greek-key, four-helix domain formed by the amino-terminal and three carboxyl-terminal helices (residues 1 to 21 and 133 to 211) together with the [4Fe-4S] cluster. The cluster is bound entirely within the carboxyl-terminal loop with a ligation pattern (Cys-X6-Cys-X2-Cys-X5-Cys) distinct from all other known [4Fe-4S] proteins. Sequence conservation and the positive electrostatic potential of conserved regions identify a surface suitable for binding duplex B-DNA across the long axis of the enzyme, matching a 46 angstrom length of protected DNA. The primary role of the [4Fe-4S] cluster appears to involve positioning conserved basic residues for interaction with the DNA phosphate backbone. The crystallographically identified inhibitor binding region, which recognizes the damaged base thymine glycol, is a seven-residue beta-hairpin (residues 113 to 119). Location and side chain orientation at the base of the inhibitor binding site implicate Glu112 in the N-glycosylase mechanism and Lys120 in the beta-elimination mechanism. Overall, the structure reveals an unusual fold and a new biological function for [4Fe-4S] clusters and provides a structural basis for studying recognition of damaged DNA and the N-glycosylase and apurinic/apyrimidinic-lyase mechanisms. PMID:1411536

  8. NMR of proteins (4Fe-4S): structural properties and intramolecular electron transfer; RMN de proteines (4Fe-4S): proprietes structurales et transfert electronique intramoleculaire

    Huber, J.G.

    1996-10-17

    NMR started to be applied to Fe-S proteins in the seventies. Its use has recently been enlarged as the problems arising from the paramagnetic polymetallic clusters ware overcome. Applications to [4Fe-4S] are presented herein. The information derived thereof deepens the understanding of the redox properties of these proteins which play a central role in the metabolism of bacterial cells. The secondary structure elements and the overall folding of Chromatium vinosum ferredoxin (Cv Fd) in solution have been established by NMR. The unique features of this sequence have been shown to fold as an {alpha} helix at the C-terminus and as a loop between two cysteines ligand of one cluster: these two parts localize in close proximity from one another. The interaction between nuclear and electronic spins is a source of additional structural information for (4Fe-AS] proteins. The conformation of the cysteine-ligands, as revealed by the Fe-(S{sub {gamma}}-C{sub {beta}}-H{sub {beta}})Cys dihedral angles, is related to the chemical shifts of the signals associated with the protons of these residues. The longitudinal relaxation times of the protons depend on their distance to the cluster. A quantitative relationship has been established and used to show that the solution structure of the high-potential ferredoxin from Cv differs significantly from the crystal structure around Phe-48. Both parameters (chemical shifts and longitudinal relaxation times) give also insight into the electronic and magnetic properties of the [4Fe-4S] clusters. The rate of intramolecular electron transfer between the two [4FE-4S] clusters of ferredoxins has been measured by NMR. It is far slower in the case of Cv Fd than for shorter ferredoxins. The difference may be associated with changes in the magnetic and/or electronic properties of one cluster. The strong paramagnetism of the [4Fe-4S] clusters, which originally limited the applicability of NMR to proteins containing these cofactors, has been proven

  9. NMR of proteins (4Fe-4S): structural properties and intramolecular electron transfer

    NMR started to be applied to Fe-S proteins in the seventies. Its use has recently been enlarged as the problems arising from the paramagnetic polymetallic clusters ware overcome. Applications to [4Fe-4S] are presented herein. The information derived thereof deepens the understanding of the redox properties of these proteins which play a central role in the metabolism of bacterial cells. The secondary structure elements and the overall folding of Chromatium vinosum ferredoxin (Cv Fd) in solution have been established by NMR. The unique features of this sequence have been shown to fold as an α helix at the C-terminus and as a loop between two cysteines ligand of one cluster: these two parts localize in close proximity from one another. The interaction between nuclear and electronic spins is a source of additional structural information for (4Fe-AS] proteins. The conformation of the cysteine-ligands, as revealed by the Fe-(Sγ-Cβ-Hβ)Cys dihedral angles, is related to the chemical shifts of the signals associated with the protons of these residues. The longitudinal relaxation times of the protons depend on their distance to the cluster. A quantitative relationship has been established and used to show that the solution structure of the high-potential ferredoxin from Cv differs significantly from the crystal structure around Phe-48. Both parameters (chemical shifts and longitudinal relaxation times) give also insight into the electronic and magnetic properties of the [4Fe-4S] clusters. The rate of intramolecular electron transfer between the two [4FE-4S] clusters of ferredoxins has been measured by NMR. It is far slower in the case of Cv Fd than for shorter ferredoxins. The difference may be associated with changes in the magnetic and/or electronic properties of one cluster. The strong paramagnetism of the [4Fe-4S] clusters, which originally limited the applicability of NMR to proteins containing these cofactors, has been proven instrumental in affording new

  10. Differentiated, Promoter-specific Response of [4Fe-4S] NsrR DNA Binding to Reaction with Nitric Oxide.

    Crack, Jason C; Svistunenko, Dimitri A; Munnoch, John; Thomson, Andrew J; Hutchings, Matthew I; Le Brun, Nick E

    2016-04-15

    NsrR is an iron-sulfur cluster protein that regulates the nitric oxide (NO) stress response of many bacteria. NsrR from Streptomyces coelicolor regulates its own expression and that of only two other genes, hmpA1 and hmpA2, which encode HmpA enzymes predicted to detoxify NO. NsrR binds promoter DNA with high affinity only when coordinating a [4Fe-4S] cluster. Here we show that reaction of [4Fe-4S] NsrR with NO affects DNA binding differently depending on the gene promoter. Binding to the hmpA2 promoter was abolished at ∼2 NO per cluster, although for the hmpA1 and nsrR promoters, ∼4 and ∼8 NO molecules, respectively, were required to abolish DNA binding. Spectroscopic and kinetic studies of the NO reaction revealed a rapid, multi-phase, non-concerted process involving up to 8-10 NO molecules per cluster, leading to the formation of several iron-nitrosyl species. A distinct intermediate was observed at ∼2 NO per cluster, along with two further intermediates at ∼4 and ∼6 NO. The NsrR nitrosylation reaction was not significantly affected by DNA binding. These results show that NsrR regulates different promoters in response to different concentrations of NO. Spectroscopic evidence indicates that this is achieved by different NO-FeS complexes. PMID:26887943

  11. Differentiated, Promoter-specific Response of [4Fe-4S] NsrR DNA Binding to Reaction with Nitric Oxide*

    Crack, Jason C.; Svistunenko, Dimitri A.; Munnoch, John; Thomson, Andrew J.; Hutchings, Matthew I.; Le Brun, Nick E.

    2016-01-01

    NsrR is an iron-sulfur cluster protein that regulates the nitric oxide (NO) stress response of many bacteria. NsrR from Streptomyces coelicolor regulates its own expression and that of only two other genes, hmpA1 and hmpA2, which encode HmpA enzymes predicted to detoxify NO. NsrR binds promoter DNA with high affinity only when coordinating a [4Fe-4S] cluster. Here we show that reaction of [4Fe-4S] NsrR with NO affects DNA binding differently depending on the gene promoter. Binding to the hmpA2 promoter was abolished at ∼2 NO per cluster, although for the hmpA1 and nsrR promoters, ∼4 and ∼8 NO molecules, respectively, were required to abolish DNA binding. Spectroscopic and kinetic studies of the NO reaction revealed a rapid, multi-phase, non-concerted process involving up to 8–10 NO molecules per cluster, leading to the formation of several iron-nitrosyl species. A distinct intermediate was observed at ∼2 NO per cluster, along with two further intermediates at ∼4 and ∼6 NO. The NsrR nitrosylation reaction was not significantly affected by DNA binding. These results show that NsrR regulates different promoters in response to different concentrations of NO. Spectroscopic evidence indicates that this is achieved by different NO-FeS complexes. PMID:26887943

  12. Structural principles for computational and de novo design of 4Fe-4S metalloproteins.

    Nanda, Vikas; Senn, Stefan; Pike, Douglas H; Rodriguez-Granillo, Agustina; Hansen, Will A; Khare, Sagar D; Noy, Dror

    2016-05-01

    Iron-sulfur centers in metalloproteins can access multiple oxidation states over a broad range of potentials, allowing them to participate in a variety of electron transfer reactions and serving as catalysts for high-energy redox processes. The nitrogenase FeMoCO cluster converts di-nitrogen to ammonia in an eight-electron transfer step. The 2(Fe4S4) containing bacterial ferredoxin is an evolutionarily ancient metalloprotein fold and is thought to be a primordial progenitor of extant oxidoreductases. Controlling chemical transformations mediated by iron-sulfur centers such as nitrogen fixation, hydrogen production as well as electron transfer reactions involved in photosynthesis are of tremendous importance for sustainable chemistry and energy production initiatives. As such, there is significant interest in the design of iron-sulfur proteins as minimal models to gain fundamental understanding of complex natural systems and as lead-molecules for industrial and energy applications. Herein, we discuss salient structural characteristics of natural iron-sulfur proteins and how they guide principles for design. Model structures of past designs are analyzed in the context of these principles and potential directions for enhanced designs are presented, and new areas of iron-sulfur protein design are proposed. This article is part of a Special issue entitled Biodesign for Bioenergetics - the design and engineering of electronic transfer cofactors, protein networks, edited by Ronald L. Koder and J.L Ross Anderson. PMID:26449207

  13. Spectroscopic and functional characterization of iron-sulfur cluster-bound forms of Azotobacter vinelandii (Nif)IscA.

    Mapolelo, Daphne T; Zhang, Bo; Naik, Sunil G; Huynh, Boi Hanh; Johnson, Michael K

    2012-10-16

    The mechanism of [4Fe-4S] cluster assembly on A-type Fe-S cluster assembly proteins, in general, and the specific role of (Nif)IscA in the maturation of nitrogen fixation proteins are currently unknown. To address these questions, in vitro spectroscopic studies (UV-visible absorption/CD, resonance Raman and Mössbauer) have been used to investigate the mechanism of [4Fe-4S] cluster assembly on Azotobacter vinelandii(Nif)IscA, and the ability of (Nif)IscA to accept clusters from NifU and to donate clusters to the apo form of the nitrogenase Fe-protein. The results show that (Nif)IscA can rapidly and reversibly cycle between forms containing one [2Fe-2S](2+) and one [4Fe-4S](2+) cluster per homodimer via DTT-induced two-electron reductive coupling of two [2Fe-2S](2+) clusters and O(2)-induced [4Fe-4S](2+) oxidative cleavage. This unique type of cluster interconversion in response to cellular redox status and oxygen levels is likely to be important for the specific role of A-type proteins in the maturation of [4Fe-4S] cluster-containing proteins under aerobic growth or oxidative stress conditions. Only the [4Fe-4S](2+)-(Nif)IscA was competent for rapid activation of apo-nitrogenase Fe protein under anaerobic conditions. Apo-(Nif)IscA was shown to accept clusters from [4Fe-4S] cluster-bound NifU via rapid intact cluster transfer, indicating a potential role as a cluster carrier for delivery of clusters assembled on NifU. Overall the results support the proposal that A-type proteins can function as carrier proteins for clusters assembled on U-type proteins and suggest that they are likely to supply [2Fe-2S] clusters rather than [4Fe-4S] for the maturation of [4Fe-4S] cluster-containing proteins under aerobic or oxidative stress growth conditions. PMID:23003323

  14. Spectroscopic and Functional Characterization of Iron-Sulfur Cluster-Bound Forms of Azotobacter vinelandii NifIscA†

    Mapolelo, Daphne T.; Zhang, Bo; Naik, Sunil G.; Huynh, Boi Hanh; Johnson, Michael K.

    2012-01-01

    The mechanism of [4Fe-4S] cluster assembly on A-type Fe-S cluster assembly proteins, in general, and the specific role of NifIscA in the maturation of nitrogen fixation proteins are currently unknown. To address these questions, in vitro spectroscopic studies (UV–visible absorption/CD, resonance Raman and Mössbauer) have been used to investigate the mechanism of [4Fe-4S] cluster assembly on Azotobacter vinelandii NifIscA, and the ability of NifIscA to accept clusters from NifU and to donat...

  15. The Assembly of Galaxy Clusters

    Berrier, Joel C.; Stewart, Kyle R.; Bullock, James S.; Purcell, Chris W.; Barton, Elizabeth J.; Wechsler, Risa H.

    2008-05-16

    We study the formation of fifty-three galaxy cluster-size dark matter halos (M = 10{sup 14.0-14.76} M{sub {circle_dot}}) formed within a pair of cosmological {Lambda}CDM N-body simulations, and track the accretion histories of cluster subhalos with masses large enough to host {approx} 0.1L{sub *} galaxies. By associating subhalos with cluster galaxies, we find the majority of galaxies in clusters experience no 'pre-processing' in the group environment prior to their accretion into the cluster. On average, {approx} 70% of cluster galaxies fall into the cluster potential directly from the field, with no luminous companions in their host halos at the time of accretion; and less than {approx} 12% are accreted as members of groups with five or more galaxies. Moreover, we find that cluster galaxies are significantly less likely to have experienced a merger in the recent past ({approx}< 6 Gyr) than a field halo of the same mass. These results suggest that local, cluster processes like ram-pressure stripping, galaxy harassment, or strangulation play the dominant role in explaining the difference between cluster and field populations at a fixed stellar mass; and that pre-evolution or past merging in the group environment is of secondary importance for setting cluster galaxy properties for most clusters. The accretion times for z = 0 cluster members are quite extended, with {approx} 20% incorporated into the cluster halo more than 7 Gyr ago and {approx} 20% within the last 2 Gyr. By comparing the observed morphological fractions in cluster and field populations, we estimate an approximate time-scale for late-type to early-type transformation within the cluster environment to be {approx} 6 Gyr.

  16. Fe-S Cluster Assembly Pathways in Bacteria

    Ayala-Castro, Carla; Saini, Avneesh; Outten, F. Wayne

    2008-01-01

    Summary: Iron-sulfur (Fe-S) clusters are required for critical biochemical pathways, including respiration, photosynthesis, and nitrogen fixation. Assembly of these iron cofactors is a carefully controlled process in cells to avoid toxicity from free iron and sulfide. Multiple Fe-S cluster assembly pathways are present in bacteria to carry out basal cluster assembly, stress-responsive cluster assembly, and enzyme-specific cluster assembly. Although biochemical and genetic characterization is ...

  17. Constraints on Assembly Bias from Galaxy Clustering

    Zentner, Andrew R.; Hearin, Andrew; Bosch, Frank C. van den; Lange, Johannes U.; Villarreal, Antonio

    2016-01-01

    We constrain the newly-introduced decorated Halo Occupation Distribution (HOD) model using SDSS DR7 measurements of projected galaxy clustering or r-band luminosity threshold samples. The decorated HOD is a model for the galaxy-halo connection that augments the HOD by allowing for the possibility of galaxy assembly bias: galaxy luminosity may be correlated with dark matter halo properties besides mass, Mvir. We demonstrate that it is not possible to rule out galaxy assembly bias using DR7 mea...

  18. Constraints on Assembly Bias from Galaxy Clustering

    Zentner, Andrew R; Bosch, Frank C van den; Lange, Johannes U; Villarreal, Antonio

    2016-01-01

    We constrain the newly-introduced decorated Halo Occupation Distribution (HOD) model using SDSS DR7 measurements of projected galaxy clustering or r-band luminosity threshold samples. The decorated HOD is a model for the galaxy-halo connection that augments the HOD by allowing for the possibility of galaxy assembly bias: galaxy luminosity may be correlated with dark matter halo properties besides mass, Mvir. We demonstrate that it is not possible to rule out galaxy assembly bias using DR7 measurements of galaxy clustering alone. Moreover, galaxy samples with Mr < -20 and Mr < -20.5 favor strong central galaxy assembly bias. These samples prefer scenarios in which high-concentration are more likely to host a central galaxy relative to low-concentration halos of the same mass. We exclude zero assembly bias with high significance for these samples. Satellite galaxy assembly bias is significant for the faintest sample, Mr < -19. We find no evidence for assembly bias in the Mr < -21 sample. Assembly bi...

  19. Nanophase materials assembled from clusters

    Siegel, R.W.

    1992-02-01

    The preparation of metal and ceramic atom clusters by means of the gas-condensation method, followed by their in situ collection and consolidation under high-vacuum conditions, has recently led to the synthesis of a new class of ultrafine-grained materials. These nanophase materials, with typical average grain sizes of 5 to 50 nm and, hence, a large fraction of their atoms in interfaces, exhibit properties that are often considerably improved relative to those of conventional materials. Furthermore, their synthesis and processing characteristics should enable the design of new materials with unique properties. Some examples are ductile ceramics that can be formed and sintered to full density at low temperatures without the need for binding or sintering aids, and metals with dramatically increased strength. The synthesis of these materials is briefly described along with what is presently known of their structure and properties. Their future impact on materials science and technology is also considered.

  20. SPINTRONICS IN CLUSTER-ASSEMBLED NANOSTRUCTURES

    Oyarzún, Simón

    2013-01-01

    In the last years, the progressive miniaturization of magnetic storage devices has imposed the necessity to understand how the physical properties are modi- ed with respect to the bulk when the dimensions are reduced at the nanometric scale. For this reason an accurate method of preparation and characterization of nanostructures is extremely important. This work focuses on the magnetic and transport properties of cluster-assembled nanostructures, namely cobalt nanoparticles embedded in copper...

  1. IscA, an alternate scaffold for Fe-S cluster biosynthesis.

    Krebs, C; Agar, J N; Smith, A D; Frazzon, J; Dean, D R; Huynh, B H; Johnson, M K

    2001-11-20

    An IscA homologue within the nif regulon of Azotobacter vinelandii, designated (Nif)IscA, was expressed in Escherichia coli and purified to homogeneity. Purified (Nif)IscA was found to be a homodimer of 11-kDa subunits that contained no metal centers or other prosthetic groups in its as-isolated form. Possible roles for (Nif)IscA in Fe-S cluster biosynthesis were assessed by investigating the ability to bind iron and to assemble Fe-S clusters in a NifS-directed process, as monitored by the combination of UV-vis absorption, Mössbauer, resonance Raman, variable-temperature magnetic circular dichroism, and EPR spectroscopies. Although (Nif)IscA was found to bind ferrous ion in a tetrahedral, predominantly cysteinyl-ligated coordination environment, the low-binding affinity argues against a specific role as a metallochaperone for the delivery of ferrous ion to other Fe-S cluster assembly proteins. Rather, a role for (Nif)IscA as an alternate scaffold protein for Fe-S cluster biosynthesis is proposed, based on the NifS-directed assembly of approximately one labile [4Fe-4S](2+) cluster per (Nif)IscA homodimer, via a transient [2Fe-2S](2+) cluster intermediate. The cluster assembly process was monitored temporally using UV-vis absorption and Mössbauer spectroscopy, and the intermediate [2Fe-2S](2+)-containing species was additionally characterized by resonance Raman spectroscopy. The Mössbauer and resonance Raman properties of the [2Fe-2S](2+) center are consistent with complete cysteinyl ligation. The presence of three conserved cysteine residues in all IscA proteins and the observed cluster stoichiometry of approximately one [2Fe-2S](2+) or one [4Fe-4S](2+) per homodimer suggest that both cluster types are subunit bridging. In addition, (Nif)IscA was shown to couple delivery of iron and sulfur by using ferrous ion to reduce sulfane sulfur. The ability of Fe-S scaffold proteins to couple the delivery of these two toxic and reactive Fe-S cluster precursors is likely to

  2. An ab initio design of cluster-assembled silicon nanotubes

    Guo, Lingju; Zheng, Xiaohong; Liu, Chunsheng; Zeng, Zhi

    2010-01-01

    Density functional calculations were performed to systematically study a series of finite and infinite cluster-assembled silicon nanotubes (SiNTs). One-dimensional SiNTs can be prepared by proper assembly of hydrogenated cage-like silicon clusters to form semiconductors with a large band gap, and their electronic properties can be accurately tuned by transition metal doping in the center of the tubes. Specifically, doping with Fe made the SiNTs metallic and magnetic materials. More interestin...

  3. Spectromicroscopy of self-assembled protein clusters

    Schonschek, O.; Hormes, J.; Herzog, V. [Univ. of Bonn (Germany)

    1997-04-01

    The aim of this project is to use synchrotron radiation as a tool to study biomedical questions concerned with the thyroid glands. The biological background is outlined in a recent paper. In short, Thyroglobulin (TG), the precursor protein of the hormone thyroxine, forms large (20 - 500 microns in diameter) clusters in the extracellular lumen of thyrocytes. The process of the cluster formation is still not well understood but is thought to be a main storage mechanism of TG and therefore thyroxine inside the thyroid glands. For human thyroids, the interconnections of the proteins inside the clusters are mainly disulfide bondings. Normally, sulfur bridges are catalyzed by an enzyme called Protein Disulfide Bridge Isomerase (PDI). While this enzyme is supposed to be not present in any extracellular space, the cluster formation of TG takes place in the lumen between the thyrocytes. A possible explanation is the autocatalysis of TG.

  4. DNA templates silver clusters with magic sizes and colors for multi-cluster fluorescent assemblies

    Copp, Stacy

    2015-03-01

    The natural inclusion of information in DNA, a vital part of life's rich complexity, can also be exploited to create diverse structures with multiple scales of complexity. Now emerging in novel photonic applications, DNA-stabilized silver clusters (AgN-DNA) are compelling examples of multi-scale DNA-directed assembly: individual fluorescent clusters, each templated by specific DNA base motifs, can then be arranged together in DNA-mediated multi-cluster assemblies with nanoscale precision. We discuss how DNA imbues AgN-DNA with unique features. Our optical data on pure AgN-DNA show that DNA base-cationic silver ligands impose rod-like shapes for neutral silver clusters, whose length primarily determines fluorescence color. This shape anisotropy leads to the aspherical AgN-DNA magic number cluster sizes and ``magic color'' groupings. We exploit DNA's sequence properties to extract multi-base motifs that select certain magic cluster sizes, using machine learning algorithms applied to large data sets. With these base motifs, we design DNA scaffolds to arrange multiple atomically precise AgN together in nanoscale proximity. We demonstrate that clusters are stable when held at separations below 10 nm, both in bicolor, dual cluster DNA clamp assemblies and in one-dimensional assemblies of atomically precise clusters arrayed on DNA nanotubes. Supported by NSF-CHE-1213895 and NSF-DMR-1309410. SMC acknowledges NSF-DGE-1144085, a NSF GRFP.

  5. ELECTRONIC STRUCTURE OF CLUSTER ASSEMBLED Al12C (Si) SOLID

    QUAN HONG-JUN; GONG XIN-GAO

    2000-01-01

    The electronic structures of the cluster-assembled solid Al12C (Si) are studied by the ab initio method. We find that Al12C (Si) can solidify into a van der Waals solid. The electronic band structures show very weak dispersion. The main features in the electronic structure of cluster are retained in the solid, and an energy gap up to about 1.5 eV is observed for Al12C and Al12Si solids.

  6. Evidence of Halo Assembly Bias in Massive Clusters

    Miyatake, Hironao; Takada, Masahiro; Spergel, David N; Mandelbaum, Rachel; Rykoff, Eli S; Rozo, Eduardo

    2015-01-01

    We present significant evidence of halo assembly bias for redMaPPer galaxy clusters in the redshift range $[0.1, 0.33]$. By dividing the 8,648 clusters into two subsamples based on the average member galaxy separation from the cluster center, we first show that the two subsamples have very similar halo mass of $M_{\\rm 200m}\\simeq 1.9\\times 10^{14}~h^{-1}M_\\odot$ based on the weak lensing signals at small radii $R<\\sim 10~h^{-1}{\\rm Mpc}$. However, their halo bias inferred from both the large-scale weak lensing and the projected auto-correlation functions differs by a factor of $\\sim$1.5, which is a signature of assembly bias. The same bias hypothesis for the two subsamples is excluded at 2.5$\\sigma$ in the weak lensing and 4.6$\\sigma$ in the auto-correlation data, respectively.

  7. Nanophase materials assembled from atomic clusters

    Siegel, R.W.

    1989-09-01

    The preparation of atomic clusters of metals and ceramics by means of the gas-condensation method, followed by their in situ consolidation under high-vacuum conditions, has recently led to the synthesis of a new class of ultrafine-grained materials for which their physics is intimately coupled with their application. These nanophase materials, with 2 to 20 nm grain sizes, appear to have properties that are often rather different from conventional materials, and also processing characteristics that are greatly improved. The nanophase synthesis method described here should enable the design of materials heretofore unavailable, with improved or unique properties, based upon an understanding of the physics of these new materials. 23 refs., 8 figs.

  8. Nanophase materials assembled from atomic clusters

    The preparation of atomic clusters of metals and ceramics by means of the gas-condensation method, followed by their in situ consolidation under high-vacuum conditions, has recently led to the synthesis of a new class of ultrafine-grained materials for which their physics is intimately coupled with their application. These nanophase materials, with 2 to 20 nm grain sizes, appear to have properties that are often rather different from conventional materials, and also processing characteristics that are greatly improved. The nanophase synthesis method described here should enable the design of materials heretofore unavailable, with improved or unique properties, based upon an understanding of the physics of these new materials. 23 refs., 8 figs

  9. Cluster Assembly in Hierarchically Collapsing Clouds

    Vazquez-Semadeni, Enrique; Zamora-Aviles, Manuel; Colin, Pedro

    2016-01-01

    We discuss the mechanism of cluster formation in hierarchically collapsing molecular clouds. Recent evidence, both observational and numerical, suggests that molecular clouds (MCs) may be undergoing global, hierarchical gravitational collapse. The "hierarchical" regime consists of small-scale collapses within larger-scale ones. The latter implies that the star formation rate increases systematically during the early stages of evolution, and occurs via filamentary flows onto "hubs" of higher density, mass, and velocity dispersion, and culminates a few Myr after than the small-scale collapses have started to form stars. In turn, the small-scale collapses occur in clumps embedded in the filaments, and are themselves falling into the larger potential well of the still-ongoing large-scale collapse. The stars formed in the early, small-scale collapses share the infall motion of their parent clumps towards the larger potential trough, so that the filaments feed both gaseous and stellar material to the hubs. This lea...

  10. Halo assembly bias and its effects on galaxy clustering

    Croton, D J; White, S D M; Croton, Darren J.; Gao, Liang; White, Simon D. M.

    2006-01-01

    The clustering of dark halos depends not only on their mass but also on their assembly history, a dependence we term `assembly bias'. Using a galaxy formation model grafted onto the Millennium Simulation of the LCDM cosmogony, we study how assembly bias affects galaxy clustering. We compare the original simulation to `shuffled' versions where the galaxy populations are randomly swapped among halos of similar mass, thus isolating the effects of correlations between assembly history and environment at fixed mass. Such correlations are ignored in the halo occupation distribution models often used populate dark matter simulations with galaxies, but they are significant in our more realistic simulation. Assembly bias enhances 2-point correlations by 10% for galaxies with M_bJ-5logh brighter than -17, but suppresses them by a similar amount for galaxies brighter than -20. When such samples are split by colour, assembly bias is 5% stronger for red galaxies and 5% weaker for blue ones. Halo central galaxies are diffe...

  11. Genetics Home Reference: myopathy with deficiency of iron-sulfur cluster assembly enzyme

    ... myopathy with deficiency of iron-sulfur cluster assembly enzyme Enable Javascript to view the expand/collapse boxes. ... Myopathy with deficiency of iron-sulfur cluster assembly enzyme is an inherited disorder that primarily affects muscles ...

  12. Stealth Amphiphiles: Self-Assembly of Polyhedral Boron Clusters.

    Ďorďovič, Vladimír; Tošner, Zdeněk; Uchman, Mariusz; Zhigunov, Alexander; Reza, Mehedi; Ruokolainen, Janne; Pramanik, Goutam; Cígler, Petr; Kalíková, Květa; Gradzielski, Michael; Matějíček, Pavel

    2016-07-01

    This is the first experimental evidence that both self-assembly and surface activity are common features of all water-soluble boron cluster compounds. The solution behavior of anionic polyhedral boranes (sodium decaborate, sodium dodecaborate, and sodium mercaptododecaborate), carboranes (potassium 1-carba-dodecaborate), and metallacarboranes {sodium [cobalt bis(1,2-dicarbollide)]} was extensively studied, and it is evident that all the anionic boron clusters form multimolecular aggregates in water. However, the mechanism of aggregation is dependent on size and polarity. The series of studied clusters spans from a small hydrophilic decaborate-resembling hydrotrope to a bulky hydrophobic cobalt bis(dicarbollide) behaving like a classical surfactant. Despite their pristine structure resembling Platonic solids, the nature of anionic boron cluster compounds is inherently amphiphilic-they are stealth amphiphiles. PMID:27287067

  13. Beyond Clusters: Supramolecular Networks Self-Assembled from Nanosized Silver Clusters and Inorganic Anions.

    Wang, Zhi; Li, Xiao-Yu; Liu, Li-Wei; Yu, Si-Qi; Feng, Zhen-Yu; Tung, Chen-Ho; Sun, Di

    2016-05-10

    Assembly of small clusters into rigid bodies with precise shape and symmetry has been witnessed by the significant advances in cluster-based metal-organic frameworks (MOFs), however, nanosized silver cluster based MOFs remain largely unexplored. Herein, two anion-templated silver clusters, CO3 @Ag20 and SO4 @Ag22 , were ingeniously incorporated into a 2D sql lattice (1, [CO3 @Ag20 (iPrS)10 (NO3 )8 (DMF)2 ]n ) and an unprecedented 3D two-fold interpenetrated dia network (2, [SO4 @Ag22 (iPrS)12 (NO3 )6 ⋅2 NO3 ]n ), respectively, under mild solvothermal conditions. Their atomically precise structures were confirmed by single-crystal X-ray diffraction analysis and further consolidated by IR spectroscopy, thermogravimetric analysis (TGA), and elemental analysis. Each drum-like CO3 @Ag20 cluster is extended by twelve NO3 (-) ions to form the 2D sql lattice of 1, whereas each ball-shaped SO4 @Ag22 cluster with a twisted truncated tetrahedral geometry is pillared by four [Ag6 (NO3 )3 ] triangular prisms to form the 3D interpenetrated dia network of 2. Notably, 2 is the first interpenetrated 3D MOF constructed from silver clusters. These results demonstrate the dual role of the anions, which not only internally act as anion templates to induce the formation of silver thiolate clusters but also externally extend the cluster units into the rigid networks. The photoluminescent and electrochemical properties of 2 are discussed in detail. PMID:27006096

  14. Appearance detection device for control rod cluster assembly

    A reactor control rod cluster assembly (RCCA) is suspended from above, and the appearance is monitored by TV cameras while inserting rods to guide holes of a base stand. The appearance of the entire circumference of the rods can be observed and monitored by mirrors disposed at the periphery of the rods, and images from four directions are taken by two TV cameras to make the monitoring device compact and inexpensive. If the base stand has upper and lower two stages, and the guide holes having mirrors and guide holes having no mirrors are arranged in a point of symmetry, the appearance of all the rods can be observed and monitored only by rotating the RCCA by 180deg and inserting it to the base stand twice. (N.H.)

  15. Tail tip proteins related to bacteriophage λ gpL coordinate an iron-sulphur cluster

    Tam, William; Pell, Lisa G.; Bona, Diane; Tsai, Alex; Dai, Xiao Xian; Edwards, Aled M.; Hendrix, Roger W.; Maxwell, Karen L.; Davidson, Alan R.

    2014-01-01

    The assembly of long non-contractile phage tails begins with the formation of the tail tip complex. Tail tip complexes are multi-functional protein structures that mediate host cell adsorption and genome injection. The tail tip complex of phage λ is assembled from multiple copies of eight different proteins, including gpL. Purified preparations of gpL and several homologues all displayed a distinct reddish colour, suggesting the binding of iron by these proteins. Further characterization the gpL homologue from phage N15, which was most amenable to in vitro analyses, showed that it contains two domains. The C-terminal domain was demonstrated to coordinate an iron-sulphur cluster, providing the first example of a viral structural protein binding to this type of metal group. We characterized the iron-sulphur cluster using inductively coupled plasma-atomic emission spectroscopy, absorbance spectroscopy, and electron paramagnetic resonance spectroscopy and found that it is an oxygen-sensitive [4Fe-4S]2+ cluster. Four highly conserved cysteine residues were shown to be required for coordinating the iron-sulphur cluster, and substitution of any of these Cys residues with Ser or Ala within the context of λ gpL abolished biological activity. These data imply that the intact iron-sulphur cluster is required for function. The presence of four conserved Cys residues in the C-terminal regions of very diverse gpL homologues suggest that utilization of an iron-sulphur cluster is a widespread feature of non-contractile tailed phages that infect Gram-negative bacteria. In addition, this is the first example of a viral structural protein that binds an iron-sulphur cluster. PMID:23542343

  16. Enhanced ferromagnetism of cluster-assembled BiFeO{sub 3} nanostructured films

    Zhao, Shifeng, E-mail: zhsf@imu.edu.cn [School of Physical Science and Technology, Inner Mongolia University, Hohhot 010021 (China); Inner Mongolia Key Lab of Nanoscience and Nanotechnology, Inner Mongolia University, Hohhot 010021 (China); Ma, Zhen; Xing, Wenyu; Ma, Yinina; Bai, Alima; Yun, Qi; Chen, Jieyu [School of Physical Science and Technology, Inner Mongolia University, Hohhot 010021 (China)

    2014-11-03

    Cluster-assembled BiFeO{sub 3} nanostructured films were prepared using low-energy cluster beam deposition method with our homemade cluster apparatus. It is shown that the nanostructured films are perovskite structure and assembled uniformly and compactly with monodisperse spherical clusters with average diameter of ∼ 22 nm. The enhanced ferromagnetism is observed for the as-prepared films, which is attributed to the uncompensated surface spins and the release of the latent magnetization locked within the cycloid induced by the size effect of the clusters with the smaller characteristic size than the long-range cycloid order of 62 nm. The present work provides a way on enhancing ferromagnetism of single-phase multiferroics. - Highlights: • Well-defined BiFeO{sub 3} nanostructured films were assembled with 0-dimension clusters. • Noticeably enhanced ferromagnetism is observed for the cluster-assembled BiFeO{sub 3} films. • BiFeO{sub 3} films were assembled with nearly spherical and densely packed nanoparticles.

  17. Critical experiments for BWR fuel assemblies with cluster of gadolinia rods

    Gadolinia-bearing fuel rods are needed for high-burnup fuels. Strong neutron absorption of gadolinia makes an assembly heterogeneous from the viewpoint of reactor physics. The cluster of gadolinia-bearing fuel rods is useful for higher-burnup fuels than current fuels. Few critical experiments have been reported for fuel assemblies with the cluster of gadolinia-bearing fuel rods. We conducted critical experiments for BWR fuel assemblies with the cluster of gadolinia-bearing fuel rods in the Toshiba Nuclear Critical Assembly (NCA). Critical water level and power distribution were measured. Measurements were compared with analyses by a continuous-energy Monte Carlo code, MCNP, with the JENDL3.3 nuclear data library. (author)

  18. Cobalt cluster-assembled thin films deposited by low energy cluster beam deposition: Structural and magnetic investigations of deposited layers

    Cobalt cluster-assembled thin films were deposited on amorphous-carbon-coated copper grids and on silicon substrates at room temperature by low energy cluster beam deposition. Characterizations using high-resolution transmission electronic microscopy and atomic force microscopy reveal randomly stacked agglomerates of 9-11 nm diameter, which are themselves composed of small 3.6 nm diameter fcc cobalt clusters. The films are ferromagnetic up to room temperature and above, which implies that the clusters are exchange coupled. The approach to saturation is analyzed within the random anisotropy model. The values of the exchange coefficient A and the anisotropy constant K then derived are discussed. The temperature dependence of the coercivity below 100 K is discussed in terms of thermal activation effects. All results indicate that the fundamental entity governing the magnetic behaviors is constituted by the 9-11 nm diameter agglomerates rather than by the clusters themselves

  19. Galaxy and Mass Assembly (GAMA): Projected Galaxy Clustering

    Farrow, D J; Norberg, Peder; Metcalfe, N; Baldry, I; Bland-Hawthorn, Joss; Brown, Michael J I; Hopkins, A M; Lacey, Cedric G; Liske, J; Loveday, Jon; Palamara, David P; Robotham, A S G; Sridhar, Srivatsan

    2015-01-01

    We measure the projected 2-point correlation function of galaxies in the 180 deg$^2$ equatorial regions of the GAMA II survey, for four different redshift slices between z = 0.0 and z=0.5. To do this we further develop the Cole (2011) method of producing suitable random catalogues for the calculation of correlation functions. We find that more r-band luminous, more massive and redder galaxies are more clustered. We also find that red galaxies have stronger clustering on scales less than ~3 $h^{-1}$ Mpc. We compare to two different versions of the GALFORM galaxy formation model, Lacey et al (in prep.) and Gonzalez-Perez et al. (2014), and find that the models reproduce the trend of stronger clustering for more massive galaxies. However, the models under predict the clustering of blue galaxies, can incorrectly predict the correlation function on small scales and under predict the clustering in our sample of galaxies with ~3$L_r$ . We suggest possible avenues to explore to improve these cluster- ing predictions....

  20. Designed Assembly of Heterometallic Cluster Organic Frameworks Based on Anderson-Type Polyoxometalate Clusters.

    Li, Xin-Xiong; Wang, Yang-Xin; Wang, Rui-Hu; Cui, Cai-Yan; Tian, Chong-Bin; Yang, Guo-Yu

    2016-05-23

    A new approach to prepare heterometallic cluster organic frameworks has been developed. The method was employed to link Anderson-type polyoxometalate (POM) clusters and transition-metal clusters by using a designed rigid tris(alkoxo) ligand containing a pyridyl group to form a three-fold interpenetrated anionic diamondoid structure and a 2D anionic layer, respectively. This technique facilitates the integration of the unique inherent properties of Anderson-type POM clusters and cuprous iodide clusters into one cluster organic framework. PMID:27061042

  1. Fabrication of comblike nanostructures using self-assembled cluster arrays of molybdenum oxides

    Okada, Arifumi; Yoshimura, Masamichi; Ueda, Kazuyuki

    2007-05-01

    Self-assembled cluster arrays formed at the initial stage of Mo(110) oxidation and subsequent fabrication of comblike structures have been studied by scanning tunneling microscopy. After 180L oxygen exposure, large protrusions are arranged as self-assembly along the [1¯13] or [11¯3] direction. The average diameter and height of each protrusion are estimated to be approximately 0.8 and 0.15-0.2nm, which correspond to the sizes of clusters of several atoms. The cluster arrays correspond to the MoO3 nucleation at the antiphase boundaries of the MoO2 surface. After thermal evaporation of the cluster arrays, comblike step structures consisting of narrow branches and trenches are obtained.

  2. Moessbauer studies of frataxin role in iron-sulfur cluster assembly and dysfunction-related disease

    Garcia-Serres, Ricardo [Universite Joseph Fourier (France); Clemancey, Martin [CNRS, UMR5249 (France); Oddou, Jean-Louis [Universite Joseph Fourier (France); Pastore, Annalisa [Medical Research Council National Institute for Medical Research (United Kingdom); Lesuisse, Emmanuel [Laboratoire Mitochondries, Metaux et Stress oxydant, Institut Jacques Monod, CNRS-Universite Paris (France); Latour, Jean-Marc, E-mail: jean-marc.latour@cea.fr [CEA, iRTSV, LCBM (France)

    2012-03-15

    Friedreich ataxia is a disease that is associated with defects in the gene coding for a small protein frataxin. Several different roles have been proposed for the protein, including iron chaperoning and iron storage. Moessbauer spectroscopy was used to probe these hypotheses. Iron accumulation in mutant mitochondria unable to assemble iron sulfur clusters proved to be insensitive to overexpression of frataxin, ruling out its potential involvement as an iron storage protein similar to ferritin. Rather, it was found that frataxin negatively regulates iron sulfur cluster assembly.

  3. THE XMM CLUSTER SURVEY: THE STELLAR MASS ASSEMBLY OF FOSSIL GALAXIES

    This paper presents both the result of a search for fossil systems (FSs) within the XMM Cluster Survey and the Sloan Digital Sky Survey and the results of a study of the stellar mass assembly and stellar populations of their fossil galaxies. In total, 17 groups and clusters are identified at z 200, as much as 85%, compared to the non-fossils, which can have as little as 10%. Our results suggest that FSs formed early and in the highest density regions of the universe and that fossil galaxies represent the end products of galaxy mergers in groups and clusters.

  4. Detection of the Splashback Radius and Halo Assembly Bias of Massive Galaxy Clusters

    More, Surhud; Miyatake, Hironao; Takada, Masahiro; Diemer, Benedikt; Kravtsov, Andrey V.; Dalal, Neal K.; More, Anupreeta; Murata, Ryoma; Mandelbaum, Rachel; Rozo, Eduardo; Rykoff, Eli S.; Oguri, Masamune; Spergel, David N.

    2016-07-01

    We show that the projected number density profiles of Sloan Digital Sky Survey photometric galaxies around galaxy clusters display strong evidence for the splashback radius, a sharp halo edge corresponding to the location of the first orbital apocenter of satellite galaxies after their infall. We split the clusters into two subsamples with different mean projected radial distances of their members, , at fixed richness and redshift. The sample with smaller has a smaller ratio of the splashback radius to the traditional halo boundary {R}{{200m}} than the subsample with larger , indicative of different mass accretion rates for these subsamples. The same subsamples were recently used by Miyatake et al. to show that their large-scale clustering differs despite their similar weak lensing masses, demonstrating strong evidence for halo assembly bias. We expand on this result by presenting a 6.6σ difference in the clustering amplitudes of these samples using cluster–photometric galaxy cross-correlations. This measurement is a clear indication that halo clustering depends on parameters other than halo mass. If is related to the mass assembly history of halos, the measurement is a manifestation of the halo assembly bias. However, our measured splashback radii are smaller, while the strength of the assembly bias signal is stronger, than the predictions of collisionless Λ cold dark matter simulations. We show that dynamical friction, cluster mis-centering, or projection effects are not likely to be the sole source of these discrepancies. However, further investigations regarding unknown catastrophic weak lensing or cluster identification systematics are warranted.

  5. Crystal structure of an Fe-S cluster-containing fumarate hydratase enzyme from Leishmania major reveals a unique protein fold.

    Feliciano, Patricia R; Drennan, Catherine L; Nonato, M Cristina

    2016-08-30

    Fumarate hydratases (FHs) are essential metabolic enzymes grouped into two classes. Here, we present the crystal structure of a class I FH, the cytosolic FH from Leishmania major, which reveals a previously undiscovered protein fold that coordinates a catalytically essential [4Fe-4S] cluster. Our 2.05 Å resolution data further reveal a dimeric architecture for this FH that resembles a heart, with each lobe comprised of two domains that are arranged around the active site. Besides the active site, where the substrate S-malate is bound bidentate to the unique iron of the [4Fe-4S] cluster, other binding pockets are found near the dimeric enzyme interface, some of which are occupied by malonate, shown here to be a weak inhibitor of this enzyme. Taken together, these data provide a framework both for investigations of the class I FH catalytic mechanism and for drug design aimed at fighting neglected tropical diseases. PMID:27528683

  6. The Effects of Halo Assembly Bias on Self-Calibration in Galaxy Cluster Surveys

    Wu, Hao-Yi; Rozo, Eduardo; Wechsler, Risa H.

    2008-08-07

    Self-calibration techniques for analyzing galaxy cluster counts utilize the abundance and the clustering amplitude of dark matter halos. These properties simultaneously constrain cosmological parameters and the cluster observable-mass relation. It was recently discovered that the clustering amplitude of halos depends not only on the halo mass, but also on various secondary variables, such as the halo formation time and the concentration; these dependences are collectively termed 'assembly bias'. Applying modified Fisher matrix formalism, we explore whether these secondary variables have a significant impact on the study of dark energy properties using the self-calibration technique in current (SDSS) and the near future (DES, SPT, and LSST) cluster surveys. The impact of the secondary dependence is determined by (1) the scatter in the observable-mass relation and (2) the correlation between observable and secondary variables. We find that for optical surveys, the secondary dependence does not significantly influence an SDSS-like survey; however, it may affect a DES-like survey (given the high scatter currently expected from optical clusters) and an LSST-like survey (even for low scatter values and low correlations). For an SZ survey such as SPT, the impact of secondary dependence is insignificant if the scatter is 20% or lower but can be enhanced by the potential high scatter values introduced by a highly-correlated background. Accurate modeling of the assembly bias is necessary for cluster self-calibration in the era of precision cosmology.

  7. Molecular Details of the Yeast Frataxin-Isu1 Interaction during Mitochondrial Fe-S Cluster Assembly

    Cook, J.; Kondapalli, K; Rawat, S; Childs, W; Murugesan, Y; Dancis, A; Stemmler, T

    2010-01-01

    Frataxin, a conserved nuclear-encoded mitochondrial protein, plays a direct role in iron-sulfur cluster biosynthesis within the ISC assembly pathway. Humans with frataxin deficiency have Friedreich's ataxia, a neurodegenerative disorder characterized by mitochondrial iron overload and disruption in Fe-S cluster synthesis. Biochemical and genetic studies have shown frataxin interacts with the iron-sulfur cluster assembly scaffold protein (in yeast, there are two, Isu1 and Isu2), indicating frataxin plays a direct role in cluster assembly, possibly by serving as an iron chaperone in the assembly pathway. Here we provide molecular details of how yeast frataxin (Yfh1) interacts with Isu1 as a structural module to improve our understanding of the multiprotein complex assembly that completes Fe-S cluster assembly; this complex also includes the cysteine desulfurase (Nfs1 in yeast) and the accessory protein (Isd11), together in the mitochondria. Thermodynamic binding parameters for protein partner and iron binding were measured for the yeast orthologs using isothermal titration calorimetry. Nuclear magnetic resonance spectroscopy was used to provide the molecular details to understand how Yfh1 interacts with Isu1. X-ray absorption studies were used to electronically and structurally characterize how iron is transferred to Isu1 and then incorporated into an Fe-S cluster. These results were combined with previously published data to generate a structural model for how the Fe-S cluster protein assembly complex can come together to accomplish Fe-S cluster assembly.

  8. Ionic self-assembly affords mesoporous ionic networks by crosslinking linear polyviologens with polyoxometalate clusters.

    Chen, Guojian; Hou, Wei; Li, Jing; Wang, Xiaochen; Zhou, Yu; Wang, Jun

    2016-03-21

    Ionic-bonded mesoporous ionic networks were prepared by the ionic self-assembly of polyoxometalate (POM) clusters with linear cationic polyviologens in water. The POM-enriched PMIN-2(V) possesses a high surface area up to 120 m(2) g(-1), exhibiting superior non-noble metal heterogeneous catalytic performance in the ambient aerobic selective oxidation of 5-hydroxymethylfurfural. PMID:26898883

  9. Multistep assembly of DNA condensation clusters by SMC.

    Kim, HyeongJun; Loparo, Joseph J

    2016-01-01

    SMC (structural maintenance of chromosomes) family members play essential roles in chromosome condensation, sister chromatid cohesion and DNA repair. It remains unclear how SMCs structure chromosomes and how their mechanochemical cycle regulates their interactions with DNA. Here we used single-molecule fluorescence microscopy to visualize how Bacillus subtilis SMC (BsSMC) interacts with flow-stretched DNAs. We report that BsSMC can slide on DNA, switching between static binding and diffusion. At higher concentrations, BsSMCs form clusters that condense DNA in a weakly ATP-dependent manner. ATP increases the apparent cooperativity of DNA condensation, demonstrating that BsSMC can interact cooperatively through their ATPase head domains. Consistent with these results, ATPase mutants compact DNA more slowly than wild-type BsSMC in the presence of ATP. Our results suggest that transiently static BsSMC molecules can nucleate the formation of clusters that act to locally condense the chromosome while forming long-range DNA bridges. PMID:26725510

  10. Stepwise Assembly and Characterization of DNA Linked Two-Color Quantum Dot Clusters.

    Coopersmith, Kaitlin; Han, Hyunjoo; Maye, Mathew M

    2015-07-14

    The DNA-mediated self-assembly of multicolor quantum dot (QD) clusters via a stepwise approach is described. The CdSe/ZnS QDs were synthesized and functionalized with an amphiphilic copolymer, followed by ssDNA conjugation. At each functionalization step, the QDs were purified via gradient ultracentrifugation, which was found to remove excess polymer and QD aggregates, allowing for improved conjugation yields and assembly reactivity. The QDs were then assembled and disassembled in a stepwise manner at a ssDNA functionalized magnetic colloid, which provided a convenient way to remove unreacted QDs and ssDNA impurities. After assembly/disassembly, the clusters' optical characteristics were studied by fluorescence spectroscopy and the assembly morphology and stoichiometry was imaged via electron microscopy. The results indicate that a significant amount of QD-to-QD energy transfer occurred in the clusters, which was studied as a function of increasing acceptor-to-donor ratios, resulting in increased QD acceptor emission intensities compared to controls. PMID:26086169

  11. CAUGHT IN THE ACT: THE ASSEMBLY OF MASSIVE CLUSTER GALAXIES AT z = 1.62

    We present the recent merger history of massive galaxies in a spectroscopically confirmed proto-cluster at z = 1.62. Using Hubble Space Telescope WFC3 near-infrared imaging from the Cosmic Assembly Near-infrared Deep Extragalactic Legacy Survey, we select cluster and z ∼ 1.6 field galaxies with Mstar ≥ 3 × 1010 M☉, to determine the frequency of double nuclei or close companions within projected separations less than 20 kpc co-moving. We find that four out of five spectroscopically confirmed massive proto-cluster galaxies have double nuclei, and 57 +13-14% of all Mstar ≥ 3 × 1010 M☉ cluster candidates are observed in either close pair systems or have double nuclei. In contrast, only 11% ± 3% of the field galaxies are observed in close pair/double nuclei systems. After correcting for the contribution from random projections, the implied merger rate per massive galaxy in the proto-cluster is ∼3-10 times higher than the merger rate of massive field galaxies at z ∼ 1.6. Close pairs in the cluster have minor merger stellar mass ratios (Mprimary: Msatellite ≥ 4), while the field pairs consist of both major and minor mergers. At least half of the cluster mergers are gas-poor, as indicated by their red colors and low 24 μm fluxes. Two of the double-nucleated cluster members have X-ray detected active galactic nuclei with Lx > 1043 erg s–1, and are strong candidates for dual or offset super-massive black holes. We conclude that the massive z = 1.62 proto-cluster galaxies are undergoing accelerated assembly via minor mergers, and discuss the implications for galaxy evolution in proto-cluster environments

  12. The effects of assembly bias on cosmological inference from galaxy-galaxy lensing and galaxy clusters

    McEwen, Joseph E

    2016-01-01

    The combination of galaxy-galaxy lensing (GGL) and galaxy clustering is a promising route to measuring the amplitude of matter clustering and testing modified gravity theories of cosmic acceleration. Halo occupation distribution (HOD) modeling can extend the approach down to nonlinear scales, but galaxy assembly bias could introduce systematic errors by causing the HOD to vary with large scale environment at fixed halo mass. We investigate this problem using the mock galaxy catalogs created by Hearin & Watson (2013, HW13), which exhibit significant assembly bias because galaxy luminosity is tied to halo peak circular velocity and galaxy colour is tied to halo formation time. The preferential placement of galaxies (especially red galaxies) in older halos affects the cutoff of the mean occupation function $\\langle N_\\text{cen}(M_\\text{min}) \\rangle$ for central galaxies, with halos in overdense regions more likely to host galaxies. The effect of assembly bias on the satellite galaxy HOD is minimal. We intro...

  13. Synthesis of LECBD grown cluster assembled SeO{sub 2} thin films

    Rath, S. [Institute of Physics, Sachivalaya Marg, Bhubaneswar-751 005 (India); Das, K. [Indian Institute of Technology, Kharagpur-721302 (India); Sarangi, S.N. [Institute of Physics, Sachivalaya Marg, Bhubaneswar-751 005 (India); Dash, A.K. [Institute of Physics, Sachivalaya Marg, Bhubaneswar-751 005 (India); Ray, S.K. [Indian Institute of Technology, Kharagpur-721302 (India); Sahu, S.N. [Institute of Physics, Sachivalaya Marg, Bhubaneswar-751 005 (India)]. E-mail: sahu@iopb.res.in

    2006-12-15

    Cluster assembled selenium oxide (SeO{sub 2}) thin films, as a function of oxygen flow pressure (OFP) have been synthesized by a low energy cluster beam deposition (LECBD) technique. The OFP dependent surface morphology leading to well separated nanoclusters (size ranging from 50 to 200 nm) and fractal features are confirmed from transmission electron microscopic (TEM) measurements. A diffusion limited aggregation (DLA) mediated fractal growth with dimension as 1.71 {+-} 0.01 has been observed for high OFP (60 mbar). Structural analysis by glancing angle X-ray diffraction (GXRD) and selected area diffraction (SAD) studies identify the presence of tetragonal phase SeO{sub 2} in the deposit. Micro-Raman studies indicate the shifts in bending and stretching vibrational phonon modes in cluster assembled SeO{sub 2} as compared to their bulk counter part due to the phonon confinement effect.

  14. Synthesis of LECBD grown cluster assembled SeO 2 thin films

    Rath, S.; Das, K.; Sarangi, S. N.; Dash, A. K.; Ray, S. K.; Sahu, S. N.

    2006-12-01

    Cluster assembled selenium oxide (SeO 2) thin films, as a function of oxygen flow pressure (OFP) have been synthesized by a low energy cluster beam deposition (LECBD) technique. The OFP dependent surface morphology leading to well separated nanoclusters (size ranging from 50 to 200 nm) and fractal features are confirmed from transmission electron microscopic (TEM) measurements. A diffusion limited aggregation (DLA) mediated fractal growth with dimension as 1.71 ± 0.01 has been observed for high OFP (60 mbar). Structural analysis by glancing angle X-ray diffraction (GXRD) and selected area diffraction (SAD) studies identify the presence of tetragonal phase SeO 2 in the deposit. Micro-Raman studies indicate the shifts in bending and stretching vibrational phonon modes in cluster assembled SeO 2 as compared to their bulk counter part due to the phonon confinement effect.

  15. Selective self-assembly of molecular clusters with designed sizes on metal surfaces

    Wang, Jun; Li, Qing; Fuentes-Cabrera, Miguel; Sumpter, Bobby G.; Baddorf, Arthur P.; Pan, Minghu

    2014-03-01

    The self-assembly of ``magic'' molecular clusters on various substrates provides a new arena for studies of surface nanocatalysis and molecular electronics. Here we present the self-assembly of phenylacetylene molecules on Cu(100) by a combined low-temperature STM and in-depth density functional theory investigation. We observe the molecules form distinct tetramer clusters on Cu(100) at 40 K. Each cluster has a four-fold symmetry and consists of four molecules. A delicate balance of intramolecular and dipole-dipole interactions between clusters maintains this magic tetramer configuration on Cu(100). The strong interaction between the molecules and the copper surface creates an anchor at each adsorption site. Through comparison with our previous observed hexamer (six-molecule) clusters on Au(111), we conclude that the epitaxial relationship between the molecules and metal surfaces is crucial in defining magic numbers of surface-supported molecular clusters under weak intermolecular interaction. This research was conducted at the Center for Nanophase Materials Sciences, which is sponsored at Oak Ridge National Laboratory by the Scientific User Facilities Division, Office of Basic Energy Sciences, U.S. Department of Energy.

  16. Globular clusters as tracers of the halo assembly of nearby central cluster galaxies

    Hilker, Michael

    2015-01-01

    The properties of globular cluster systems (GCSs) in the core of the nearby galaxy clusters Fornax and Hydra I are presented. In the Fornax cluster we have gathered the largest radial velocity sample of a GCS system so far, which enables us to identify photometric and kinematic sub-populations around the central galaxy NGC 1399. Moreover, ages, metallicities and [alpha/Fe] abundances of a sub-sample of 60 bright globular clusters (GCs) with high S/N spectroscopy show a multi-modal distribution in the correlation space of these three parameters, confirming heterogeneous stellar populations in the halo of NGC 1399. In the Hydra I cluster very blue GCs were identified. They are not uniformly distributed around the central galaxies. 3-color photometry including the U-band reveals that some of them are of intermediate age. Their location coincides with a group of dwarf galaxies under disruption. This is evidence of a structurally young stellar halo 'still in formation', which is also supported by kinematic measure...

  17. Studies on the Iron-Sulfur clusters of hydrogenase, sulfite reductase, nitrogenase and the prismane protein.

    Pierik, A.J.

    1993-01-01

    Iron-sulfur clusters are present in a large number of proteins. Sofar structures of four types of protein-bound iron-sulfur clusters have been determined by X-ray diffraction: rubredoxin-like, [2Fe-2S], [3Fe-4S] and [4Fe-4S] centers. The presence of any of these clusters in a protein can be predicted by comparison of spectroscopic properties. However a number of multiple-electron transferring enzymes, like the Fe-only hydrogenase, sulfite reductase and nitrogenase MoFe protein have enigmatic ...

  18. Galaxy Luminosity Function of Dynamically Young Abell 119 Cluster: Probing the Cluster Assembly

    Lee, Youngdae; Hilker, Michael; Sheen, Yun-Kyeong; Yi, Sukyoung K

    2016-01-01

    We present the galaxy luminosity function (LF) of the Abell 119 cluster down to $M_r\\sim-14$ mag based on deep images in the $u$-, $g$-, and $r$-bands taken by using MOSAIC II CCD mounted on the Blanco 4m telescope at the CTIO. The cluster membership was accurately determined based on the radial velocity information as well as on the color-magnitude relation for bright galaxies and the scaling relation for faint galaxies. The overall LF exhibits a bimodal behavior with a distinct dip at $r\\sim18.5$ mag ($M_r\\sim-17.8$ mag), which is more appropriately described by a two-component function. The shape of the LF strongly depends on the cluster-centric distance and on the local galaxy density. The LF of galaxies in the outer, low-density region exhibits a steeper slope and more prominent dip compared with that of counterparts in the inner, high-density region. We found evidence for a substructure in the projected galaxy distribution in which several overdense regions in the Abell 119 cluster appear to be closely ...

  19. Cluster-assembled cubic zirconia films with tunable and stable nanoscale morphology against thermal annealing

    Borghi, F.; Sogne, E.; Lenardi, C.; Podestà, A.; Merlini, M.; Ducati, C.; Milani, P.

    2016-08-01

    Nanostructured zirconium dioxide (zirconia) films are very promising for catalysis and biotechnological applications: a precise control of the interfacial properties of the material at different length scales and, in particular, at the nanoscale, is therefore necessary. Here, we present the characterization of cluster-assembled zirconia films produced by supersonic cluster beam deposition possessing cubic structure at room temperature and controlled nanoscale morphology. We characterized the effect of thermal annealing in reducing and oxidizing conditions on the crystalline structure, grain dimensions, and topography. We highlight the mechanisms of film growth and phase transitions, which determine the observed interfacial morphological properties and their resilience against thermal treatments.

  20. The XMM Cluster Survey: The Stellar Mass Assembly of Fossil Galaxies

    Harrison, Craig D; Richards, Joseph W; Lloyd-Davies, E J; Hoyle, Ben; Romer, A Kathy; Mehrtens, Nicola; Hilton, Matt; Stott, John P; Capozzi, Diego; Collins, Chris A; Deadman, Paul-James; Liddle, Andrew R; Sahlén, Martin; Stanford, S Adam; Viana, Pedro T P

    2012-01-01

    This paper presents both the result of a search for fossil systems within the XMM Cluster Survey and the Sloan Digital Sky Survey and the results of a study of the stellar mass assembly and stellar populations of their fossil galaxies. In total, 17 groups and clusters are identified at z < 0.25 with large magnitude gaps between the first and fourth brightest galaxies. All the information necessary to classify these systems as fossils is provided. For both groups and clusters, the total and fractional luminosity of the brightest galaxy are positively correlated with the magnitude gap. The brightest galaxies in fossil systems (called fossil galaxies) have stellar populations and star-formation histories which are similar to normal brightest cluster galaxies. However, at fixed group/cluster mass, the stellar masses of the fossil galaxies are larger compared to normal brightest cluster galaxies, a fact that holds true over a wide range of group/cluster masses. Moreover, the fossil galaxies are found to contain...

  1. Assembling the Streptococcus thermophilus clustered regularly interspaced short palindromic repeats (CRISPR) array for multiplex DNA targeting.

    Guo, Lijun; Xu, Kun; Liu, Zhiyuan; Zhang, Cunfang; Xin, Ying; Zhang, Zhiying

    2015-06-01

    In addition to the advantages of scalable, affordable, and easy to engineer, the clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein (Cas) technology is superior for multiplex targeting, which is laborious and inconvenient when achieved by cloning multiple gRNA expressing cassettes. Here, we report a simple CRISPR array assembling method which will facilitate multiplex targeting usage. First, the Streptococcus thermophilus CRISPR3/Cas locus was cloned. Second, different CRISPR arrays were assembled with different crRNA spacers. Transformation assays using different Escherichia coli strains demonstrated efficient plasmid DNA targeting, and we achieved targeting efficiency up to 95% with an assembled CRISPR array with three crRNA spacers. PMID:25748774

  2. Studies of cluster-assembled materials: From gas phase to condensed phase

    Gao, Lin

    . After being mass gated in a reflectron equipped time-of-flight mass spectrometer (TOF-MS) and deposited onto TEM grids, the resultant specimens can be loaded onto high-resolution TEM investigation via electron diffraction. In conclusion, soft-landing of mass selected clusters has been shown to be a successful approach to obtain structural information on Zr-Met-Car cluster-assembled materials collected from the gas phase. TEM images indicate the richness of the morphologies associated with these cluster crystals. However, passivation methods are expected to be examined further to overcome the limited stabilities of these novel clusters. From this initial study, it's shown the promising opportunity to study other Met-Cars species and more cluster-based materials. Experimental results of reactions run with a solvothermal synthesis method obtained while searching for new Zr-C cluster assembled materials, are reported. One unexpected product in single crystal form was isolated and tentatively identified by X-ray diffraction to be [Zr6i O(OH)O12·2(Bu)4], with space group P2 1/n and lattice parameters of a = 12.44 A, b = 22.06 A, c = 18.40 A, alpha = 90°, beta = 105°, gamma = 90°, V = 4875 A3 and R 1 = 3.15% for the total observed data (I ≥ 2 sigma I) and oR2 = 2.82%. This novel hexanuclear Zr(IV)-oxo-hydroxide cluster anion may be the first member in polyoxometalates class with metal atoms from the IVB group and having Oh symmetry. Alternatively, it may be the first member in {[(Zr6Z)X 12]X6}m- class with halides replaced by oxo- and hydroxyl groups and with an increased oxidation state of Zr. It is predicted to bear application potentials directed by both families. This work could suggest a direction in which the preparation of Zr-C cluster-assembled materials in a liquid environment may be eventually fulfilled. 1,3-Bis(diethylphosphino)propane (depp) protected small gold clusters are studied via multiple techniques, including Electrospray Ionization Mass Spectrometry

  3. Dimensional scale effects on surface enhanced Raman scattering efficiency of self-assembled silver nanoparticle clusters

    A study of the Surface Enhanced Raman Scattering (SERS) from micrometric metallic nanoparticle aggregates is presented. The sample is obtained from the self-assembly on glass slides of micro-clusters of silver nanoparticles (60 and 100 nm diameter), functionalized with the organic molecule 4-aminothiophenol in water solution. For nanoparticle clusters at the micron scale, a maximum enhancement factor of 109 is estimated from the SERS over the Raman intensity ratio normalized to the single molecule contribution. Atomic force microscopy, correlated to spatially resolved Raman measurements, allows highlighting the connection between morphology and efficiency of the plasmonic system. The correlation between geometric features and SERS response of the metallic structures reveals a linear trend of the cluster maximum scattered intensity as a function of the surface area of the aggregate. On given clusters, the intensity turns out to be also influenced by the number of stacking planes of the aggregate, thus suggesting a plasmonic waveguide effect. The linear dependence results weakened for the largest area clusters, suggesting 30 μm2 as the upper limit for exploiting the coherence over large scale of the plasmonic response.

  4. Dimensional scale effects on surface enhanced Raman scattering efficiency of self-assembled silver nanoparticle clusters

    Fasolato, C. [Dip. Fisica, Università Sapienza, P.le Aldo Moro, 5, 00185 Rome (Italy); Center for Life Nanoscience@Sapienza, Istituto Italiano di Tecnologia, V.le Regina Elena, 291, 00185 Rome (Italy); Domenici, F., E-mail: fabiodomenici@gmail.com, E-mail: paolo.postorino@roma1.infn.it; De Angelis, L.; Luongo, F.; Postorino, P., E-mail: fabiodomenici@gmail.com, E-mail: paolo.postorino@roma1.infn.it [Dip. Fisica, Università Sapienza, P.le Aldo Moro, 5, 00185 Rome (Italy); Sennato, S. [Dip. Fisica, Università Sapienza, P.le Aldo Moro, 5, 00185 Rome (Italy); CNR-IPCS UOS Roma, Dip. Fisica, Università Sapienza, P.le Aldo Moro, 5, 00185 Rome (Italy); Mura, F. [Dip. Scienze di Base Applicate all' Ingegneria, Università Sapienza, Via A. Scarpa, 16, 00185 Rome (Italy); Costantini, F. [Dip. Ingegneria Astronautica Elettrica ed Energetica, Università Sapienza, Via Eudossiana, 18, 00184 Rome (Italy); Bordi, F. [Dip. Fisica, Università Sapienza, P.le Aldo Moro, 5, 00185 Rome (Italy); Center for Life Nanoscience@Sapienza, Istituto Italiano di Tecnologia, V.le Regina Elena, 291, 00185 Rome (Italy); CNR-IPCS UOS Roma, Dip. Fisica, Università Sapienza, P.le Aldo Moro, 5, 00185 Rome (Italy)

    2014-08-18

    A study of the Surface Enhanced Raman Scattering (SERS) from micrometric metallic nanoparticle aggregates is presented. The sample is obtained from the self-assembly on glass slides of micro-clusters of silver nanoparticles (60 and 100 nm diameter), functionalized with the organic molecule 4-aminothiophenol in water solution. For nanoparticle clusters at the micron scale, a maximum enhancement factor of 10{sup 9} is estimated from the SERS over the Raman intensity ratio normalized to the single molecule contribution. Atomic force microscopy, correlated to spatially resolved Raman measurements, allows highlighting the connection between morphology and efficiency of the plasmonic system. The correlation between geometric features and SERS response of the metallic structures reveals a linear trend of the cluster maximum scattered intensity as a function of the surface area of the aggregate. On given clusters, the intensity turns out to be also influenced by the number of stacking planes of the aggregate, thus suggesting a plasmonic waveguide effect. The linear dependence results weakened for the largest area clusters, suggesting 30 μm{sup 2} as the upper limit for exploiting the coherence over large scale of the plasmonic response.

  5. Caught in the Act: The Assembly of Massive Cluster Galaxies at z=1.62

    Lotz, J M; Faber, S M; Ferguson, H C; Grogin, N; Guo, Y; Kocevski, D; Koekemoer, A M; Lee, K-S; McIntosh, D; Momcheva, I; Rudnick, G; Saintonge, A; Tran, K-V; van der Wel, A; Willmer, C

    2011-01-01

    We present the recent merger history of massive galaxies in a spectroscopically-confirmed proto-cluster at z=1.62. Using HST WFC3 near-infrared imaging from the Cosmic Assembly Near-infrared Deep Extragalactic Legacy Survey (CANDELS), we select cluster galaxies and z ~ 1.6 field galaxies with M_star >= 3 x 10^10 M_sun, and determine the frequency of double nuclei or close companions with projected separations less than 20 kpc co-moving and stellar mass ratios between 1:1 and roughly 10:1. We find that four out of five spectroscopically-confirmed massive proto-cluster galaxies have double nuclei, and 42 +13/-25 % of all M_star >= 3 x 10^10 M_sun cluster candidates are either in close pair systems or have double nuclei. In contrast, only 4.5 +/- 2.6% of the field galaxies are in close pair/double nuclei systems. The implied merger rate per massive galaxy in the proto-cluster is 3-10 times higher than the merger rate of massive field galaxies at z ~ 1.6, depending upon the assumed mass ratios. Close pairs in the...

  6. Exchange variation of zero-field splittings in [Fe 4S 4] + clusters of ferredoxins with high-spin S=3/2 ground state

    Belinsky, Moisey I.

    2000-04-01

    The spin-coupling model of zero-field splitting (ZFS) of tetrameric mixed-valent and monovalent clusters is developed. The matrix elements of the individual ZFS tensor operator of the second rank were calculated for tetramers of the general type in the representation of the total and intermediate spins. The spin-dependent correlations between ZFS parameters D S of the cluster states S and D i of individual ions s i were obtained for [4Fe-4S] + centers of native systems and synthetic model compounds with the high-spin Sgr=3/2 ground state. It was shown that the single-particle spin parameters f i=/ of the [Fe 3(II)Fe(III)] center essentially depend on the total, intermediate and local spins and on the exchange parameters. In the spin schemes with fixed intermediate spins, the correlation between the cluster total spin ZFS parameters, D S, and the individual ZFS parameters, D i, are determined by the total, intermediate and individual spins. Anisotropic cluster ZFS parameters D S strongly depend on isotropic Heisenberg exchange and double exchange inter-ion interactions due to exchange mixing of the states with different intermediate spins. It was shown that the cluster ZFS parameters D S, for the states with S=3/2, change their values and sign under the variation of the Heisenberg exchange and double exchange parameters during the cluster deformation. The single-particle ZFS parameters D i and the exchange effects determine the observed strong positive ( DS=1.5-6 cm -1) and negative ( DS=-1.7 to -5 cm -1) cluster ZFS splittings of the ground Sgr=3/2 states of the [4Fe-4S] + clusters. Positive (negative) cluster ZFS parameters D S correspond to negative (positive) individual ZFS parameters D1-3 [Fe(II)]. The theory explains the observation of small negative effective hyperfine constants A i for the Sgr=3/2 clusters with positive and negative cluster ZFS parameters D S. The correlations between the individual and cluster ZFS parameters were obtained for mixed

  7. The application for examination technology of rod cluster control assembly in nuclear power plant

    During nuclear power plant operation, three typical defects may be generated in the Rod Cluster Control Assembly (RCCA). Through operation situation of RCCA, this paper describes and analyzes three kinds of the reasons leading to the typical defects generated in RCCA. The theory of the special examination technique including ultrasonic and eddy current examination methods are introduced in this paper. According to examination practice of RCCA in nuclear power plant, the analysis methods for main defects and the examination results are concluded. This RCCA examination technology will be provided for the reference experience of the future RCCA examination. (authors)

  8. Detection of the Splashback Radius and Halo Assembly bias of Massive Galaxy Clusters

    More, Surhud; Takada, Masahiro; Diemer, Benedikt; Kravtsov, Andrey V; Dalal, Neal K; More, Anupreeta; Murata, Ryoma; Mandelbaum, Rachel; Rozo, Eduardo; Rykoff, Eli S; Oguri, Masamune; Spergel, David N

    2016-01-01

    We show that the projected number density profiles of SDSS photometric galaxies around galaxy clusters displays strong evidence for the splashback radius, a sharp halo edge corresponding to the location of the first orbital apocenter of satellite galaxies after their infall. We split the clusters into two subsamples with different mean projected radial distances of their members, $\\langle R_{\\rm mem}\\rangle$, at fixed richness and redshift, and show that the sample with smaller $\\langle R_{\\rm mem}\\rangle$ has a smaller ratio of the splashback radius to the traditional halo boundary $R_{\\rm 200m}$, than the subsample with larger $\\langle R_{\\rm mem}\\rangle$, indicative of different mass accretion rates for the two subsamples. The same cluster samples were recently used by Miyatake et al. to show that their large-scale clustering differs despite their similar weak lensing masses, demonstrating strong evidence for halo assembly bias. We expand on this result by presenting a 6.6-$\\sigma$ detection of halo assemb...

  9. Assembly of iron-sulfur clusters. Identification of an iscSUA-hscBA-fdx gene cluster from Azotobacter vinelandii.

    Zheng, L; Cash, V L; Flint, D H; Dean, D R

    1998-05-22

    An enzyme having the same L-cysteine desulfurization activity previously described for the NifS protein was purified from a strain of Azotobacter vinelandii deleted for the nifS gene. This protein was designated IscS to indicate its proposed role in iron-sulfur cluster assembly. Like NifS, IscS is a pyridoxal-phosphate containing homodimer. Information gained from microsequencing of oligopeptides obtained by tryptic digestion of purified IscS was used to design a strategy for isolation and DNA sequence analysis of a 7,886-base pair A. vinelandii genomic segment that includes the iscS gene. The iscS gene is contained within a gene cluster that includes homologs to nifU and another gene contained within the major nif cluster of A. vinelandii previously designated orf6. These genes have been designated iscU and iscA, respectively. Information available from complete genome sequences of Escherichia coli and Hemophilus influenzae reveals that they also encode iscSUA gene clusters. A wide conservation of iscSUA genes in nature and evidence that NifU and NifS participate in the mobilization of iron and sulfur for nitrogenase-specific iron-sulfur cluster formation suggest that the products of the iscSUA genes could play a general role in the formation or repair of iron-sulfur clusters. The proposal that IscS is involved in mobilization of sulfur for iron-sulfur cluster formation in A. vinelandii is supported by the presence of a cysE-like homolog in another gene cluster located immediately upstream from the one containing the iscSUA genes. O-Acetylserine synthase is the product of the cysE gene, and it catalyzes the rate-limiting step in cysteine biosynthesis. A similar cysE-like gene is also located within the nif gene cluster of A. vinelandii. The likely role of such cysE-like gene products is to increase the cysteine pool needed for iron-sulfur cluster formation. Another feature of the iscSUA gene cluster region from A. vinelandii is that E. coli genes previously

  10. Combinatorial and topological modeling of cluster self-assembly of the crystal structure of zeolites

    Ilyushin, G. D.; Blatov, V. A.

    2015-07-01

    Combinatorial and topological modeling of packings of symmetrically connected polyhedral T12 clusters (hexagonal prisms), which are most widespread in crystal structures of zeolites, has been performed. Packings of T12 clusters are periodic 1D chains (11 types) and 2D microlayers (15 types). 2D microlayers that can be involved in the self-assembly of 3D zeolite structures described by tetracoordinated T nets are selected. Computer methods (the ToposPro program package) have been used to establish a correspondence with zeolites CHA (Chabazite, Ca6(H2O)40Al12Si24O72), AEI (AlPO-18, Al24P24O96), SAV ((C18H42N6)2(H2O)7Mg5Al19P24O96), KFI (Na30(H2O)98Al30Si66O192), GME (Gmelinite, (Ca,Na)4(H2O)24Al8Si16O48), AFX (SAPO-56, H3Al23Si5P20O96), and AFT (AlPO-52, Al36P36O144) for 7 out of 11 obtained models of 3D frameworks. Modeling of 3D polytypes of the GME (1L type)- AFX (2L type)- AFT (3L type) family has resulted in a new 3L polytype with the following crystallographic parameters: a =13.75 Å, c = 30.00 Å, V = 4912.0 Å3, sp. gr. P m2 (no. 187). It is established that the 2D self-assembly of known zeolite structures is accompanied by pairwise binding of all (T12 + T12) clusters with the formation of 4C rings, and the number of bonds between complementary chains during the formation of microlayers is maximum. Three types of obtained frameworks, which have no analogs among zeolites, exhibit low chain connectivity during microlayer formation in all cases.

  11. Magnetic domains in Co-cluster assembled films deposited by LECBD

    Cobalt aggregates prepared using a cluster beam generator have been deposited on Si(100) substrate leading to thin films of randomly assembled Co nanoparticles which exhibit a spherical shape with a mono-dispersed diameter distribution centred around 9nm. Films with thickness ranging from 50 to 550nm are investigated using magnetic force microscopy (MFM) and results show the presence of twisted magnetic domains. An in-plane magnetic field applied during the growth of the layer leads to the formation of magnetic stripe domains but we observe a similar behaviour if an in-plane magnetic field is applied after the deposition. This indicates that probably the magnetic field applied during the film growth does not drive its magnetic structure. Finally, the measured variation of magnetic domain width D reveals a t dependence, where t is the film thickness, and is independent of the magnetic history of the films

  12. NifS-directed assembly of a transient [2Fe-2S] cluster within the NifU protein

    Yuvaniyama, Pramvadee; Agar, Jeffrey N.; Cash, Valerie L.; Johnson, Michael K.; Dean, Dennis R.

    2000-01-01

    The NifS and NifU proteins from Azotobacter vinelandii are required for the full activation of nitrogenase. NifS is a homodimeric cysteine desulfurase that supplies the inorganic sulfide necessary for formation of the Fe-S clusters contained within the nitrogenase component proteins. NifU has been suggested to complement NifS either by mobilizing the Fe necessary for nitrogenase Fe-S cluster formation or by providing an intermediate Fe-S cluster assembly site. As isolated, the homodimeric Nif...

  13. Structural and functional characterization of an iron-sulfur cluster assembly scaffold protein-SufA from Plasmodium vivax.

    Pala, Zarna Rajeshkumar; Saxena, Vishal; Saggu, Gagandeep Singh; Yadav, Sushil Kumar; Pareek, R P; Kochar, Sanjay Kumar; Kochar, Dhanpat Kumar; Garg, Shilpi

    2016-07-01

    Iron-sulfur (Fe-S) clusters are utilized as prosthetic groups in all living organisms for diverse range of cellular processes including electron transport in respiration and photosynthesis, sensing of ambient conditions, regulation of gene expression and catalysis. In Plasmodium, two Fe-S cluster biogenesis pathways are reported, of which the Suf pathway in the apicoplast has been shown essential for the erythrocytic stages of the parasite. While the initial components of this pathway detailing the sulfur mobilization have been elucidated, the components required for the assembly and transfer of Fe-S clusters are not reported from the parasite. In Escherichia coli, SufB acts as a scaffold protein and SufA traffics the assembled Fe-S cluster from SufB to target apo-proteins. However, in Plasmodium, the homologs of these proteins are yet to be characterized for their function. Here, we report a putative SufA protein from Plasmodium vivax with signature motifs of A-type scaffold proteins, which is evolutionarily conserved. The presence of the [Fe4S4](3+) cluster under reduced conditions was confirmed by UV-visible and EPR spectroscopy and the interaction of these clusters with the conserved cysteine residues of chains A and B of PvSufA, validates its existence as a dimer, similar to that in E. coli. The H-bond interactions at the PvSufA-SufB interface demonstrate SufA as a scaffold protein in conjunction with SufB for the pre-assembly of Fe-S clusters and their transfer to the target proteins. Co-localization of the protein to the apicoplast further provides an experimental evidence of a functional scaffold protein SufA for the biogenesis of Fe-S clusters in apicoplast of Plasmodium. PMID:27033210

  14. Cluster self-organization of silicate and germanate systems: Invariant suprapolyhedral cluster precursors and self-assembly of the crystal structures of Li,TR silicates (germanates)

    The initial stages of formation of suprapolyhedral clusters (containing polyhedra of different types) in an evolving chemical system are considered. The suprapolyhedral clusters of the chain and cyclic types are used for modeling two-dimensional periodic structures. The developed model is used to search for cluster precursors in the structures of Li,TR silicates (germanates) of the known structure types. The complete threedimensional reconstruction of the self-assembly of Li,TR silicates (germanates) is performed using computer methods (with the TOPOS program package) according to the following scheme: cluster precursor → primary chain → microlayer → microframework (supraprecursor) → ... framework. Two types of invariant cyclic cluster precursors composed of the TR polyhedra linked by tetrahedra and the TR polyhedra joined by diorthotetrahedra are identified in five and two structures, respectively. It is revealed that the lithium atoms are located at the centers of all clusters. New types of two-dimensional nets with a hierarchical structure formed as a result of the packing of cyclic four-, six-, and eight-node clusters are described.

  15. Development of eddy current testing technique of the rod cluster control assembly of pressurized water reactor

    Rod Control Cluster Assembly(RCCA) of pressurized water reactor(PWR) can be damaged by neutron irradiation and continuous vibration caused by pressurized water flowing with a high speed within the reactor. Typically, there are three different types of RCCA damage: (1) Fretting wear caused by interactions of the control rod with upper internal guide cards, (2) Sliding wear caused by the up-and-down sliding movement of the control rod during the operation, and (3) Intergranular cracking caused by the material embrittlement stemming from neutron irradiation. In the past, either ultrasonics or Eddy current testing(ECT) methods were used to inspect RCCAs. However, due to inconvenient and tedious operation of ultrasonic method, Eddy current testing method is being used more frequently. Nondestructive Evaluation(NDE) group of the Materials and Corrosion Research Laboratory at KEPRI has recently developed ECT method and the associated testing equipment, and applied successfully to Ulchin Unit 1 and Kori Unit 2 nuclear power plants(NPPs) during the overhaul period. This paper summarizes the results of the ECT of RCCAs.

  16. Manipulating cluster size of polyanion-stabilized Fe{sub 3}O{sub 4} magnetic nanoparticle clusters via electrostatic-mediated assembly for tunable magnetophoresis behavior

    Yeap, Swee Pin, E-mail: sweepin0727@hotmail.com; Ahmad, Abdul Latif; Ooi, Boon Seng; Lim, JitKang, E-mail: chjitkangl@usm.my [Universiti Sains Malaysia, School of Chemical Engineering (Malaysia)

    2015-10-15

    We report in this article an approach for manipulating the size of magnetic nanoparticle clusters (MNCs) via electrostatic-mediated assembly technique using an electrolyte as a clustering agent. The clusters were surface-tethered with poly(sodium 4-styrenesulfonate) (PSS) through electrostatic compensation to enhance their colloidal stability. Dynamic light scattering was employed to trace the evolution of cluster size. Simultaneously, electrophoretic mobility and Fourier transform infrared spectroscopy analyses were conducted to investigate the possible schemes involved in both cluster formation and PSS grafting. Results showed that the average hydrodynamic cluster size of the PSS/MNCs and their corresponding size distributions were successfully shifted by means of manipulating the suspension pH, the ionic nature of the electrolyte, and the electrolyte concentration. More specifically, the electrokinetic behavior of the particles upon interaction with the electrolyte plays a profound role in the formation of the PSS/MNCs. Nonetheless, the solubility of the polymer in electrolyte solution and the purification of the particles from residual ions should not be omitted in determining the effectiveness of this clustering approach. The PSS adlayer makes the resultant entities highly water-dispersible and provides electrosteric stabilization to shield the PSS/MNCs from aggregation. In this study, the experimental observations were analyzed and discussed on the basis of existing fundamental colloidal theories. The strategy of cluster size manipulation proposed here is simple and convenient to implement. Furthermore, manipulating the size of the MNCs also facilitates the tuning of magnetophoresis kinetics on exposure to low magnetic field gradient, which makes this nano-entity useful for engineering applications, specifically in separation processes.

  17. Manipulating cluster size of polyanion-stabilized Fe3O4 magnetic nanoparticle clusters via electrostatic-mediated assembly for tunable magnetophoresis behavior

    We report in this article an approach for manipulating the size of magnetic nanoparticle clusters (MNCs) via electrostatic-mediated assembly technique using an electrolyte as a clustering agent. The clusters were surface-tethered with poly(sodium 4-styrenesulfonate) (PSS) through electrostatic compensation to enhance their colloidal stability. Dynamic light scattering was employed to trace the evolution of cluster size. Simultaneously, electrophoretic mobility and Fourier transform infrared spectroscopy analyses were conducted to investigate the possible schemes involved in both cluster formation and PSS grafting. Results showed that the average hydrodynamic cluster size of the PSS/MNCs and their corresponding size distributions were successfully shifted by means of manipulating the suspension pH, the ionic nature of the electrolyte, and the electrolyte concentration. More specifically, the electrokinetic behavior of the particles upon interaction with the electrolyte plays a profound role in the formation of the PSS/MNCs. Nonetheless, the solubility of the polymer in electrolyte solution and the purification of the particles from residual ions should not be omitted in determining the effectiveness of this clustering approach. The PSS adlayer makes the resultant entities highly water-dispersible and provides electrosteric stabilization to shield the PSS/MNCs from aggregation. In this study, the experimental observations were analyzed and discussed on the basis of existing fundamental colloidal theories. The strategy of cluster size manipulation proposed here is simple and convenient to implement. Furthermore, manipulating the size of the MNCs also facilitates the tuning of magnetophoresis kinetics on exposure to low magnetic field gradient, which makes this nano-entity useful for engineering applications, specifically in separation processes.

  18. New Family of Octagonal-Prismatic Lanthanide Coordination Cages Assembled from Unique Ln17 Clusters and Simple Cliplike Dicarboxylate Ligands.

    Zhou, Yuan-Yuan; Geng, Bing; Zhang, Zhen-Wei; Guan, Qun; Lu, Jun-Ling; Bo, Qi-Bing

    2016-03-01

    Novel high-nuclearity lanthanide clusters (Ln17) are generated in situ in the coordination-driven self-assembly. A metal-cluster-directed symmetry strategy for building metal coordination cages is successfully applied to a lanthanide system for the first time. A new family of octagonal-prismatic lanthanide coordination cages UJN-Ln, formulated as [Ln(μ3-OH)8][Ln16(μ4-O)(μ4-OH)(μ3-OH)8(H2O)8(μ4-dcd)8][(μ3-dcd)8]·22H2O (Ln = Gd, Tb, Dy, Ho, and Er; dcd = 3,3-dimethylcyclopropane-1,2-dicarboxylate dianion), have been assembled from the unique Ln17 clusters and simple cliplike ligand H2dcd. Apart from featuring aesthetically charming structures, all of the compounds present predominantly antiferromagnetic coupling between the corresponding lanthanide ions. Additionally, the intense-green photoluminescence for UJN-Tb and magnetic relaxation behavior for UJN-Dy have been observed. Remarkably, UJN-Gd shows a large magnetocaloric effect (MCE) with an impressive entropy change value of 42.3 J kg(-1) K(-1) for ΔH = 7.0 T at 2.0 K due to the high-nuclearity cluster and the lightweight ligand. The studies highlight the structural diversity of multigonal-prismatic metal coordination cages and provide a new direction in the design of cagelike multifunctional materials by the introduction of lanthanide clusters and other suitable cliplike ligands. PMID:26894272

  19. Crystal structure of the FeS cluster-containing nucleotide excision repair helicase XPD.

    Stefanie C Wolski

    2008-06-01

    Full Text Available DNA damage recognition by the nucleotide excision repair pathway requires an initial step identifying helical distortions in the DNA and a proofreading step verifying the presence of a lesion. This proofreading step is accomplished in eukaryotes by the TFIIH complex. The critical damage recognition component of TFIIH is the XPD protein, a DNA helicase that unwinds DNA and identifies the damage. Here, we describe the crystal structure of an archaeal XPD protein with high sequence identity to the human XPD protein that reveals how the structural helicase framework is combined with additional elements for strand separation and DNA scanning. Two RecA-like helicase domains are complemented by a 4Fe4S cluster domain, which has been implicated in damage recognition, and an alpha-helical domain. The first helicase domain together with the helical and 4Fe4S-cluster-containing domains form a central hole with a diameter sufficient in size to allow passage of a single stranded DNA. Based on our results, we suggest a model of how DNA is bound to the XPD protein, and can rationalize several of the mutations in the human XPD gene that lead to one of three severe diseases, xeroderma pigmentosum, Cockayne syndrome, and trichothiodystrophy.

  20. The cluster-assembled nanowires based on M12N12 (M = Al and Ga) clusters as potential gas sensors for CO, NO, and NO2 detection.

    Yong, Yongliang; Jiang, Huai; Li, Xiaohong; Lv, Shijie; Cao, Jingxiao

    2016-08-01

    The advances in cluster-assembled materials where clusters serve as building blocks have opened new opportunities to develop ever more sensitive gas sensors. Here, using density functional theory calculations, the structural and electronic properties of cluster-assembled nanowires based on M12N12 (M = Al and Ga) clusters and their application as gas sensors have been investigated. Our results show that the nanowires can be produced via the coalescence of stable M12N12 fullerene-like clusters. The M12N12-based nanowires have semiconducting electrical properties with direct energy gaps, and are particularly stable at room temperature for long enough to allow for their characterization and applications. Furthermore, we found that the CO, NO, and NO2 molecules are chemisorbed on the M12N12-based nanowires with reasonable adsorption energies and apparent charge transfer. The electronic properties of the M12N12-based nanowires present dramatic changes after the adsorption of the CO, NO, and NO2 molecules, especially their electric conductivity. However, the adsorption of NO2 on the Al12N12-based nanowire is too strong, indicating an impractical recovery time as NO2 sensors. In addition to this, due to reasonable adsorption energies, apparent charge transfer, change in the electric conductivity, and the short recovery time, the Al12N12-based nanowire should be a good CO and NO sensor with quick response as well as short recovery time, while the Ga12N12-based nanowire should be a promising gas sensor for CO, NO, and NO2 detection. PMID:27424739

  1. Slow formation of [3Fe-4S](1+) clusters in mutant forms of Desulfovibrio africanus ferredoxin III.

    Hannan, J P; Busch, J L; James, R; Thomson, A J; Moore, G R; Davy, S L

    2000-02-25

    Desulfovibrio africanus ferredoxin III (Da FdIII) readily interconverts between a 7Fe and an 8Fe form with Asp-14 believed to provide a cluster ligand in the latter form. To investigate the factors important for cluster interconversion in Fe/S cluster-containing proteins we have studied two variants of Da FdIII produced by site-directed mutagenesis, Asp14Glu and Asp14His, with cluster incorporation performed in vitro. Characterisation of these proteins by UV/visible, EPR and (1)H NMR spectroscopies revealed that the formation of the stable 7Fe form of these proteins takes some time to occur. Evidence is presented which indicates the [4Fe-4S](2+) cluster is incorporated prior to the [3Fe-4S](1+) cluster. PMID:10692579

  2. The HST/ACS Coma Cluster Survey - VII. Structure and Assembly of Massive Galaxies in the Center of the Coma Cluster

    Weinzirl, Tim; Neistein, Eyal; Khochfar, Sadegh; Kormendy, John; Marinova, Irina; Hoyos, Carlos; Balcells, Marc; Brok, Mark den; Hammer, Derek; Peletier, Reynier F; Kleijn, Gijs Verdoes; Carter, David; Goudfrooij, Paul; Mobasher, Bahram; Trentham, Neil; Erwin, Peter; Puzia, Thomas

    2013-01-01

    We constrain the assembly history of galaxies in the central 0.6 Mpc of the rich Coma cluster at z~0.02 based on the structure of 69 massive (M*>1e9 M_sun) galaxies using images from the HST Treasury Survey of Coma. Our findings are: (1) We make no a priori assumptions on the shape of the profile for outer and central structures, which can include disk-dominated components, bars, and classical bulges/ellipticals. After excluding the 2 cDs, we find that most (56%) of the galactic stellar mass resides in classical bulges/Es while (44%) resides in cold disk-dominated structures. This suggests that most of the stellar mass in Coma galaxies may have been assembled and shaped through the redistribution of stars during major mergers, and possibly minor mergers, but that gas-rich dissipative processes that build disk-dominated structures remain important even in the center of a rich cluster like Coma. (2) We see strong evidence of a morphology-density relation. In the central 0.6 Mpc of the Coma cluster, there are 2 ...

  3. Systematic Study on the Self-Assembled Hexagonal Au Voids, Nano-Clusters and Nanoparticles on GaN (0001).

    Pandey, Puran; Sui, Mao; Li, Ming-Yu; Zhang, Quanzhen; Kim, Eun-Soo; Lee, Jihoon

    2015-01-01

    Au nano-clusters and nanoparticles (NPs) have been widely utilized in various electronic, optoelectronic, and bio-medical applications due to their great potentials. The size, density and configuration of Au NPs play a vital role in the performance of these devices. In this paper, we present a systematic study on the self-assembled hexagonal Au voids, nano-clusters and NPs fabricated on GaN (0001) by the variation of annealing temperature and deposition amount. At relatively low annealing temperatures between 400 and 600°C, the fabrication of hexagonal shaped Au voids and Au nano-clusters are observed and discussed based on the diffusion limited aggregation model. The size and density of voids and nano-clusters can systematically be controlled. The self-assembled Au NPs are fabricated at comparatively high temperatures from 650 to 800°C based on the Volmer-Weber growth model and also the size and density can be tuned accordingly. The results are symmetrically analyzed and discussed in conjunction with the diffusion theory and thermodynamics by utilizing AFM and SEM images, EDS maps and spectra, FFT power spectra, cross-sectional line-profiles and size and density plots. PMID:26285135

  4. Systematic Study on the Self-Assembled Hexagonal Au Voids, Nano-Clusters and Nanoparticles on GaN (0001.

    Puran Pandey

    Full Text Available Au nano-clusters and nanoparticles (NPs have been widely utilized in various electronic, optoelectronic, and bio-medical applications due to their great potentials. The size, density and configuration of Au NPs play a vital role in the performance of these devices. In this paper, we present a systematic study on the self-assembled hexagonal Au voids, nano-clusters and NPs fabricated on GaN (0001 by the variation of annealing temperature and deposition amount. At relatively low annealing temperatures between 400 and 600°C, the fabrication of hexagonal shaped Au voids and Au nano-clusters are observed and discussed based on the diffusion limited aggregation model. The size and density of voids and nano-clusters can systematically be controlled. The self-assembled Au NPs are fabricated at comparatively high temperatures from 650 to 800°C based on the Volmer-Weber growth model and also the size and density can be tuned accordingly. The results are symmetrically analyzed and discussed in conjunction with the diffusion theory and thermodynamics by utilizing AFM and SEM images, EDS maps and spectra, FFT power spectra, cross-sectional line-profiles and size and density plots.

  5. Assembling Fe/S-clusters and modifying tRNAs: ancient co-factors meet ancient adaptors.

    Alfonzo, Juan D; Lukeš, Julius

    2011-06-01

    Trypanosoma brucei undergoes two clearly distinct develomental stages: in the insect vector (procyclic stage) the cells generate the bulk of their energy through respiration, whereas in the bloodstream of the mammalian host (bloodstream stage) they grow mostly glycolytically. Several mitochondrial respiratory proteins require iron-sulfur clusters for activity, and their activation coincides with developmental changes. Likewise some tRNA modification enzymes either require iron-sulfur clusters or use components of the iron-sulfur cluster assembly pathway for activity. These enzymes affect the anticodon loop of various tRNAs and can impact protein synthesis. Herein, the possibility of these pathways being integrated and exploited by T. brucei to carefully coordinate energy demands to translational rates in response to enviromental changes is examined. PMID:21419700

  6. The history of mass assembly of faint red galaxies in 28 galaxy clusters since z=1.3

    Andreon, S

    2007-01-01

    We measure the relative evolution of the number of bright and faint (as faint as 0.05 L*) red galaxies in a sample of 28 clusters, of which 16 are at 0.50<= z<=1.27, all observed through a pair of filters bracketing the 4000 Angstrom break rest-frame. The abundance of red galaxies, relative to bright ones, is constant over all the studied redshift range, 0assembled and in place at z=1.3 and their deficit does not depend on cluster mass, parametrized by velocity dispersion or X-ray luminosity. Our analysis, with respect to previous one, samples a wider redshift range, minimizes systematics and put a more attention to statistical issues, keeping at the same time a large number of clusters.

  7. Inclusion of Cu nano-cluster 1D arrays inside a C3-symmetric artificial oligopeptide via co-assembly

    Gong, Ruiying; Li, Fei; Yang, Chunpeng; Wan, Xiaobo

    2015-12-01

    supplementary information (ESI) available: Detailed synthesis, gel preparation, general methods for characterization, and the characterisation of BTA-C3-GVGVOMe assembly including or not including Cu nano-cluster arrays. See DOI: 10.1039/c5nr06095h

  8. Ethynide-stabilized high-nuclearity silver(i) sulfido molecular clusters assembled using organic sulfide precursors.

    Chen, Zi-Yi; Tam, Dennis Y S; Mak, Thomas C W

    2016-05-01

    Inexpensive 1,1'-thiocarbonyldiimidazole and di(2-pyridyl) thionocarbonate have been used as respective sulfide precursors to assemble unprecedented high-nuclearity ethynide-stabilized silver(i) sulfido molecular clusters [Ag9S6@Ag36(C[triple bond, length as m-dash]C(t)Bu)32(H2O)2] [Ag(imidazole)(CH3OH)(H2O)](BF4)2·8H2O·2CH3OH (1) and [Ag120S24(PhC[triple bond, length as m-dash]C)52Cl4(2-pyridone)10(H2O)8](H3O)4(SiF6)8(BF4)4·CH3OH·22H2O (2), the latter being the largest isolated silver(i) ethynide cluster reported to date. PMID:27071972

  9. New semiconducting silicides assembled from transition-metal-encapsulating Si clusters

    Uchida, Noriyuki, E-mail: nori-uchida@aist.go.jp [Nanodevice Innovation Research Center, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba 305-8562 (Japan); Miyazaki, Takehide [Nanosystem Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Umezono, Tsukuba 305-8568 (Japan); Matsushita, Yusuke; Sameshima, Kenichiro; Kanayama, Toshihiko [Nanodevice Innovation Research Center, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba 305-8562 (Japan); Institute of Applied Physics, University of Tsukuba, Tennoudai, Tsukuba 305-8573 (Japan)

    2011-10-03

    We synthesized amorphous films composed of transition-metal-encapsulating Si clusters (MSi{sub n}: M = Zr, Nb, Mo and W) by deposition of hydrogenated MSi{sub n}H{sub x} clusters onto solid substrates followed by annealing at 400-500 deg. C for dehydrogenation. The MSi{sub n} (n = 7-20) cluster films are amorphous semiconductors with an optical gap > 0.4 eV and have larger electron and hole mobility than that of the hydrogenated amorphous Si (a-Si:H) film. In these films, while Si atoms form amorphous networks similar to those in a-Si:H films, the thermal stability is enhanced and the electronic disorder is reduced by the use of MSi{sub n} clusters as the unit structures. Structure modeling by ab initio calculations for MSi{sub n} films suggests that the encapsulated M atom works as a terminator of dangling bonds of the Si network.

  10. Clustering

    Jinfei Liu

    2013-04-01

    Full Text Available DBSCAN is a well-known density-based clustering algorithm which offers advantages for finding clusters of arbitrary shapes compared to partitioning and hierarchical clustering methods. However, there are few papers studying the DBSCAN algorithm under the privacy preserving distributed data mining model, in which the data is distributed between two or more parties, and the parties cooperate to obtain the clustering results without revealing the data at the individual parties. In this paper, we address the problem of two-party privacy preserving DBSCAN clustering. We first propose two protocols for privacy preserving DBSCAN clustering over horizontally and vertically partitioned data respectively and then extend them to arbitrarily partitioned data. We also provide performance analysis and privacy proof of our solution..

  11. Formation of Raft-Like Assemblies within Clusters of Influenza Hemagglutinin Observed by MD Simulations

    Parton, Daniel L.; Tek, Alex; Baaden, Marc; Sansom, Mark S. P.

    2013-01-01

    The association of hemagglutinin (HA) with lipid rafts in the plasma membrane is an important feature of the assembly process of influenza virus A. Lipid rafts are thought to be small, fluctuating patches of membrane enriched in saturated phospholipids, sphingolipids, cholesterol and certain types of protein. However, raft-associating transmembrane (TM) proteins generally partition into Ld domains in model membranes, which are enriched in unsaturated lipids and depleted in saturated lipids an...

  12. Ferredoxin, in conjunction with NADPH and ferredoxin-NADP reductase, transfers electrons to the IscS/IscU complex to promote iron–sulfur cluster assembly

    Yan, Robert; Adinolfi, Salvatore; Pastore, Annalisa

    2015-01-01

    Fe–S cluster biogenesis is an essential pathway coordinated by a network of protein–protein interactions whose functions include desulfurase activity, substrate delivery, electron transfer and product transfer. In an effort to understand the intricacies of the pathway, we have developed an in vitro assay to follow the ferredoxin role in electron transfer during Fe–S cluster assembly. Previously, assays have relied upon the non-physiological reducing agents dithionite and dithiothreitol to ass...

  13. The puzzling assembly of the Milky Way halo – contributions from dwarf Spheroidals and globular clusters

    Lépine S.

    2012-02-01

    Full Text Available While recent sky surveys have uncovered large numbers of ever fainter Milky Way satellites, their classification as star clusters, low-luminosity galaxies, or tidal overdensities remains often unclear. Likewise, their contributions to the build-up of the halo is yet debated. In this contribution we will discuss the current knowledge of the stellar populations and chemo-dynamics in these puzzling satellites, with a particular focus on dwarf spheroidal galaxies and the globular clusters in the outer Galactic halo. Also the question of whether some of the outermost halo objects are dynamically associated with the (Milky Way halo at all is addressed in terms of proper measurements in the remote Leo I and II dwarf galaxies.

  14. The JASPER system, an innovating, competitive tool for rod cluster control assembly (RCCA) in-service inspection

    Taking benefit from the experience of the AREVA NP group, a new tool for the inspection of rod control cluster assemblies (RCCA) was jointly developed by Intercontrole and AREVA NP Fuel Division. The valuable know-how of R/D Tech (today Zetec) engineers in the field of UT signal spectrum analysis was a key factor of success in the development. JASPER (an acronym for Joint Advanced System for Performant Examination of RCCA) combines three measurements, one of which is an innovation: - Profilometry using a time of flight measurement, for the outer dimensions of the clad - Eddy current detection of cracks - Direct measurement of the rod wall thickness by spectrum analysis of the UT echoes, thus adding considerable interest in the examination process. UT measurements are performed on the whole length of the rod, including the weld of the lower cap. ET measurements are performed on the lower length of the rod. UT data are systematically recorded and analysed for detection and characterization of indications, with no retest. ET measurements are triggered upon request of the Utility, depending on the age of the rod. Data acquisition and processing thus require a constant duration for each assembly; the inspection duration is actually shortened by a 20% factor. The technique was qualified in-house by a number of tests. (orig.)

  15. Periodic fluorescent silver clusters assembled by rolling circle amplification and their sensor application.

    Ye, Tai; Chen, Jinyang; Liu, Yufei; Ji, Xinghu; Zhou, Guohua; He, Zhike

    2014-09-24

    A simple method for preparing DNA-stabilized Ag nanoclusters (NCs) nanowires is presented. To fabricate the Ag NCs nanowires, we use just two unmodified component strands and a long enzymatically produced scaffold. These nanowires form at room temperature and have periodic sequence units that are available for fluorescence Ag NCs assembled which formed three-way junction (TWJ) structure. These Ag NCs nanowires can be clearly visualized by confocal microscopy. Furthermore, due to the high efficiency of rolling circle amplification reaction in signal amplification, the nanowires exhibit high sensitivity for the specific DNA detection with a wide linear range from 6 to 300 pM and a low detection limit of 0.84 pM, which shows good performance in the complex serum samples. Therefore, these Ag NCs nanowires might have great potential in clinical and imaging applications in the future. PMID:25116051

  16. Compact Binary Assembly in the First Nuclear Star Clusters and r-Process Synthesis in the Early Universe

    Ramirez-Ruiz, Enrico; Roberts, Luke F; Lee, William H; Saladino-Rosas, Martha I

    2014-01-01

    Investigations of element abundances in the ancient and most metal deficient stars are extremely important because they serve as tests of variable nucleosynthesis pathways and can provide critical inferences of the type of stars that lived and died before them. The presence of r-process elements in a handful of carbon-enhanced metal-poor (CEMP) stars, which are assumed to be closely connected to the chemical yield from the first stars, is hard to reconcile with standard neutron star mergers. Here we show that the production rate of dynamically assembled compact binaries in high-z nuclear star clusters can attain a sufficient high value to be a potential viable source of heavy r-material in CEMP stars. The predicted frequency of such events in the early Galaxy, much lower than the frequency of Type II supernovae but with significantly higher mass ejected per event, can naturally lead to a high level of scatter of Eu as observed in CEMP stars.

  17. Overexpression of the yeast frataxin homolog (Yfh1): contrasting effects on iron-sulfur cluster assembly, heme synthesis and resistance to oxidative stress

    Seguin, Alexandra; Bayot, Aurélien; Dancis, Andrew;

    2009-01-01

    Friedreich's ataxia is generally associated with defects in [Fe-S] cluster assembly/stability and heme synthesis and strong susceptibility to oxidative stress. We used the yeast (Saccharomyces cerevisiae) model of Friedreich's ataxia to study the physiological consequences of modulating the...... expression of the frataxin gene (YFH1). We show that the number of frataxin molecules per wild-type cell varies from less than 200 to 1500 according to the iron concentration in the medium. Cells overexpressing YFH1 on a plasmid (2muYFH1; about 3500 molecules Yfh1/cell) took up more iron than wild-type cells...... and displayed defective [Fe-S] cluster assembly/stability in vivo. By contrast, endogenous mitochondrial iron was more available to ferrochelatase in 2muYFH1 cells than in wild-type cells, resulting in higher levels of heme synthesis in vitro. Frataxin overproduction resulted in a shift from frataxin...

  18. A Self-assembled Fluoride-Water Cyclic Cluster of $[F(H_2O)]_4^{4-}$ in a Molecular Box

    Hossain, Md Alamgir; Pramanik, Avijit; Wong, Bryan M; Haque, Syed A; Powell, Douglas R

    2013-01-01

    We present an unprecedented fluoride-water cyclic cluster of $[F(H_2O)]_4^{4-}$ assembled in a cuboid-shaped molecular box formed by two large macrocycles. Structural characterization reveals that the $[F(H_2O)]_4^{4-}$ is assembled by strong H-bonding interactions (OH...F = 2.684(3) to 2.724(3) {\\AA}), where a fluoride anion plays the topological role of a water molecule in the classical cyclic water octamer. The interaction of fluoride was further confirmed by $^{19}$F NMR and $^1$H NMR spectroscopies, indicating the encapsulation of the anionic species within the cavity in solution. High level DFT calculations and Bader topological analyses fully support the crystallographic results, demonstrating that the bonding arrangement in the fluoride-water cluster arises from the unique geometry of the host.

  19. Ferredoxin, in conjunction with NADPH and ferredoxin-NADP reductase, transfers electrons to the IscS/IscU complex to promote iron-sulfur cluster assembly.

    Yan, Robert; Adinolfi, Salvatore; Pastore, Annalisa

    2015-09-01

    Fe-S cluster biogenesis is an essential pathway coordinated by a network of protein-protein interactions whose functions include desulfurase activity, substrate delivery, electron transfer and product transfer. In an effort to understand the intricacies of the pathway, we have developed an in vitro assay to follow the ferredoxin role in electron transfer during Fe-S cluster assembly. Previously, assays have relied upon the non-physiological reducing agents dithionite and dithiothreitol to assess function. We have addressed this shortcoming by using electron transfer between NADPH and ferredoxin-NADP-reductase to reduce ferredoxin. Our results show that this trio of electron transfer partners are sufficient to sustain the reaction in in vitro studies, albeit with a rate slower compared with DTT-mediated cluster assembly. We also show that, despite overlapping with the CyaY protein in binding to IscS, Fdx does not interfere with the inhibitory activity of this protein. We suggest explanations for these observations which have important consequences for understanding the mechanism of cluster formation. Cofactor-dependent proteins: evolution, chemical diversity and bio-applications. PMID:25688831

  20. Bottom-Up Self-Assembly of the Sphere-Shaped Icosametallic Oxo Clusters {Cu20} and {Cu12Zn8}.

    Chen, Juan; Zhou, Hulan; Xu, Feng

    2016-05-16

    A discrete nanospheric icosametallic cluster comprised of 20 Cu ions (1) was self-assembled from facile synthesis. Adjustment of the synthesis by the choice of ligands gave rise to another cluster (2) with an intact icosacupric core and improved stability. Referring to the synthesis of 1 and 2, a heterometallic cluster (3), which contains 12 Cu(II) and 8 Zn(II), was designed and characterized by single-crystal X-ray diffraction, combined with elemental analysis, energy-dispersive X-ray, X-ray photoelectron spectroscopy, thermogravimetric analysis, and element mapping. The magnetic measurements of 2 and 3 and the scanning electron microscopy images and UV-visible diffuse-reflectance measurements of metal oxides from 2 and 3 indicate that isolation of {Cu12M8} is a new synthetic route to materials with engineered properties. PMID:27116596

  1. Friedreich's Ataxia Variants I154F and W155R Diminish Frataxin-Based Activation of the Iron-Sulfur Cluster Assembly Complex

    Tsai, Chi-Lin; Bridwell-Rabb, Jennifer; Barondeau, David P

    2011-11-07

    Friedreich's ataxia (FRDA) is a progressive neurodegenerative disease that has been linked to defects in the protein frataxin (Fxn). Most FRDA patients have a GAA expansion in the first intron of their Fxn gene that decreases protein expression. Some FRDA patients have a GAA expansion on one allele and a missense mutation on the other allele. Few functional details are known for the ~15 different missense mutations identified in FRDA patients. Here in vitro evidence is presented that indicates the FRDA I154F and W155R variants bind more weakly to the complex of Nfs1, Isd11, and Isu2 and thereby are defective in forming the four-component SDUF complex that constitutes the core of the Fe-S cluster assembly machine. The binding affinities follow the trend Fxn ~ I154F > W155F > W155A ~ W155R. The Fxn variants also have diminished ability to function as part of the SDUF complex to stimulate the cysteine desulfurase reaction and facilitate Fe-S cluster assembly. Four crystal structures, including the first for a FRDA variant, reveal specific rearrangements associated with the loss of function and lead to a model for Fxn-based activation of the Fe-S cluster assembly complex. Importantly, the weaker binding and lower activity for FRDA variants correlate with the severity of disease progression. Together, these results suggest that Fxn facilitates sulfur transfer from Nfs1 to Isu2 and that these in vitro assays are sensitive and appropriate for deciphering functional defects and mechanistic details for human Fe-S cluster biosynthesis.

  2. Iron-sulfur cluster damage by the superoxide radical in neural tissues of the SOD1(G93A) ALS rat model.

    Popović-Bijelić, Ana; Mojović, Miloš; Stamenković, Stefan; Jovanović, Miloš; Selaković, Vesna; Andjus, Pavle; Bačić, Goran

    2016-07-01

    Extensive clinical investigations, in hand with biochemical and biophysical research, have associated brain iron accumulation with the pathogenesis of the amyotrophic lateral sclerosis (ALS) disease. The origin of iron is still not identified, but it is proposed that it forms redox active complexes that can participate in the Fenton reaction generating the toxic hydroxyl radical. In this paper, the state of iron in the neural tissues isolated from SOD1(G93A) transgenic rats was investigated using low temperature EPR spectroscopy and is compared with that of nontransgenic (NTg) littermates. The results showed that iron in neural tissues is present as high- and low-spin, heme and non-heme iron. It appears that the SOD1(G93A) rat neural tissues were most likely exposed in vivo to higher amounts of reactive oxygen species when compared to the corresponding NTg tissues, as they showed increased oxidized [3Fe-4S](1+) cluster content relative to [4Fe-4S](1+). Also, the activity of cytochrome c oxidase (CcO) was found to be reduced in these tissues, which may be associated with the observed uncoupling of heme a3 Fe and CuB in the O2-reduction site of the enzyme. Furthermore, the SOD1(G93A) rat spinal cords and brainstems contained more manganese, presumably from MnSOD, than those of NTg rats. The addition of potassium superoxide to all neural tissues ex vivo, led to the [4Fe-4S]→[3Fe-4S] cluster conversion and concurrent release of Fe. These results suggest that the superoxide anion may be the cause of the observed oxidative damage to SOD1(G93A) rat neural tissues and that the iron-sulfur clusters may be the source of poorly liganded redox active iron implicated in ALS pathogenesis. Low temperature EPR spectroscopy appears to be a valuable tool in assessing the role of metals in neurodegenerative diseases. PMID:27130034

  3. Self-assembled mesoporous Co and Ni-ferrite spherical clusters consisting of spinel nanocrystals prepared using a template-free approach.

    Yu, Byong Yong; Kwak, Seung-Yeop

    2011-10-21

    Based on a self-assembly strategy, spherical mesoporous cobalt and nickel ferrite nanocrystal clusters with a large surface area and narrow size distribution were successfully synthesized for the first time via a template-free solvothermal process in ethylene glycol and subsequent heat treatment. In this work, the mesopores in the ferrite clusters were derived mainly from interior voids between aggregated primary nanoparticles (with crystallite size of less than 7 nm) and disordered particle packing domains. The concentration of sodium acetate is shown herein to play a crucial role in the formation of mesoporous ferrite spherical clusters. These ferrite clusters were characterized in detail using wide-angle X-ray diffraction, thermogravimetric-differential thermal analysis, (57)Fe Mössbauer spectroscopy, X-ray photoelectron spectroscopy, field-emission scanning electron microscopy, standard and high-resolution transmission electron microscopy, and other techniques. The results confirmed the formation of both pure-phase ferrite clusters with highly crystalline spinel structure, uniform size (about 160 nm) and spherical morphology, and worm-like mesopore structures. The BET specific surface areas and mean pore sizes of the mesoporous Co and Ni-ferrite clusters were as high as 160 m(2) g(-1) and 182 m(2) g(-1), and 7.91 nm and 6.87 nm, respectively. A model for the formation of the spherical clusters in our system is proposed on the basis of the results. The magnetic properties of both samples were investigated at 300 K, and it was found that these materials are superparamagnetic. PMID:21904731

  4. Proteus mirabilis fimbriae- and urease-dependent clusters assemble in an extracellular niche to initiate bladder stone formation.

    Schaffer, Jessica N; Norsworthy, Allison N; Sun, Tung-Tien; Pearson, Melanie M

    2016-04-19

    The catheter-associated uropathogenProteus mirabilisfrequently causes urinary stones, but little has been known about the initial stages of bladder colonization and stone formation. We found thatP. mirabilisrapidly invades the bladder urothelium, but generally fails to establish an intracellular niche. Instead, it forms extracellular clusters in the bladder lumen, which form foci of mineral deposition consistent with development of urinary stones. These clusters elicit a robust neutrophil response, and we present evidence of neutrophil extracellular trap generation during experimental urinary tract infection. We identified two virulence factors required for cluster development: urease, which is required for urolithiasis, and mannose-resistantProteus-like fimbriae. The extracellular cluster formation byP. mirabilisstands in direct contrast to uropathogenicEscherichia coli, which readily formed intracellular bacterial communities but not luminal clusters or urinary stones. We propose that extracellular clusters are a key mechanism ofP. mirabilissurvival and virulence in the bladder. PMID:27044107

  5. Environmental quenching and hierarchical cluster assembly: Evidence from spectroscopic ages of red-sequence galaxies in Coma

    Smith, Russell J; Price, James; Hudson, Michael J; Phillipps, Steven

    2011-01-01

    We explore the variation in stellar population ages for Coma cluster galaxies as a function of projected cluster-centric distance, using a sample of 362 red-sequence galaxies with high signal-to-noise spectroscopy. The sample spans a wide range in luminosity (0.02-4 L*) and extends from the cluster core to near the virial radius. We find a clear distinction in the observed trends of the giant and dwarf galaxies. The ages of red-sequence giants are primarily determined by galaxy mass, with only weak modulation by environment, in the sense that galaxies at larger cluster-centric distance are slightly younger. For red-sequence dwarfs (with mass <10^10 Msun), the roles of mass and environment as predictors of age are reversed: there is little dependence on mass, but strong trends with projected cluster-centric radius are observed. The average age of dwarfs at the 2.5 Mpc limit of our sample is approximately half that of dwarfs near the cluster centre. The gradient in dwarf galaxy ages is a global cluster-centr...

  6. [FeFe]-hydrogenase oxygen inactivation is initiated at the H cluster 2Fe subcluster.

    Swanson, Kevin D; Ratzloff, Michael W; Mulder, David W; Artz, Jacob H; Ghose, Shourjo; Hoffman, Andrew; White, Spencer; Zadvornyy, Oleg A; Broderick, Joan B; Bothner, Brian; King, Paul W; Peters, John W

    2015-02-11

    The [FeFe]-hydrogenase catalytic site H cluster is a complex iron sulfur cofactor that is sensitive to oxygen (O2). The O2 sensitivity is a significant barrier for production of hydrogen as an energy source in water-splitting, oxygenic systems. Oxygen reacts directly with the H cluster, which results in rapid enzyme inactivation and eventual degradation. To investigate the progression of O2-dependent [FeFe]-hydrogenase inactivation and the process of H cluster degradation, the highly O2-sensitive [FeFe]-hydrogenase HydA1 from the green algae Chlamydomonas reinhardtii was exposed to defined concentrations of O2 while monitoring the loss of activity and accompanying changes in H cluster spectroscopic properties. The results indicate that H cluster degradation proceeds through a series of reactions, the extent of which depend on the initial enzyme reduction/oxidation state. The degradation process begins with O2 interacting and reacting with the 2Fe subcluster, leading to degradation of the 2Fe subcluster and leaving an inactive [4Fe-4S] subcluster state. This final inactive degradation product could be reactivated in vitro by incubation with 2Fe subcluster maturation machinery, specifically HydF(EG), which was observed by recovery of enzyme activity. PMID:25579778

  7. Visible and near-infrared luminescence from self-assembled lanthanide(III) clusters with organic photosensitizers

    Synthesis and photophysical properties of nonanuclear lanthanide(III) clusters, H10[Ln9(hesa)16(μ-O)10(NO3)] (hesa=hexylsalicylate, Ln=Gd, Tb and Yb) were investigated. By the ligand excitation at 380 nm in methanol, the Tb cluster exhibited luminescence due to the 4f-4f transitions of Tb(III) around 487, 549, 580, 621, 646, 670, and 680 nm (5D4→7F i : i=6, 5, 4, 3, 2, 1, 0). The Yb cluster also showed the photosensitized luminescence at around 980 nm (2F7/2→2F5/2). Especially, the Tb cluster gave a high emission quantum yield (Φ s>0.90) in methanol

  8. A density functional study of silver clusters on a stepped graphite surface: formation of self-assembled nano-wires.

    Singh, Akansha; Sen, Prasenjit

    2015-05-21

    Adsorption and diffusion of silver adatoms and clusters containing up to eight atoms on an HOPG substrate with an armchair step are studied using density functional methods. Step edges act as attractive sinks for adatoms and clusters. The diffusion barrier of an Ag adatom along the step edge is much larger than that on a clean terrace. At zero temperature, Ag clusters either distort or dissociate by forming covalent bonds with the edge C atoms. At 600 K, Ag5 and Ag8 clusters diffuse to the step edges, and then break up so as to maximize Ag-C bonds. The Ag atoms try to form a nanowire structure along the step edge. At such high temperatures, diffusion of clusters along the step edge involves diffusion of individual Ag atoms not bonded to the edge C atoms. Assumption of complete immobility of clusters trapped at step edges in the Gates-Robins model is not valid at high temperatures in this particular system. PMID:25903308

  9. Effect of the Keggin anions on assembly of CuI-bis(tetrazole) thioether complexes containing multinuclear CuI-cluster

    In order to investigate the effect of polyoxometalate (POM) on the assembly of transition metal-bis(tetrazole) thioether complexes, three new complexes based on different Keggin anions and multinuclear CuI-cluster [CuI12(bmtr)9(HSiMo12O40)4] (1), [CuI3(bmtr)3(PM12O40)] (M=W for 2; Mo for 3) (bmtr=1,3-bis(1-methyl-5-mercapto-1,2,3,4-tetrazole)propane), have been hydrothermally synthesized and characterized by routine physical methods and single crystal X-ray diffraction. In compound 1, two kinds of nanometer-scale tetranuclear subunits linked by [SiMo12O40]4− polyanions assemble a (3, 4)-connected three-dimensional (3D) self-penetrating framework. Compounds 2 and 3 are isostructural, exhibiting a 1D chain with [PW12O40]3−/[PMo12O40]3− polyanions and trinuclear clusters arranging alternately. The distinct structural differences between these POM-based CuI-bmtr complexes of 1 and 2/3 maybe rest on the contrast of Keggin-type polyoxometalate with different central heteroatoms, which have been discussed in detail. In addition, the electrochemical properties of the title complexes have been investigated. - Graphical abstract: Three new complexes based on different Keggin anions and multinuclear CuI-cluster have been synthesized under hydrothermal conditions. The Keggin polyanions with different central heteroatoms play a key role. Highlights: ► The flexible bis(tetrazole)-based thioether ligand with some advantages have been used. ► The effect of Keggin anions with different central heteroatoms has been discussed in detail. ► The electrochemical behaviors and electrocatalysis property have been investigated.

  10. VIMOS Ultra-Deep Survey (VUDS): Witnessing the Assembly of a Massive Cluster at $z\\sim3.3$

    Lemaux, B C; Tasca, L A M; Fèvre, O Le; Zamorani, G; Cassata, P; Garilli, B; Brun, V Le; Maccagni, D; Pentericci, L; Thomas, R; Vanzella, E; Zucca, E; Amorin, R; Bardelli, S; Capak, P; Cassarà, L; Castellano, M; Cimatti, A; Cuby, J G; de la Torre, S; Durkalec, A; Fontana, A; Giavalisco, M; Grazian, A; Hathi, N P; Ilbert, O; Moreau, C; Paltani, S; Ribeiro, B; Salvato, M; Schaerer, D; Scodeggio, M; Sommariva, V; Talia, M; Taniguchi, Y; Tresse, L; Vergani, D; Wang, P W; Charlot, S; Contini, T; Fotopoulou, S; Gal, R R; Kocevski, D D; López-Sanjuan, C; Lubin, L M; Mellier, Y; Sadibekova, T; Scoville, N

    2014-01-01

    Using new spectroscopic observations obtained as part of the VIMOS Ultra-Deep Survey (VUDS), we perform a systematic search for overdense environments in the early universe ($z>2$) and report here on the discovery of Cl J0227-0421, a massive proto-cluster at $z=3.29$. This proto-cluster is characterized by both the large overdensity of spectroscopically confirmed members, $\\delta_{gal}=10.5\\pm2.8$, and a significant overdensity in photometric redshift members. The halo mass of this proto-cluster is estimated, by a variety of methods, to be roughly $3\\times10^{14}$ $\\mathcal{M}_{\\odot}$ at $z\\sim3.3$, which, evolved to $z=0$ results in a halo mass rivaling or exceeding that of the Coma cluster. The properties of 19 spectroscopically confirmed member galaxies are compared with a large sample of VUDS/VVDS galaxies in lower density field environments at similar redshifts. We find tentative evidence for an excess of redder, brighter, and more massive galaxies within the confines of the proto-cluster relative to th...

  11. Interaction between Nbp35 and Cfd1 proteins of cytosolic Fe-S cluster assembly reveals a stable complex formation in Entamoeba histolytica.

    Shadab Anwar

    Full Text Available Iron-Sulfur (Fe-S proteins are involved in many biological functions such as electron transport, photosynthesis, regulation of gene expression and enzymatic activities. Biosynthesis and transfer of Fe-S clusters depend on Fe-S clusters assembly processes such as ISC, SUF, NIF, and CIA systems. Unlike other eukaryotes which possess ISC and CIA systems, amitochondriate Entamoeba histolytica has retained NIF & CIA systems for Fe-S cluster assembly in the cytosol. In the present study, we have elucidated interaction between two proteins of E. histolytica CIA system, Cytosolic Fe-S cluster deficient 1 (Cfd1 protein and Nucleotide binding protein 35 (Nbp35. In-silico analysis showed that structural regions ranging from amino acid residues (P33-K35, G131-V135 and I147-E151 of Nbp35 and (G5-V6, M34-D39 and G46-A52 of Cfd1 are involved in the formation of protein-protein complex. Furthermore, Molecular dynamic (MD simulations study suggested that hydrophobic forces surpass over hydrophilic forces between Nbp35 and Cfd1 and Van-der-Waal interaction plays crucial role in the formation of stable complex. Both proteins were separately cloned, expressed as recombinant fusion proteins in E. coli and purified to homogeneity by affinity column chromatography. Physical interaction between Nbp35 and Cfd1 proteins was confirmed in vitro by co-purification of recombinant Nbp35 with thrombin digested Cfd1 and in vivo by pull down assay and immunoprecipitation. The insilico, in vitro as well as in vivo results prove a stable interaction between these two proteins, supporting the possibility of its involvement in Fe-S cluster transfer to target apo-proteins through CIA machinery in E. histolytica. Our study indicates that initial synthesis of a Fe-S precursor in mitochondria is not necessary for the formation of Cfd1-Nbp35 complex. Thus, Cfd1 and Nbp35 with the help of cytosolic NifS and NifU proteins can participate in the maturation of non-mitosomal Fe-S proteins

  12. Synthesis, properties and surface self-assembly of a pentanuclear cluster based on the new π-conjugated TTF-triazole ligand

    Cui, Long; Geng, Yan-Fang; Leong, Chanel F.; Ma, Qian; D’Alessandro, Deanna M.; Deng, Ke; Zeng, Qing-Dao; Zuo, Jing-Lin

    2016-01-01

    The new π-extended redox-active ligand with both TTF and triazole units, 6-(4,5-bis(propylthio)-1,3-dithiol-2-ylidene)-1H-[1,3]dithiolo[4′,5′:4,5]benzo [1,2-d] [1–3]triazole, has been successfully prepared. Based on the versatile ligand and Cu(tta)2 precursors (tta− = 4,4,4-trifluoro-1-(thiophen-2-yl)butane-1,3-dione), a TTF-based pentanuclear CuII cluster (Cu5(tta)4(TTFN3)6) is synthesized and structurally characterized. Their absorption and electrochemical properties are investigated. Antiferromagnetic couplings are operative between metal ion centers bridged by triazoles in the complex. The self-assembled structure of the cluster complex on a highly oriented pyrolytic graphite (HOPG) surface was observed using scanning tunneling microscopy and density functional theory (DFT) calculations have been performed to provide insight into the formation mechanism. The introduction of the redox-active TTF unit into the cluster complexes with interesting magnetic properties renders them promising candidates for new multifunctional materials. PMID:27150720

  13. De Novo Assembly and Genome Analyses of the Marine-Derived Scopulariopsis brevicaulis Strain LF580 Unravels Life-Style Traits and Anticancerous Scopularide Biosynthetic Gene Cluster

    Kumar, Abhishek; Henrissat, Bernard; Arvas, Mikko; Syed, Muhammad Fahad; Thieme, Nils; Benz, J. Philipp; Sørensen, Jens Laurids; Record, Eric; Pöggeler, Stefanie; Kempken, Frank

    2015-01-01

    The marine-derived Scopulariopsis brevicaulis strain LF580 produces scopularides A and B, which have anticancerous properties. We carried out genome sequencing using three next-generation DNA sequencing methods. De novo hybrid assembly yielded 621 scaffolds with a total size of 32.2 Mb and 16298 putative gene models. We identified a large non-ribosomal peptide synthetase gene (nrps1) and supporting pks2 gene in the same biosynthetic gene cluster. This cluster and the genes within the cluster are functionally active as confirmed by RNA-Seq. Characterization of carbohydrate-active enzymes and major facilitator superfamily (MFS)-type transporters lead to postulate S. brevicaulis originated from a soil fungus, which came into contact with the marine sponge Tethya aurantium. This marine sponge seems to provide shelter to this fungus and micro-environment suitable for its survival in the ocean. This study also builds the platform for further investigations of the role of life-style and secondary metabolites from S. brevicaulis. PMID:26505484

  14. Synthesis, properties and surface self-assembly of a pentanuclear cluster based on the new π-conjugated TTF-triazole ligand

    Cui, Long; Geng, Yan-Fang; Leong, Chanel F.; Ma, Qian; D’Alessandro, Deanna M.; Deng, Ke; Zeng, Qing-Dao; Zuo, Jing-Lin

    2016-05-01

    The new π-extended redox-active ligand with both TTF and triazole units, 6-(4,5-bis(propylthio)-1,3-dithiol-2-ylidene)-1H-[1,3]dithiolo[4‧,5‧:4,5]benzo [1,2-d] [1–3]triazole, has been successfully prepared. Based on the versatile ligand and Cu(tta)2 precursors (tta‑ = 4,4,4-trifluoro-1-(thiophen-2-yl)butane-1,3-dione), a TTF-based pentanuclear CuII cluster (Cu5(tta)4(TTFN3)6) is synthesized and structurally characterized. Their absorption and electrochemical properties are investigated. Antiferromagnetic couplings are operative between metal ion centers bridged by triazoles in the complex. The self-assembled structure of the cluster complex on a highly oriented pyrolytic graphite (HOPG) surface was observed using scanning tunneling microscopy and density functional theory (DFT) calculations have been performed to provide insight into the formation mechanism. The introduction of the redox-active TTF unit into the cluster complexes with interesting magnetic properties renders them promising candidates for new multifunctional materials.

  15. Cooperative phenomena in self-assembled nucleation of 3 × 4-In/Si(100) surface magic clusters

    Utas, O. A.; Denisov, N. V.; Kotlyar, V. G.; Zotov, A. V.; Saranin, A. A.; Chou, J. P.; Lai, M. Y.; Wei, C. M.; Wang, Y. L.

    2010-07-01

    Using statistical analysis of the scanning tunneling microscopy images of the 3 × 4-In surface magic cluster (SMC) arrays on Si(100)1 × 2 substrate at low In coverages, the main regularities of the space distribution of the nucleated SMCs have been established. It has been found that a nucleated SMC perturbs the surface potential relief within a limited zone around itself in a way that some of the sites in the zone demonstrate a great preference for nucleating a new cluster, while in the other sites the nucleation is greatly suppressed. Outside the zone, the nucleation probability is close to that of the random nucleation simulated using Monte-Carlo technique. Energetic background of the observed phenomena has been proved using density-functional theory calculations, which clearly demonstrate that the lower the formation energy the higher the occurrence probability of a given cluster-pair configuration.

  16. Massive black holes interactions during the assembly of heavy sub-structures in the centre of galaxy clusters

    Donnari, M; Merafina, M

    2016-01-01

    We performed a series of direct N-body simulations with the aim to follow the dynamical evolution of a galaxy cluster (GC) ($M_{clus}\\simeq 10^{14} M_{\\odot}$) in different environment. The results show the formation of heavy sub-structures in the cluster centre in consequence of multiple merging among the innermost galaxies. Moreover we investigate the dynamics of super-massive black holes (SMBHs) residing in the centre of galaxies that form the most massive sub-structure.

  17. Biomolecule-Assisted Hydrothermal Synthesis and Self-Assembly of Bi2Te3 Nanostring-Cluster Hierarchical Structure

    Mi, Jianli; Lock, Nina; Sun, Ting; Christensen, Mogens; Søndergaard, Martin; Hald, Peter; Hng, Huey H.; Ma, Jan; Iversen, Bo Brummerstedt

    2010-01-01

    A simple biomolecule-assisted hydrothermal approach has been developed for the fabrication of Bi2Te3 thermoelectric nanomaterials. The product has a nanostring-cluster hierarchical structure which is composed of ordered and aligned platelet-like crystals. The platelets are100 nm in diameter and...... template. Subsequently, Bi2Te3 grows in a certain direction on the surface of the Te rods, resulting in the nanostring structure. The nanostrings further recombine side-byside with each other to achieve the ordered nanostring clusters. The particle size and morphology can be controlled by adjusting the...

  18. Low-energy spectrum of iron-sulfur clusters directly from many-particle quantum mechanics

    Sharma, Sandeep; Neese, Frank; Chan, Garnet Kin-Lic

    2014-01-01

    FeS clusters are a universal biological motif. They carry out electron transfer, redox chemistry, and even oxygen sensing, in diverse processes including nitrogen fixation, respiration, and photosynthesis. The low-lying electronic states are key to their remarkable reactivity, but cannot be directly observed. Here we present the first ever quantum calculation of the electronic levels of [2Fe-2S] and [4Fe-4S] clusters free from any model assumptions. Our results highlight limitations of long-standing models of their electronic structure. In particular, we demonstrate that the widely used Heisenberg-Double-Exchange model underestimates the number of states by 1-2 orders of magnitude, which can conclusively be traced to the absence of Fe d$\\rightarrow$d excitations, thought to be important in these clusters. Further, the electronic energy levels of even the same spin are dense on the scale of vibrational fluctuations, and this provides a natural explanation for the ubiquity of these clusters in nature for cataly...

  19. Distribution of star formation rates during the rapid assembly of NGC 1399 as deduced from its globular cluster system

    Schulz, C; Kroupa, P; Pflamm-Altenburg, J

    2016-01-01

    Ultra-compact dwarf galaxies (UCDs) share many properties with globular clusters (GCs) and are found in similar environments. A large sample of UCDs and GCs around NGC 1399, the central giant elliptical of the Fornax galaxy cluster, is used to infer their formation history and also that of NGC 1399. We assumed that all GCs and UCDs in our sample are star clusters (SCs) and used them as tracers of past star formation activities. After correcting our GC/UCD sample for mass loss, we interpreted their overall mass function to be a superposition of SC populations that formed coevally during different times. The SC masses of each population were distributed according to the embedded cluster mass function (ECMF), a pure power law with the slope $-\\beta$ and a stellar upper mass limit, $M_{\\mathrm{max}}$, which depended on the star formation rate (SFR). We decomposed the observed GC/UCD mass function into individual SC populations and converted $M_{\\mathrm{max}}$ of each SC population to an SFR. The overall distribut...

  20. Luminescent Hydrogel Particles Prepared by Self-Assembly of β-Cyclodextrin Polymer and Octahedral Molybdenum Cluster Complexes

    Kirakci, Kaplan; Šícha, Václav; Holub, Josef; Kubát, Pavel; Lang, Kamil

    2014-01-01

    Roč. 53, č. 24 (2014), s. 13012-13018. ISSN 0020-1669 R&D Projects: GA ČR GA13-05114S Institutional support: RVO:61388980 ; RVO:61388955 Keywords : Octahedral Molybdenum Cluster * Hydrogel * Luminescence Subject RIV: CA - Inorganic Chemistry Impact factor: 4.762, year: 2014

  1. Luminescent hydrogel particles prepared by self-assembly of Mo6 cluster complexes and beta-cyclodextrin polymer

    Kirakci, Kaplan; Šícha, Václav; Holub, Josef; Kubát, Pavel; Lang, Kamil

    Seoul: IUMRS-ICAM, 2015. I-3Mo4D3-5. [International Union of Materials Research Societies- International Conference on Advanced Materials /14./. 25.10.2015-29.10.2015, Jeju Island] Institutional support: RVO:61388980 ; RVO:61388955 Keywords : molybdenurn cluster s * cyclodextrins, phosphorescence * oxygen sensing * singlet oxygen Subject RIV: CA - Inorganic Chemistry

  2. Plasmon resonance hybridization in self-assembled copper nanoparticle clusters: efficient and precise localization of surface plasmon resonance (LSPR) sensing based on Fano resonances.

    Ahmadivand, Arash; Pala, Nezih

    2015-01-01

    In this work, we have investigated the hybridization of plasmon resonance modes in completely copper (Cu)-based subwavelength nanoparticle clusters from simple symmetric dimers to complex asymmetric self-assembled structures. The quality of apparent bonding and antibonding plasmon resonance modes for all of the clusters has been studied, and we examined the spectral response of each one of the proposed configurations numerically using the finite-difference time domain (FDTD) method. The effect of the geometric sizes of nanoparticles used and substrate refractive index on the cross-sectional profiles of each of the studied structures has been calculated and drawn. We proved that Fano-like resonance can be formed in Cu-based heptamer clusters as in analogous noble metallic particles (e.g., Au and Ag) by determining the coupling strength and interference between sub-radiant and super-radiant resonance modes. Employing certain Cu nanodiscs in designing an octamer structure, we measured the quality of the Fano dip formation along the scattering diagram. Accurate tuning of the geometric sizes for the Cu-based octamer yields an opportunity to observe isotropic, deep, and narrow Fano minima along the scattering profile that are in comparable condition with the response of other plasmonic metallic substances. Immersing investigated final Cu-based octamer in various liquids with different refractive indices, we determined the sensing accuracy of the cluster based on the performance of the Fano dip. Plotting a linear diagram of plasmon energy differences over the refractive index variations as a figure of merit (FoM), which we have quantified as 13.25. With this method, the precision of the completely Cu-based octamer is verified numerically using the FDTD tool. This study paves the way toward the use of Cu as an efficient, low-cost, and complementary metal-oxide semiconductor (CMOS)-compatible plasmonic material with optical properties that are similar to analogous plasmonic

  3. Spatial Association of Signaling Proteins and F-Actin Effects on Cluster Assembly Analyzed via Photoactivation Localization Microscopy in T Cells

    Hsu, Chih-Jung; Baumgart, Tobias

    2011-01-01

    Recognition of antigens by T cell receptors (TCRs) triggers cellular signaling cascades initiated by recruitment to the plasma membrane of numerous effector molecules to form signaling microclusters (MCs). Here we show that the method of high-resolution photoactivation localization microscopy (PALM) imaging can be used to analyze the spatial correlation between kinase ZAP70 and adaptor SLP76 MCs at the cell periphery and the effects of F-actin on MC assembly. We first determined the photophysical rate constants of Dronpa and tdEos fluorescence probes, which allowed us to optimize our dual-color PALM imaging method. We next analyzed the degrees of spatial association through determination of Mander's colocalization coefficients from PALM images, which revealed increasing spatial segregation of ZAP70 and SLP76 MCs at the cell periphery after initiation of signaling. We showed that this spatial segregation at the cell periphery occurred in parallel with the reduction of MC phosphorylation levels. Furthermore, we used Ripley's K function to analyze spatial randomness, and determined average radii of clusters as a function of activation time. The average radii of SLP76 and LAT MCs were found to decrease, whereas ZAP70 MC radii remained relatively constant. Finally, effects of F-actin depolymerization on MC morphology were studied by determining radial distributions of cluster circularity. Our data suggest that MC morphology is affected by actin polymerization. The quantitative analysis of sub-diffraction PALM images may provide a starting point for a molecular interpretation of cluster-cluster interactions and of the regulation of T cell signaling MCs by the cytoskeleton. PMID:21887278

  4. A review of immune amplification via ligand clustering by self-assembled liquid-crystalline DNA complexes.

    Lee, Ernest Y; Lee, Calvin K; Schmidt, Nathan W; Jin, Fan; Lande, Roberto; Curk, Tine; Frenkel, Daan; Dobnikar, Jure; Gilliet, Michel; Wong, Gerard C L

    2016-06-01

    We examine how the interferon production of plasmacytoid dendritic cells is amplified by the self-assembly of liquid-crystalline antimicrobial peptide/DNA complexes. These specialized dendritic cells are important for host defense because they quickly release large quantities of type I interferons in response to infection. However, their aberrant activation is also correlated with autoimmune diseases such as psoriasis and lupus. In this review, we will describe how polyelectrolyte self-assembly and the statistical mechanics of multivalent interactions contribute to this process. In a more general compass, we provide an interesting conceptual corrective to the common notion in molecular biology of a dichotomy between specific interactions and non-specific interactions, and show examples where one can construct exquisitely specific interactions using non-specific interactions. PMID:26956527

  5. Cluster Lenses

    Kneib, Jean-Paul; 10.1007/s00159-011-0047-3

    2012-01-01

    Clusters of galaxies are the most recently assembled, massive, bound structures in the Universe. As predicted by General Relativity, given their masses, clusters strongly deform space-time in their vicinity. Clusters act as some of the most powerful gravitational lenses in the Universe. Light rays traversing through clusters from distant sources are hence deflected, and the resulting images of these distant objects therefore appear distorted and magnified. Lensing by clusters occurs in two regimes, each with unique observational signatures. The strong lensing regime is characterized by effects readily seen by eye, namely, the production of giant arcs, multiple-images, and arclets. The weak lensing regime is characterized by small deformations in the shapes of background galaxies only detectable statistically. Cluster lenses have been exploited successfully to address several important current questions in cosmology: (i) the study of the lens(es) - understanding cluster mass distributions and issues pertaining...

  6. Computation of neutron fluxes in clusters of fuel pins arranged in hexagonal assemblies (2D and 3D)

    For computations of fluxes, we have used Carvik's method of collision probabilities. This method requires tracking algorithms. An algorithm to compute tracks (in 2D and 3D) has been developed for seven hexagonal geometries with cluster of fuel pins. This has been implemented in the NXT module of the code DRAGON. The flux distribution in cluster of pins has been computed by using this code. For testing the results, they are compared when possible with the EXCELT module of the code DRAGON. Tracks are plotted in the NXT module by using MATLAB, these plots are also presented here. Results are presented with increasing number of lines to show the convergence of these results. We have numerically computed volumes, surface areas and the percentage errors in these computations. These results show that 2D results converge faster than 3D results. The accuracy on the computation of fluxes up to second decimal is achieved with fewer lines. (authors)

  7. Assembling Fe/S-clusters and modifying tRNAs: ancient co-factors meet ancient adaptors

    Alfonzo, J. D.; Lukeš, Julius

    2011-01-01

    Roč. 27, č. 6 (2011), 234-237. ISSN 1471-4922 R&D Projects: GA MŠk LC07032; GA MŠk 2B06129; GA ČR GA204/09/1667 Institutional research plan: CEZ:AV0Z60220518 Keywords : IRON-SULFUR CLUSTERS * TRYPANOSOMA-BRUCEI * MITOCHONDRIAL * PROTEIN * FRATAXIN * BIOSYNTHESIS * SYNTHETASES * BIOGENESIS * THIOLATION * ANTICODON Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 5.144, year: 2011

  8. Microstructures and luminescence behaviors of Mn2+ doped ZnS nanoparticle clusters with different core/shell assembled orders

    Highlights: • ZnS:Mn2+@ZnS NPs were grown to be larger than ZnS:Mn2+ and ZnS@ZnS:Mn2+. • PL was mainly influenced by energy migration (EM) from core to shell layers of NPs. • ZnS and Mn2+ acted as activator and sensitizer of the EM processes, respectively. • S2− vacancies acted as migrators between ZnS in the core and Mn2+ in the shell. • An optimized EM route length was founded in ZnS@ZnS:Mn2+ NPs, so it got efficient PL. -- Abstract: Mn2+ doped ZnS nanoparticle (NP) clusters composed of densely packed ZnS:Mn2+ NPs, ZnS/ZnS:Mn2+ core/shell NPs, or ZnS:Mn2+/ZnS core/shell NPs were prepared by a chemical co-precipitation method. Estimation of the lattice parameters and the band gap of the ZnS NP clusters through X-ray diffraction and optical diffuse reflectance spectra showed no noticeable divergence due to Mn2+ dopants. Transmission electron microscopy revealed that ZnS:Mn2+/ZnS NP clusters contained much larger NP crystallites associated with the high growth rate of undoped ZnS shell layers. In contrast, Mn2+ dopants limited the deposition of ZnS:Mn2+ shell layers, leading to smaller particle sizes of ZnS:Mn2+ and ZnS/ZnS:Mn2+ NPs in the clusters. Among all the samples, ZnS/ZnS:Mn2+ NP clusters exhibited the most intense orange emission of Mn2+, which was further confirmed by the estimated energy transfer (from ZnS to Mn2+) efficiency values, i.e., ZnS/ZnS:Mn2+ (42.1%) > ZnS:Mn2+/ZnS (15.9%) > ZnS:Mn2+ (1%). An energy migration mechanism was proposed for interpreting the high energy transfer efficiency of the ZnS/ZnS:Mn2+ structure

  9. A kinetic model for impact/sliding wear of pressurized water reactor internal components. Application to rod cluster control assemblies

    A new concept of industrial wear model adapted to components of nuclear plants is proposed. Its originality is to be supported, on one hand, by experimental results obtained via wear machines of relatively short operational times, and, on the other hand, by the information obtained from the operating feedback over real wear kinetics of the reactors components. The proposed model is illustrated by an example which corresponds to a specific real situation. The determination of the coefficients permitting to cover all assembly of configurations and the validation of the model in these configurations have been the object of the most recent work. (author)

  10. A kinetic model for impact/sliding wear of pressurized water reactor internal components. Application to rod cluster control assemblies

    Zbinden, M.; Durbec, V.

    1996-12-01

    A new concept of industrial wear model adapted to components of nuclear plants is proposed. Its originality is to be supported, on one hand, by experimental results obtained via wear machines of relatively short operational times, and, on the other hand, by the information obtained from the operating feedback over real wear kinetics of the reactors components. The proposed model is illustrated by an example which corresponds to a specific real situation. The determination of the coefficients permitting to cover all assembly of configurations and the validation of the model in these configurations have been the object of the most recent work. (author). 34 refs.

  11. Effect of the Keggin anions on assembly of Cu{sup I}-bis(tetrazole) thioether complexes containing multinuclear Cu{sup I}-cluster

    Wang Xiuli, E-mail: wangxiuli@bhu.edu.cn [Department of Chemistry, Bohai University, Liaoning Province Silicon Materials Engineering Technology Research Centre, Jinzhou 121000 (China); Gao Qiang; Tian Aixiang; Hu Hailiang; Liu Guocheng [Department of Chemistry, Bohai University, Liaoning Province Silicon Materials Engineering Technology Research Centre, Jinzhou 121000 (China)

    2012-03-15

    In order to investigate the effect of polyoxometalate (POM) on the assembly of transition metal-bis(tetrazole) thioether complexes, three new complexes based on different Keggin anions and multinuclear Cu{sup I}-cluster [Cu{sup I}{sub 12}(bmtr){sub 9}(HSiMo{sub 12}O{sub 40}){sub 4}] (1), [Cu{sup I}{sub 3}(bmtr){sub 3}(PM{sub 12}O{sub 40})] (M=W for 2; Mo for 3) (bmtr=1,3-bis(1-methyl-5-mercapto-1,2,3,4-tetrazole)propane), have been hydrothermally synthesized and characterized by routine physical methods and single crystal X-ray diffraction. In compound 1, two kinds of nanometer-scale tetranuclear subunits linked by [SiMo{sub 12}O{sub 40}]{sup 4-} polyanions assemble a (3, 4)-connected three-dimensional (3D) self-penetrating framework. Compounds 2 and 3 are isostructural, exhibiting a 1D chain with [PW{sub 12}O{sub 40}]{sup 3-}/[PMo{sub 12}O{sub 40}]{sup 3-} polyanions and trinuclear clusters arranging alternately. The distinct structural differences between these POM-based Cu{sup I}-bmtr complexes of 1 and 2/3 maybe rest on the contrast of Keggin-type polyoxometalate with different central heteroatoms, which have been discussed in detail. In addition, the electrochemical properties of the title complexes have been investigated. - Graphical abstract: Three new complexes based on different Keggin anions and multinuclear Cu{sup I}-cluster have been synthesized under hydrothermal conditions. The Keggin polyanions with different central heteroatoms play a key role. Highlights: Black-Right-Pointing-Pointer The flexible bis(tetrazole)-based thioether ligand with some advantages have been used. Black-Right-Pointing-Pointer The effect of Keggin anions with different central heteroatoms has been discussed in detail. Black-Right-Pointing-Pointer The electrochemical behaviors and electrocatalysis property have been investigated.

  12. The ongoing assembly of a central cluster galaxy: Phase-space substructures in the halo of M87

    Romanowsky, Aaron J; Brodie, Jean P; Mihos, J Christopher; Spitler, Lee R; Forbes, Duncan A; Foster, Caroline; Arnold, Jacob A

    2011-01-01

    The halos of galaxies preserve unique records of their formation histories. We carry out the first combined observational and theoretical study of phase-space halo substructure in an early-type galaxy: M87, the central galaxy in the Virgo cluster. We analyze an unprecedented wide-field, high-precision photometric and spectroscopic data set for 488 globular clusters (GCs), which includes new, large-radius Subaru/Suprime-Cam and Keck/DEIMOS observations. We find signatures of two substructures in position-velocity phase-space. One is a small, cold stream associated with a known stellar filament in the outer halo; the other is a large shell-like pattern in the inner halo that implies a massive, hitherto unrecognized accretion event. We perform extensive statistical tests and independent metallicity analyses to verify the presence and characterize the properties of these features, and to provide more general methodologies for future extragalactic studies of phase-space substructure. The cold outer stream is consi...

  13. Pulsed laser deposition of cluster-assembled films for catalysis and the photocatalysis relevant to energy and the environment

    Nanoparticles (NPs) catalysts are under intense investigation in the catalysis community due to their exceptional activity and selective nature in catalytic processes as compared to the corresponding bulk counterpart, especially because of their large surface-to-volume atomic ratio, size- and shape-dependent properties, and high concentration of low-coordinated active surface sites. However, there is no general strategy to synthesize NPs of various materials with narrow size distribution, tailored properties, and desired morphologies. The development of a technique able to prepare NPs is thus a goal of great importance to avoid present trial and error approaches. Here we report on selected examples where pulsed laser deposition (PLD) technique greatly contributes toward NPs synthesis. Co NPs embedded in B matrix films have been synthesized by PLD technique by taking advantage of the phase explosion process of superheated liquid where a mixture of vapor and liquid droplets leave the irradiated target surface and get deposited on the substrate. The deposited NPs exhibit catalytic properties comparable to that of precious metals in hydrogen production by hydrolysis of NaBH4 and NH3BH3. These NPs, when supported on rough carbon film prepared by PLD, show about 30% increase in catalytic activity for H2 production as compared to unsupported NPs. Co3O4 NPs assembled coating has been produced by reactive PLD in oxygen atmosphere at various substrate temperatures from room temperature to 250 °C. It was proved that the Co3O4 NPs can be obtained in a single step at low temperatures with mixed disordered-nanocrystalline phase that is a relevant feature for catalysis. The Co3O4 NPs assembled thin coating, employed in degradation of methylene blue solution, in water, via photo Fenton reaction in presence of H2O2, exhibits significantly higher activity as compared to the corresponding homogeneous catalyst.

  14. THE ONGOING ASSEMBLY OF A CENTRAL CLUSTER GALAXY: PHASE-SPACE SUBSTRUCTURES IN THE HALO OF M87

    The halos of galaxies preserve unique records of their formation histories. We carry out the first combined observational and theoretical study of phase-space halo substructure in an early-type galaxy: M87, the central galaxy in the Virgo cluster. We analyze an unprecedented wide-field, high-precision photometric and spectroscopic data set for 488 globular clusters (GCs), which includes new, large-radius Subaru/Suprime-Cam and Keck/DEIMOS observations. We find signatures of two substructures in position-velocity phase space. One is a small, cold stream associated with a known stellar filament in the outer halo; the other is a large shell-like pattern in the inner halo that implies a massive, hitherto unrecognized accretion event. We perform extensive statistical tests and independent metallicity analyses to verify the presence and characterize the properties of these features, and to provide more general methodologies for future extragalactic studies of phase-space substructure. The cold outer stream is consistent with a dwarf galaxy accretion event, while for the inner shell there is tension between a low progenitor mass implied by the cold velocity dispersion, and a high mass from the large number of GCs, which might be resolved by a ∼0.5 L* E/S0 progenitor. We also carry out proof-of-principle numerical simulations of the accretion of smaller galaxies in an M87-like gravitational potential. These produce analogous features to the observed substructures, which should have observable lifetimes of ∼1 Gyr. The shell and stream GCs together support a scenario where the extended stellar envelope of M87 has been built up by a steady rain of material that continues until the present day. This phase-space method demonstrates unique potential for detailed tests of galaxy formation beyond the Local Group.

  15. DFT evaluation of the electronic structures and spectroscopic properties of the self-assembled [Pt_2M_4(C=CH)_8](M=Cu,Ag) clusters

    BAI FuQuan; XIA BaoHui; ZHANG HongXing; YANG BaoZhu; WANG Jian; SUN Lei

    2009-01-01

    Electronic structures and spectroscopic properties of self-assembled[Pt_2M_4(C≡CH)_8](M=Cu,Ag) clusters have been studied by the TD-DFT (time-dependent density functional theory) calculations with the polarizable continuum model (PCM).The ground-and excited-state structures were optimized by the DFT (density functional theory) methods.The calculated structures and spectroscopic properties are in agreement with the corresponding experimental results.The[Pt_2M_4(C≡CH)_8]clusters have two stable ground state geometries (D_4 and D_(4h) symmetry).The calculated Pt-M distances suggest only very weak interactions.The Cu-Cu distances are larger than the van der Waals radii of two Cu atoms and the Ag-Ag distances are analogous with the sum of van der Waals radii of two Ag atoms.Upon excitation,the interaction of Pt…M,Ag…Ag is strengthened,while the Cu…Cu distances are shortened but they are still larger than the sum of van der Waals radii of two Cu atoms.The lowest-energy absorptions are at 450,365 and 375 nm and the emissions are at 611,431 and 435 nm for[Pt_2M_4(C≡CH)_8],[Pt_2M_4(C≡CH)_8](A) and (B),respectively.The transitions are all perturbed by the Cu or Ag composition through the UV-Vis spectra region;therefore,there are not pure ILCT or M_(pt)LCT characteristics (ILCT:intraligand charge transfer;MLCT:metal-to-ligand charge transfer) in absorptions of heteropolynuclear [Pt_2M_4(C≡CH)_8]clusters.Since the emissions and the lowest-absorptions have different transition characteristics for each complex,the emissions should not come from the lowest-energy absorptions.Because the M…M interactions in the excited state of[Pt_2Ag_4(C≡CH)_8]are augmented,the emissions of [Pt_2Ag_4(C≡CH)_8]clusters bear prominent ILCT character,which is the reason why the emission wavelengths of[Pt_2Ag_4(C≡CH)_8]have a small hypsochromic shift relative to the emission wavelength of homoleptic[Pt(C≡CH)_4]~(2-)precursor.

  16. Pulsed laser deposition of cluster-assembled films for catalysis and the photocatalysis relevant to energy and the environment

    Miotello, A., E-mail: miotello@science.unitn.it [Department of Physics, University of Trento, I-38123 Povo, Trento (Italy); Patel, N. [Department of Physics, University of Trento, I-38123 Povo, Trento (Italy)

    2013-08-01

    Nanoparticles (NPs) catalysts are under intense investigation in the catalysis community due to their exceptional activity and selective nature in catalytic processes as compared to the corresponding bulk counterpart, especially because of their large surface-to-volume atomic ratio, size- and shape-dependent properties, and high concentration of low-coordinated active surface sites. However, there is no general strategy to synthesize NPs of various materials with narrow size distribution, tailored properties, and desired morphologies. The development of a technique able to prepare NPs is thus a goal of great importance to avoid present trial and error approaches. Here we report on selected examples where pulsed laser deposition (PLD) technique greatly contributes toward NPs synthesis. Co NPs embedded in B matrix films have been synthesized by PLD technique by taking advantage of the phase explosion process of superheated liquid where a mixture of vapor and liquid droplets leave the irradiated target surface and get deposited on the substrate. The deposited NPs exhibit catalytic properties comparable to that of precious metals in hydrogen production by hydrolysis of NaBH{sub 4} and NH{sub 3}BH{sub 3}. These NPs, when supported on rough carbon film prepared by PLD, show about 30% increase in catalytic activity for H{sub 2} production as compared to unsupported NPs. Co{sub 3}O{sub 4} NPs assembled coating has been produced by reactive PLD in oxygen atmosphere at various substrate temperatures from room temperature to 250 °C. It was proved that the Co{sub 3}O{sub 4} NPs can be obtained in a single step at low temperatures with mixed disordered-nanocrystalline phase that is a relevant feature for catalysis. The Co{sub 3}O{sub 4} NPs assembled thin coating, employed in degradation of methylene blue solution, in water, via photo Fenton reaction in presence of H{sub 2}O{sub 2}, exhibits significantly higher activity as compared to the corresponding homogeneous catalyst.

  17. Fast assembling microarrays of superparamagnetic Fe3O4@Au nanoparticle clusters as reproducible substrates for surface-enhanced Raman scattering

    Ye, Min; Wei, Zewen; Hu, Fei; Wang, Jianxin; Ge, Guanglu; Hu, Zhiyuan; Shao, Mingwang; Lee, Shuit-Tong; Liu, Jian

    2015-08-01

    It is currently a very active research area to develop new types of substrates which integrate various nanomaterials for surface-enhanced Raman scattering (SERS) techniques. Here we report a unique approach to prepare SERS substrates with reproducible performance. It features silicon mold-assisted magnetic assembling of superparamagnetic Fe3O4@Au nanoparticle clusters (NCs) into arrayed microstructures on a wafer scale. This approach enables the fabrication of both silicon-based and hydrogel-based substrates in a sequential manner. We have demonstrated that strong SERS signals can be harvested from these substrates due to an efficient coupling effect between Fe3O4@Au NCs, with enhancement factors >106. These substrates have been confirmed to provide reproducible SERS signals, with low variations in different locations or batches of samples. We investigate the spatial distributions of electromagnetic field enhancement around Fe3O4@Au NCs assemblies using finite-difference-time-domain (FDTD) simulations. The procedure to prepare the substrates is straightforward and fast. The silicon mold can be easily cleaned out and refilled with Fe3O4@Au NCs assisted by a magnet, therefore being re-useable for many cycles. Our approach has integrated microarray technologies and provided a platform for thousands of independently addressable SERS detection, in order to meet the requirements of a rapid, robust, and high throughput performance.It is currently a very active research area to develop new types of substrates which integrate various nanomaterials for surface-enhanced Raman scattering (SERS) techniques. Here we report a unique approach to prepare SERS substrates with reproducible performance. It features silicon mold-assisted magnetic assembling of superparamagnetic Fe3O4@Au nanoparticle clusters (NCs) into arrayed microstructures on a wafer scale. This approach enables the fabrication of both silicon-based and hydrogel-based substrates in a sequential manner. We have

  18. DETECTION OF OUTFLOWING AND EXTRAPLANAR GAS IN DISKS IN AN ASSEMBLING GALAXY CLUSTER AT z = 0.37

    We detect ionized gas characteristics indicative of winds in three disk-dominated galaxies that are members of a super-group at z = 0.37 that will merge to form a Coma-mass cluster. All three galaxies are IR luminous (LIR > 4 × 1010 L☉, SFR > 8 M☉ yr–1) and lie outside the X-ray cores of the galaxy groups. We find that the most IR-luminous galaxy has strong blueshifted and redshifted emission lines with velocities of ∼ ± 200 km s–1 and a third, blueshifted (∼900 km s–1) component. This galaxy's line widths (Hβ, [O III]λ5007, [N II], Hα) correspond to velocities of 100-1000 km s–1. We detect extraplanar gas in two of the three galaxies with SFR >8 M☉ yr–1 whose orientations are approximately edge-on and which have integral field unit (IFU) spaxels off the stellar disk. IFU maps reveal that the extraplanar gas extends to rh ∼ 10 kpc; [N II] and Hα line widths correspond to velocities of ∼200-400 km s–1 in the disk and decrease to ∼50-150 km s–1 above the disk. Multi-wavelength observations indicate that the emission is dominated by star formation. Including the most IR-luminous galaxy we find that 18% of supergroup members with SFR >8 M☉ yr–1 show ionized gas characteristics indicative of outflows. This is a lower limit as showing that gas is outflowing in the remaining, moderately inclined, galaxies requires a non-trivial decoupling of contributions to the emission lines from rotational and turbulent motion. Ionized gas mass loss in these winds is ∼0.1 M☉ yr–1 for each galaxy, although the winds are likely to entrain significantly larger amounts of mass in neutral and molecular gases.

  19. SHORT GAMMA-RAY BURSTS FROM DYNAMICALLY ASSEMBLED COMPACT BINARIES IN GLOBULAR CLUSTERS: PATHWAYS, RATES, HYDRODYNAMICS, AND COSMOLOGICAL SETTING

    We present a detailed assessment of the various dynamical pathways leading to the coalescence of compact objects in globular clusters (GCs) and Short Gamma-ray Burst (SGRB) production. We consider primordial binaries, dynamically formed binaries (through tidal two-body and three-body exchange interactions), and direct impacts of compact objects (WD/NS/BH). Here, we show that if the primordial binary fraction is small, close encounters dominate the production rate of coalescing compact systems. We find that the two dominant channels are the interaction of field neutron stars (NSs) with dynamically formed binaries and two-body encounters. Under such conditions, we estimate the redshift distribution and host galaxy demographics of SGRB progenitors, and find that GCs can provide a significant contribution to the overall observed rate. Regarding the newly identified channel of close stellar encounters involving WD/NS/BH, we have carried out precise modeling of the hydrodynamical evolution, giving us a detailed description of the resulting merged system. Our calculations show that there is in principle no problem in accounting for the global energy budget of a typical SGRB. The particulars of each encounter, however, are variable in several aspects and can lead to interesting diversity. First and most importantly, the characteristics of the encounter are highly dependent on the impact parameter. This is in contrast to the merger scenario, where the masses of the compact objects dictate a typical length and luminosity scale for SGRB activity. Second, the nature of the compact star itself can produce very different outcomes. Finally, the presence of tidal tails in which material will fall back onto the central object at a later time is a robust feature of the present set of calculations. The mass involved in these structures is considerably larger than for binary mergers. It is thus possible to account generically in this scenario for a prompt episode of energy release, as

  20. CRITICAL CONFIGURATION FOR BERYLLIUM REFLECTED ASSEMBLIES OF U(93.15)O2 FUEL RODS (1.506-CM PITCH AND 7-TUBE CLUSTERS)

    Margaret A. Marshall

    2012-05-01

    A series of critical experiments were completed in 1962-1965 at Oak Ridge National Laboratory’s Critical Experiments Facility in support of the Medium-Power Reactor Experiments (MPRE) program. In the late 1950’s efforts were made to study “power plants for the production of electrical power in space vehicles”. The MPRE program was a part of those efforts and studied the feasibility of a stainless steel system, boiling potassium 1 MW(t), or about 140 kW(e), reactor. The program was carried out in [fiscal years] 1964, 1965, and 1966. A summary of the program’s effort was compiled in 1967. The delayed critical experiments were a mockup of a small, potassium-cooled space power reactor for validation of reactor calculations and reactor physics methods. Initial experiments, performed in November and December of 1962, consisted of a core of 253 unmoderated stainless steel tubes, each containing 26 UO2 fuel pellets, surrounded by a graphite reflector. Measurements were made to determine critical reflector arrangements, fission-rate distributions, and cadmium ratio distributions. “The [assemblies were built] on [a] vertical assembly machine so that the movable part was the core and bottom reflector.” The first two experiments in the series were evaluated in HEU-COMP-FAST-001 (SCCA-FUND-EXP-001) and HEU-COMP-FAST-002 (SCCA-FUND-EXP-002). The first experiment had the 253 fuel tubes packed tightly into a 22.87 cm outside diameter (OD) core tank (References 1 and 2). The second experiment in the series, performed in early 1963, had the 253 fuel tubes at a 1.506-cm triangular lattice in a 25.96 cm OD core tank and graphite reflectors on all sides. The third set of experiments in the series, performed in mid-1963, which is studied in this evaluation, used beryllium reflectors. The beryllium reflected system was the preferred reactor configuration for this application because of the small thickness of the reflector. The two core configurations had the 253 fuel tubes

  1. The CoxD protein, a novel AAA+ ATPase involved in metal cluster assembly: hydrolysis of nucleotide-triphosphates and oligomerization.

    Tobias Maisel

    Full Text Available CoxD of the α-proteobacterium Oligotropha carboxidovorans is a membrane protein which is involved in the posttranslational biosynthesis of the [CuSMoO₂] cluster in the active site of the enzyme CO dehydrogenase. The bacteria synthesize CoxD only in the presence of CO. Recombinant CoxD produced in E. coli K38 pGP1-2/pETMW2 appeared in inclusion bodies from where it was solubilized by urea and refolded by stepwise dilution. Circular dichroism spectroscopy revealed the presence of secondary structural elements in refolded CoxD. CoxD is a P-loop ATPase of the AAA-protein family. Refolded CoxD catalyzed the hydrolysis of MgATP yielding MgADP and inorganic phosphate at a 1∶1∶1 molar ratio. The reaction was inhibited by the slow hydrolysable MgATP-γ-S. GTPase activity of CoxD did not exceed 2% of the ATPase activity. Employing different methods (non linear regression, Hanes and Woolf, Lineweaver-Burk, preparations of CoxD revealed a mean K(M value of 0.69±0.14 mM ATP and an apparent V(max value of 19.3±2.3 nmol ATP hydrolyzed min⁻¹ mg⁻¹. Sucrose density gradient centrifugation and gel filtration showed that refolded CoxD can exist in various multimeric states (2-mer, 4-mer or 6-mer, preferentially as hexamer or dimer. Within weeks the hexamer dissociates into the dimer, a process which can be reversed by MgATP or MgATP-γ-S within hours. Only the hexamers and the dimers exhibited MgATPase activity. Transmission electron microscopy of negatively stained CoxD preparations revealed distinct particles within a size range of 10-16 nm, which further corroborates the oligomeric organization. The 3D structure of CoxD was modeled with the 3D structure of BchI from Rhodobacter capsulatus as template. It has the key elements of an AAA+ domain in the same arrangement and at same positions as in BchI and displays the characteristic inserts of the PS-II-insert clade. Possible functions of CoxD in [CuSMoO₂] cluster assembly are discussed.

  2. Assembly of juxtaparanodes in myelinating DRG culture: Differential clustering of the Kv1/Caspr2 complex and scaffolding protein 4.1B.

    Hivert, Bruno; Pinatel, Delphine; Labasque, Marilyne; Tricaud, Nicolas; Goutebroze, Laurence; Faivre-Sarrailh, Catherine

    2016-05-01

    The precise distribution of ion channels at the nodes of Ranvier is essential for the efficient propagation of action potentials along myelinated axons. The voltage-gated potassium channels Kv1.1/1.2 are clustered at the juxtaparanodes in association with the cell adhesion molecules, Caspr2 and TAG-1 and the scaffolding protein 4.1B. In the present study, we set up myelinating cultures of DRG neurons and Schwann cells to look through the formation of juxtaparanodes in vitro. We showed that the Kv1.1/Kv1.2 channels were first enriched at paranodes before being restricted to distal paranodes and juxtaparanodes. In addition, the Kv1 channels displayed an asymmetric expression enriched at the distal juxtaparanodes. Caspr2 was strongly co-localized with Kv1.2 whereas the scaffolding protein 4.1B was preferentially recruited at paranodes while being present at juxtaparanodes too. Kv1.2/Caspr2 but not 4.1B, also transiently accumulated within the nodal region both in myelinated cultures and developing sciatic nerves. Studying cultures and sciatic nerves from 4.1B KO mice, we further showed that 4.1B is required for the proper targeting of Caspr2 early during myelination. Moreover, using adenoviral-mediated expression of Caspr-GFP and photobleaching experiments, we analyzed the stability of paranodal junctions and showed that the lateral stability of paranodal Caspr was not altered in 4.1B KO mice indicating that 4.1B is not required for the assembly and stability of the paranodal junctions. Thus, developing an adapted culture paradigm, we provide new insights into the dynamic and differential distribution of Kv1 channels and associated proteins during myelination. GLIA 2016;64:840-852. PMID:26840208

  3. Escherichia coli FtnA Acts as an Iron Buffer for Re-assembly of Iron-Sulfur Clusters in Response to Hydrogen Peroxide Stress

    Bitoun, Jacob P.; Wu, Genfu; Ding, Huangen

    2008-01-01

    Iron-sulfur clusters are one of the most ubiquitous redox centers in biology. Ironically, iron-sulfur clusters are highly sensitive to reactive oxygen species. Disruption of iron-sulfur clusters will not only change the activity of proteins that host iron-sulfur clusters, the iron released from the disrupted iron-sulfur clusters will further promote the production of deleterious hydroxyl free radicals via the Fenton reaction. Here, we report that ferritin A (FtnA), a major iron-storage protei...

  4. Simulation of self-organization processes in crystal-forming systems: Supramolecular cyclic R6 cluster precursors and self-assembly of TeO2- TEL ( Tellurite) and TeO2- PAR ( Paratellurite) structures

    Ilyushin, G. D.

    2014-11-01

    The supramolecular chemistry of oxides of sp elements (SO2, SeO2, and TeO2) is considered. The self-assembly of TeO2- TEL ( Tellurite) and TeO2- PAR ( Paratellurite) crystal structures is simulated. Methods of combinatorial and topological analysis (TOPOS program package) are applied which are based on constructing a basis 3D network of the structure in the form of a graph, the sites of which correspond to the positions of centroids of TeO2 molecules and the edges characterize bonds between them. The topological type of the basis 2D network in the TeO2- TEL structure corresponds to graphite (C- GRA), while in the TeO2- PAR structure the basis network corresponds to the 3D diamond network (C- DIA). A nanocluster precursor of cyclic type ( R6) composed of six covalently bound TeO2 molecules (chair conformation) is established for both structures. The desymmetrization of the cyclic structure of the R6 cluster in TeO2- PAR is related to the formation of Te-Te bonds with lengths of 3.824 and 4.062 Å. The symmetry and topology code of the processes of self-assembly of 3D structures from nanocluster precursors is completely reconstructed into the form "primary chain → microlayer → microframework." In both structures R6 clusters form 2D packings with a coordination number of 6. The cluster self-assembly model explains the specific features of the morphogenesis of TeO2- TEL and TeO2- PAR (phases with low and high crystallization temperatures, respectively): platelike shape, perfect cleavage in the (110) plane, and preferred growth in the primar-chain direction [100] in the former case and growth in the direction of the primary [001] axis with the preferred formation of tetragonal prism faces (110) in the latter case.

  5. Electronic structure of the unique [4Fe-3S] cluster in O2-tolerant hydrogenases characterized by 57Fe Mossbauer and EPR spectroscopy.

    Pandelia, Maria-Eirini; Bykov, Dmytro; Izsak, Robert; Infossi, Pascale; Giudici-Orticoni, Marie-Thérèse; Bill, Eckhard; Neese, Frank; Lubitz, Wolfgang

    2013-01-01

    Iron-sulfur clusters are ubiquitous electron transfer cofactors in hydrogenases. Their types and redox properties are important for H(2) catalysis, but, recently, their role in a protection mechanism against oxidative inactivation has also been recognized for a [4Fe-3S] cluster in O(2)-tolerant group 1 [NiFe] hydrogenases. This cluster, which is uniquely coordinated by six cysteines, is situated in the proximity of the catalytic [NiFe] site and exhibits unusual redox versatility. The [4Fe-3S] cluster in hydrogenase (Hase) I from Aquifex aeolicus performs two redox transitions within a very small potential range, forming a superoxidized state above +200 mV vs. standard hydrogen electrode (SHE). Crystallographic data has revealed that this state is stabilized by the coordination of one of the iron atoms to a backbone nitrogen. Thus, the proximal [4Fe-3S] cluster undergoes redox-dependent changes to serve multiple purposes beyond classical electron transfer. In this paper, we present field-dependent (57)Fe-Mössbauer and EPR data for Hase I, which, in conjunction with spectroscopically calibrated density functional theory (DFT) calculations, reveal the distribution of Fe valences and spin-coupling schemes for the iron-sulfur clusters. The data demonstrate that the electronic structure of the [4Fe-3S] core in its three oxidation states closely resembles that of corresponding conventional [4Fe-4S] cubanes, albeit with distinct differences for some individual iron sites. The medial and distal iron-sulfur clusters have similar electronic properties as the corresponding cofactors in standard hydrogenases, although their redox potentials are higher. PMID:23267108

  6. Assemblies of gold icosahedra

    Bilalbegovic, G.

    2004-01-01

    Low-dimensional free-standing aggregates of bare gold clusters are studied by the molecular dynamics simulation. Icosahedra of 55 and 147 atoms are equilibrated at T=300 K. Then, their one- and two-dimensional assemblies are investigated. It is found that icosahedra do not coalescence into large drops, but stable amorphous nanostructures are formed: nanowires for one-dimensional and nanofilms for two-dimensional assemblies. The high-temperature stability of these nanostructures is also invest...

  7. Modeling of the self-organization processes in crystal-forming systems: Symmetry and topological code of cluster self-assembly of molecular (island) and framework MT structures of vanadyl sulfates

    Ilyushin, G. D.; Pisarevskii, Yu. V.

    2015-11-01

    The supramolecular chemistry of vanadyl sulfates, consisting of polyhedral clusters V(O, OH, H2O)6 with octahedral O coordination (M polyhedra) and SO4 tetrahedra (T polyhedra) and forming molecular (island) and framework 3D MT structures, is considered. Algorithms of combinatorial and topological analysis are developed that make it possible to reconstruct (based on known structural data) the symmetry and topological code of the matrix convergent self-assembly of crystal structure. Cluster modeling of the selfassembly of molecular (island) MT structures of the V2O2(H2O)6(SO4)2 · 4H2O (anorthominasragrite (ANM)) and V2O2(H2O)6(SO4)2 (bobjonesite (BBN)) compositions and topologically different framework 3D MT structures with covalent bonds, V2O2(SO4)2 (pauflerite (PAF) and synthetic phase (SYN)), is performed. A 3D reconstruction of the self-assembly mechanism in the form nanocluster precursor S 0 3 → primary chain → S 1 3 microlayer S 2 3 → microframework S 3 3 has revealed an invariant type of cyclic cluster precursor M2T2 (with a symmetry g = overline 1 ) for all compounds; differences in the self-assembly mechanisms are found for ANM and BBN in the stage of formation of primary chain S 1 3 and for PAF and SYN in the stage of formation of microlayer S 2 3. Basic 2D and 3D nets are presented in the form of graphs, the sites of which correspond to the positions of centroids of cluster precursors M2T2. The same topological type of basic 2D nets (4.4.4.4) is ascertained for all compounds. A basic 3D net corresponding to a simple cubic structure of Po (coordination number (CN) = 6) is established for ANM, SYN, and PAF; the basic 3D net for BBN corresponds to the cubic F structure of Cu (CN = 12).

  8. Proposal for extension of the zone of working positions of the 6th cluster of emergency control assemblies above 200 cm (modification of limits and conditions for the Dukovany NPP)

    The results are summarized of an analysis of 2 variants of releasing the limiting condition of the WWER-440 reactor at the Dukovany NPP, imposing limits on the upper boundary of the zone of working positions of the 6th cluster of emergency control assemblies. In Variant I, the operating zone is changed to approximately 235 ± 15 cm, a deeper insertion being possible as far as the level corresponding to the current limits and conditions, i.e. 150 or 125 cm. In Variant II, the basic operating zone remains unchanged, i.e. 175 ± 25 cm or, more realistically, 185 ± 15 cm, and only the upper limiting position during transients is released to 250 cm. The impacts of the two variants are analyzed with regard to the operating properties of the reactor units and to the compliance with all nuclear safety-related criteria. Variant I is acceptable if evidence is obtained that the change in efficiency of the HO-3 accident protection does not exceed the limit of necessary safety margins and that the resulting positive effect, namely, the dramatic risk reduction during a single emergency control assembly ejection accident or an uncontrolled emergency control rod assembly cluster withdrawal accident, is highly significant. There may exist a single reason that would substantiate rejection of Variant II, ie., if the behavior of the HO-3 accident protection proved to be adversely affected. This, however, will only concern short-term transients and will be comparable with the reduction in efficiency of this protective intervention occurring towards the end of the cycles. (J.B.). 13 tabs., 4 refs

  9. Assemblies based on the directing effect of non-classical W18 anionic clusters and the rod-like trans-1,2-di-(4-pyridyl)-ethylen (bpe)

    Two polyoxometalate (POM) supramolecular assemblies based on W18 clusters and the rigid organic trans-1,2-di-(4-pyridyl)-ethylen (bpe) have been synthesized and fully characterized, namely (H2bpe)3.5H2[SbW18O60].5H2O (1), and (H2bpe)5[Ni4(AsW9O34)2(H2O)2].3H2O (2). Compounds 1-2 are formed from organic bpe cations and different polytungstate anions: pseudo-Dawson-type [SbW18O60]9- in 1 and sandwich-type [Ni4(H2O)2(AsW9O34)2]10- in 2. Both of compounds 1-2 crystallize in a low-symmetrical space group of P-1 and consist of a complicated supramolecular network based on non-covalent intermolecular weak interactions, including hydrogen bonding and π...π stacking. The multipoint hydrogen bonding interactions constitute the structural feature in two supramolecular frameworks. The UV-vis, fluorescence and electrochemistry properties are also studied. -- Graphical abstract: Two polyoxometalate-based supramolecular assemblies built upon W18 clusters and the rigid organic trans-1,2-di-(4-pyridyl)-ethylen (bpe) have been synthesized and characterized. Research highlights: → Sb3+ has a larger ionic radius to prevent the formation of the sandwich-type polyoxometalate cluster. → Non-covalent interactions play important roles in the self-organization process. → Polyanion can structure the conjugated organic molecule into a parallel and ordered arrangement. → Polyanion-based hybrid is a potential candidate in the modified material for electrode.

  10. Three tetranuclear copper(II) cluster-based complexes constructed from 4-amino-1,2,4-triazole and different aromatic carboxylates: Assembly, structures, electrochemical and magnetic properties

    Three new tetranuclear copper(II) cluster-based complexes constructed from 4-amino-1,2,4-triazole (atrz) and three types of aromatic carboxylates, [Cu4(μ3-OH)2(atrz)2(DNBA)6] (1), [Cu4(μ3-OH)2(atrz)2(1,3-BDC)3]·2H2O (2) and [Cu4(μ3-OH)2(atrz)2(SIP)2]·4H2O (3) (HDNBA=3,5-dinitrobenzoic acid, 1,3-H2BDC=1,3-benzenedicarboxylic acid and NaH2SIP=sodium 5-sulfoisophthalate), have been hydrothermally synthesized and structurally characterized. Complex 1 displays a single-molecular CuII4 cluster structure, which is further connected by the intermolecular hydrogen-bonding interactions to form a 2D supramolecular layer. In 2, there also exist tetranuclear CuII4 clusters, which are linked by the 1,3-BDC anions to give a 3D NaCl-type framework. In 3, the CuII4 clusters are connected by the carboxyl and sulfo groups of SIP anions to generate 3D (4,8)-connected framework with a (410·614·84)(45·6)2 topology. The atrz ligand conduces to the construction of tetranuclear copper(II) clusters and the carboxylates with different non-carboxyl substituent show important effects on the final structures of the title complexes. The electrochemical and magnetic properties of 1–3 have been investigated. - Graphical abstract: Three tetranuclear copper(II) cluster-based complexes based on different carboxylates have been synthesized under hydrothermal conditions. The carboxylate anions play a key role in the formation of three different structures. Highlights: ► Three new tetranuclear copper(II) cluster-based complexes have been obtained. ► The atrz conduces to the construction of tetranuclear copper(II) clusters. ► Carboxylates show important effect on the structures of title complexes. ► Magnetic properties and electrochemical behaviors have been reported.

  11. Spatial Association of Signaling Proteins and F-Actin Effects on Cluster Assembly Analyzed via Photoactivation Localization Microscopy in T Cells

    Hsu, Chih-Jung; Baumgart, Tobias

    2011-01-01

    Recognition of antigens by T cell receptors (TCRs) triggers cellular signaling cascades initiated by recruitment to the plasma membrane of numerous effector molecules to form signaling microclusters (MCs). Here we show that the method of high-resolution photoactivation localization microscopy (PALM) imaging can be used to analyze the spatial correlation between kinase ZAP70 and adaptor SLP76 MCs at the cell periphery and the effects of F-actin on MC assembly. We first determined the photophys...

  12. Rhomboidal [Cu4] coordination cluster from self-assembly of two asymmetric phenoxido-bridged Cu2 units: Role of 1,1-azido clips

    Avijit Sarkar; Aloke Kumar Ghosh; Moumita Pait; Haridas Mandal; Tufan Singha Mahapatra; Biswajit Sharangi; Mrinal Sarkar; Debashis Ray

    2012-11-01

    The coordination cluster [Cu2(-OMe)(1,1-N3)(-bcp)(N3)]2 (1; Hbcp = 2,6-bis(2-benzoyl-4-chloro-phenylimino)-methyl)-4-methylphenol, forming a new member within the rapidly growing family of Cu4 cluster complexes, has been synthesized and structurally characterized by X-ray crystallography. The complex crystallizes in the monoclinic system, space group P21/, with unit cell parameters a = 14.620(7) Å, b = 17.923(8) Å, c = 15.008(7) Å, = 115.815(14)° and Z = 2. It is the first example of a rhomboidal [Cu4] compound formed from 1,1-azido clipping of two methoxido bridged [Cu2] complexes showing asymmetric coordination from benzophenone oxygen atoms and terminal azido groups.

  13. Simultaneous depletion of Atm and Mdl rebalances cytosolic Fe-S cluster assembly but not heme import into the mitochondrion of Trypanosoma brucei

    Horáková, Eva; Changmai, Piya; Paris, Zdeněk; Salmon, D.; Lukeš, Julius

    2015-01-01

    Roč. 282, č. 21 (2015), s. 4157-4175. ISSN 1742-464X R&D Projects: GA ČR(CZ) GAP305/11/2179; GA ČR GJ15-21450Y; GA MŠk LH12104 EU Projects: European Commission(XE) 316304 Institutional support: RVO:60077344 Keywords : Atm * Fe-S cluster * heme * Mdl * Trypanosoma Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 4.001, year: 2014

  14. Self-assembly of polyoxometalate clusters into a 3-D heterometallic framework via covalent bonding: synthesis, structure and characterization of Na4[Nd8(dipic)12(H2O)9][Mo8O26].8H2O

    An unprecedented hybrid solid obtained by self-assembly of octamolybdate clusters into a three-dimensional alkali metal modified neodymium-organic heterometallic framework is described. Crystal data: monoclinic, space group P21/n, a=21.868(4)A, b=13.039(3)A, c=22.479(5)A, β=98.90(3)o; V=6332(2)A3; Z=2, R (final)=0.0474. The data were collected on a Rigaku R-AXIS RAPID IP diffractometer at 293K using graphite-monochromated MoKα radiation (λ=0.71073A) and oscillation scans technique in the range of 1.98 deg. θ27.48 deg

  15. Oil Phase Evaporation Induced Self-Assembly of Hydrophobic Nanoparticles into Spherical Clusters with Controlled Surface Chemistry in an Oil-in-Water Dispersion and Comparison of Behaviors of Individual and Clustered Iron Oxide Nanoparticles

    Qiu, Penghe; Jensen, Christina; Charity, Njoku; Towner, Rheal; Mao, Chuanbin

    2010-01-01

    We report a general method for preparing nanoparticle clusters (NPCs) in an oil-in-water emulsion system mediated by cetyl trimethylammonium bromide (CTAB) where previously, only individual nanoparticles were obtained. NPCs of magnetic, metallic and semiconductor nanoparticles have been prepared to demonstrate the generality of the method. The NPCs were spherical and composed of densely packed individual nanoparticles. The number density of nanoparticles in the oil phase was found to be criti...

  16. Planetary Nebulae and their parent stellar populations. Tracing the mass assembly of M87 and Intracluster light in the Virgo cluster core

    Arnaboldi, Magda; Gerhard, Ortwin

    2015-01-01

    The diffuse extended outer regions of galaxies are hard to study because they are faint, with typical surface brightness of 1% of the dark night sky. We can tackle this problem by using resolved star tracers which remain visible at large distances from the galaxy centres. This article describes the use of Planetary Nebulae as tracers and the calibration of their properties as indicators of the star formation history, mean age and metallicity of the parent stars in the Milky Way and Local Group galaxies . We then report on the results from a deep, extended, planetary nebulae survey in a 0.5 sqdeg region centred on the brightest cluster galaxy NGC 4486 (M87) in the Virgo cluster core, carried out with SuprimeCam@Subaru and FLAMES-GIRAFFE@VLT. Two PN populations are identified out to 150 kpc distance from the centre of M87. One population is associated with the M87 halo and the second one with the intracluster light in the Virgo cluster core. They have different line-of-sight velocity and spatial distributions, ...

  17. DNA-mediated charge transport for DNA repair

    Boon, Elizabeth M; Livingston, Alison L.; Chmiel, Nikolas H.; David, Sheila S.; Barton, Jacqueline K.

    2003-01-01

    MutY, like many DNA base excision repair enzymes, contains a [4Fe4S](2+) cluster of undetermined function. Electrochemical studies of MutY bound to a DNA-modified gold electrode demonstrate that the [4Fe4S] cluster of MutY can be accessed in a DNA-mediated redox reaction. Although not detectable without DNA, the redox potential of DNA-bound MutY is approximate to275 mV versus NHE, which is characteristic of HiPiP iron proteins. Binding to DNA is thus associated with a change in [4Fe4S](3+/2+)...

  18. Interaction with DNA of a heteronuclear [Na2Cu4] coordination cluster obtained from the assembly of two hydroxo-bridged [Cu(II)2] units by a dimeric sodium nitrate template.

    Mandal, Debashree; Chauhan, Mala; Arjmand, Farukh; Aromí, Guillem; Ray, Debashis

    2009-11-14

    The heteronuclear [Na(2)Cu(4)(bemp)(2)(OH)(2)(NO(3))(2)(OH(2))(4)] x 5 H(2)O (1 x 5H(2)O; H(3)bemp: 2,6-bis-[(2-hydroxyethylimino)-methyl]-4-methyl-phenol) cluster has been synthesized in aqueous-methanol at room temperature and structurally characterized. The water soluble complex is obtained from the template assembly of two [Cu(2)(bemp)(OH)] neutral fragments through their weak oxophillic interactions with two interconnected NaNO(3) units as core. Four [Na(2)Cu(4)] units form a metal-organic cage arrangement in the crystal lattice that traps a (H(2)O)(7) cluster. Variable-temperature magnetic susceptibility measurements (2-300 K) reveals a strong antiferromagnetic coupling between the Cu(II) ions within the dimers with J = -124.1 cm(-1) (in the H = -2JS(1)S(2) convention). The interaction of complex 1 x 3H(2)O with calf thymus DNA (binding constant K(b), 4.6 x 10(4) M(-1)) in Tris buffer was studied by UV-visible and emission titration, and cyclic voltammetry. The hexanuclear Na(2)Cu(4) complex also binds double-stranded supercoiled plasmid pBR322 DNA and displays efficient hydrolytic cleavage. The hydrolytic mechanism is supported by evidence from DNA relegation employing T4 ligase assay and reactive oxygen species (ROS) quenching cleavage experiments. PMID:20449195

  19. Assembly of organic moiety with metal-oxide cluster to generate a new three dimensional supramolecular/hydrogen bonded network based on isopolymolybdate

    DONIA ZAMMEL; ICHRAF NAGAZI; AMOR HADDAD

    2016-07-01

    A new octa-molybdate formulated as (C₂H₆N₄)₂ [β-Mo₈O₂₆].4H₂O (1) has been isolated by conventional solution method and structurally characterized by single-crystal X-ray diffraction method, IR spectroscopy, UV-Vis absorption, thermogravimetric analysis and cyclic voltammetry. Compound 1 crystallizes in the Triclinic system, space group P-1 with unit cell dimensions, a = 8.348 (2)Å, b = 10.154 (2)Å, c = 10.823 (3)Å, α = 68.35◦ (2), β = 71.59◦ (2), γ= 78.55◦ (2), V = 805.5 (3)ų, and Z = 2. The crystal structure of 1 is built up from octa-molybdate [β-Mo₈O₂₆]⁴⁻ clusters connected through hydrogen-bonding interactions into a three-dimensional supramolecular network.

  20. DFT evaluation of the electronic structures and spectroscopic properties of the self-assembled [Pt2M4(C≡CH)8](M=Cu,Ag) clusters

    2009-01-01

    Electronic structures and spectroscopic properties of self-assembled [Pt2M4(C≡CH)8](M=Cu,Ag) clusters have been studied by the TD-DFT(time-dependent density functional theory) calculations with the polarizable continuum model(PCM).The ground-and excited-state structures were optimized by the DFT(density functional theory) methods.The calculated structures and spectroscopic properties are in agreement with the corresponding experimental results.The [Pt2Ag4(C≡CH)8] clusters have two stable ground state geometries(D4 and D4h symmetry).The calculated Pt-M distances suggest only very weak interactions.The Cu-Cu distances are larger than the van der Waals radii of two Cu atoms and the Ag-Ag distances are analogous with the sum of van der Waals radii of two Ag atoms.Upon excitation,the interaction of Pt…M,Ag…Ag is strengthened,while the Cu…Cu distances are shortened but they are still larger than the sum of van der Waals radii of two Cu atoms.The lowest-energy absorptions are at 450,365 and 375 nm and the emissions are at 611,431 and 435 nm for [Pt2Cu4(C≡CH)8],[Pt2Ag4(C≡CH)8](A) and(B),respectively.The transitions are all perturbed by the Cu or Ag composition through the UV-Vis spectra region;therefore,there are not pure ILCT or MPtLCT characteristics(ILCT:intraligand charge transfer;MLCT:metal-to-ligand charge transfer) in absorptions of heteropolynuclear [Pt2M4(C≡CH)8] clusters.Since the emissions and the lowest-absorptions have different transition characteristics for each complex,the emissions should not come from the lowest-energy absorptions.Because the M…M interactions in the excited state of [Pt2Ag4(C≡CH)8] are augmented,the emissions of [Pt2Ag4(C≡CH)8] clusters bear prominent ILCT character,which is the reason why the emission wavelengths of [Pt2Ag4(C≡CH)8] have a small hypsochromic shift relative to the emission wavelength of homoleptic [Pt(C≡CH)4]2-precursor.

  1. Crystal reaming during the assembly, maturation, and waning of an eleven-million-year crustal magma cycle: thermobarometry of the Aucanquilcha Volcanic Cluster

    Walker, Barry A.; Klemetti, Erik W.; Grunder, Anita L.; Dilles, John H.; Tepley, Frank J.; Giles, Denise

    2013-04-01

    Phenocryst assemblages of lavas from the long-lived Aucanquilcha Volcanic Cluster (AVC) have been probed to assess pressure and temperature conditions of pre-eruptive arc magmas. Andesite to dacite lavas of the AVC erupted throughout an 11-million-year, arc magmatic cycle in the central Andes in northern Chile. Phases targeted for thermobarometry include amphibole, plagioclase, pyroxenes, and Fe-Ti oxides. Overall, crystallization is documented over 1-7.5 kbar (~25 km) of pressure and ~680-1,110 °C of temperature. Pressure estimates range from ~1 to 5 kbar for amphiboles and from ~3 to 7.5 kbar for pyroxenes. Pyroxene temperatures are tightly clustered from ~1,000-1,100 °C, Fe-Ti oxide temperatures range from ~750-1,000 °C, and amphibole temperatures range from ~780-1,050 °C. Although slightly higher, these temperatures correspond well with previously published zircon temperatures ranging from ~670-900 °C. Two different Fe-Ti oxide thermometers (Andersen and Lindsley 1985; Ghiorso and Evans 2008) are compared and agree well. We also compare amphibole and amphibole-plagioclase thermobarometers (Ridolfi et al. 2010; Holland and Blundy 1994; Anderson and Smith 1995), the solutions from which do not agree well. In samples where we employ multiple thermometers, pyroxene temperature estimates are always highest, zircon temperature estimates are lowest, and Fe-Ti oxide and amphibole temperature estimates fall in between. Maximum Fe-Ti oxide and zircon temperatures are observed during the middle stage of AVC activity (~5-3 Ma), a time associated with increased eruption rates. Amphibole temperatures during this time are relatively restricted (~850-1,000 °C). The crystal record presented here offers a time-transgressive view of an evolving, multi-tiered subvolcanic reservoir. Some crystals in AVC lavas are likely to be true phenocrysts, but the diversity of crystallization temperatures and pressures recorded by phases in individual AVC lavas suggests erupting magma

  2. Buckling measurements up to 250 deg C on lattices of Agesta clusters and on D{sub 2}O alone in the pressurized exponential assembly TZ

    Persson, R.; Andersson, A.J.W.; Wikdahl, C.E.

    1966-11-15

    Buckling determinations by means of flux mapping were performed in TZ up to 250 deg C on two lattices of Aagesta fuel assemblies in D{sub 2}O and on D{sub 2}O alone. Most of the flux measurements were made with fission counters in pressure thimbles. The perturbations caused by the thimbles were studied experimentally in various ways and compared with two group diffusion-theory calculations. In one of the lattices the effectiveness of a control rod (AglnCd) was also investigated. The results of the diffusion length experiments indicated some systematic error of the order of 0.15 - 0.10/m{sup 2} in the bucklings measured, though the temperature dependence should be well established. The bucklings of the two lattices studied (square pitches 24 and 27 cm) were found to be less sensitive to temperature than theoretical calculations predict, the temperature coefficient being more than 10 per cent smaller. The buckling changes from 20 to 250 deg C were about -2.4 and -1.8/m{sup 2}, respectively, for the two lattices. During part of the experimental period we had, for some unexplained reason, about 30 per cent excess absorption in the heavy water.

  3. Buckling measurements up to 250 deg C on lattices of Agesta clusters and on D2O alone in the pressurized exponential assembly TZ

    Buckling determinations by means of flux mapping were performed in TZ up to 250 deg C on two lattices of Aagesta fuel assemblies in D2O and on D2O alone. Most of the flux measurements were made with fission counters in pressure thimbles. The perturbations caused by the thimbles were studied experimentally in various ways and compared with two group diffusion-theory calculations. In one of the lattices the effectiveness of a control rod (AglnCd) was also investigated. The results of the diffusion length experiments indicated some systematic error of the order of 0.15 - 0.10/m2 in the bucklings measured, though the temperature dependence should be well established. The bucklings of the two lattices studied (square pitches 24 and 27 cm) were found to be less sensitive to temperature than theoretical calculations predict, the temperature coefficient being more than 10 per cent smaller. The buckling changes from 20 to 250 deg C were about -2.4 and -1.8/m2, respectively, for the two lattices. During part of the experimental period we had, for some unexplained reason, about 30 per cent excess absorption in the heavy water

  4. Cluster self-organization of inorganic crystal-forming systems: Templated nanocluster precursors and self-assembly of framework MT structures of A/B,Zr silicates (A = Na, K; B = Ca, Sr)

    The basic concepts that are used to describe crystallization as a phenomenon of the hierarchical (cluster) self-organization of a chemical system are considered. The templation of theoretically possible nan-ocluster precursors composed of M octahedra and T tetrahedra by atoms of (A) alkaline and (B) alkaline earth metals is considered for the first time. A relationship between the A/B,M,T composition of templated nanocluster precursors with the composition of A/B,M silicates is established. The model that is developed is used to search for nanocluster precursors in framework MT structures of A/B,Zr silicates. Computer methods (TOPOS 4.0 program package) were used to perform complete 3D reconstruction of the self-assembly of all (four) structural types of A/B,Zr silicates (A = Na, K; B = Ca, Sr) with frameworks of the MT2O7 type: nan-ocluster precursor S30-primary chain S31-microlayer S32-microframework S33. The invariant type of mono-cyclic nanocluster precursor M2T4 (with the point symmetries 1-bar and 2), stabilized by one or two template cations (A and B), is determined. Bifurcations of the paths of evolution at the S31 level (structural branching point) are established for the self-assembly of the following frameworks: MT-1 in CaZrSi2O7 (gittinsite, C2), MT-2 in SrZrSi2O7 (P21/c); MT-3 in Na2ZrSi2O7 (parakeldyshite,), K2ZrSi2O7 (khibinskite, P21/b), and K2ZrGe2O7 (C2/c); and MT-4 in Na2ZrSi2O7 (H2O)(C2/c), Na3ScSi2O7 (Pbnm), and K3ScSi2O7 (P63/mmc).

  5. CRITICAL CONFIGURATION AND PHYSICS MEASUREMENTS FOR BERYLLIUM REFLECTED ASSEMBLIES OF U(93.15)O2 FUEL RODS (1.506-CM PITCH AND 7-TUBE CLUSTERS)

    Margaret A. Marshall

    2014-03-01

    Cadmium ratios were measured with enriched uranium metal foils at various locations in the assembly with the fuel tube at the 1.506-cm spacing. They are described in the following subsections. The experiment configuration was the same as the first critical configuration described in HEU-COMP-FAST-004 (Case 1). The experimenter placed 0.75-cm-diameter × 0.010-cm-thick 93.15%-235U-enriched uranium metal foils with and without 0.051-cm-thick cadmium covers at various locations in the core and top reflector. One part of the cadmium cover was cupshape and contained the uranium foil. The other part was a lid that fit over the exposed side of the foil when it was in the cup shaped section of the cover. As can be seen in the logbook, two runs were required to obtain all the measurements necessary for the cadmium ratio. The bare foil measurements within the top reflector were run first as part of the axial foil activation measurements. The results of this run are used for both the axial activation results and the cadmium ratios. Cadmium covered foils were then placed at the same location through the top reflector in a different run. Three pairs of bare and cadmium covered foils were also placed through the core tank. One pair was placed at the axial center of a fuel tube 11.35 cm from the center of the core. Two pairs of foils were placed on top of fuel tubes 3.02 and 12.06 cm from the center of the core. The activation of the uranium metal foils was measured after removal from the assembly using two lead shielded NaI scintillation detectors as follows. The NaI scintillators were carefully matched and had detection efficiencies for counting delayed-fission-product gamma rays with energies above 250 KeV within 5%. In all foil activation measurements, one foil at a specific location was used as a normalizing foil to remove the effects of the decay of fission products during the counting measurements with the NaI detectors. The normalization foil was placed on one Na

  6. Critical Configuration and Physics Measurements for Beryllium Reflected Assemblies of U(93.15)O₂ Fuel Rods (1.506-cm Pitch and 7-Tube Clusters)

    Marshall, Margaret A. [Idaho National Lab. (INL), Idaho Falls, ID (United States); Bess, John D. [Idaho National Lab. (INL), Idaho Falls, ID (United States); Briggs, J. Blair [Idaho National Lab. (INL), Idaho Falls, ID (United States); Murphy, Michael F. [Idaho National Lab. (INL), Idaho Falls, ID (United States); Mihalczo, John T. [Idaho National Lab. (INL), Idaho Falls, ID (United States)

    2015-03-01

    Cadmium ratios were measured with enriched uranium metal foils at various locations in the assembly with the fuel tube at the 1.506-cm spacing. They are described in the following subsections. The experiment configuration was the same as the first critical configuration described in HEU-COMP-FAST-004 (Case 1). The experimenter placed 0.75-cm-diameter × 0.010-cm-thick 93.15%-235U-enriched uranium metal foils with and without 0.051-cm-thick cadmium covers at various locations in the core and top reflector. One part of the cadmium cover was cupshape and contained the uranium foil. The other part was a lid that fit over the exposed side of the foil when it was in the cup shaped section of the cover. As can be seen in the logbook, two runs were required to obtain all the measurements necessary for the cadmium ratio. The bare foil measurements within the top reflector were run first as part of the axial foil activation measurements. The results of this run are used for both the axial activation results and the cadmium ratios. Cadmium covered foils were then placed at the same location through the top reflector in a different run. Three pairs of bare and cadmium covered foils were also placed through the core tank. One pair was placed at the axial center of a fuel tube 11.35 cm from the center of the core. Two pairs of foils were placed on top of fuel tubes 3.02 and 12.06 cm from the center of the core. The activation of the uranium metal foils was measured after removal from the assembly using two lead shielded NaI scintillation detectors as follows. The NaI scintillators were carefully matched and had detection efficiencies for counting delayed-fission-product gamma rays with energies above 250 KeV within 5%. In all foil activation measurements, one foil at a specific location was used as a normalizing foil to remove the effects of the decay of fission products during the counting measurements with the NaI detectors. The normalization foil was placed on one Na

  7. The HST/ACS Coma Cluster Survey IV. Intergalactic Globular Clusters and the Massive Globular Cluster System at the Core of the Coma Galaxy Cluster

    Peng, Eric W.; Ferguson, Henry C.; Goudfrooij, Paul; Hammer, Derek; Lucey, John R.; Marzke, ; Ronald O.; Puzia, Thomas H.; Carter, David; Balcells, Marc; Bridges, Terry; Chiboucas, Kristin; del Burgo, Carlos; Graham, Alister W.; Guzman, Rafael; Hudson, Michael J.

    2011-01-01

    Intracluster stellar populations are a natural result of tidal interactions in galaxy clusters. Measuring these populations is difficult, but important for understanding the assembly of the most massive galaxies. The Coma cluster is one of the nearest truly massive galaxy clusters, and is host to a correspondingly large system of globular clusters (GCs). We use imaging from the HST/ACS Coma Cluster Survey to present the first definitive detection of a large population of intracluster GCs (IGC...

  8. Nuclear fuel assembly

    A nuclear fuel assembly comprises a cluster of elongated fuel, retained parallel and at the nodal points of a square network by a bottom supporting plate and by spacing grids. The supporting plate is connected to a top end plate via tie-rods which replace fuel pins at certain of the nodal points of the network. The diameter of the tie-rods is equal to that of the pins and both are slidably received in the grids

  9. Sequence assembly

    Scheibye-Alsing, Karsten; Hoffmann, S.; Frankel, Annett Maria;

    2009-01-01

    Despite the rapidly increasing number of sequenced and re-sequenced genomes, many issues regarding the computational assembly of large-scale sequencing data have remain unresolved. Computational assembly is crucial in large genome projects as well for the evolving high-throughput technologies and...... plays an important role in processing the information generated by these methods. Here, we provide a comprehensive overview of the current publicly available sequence assembly programs. We describe the basic principles of computational assembly along with the main concerns, such as repetitive sequences...... in genomic DNA, highly expressed genes and alternative transcripts in EST sequences. We summarize existing comparisons of different assemblers and provide a detailed descriptions and directions for download of assembly programs at: http://genome.ku.dk/resources/assembly/methods.html....

  10. Cluster Automorphisms

    Assem, Ibrahim; Schiffler, Ralf; Shramchenko, Vasilisa

    2010-01-01

    In this article, we introduce the notion of cluster automorphism of a given cluster algebra as a $\\ZZ$-automorphism of the cluster algebra that sends a cluster to another and commutes with mutations. We study the group of cluster automorphisms in detail for acyclic cluster algebras and cluster algebras from surfaces, and we compute this group explicitly for the Dynkin types and the Euclidean types.

  11. Biosynthesis of the [FeFe] Hydrogenase H Cluster: A Central Role for the Radical SAM Enzyme HydG.

    Suess, Daniel L M; Kuchenreuther, Jon M; De La Paz, Liliana; Swartz, James R; Britt, R David

    2016-01-19

    Hydrogenase enzymes catalyze the rapid and reversible interconversion of H2 with protons and electrons. The active site of the [FeFe] hydrogenase is the H cluster, which consists of a [4Fe-4S]H subcluster linked to an organometallic [2Fe]H subcluster. Understanding the biosynthesis and catalytic mechanism of this structurally unusual active site will aid in the development of synthetic and biological hydrogenase catalysts for applications in solar fuel generation. The [2Fe]H subcluster is synthesized and inserted by three maturase enzymes-HydE, HydF, and HydG-in a complex process that involves inorganic, organometallic, and organic radical chemistry. HydG is a member of the radical S-adenosyl-l-methionine (SAM) family of enzymes and is thought to play a prominent role in [2Fe]H subcluster biosynthesis by converting inorganic Fe(2+), l-cysteine (Cys), and l-tyrosine (Tyr) into an organometallic [(Cys)Fe(CO)2(CN)](-) intermediate that is eventually incorporated into the [2Fe]H subcluster. In this Forum Article, the mechanism of [2Fe]H subcluster biosynthesis is discussed with a focus on how this key [(Cys)Fe(CO)2(CN)](-) species is formed. Particular attention is given to the initial metallocluster composition of HydG, the modes of substrate binding (Fe(2+), Cys, Tyr, and SAM), the mechanism of SAM-mediated Tyr cleavage to CO and CN(-), and the identification of the final organometallic products of the reaction. PMID:26703931

  12. The crystal structure of the global anaerobic transcriptional regulator FNR explains its extremely fine-tuned monomer-dimer equilibrium.

    Volbeda, Anne; Darnault, Claudine; Renoux, Oriane; Nicolet, Yvain; Fontecilla-Camps, Juan C

    2015-12-01

    The structure of the dimeric holo-fumarate and nitrate reduction regulator (FNR) from Aliivibrio fischeri has been solved at 2.65 Å resolution. FNR globally controls the transition between anaerobic and aerobic respiration in facultative anaerobes through the assembly/degradation of its oxygen-sensitive [4Fe-4S] cluster. In the absence of O2, FNR forms a dimer and specifically binds to DNA, whereas in its presence, the cluster is degraded causing FNR monomerization and DNA dissociation. We have used our crystal structure and the information previously gathered from numerous FNR variants to propose that this process is governed by extremely fine-tuned interactions, mediated by two salt bridges near the amino-terminal cluster-binding domain and an "imperfect" coiled-coil dimer interface. [4Fe-4S] to [2Fe-2S] cluster degradation propagates a conformational signal that indirectly causes monomerization by disrupting the first of these interactions and unleashing the "unzipping" of the FNR dimer in the direction of the carboxyl-terminal DNA binding domain. PMID:26665177

  13. Nuclear fuel assembly debris filter

    This patent describes a nuclear fuel assembly having fuel rods held in a spaced array by grid assemblies, guide tubes extending through the grid assemblies and attached at their upper and lower ends to an upper end fitting and a lower end fitting, the end fittings having openings therethrough for coolant flow, and a debris filter. The debris filter comprises: a plate attached to the bottom periphery of and spanning the lower end fitting; and the plate having substantially triangular-shaped flow holes therethrough that each measure approximately 0.181 inch from the base to the apex with the majority of the triangular- shaped flow holes arranged in groups of four to define square clusters that each measure approximately 0.405 inch on each side whereby the portions of the plate between the flow holes in each cluster are diagonally oriented relative to the sides of the plate

  14. Weighted Clustering

    Ackerman, Margareta; Ben-David, Shai; Branzei, Simina;

    2012-01-01

    We investigate a natural generalization of the classical clustering problem, considering clustering tasks in which different instances may have different weights.We conduct the first extensive theoretical analysis on the influence of weighted data on standard clustering algorithms in both the...... partitional and hierarchical settings, characterizing the conditions under which algorithms react to weights. Extending a recent framework for clustering algorithm selection, we propose intuitive properties that would allow users to choose between clustering algorithms in the weighted setting and classify...

  15. Cluster Headache

    Frederick G Freitag

    1985-01-01

    Learning Objectives: Review the current understanding of the pathophysiology of cluster headache Be able to recognize the clinical features of cluster headache Be able to develop a strategy for treatment of cluster headache Cluster headache is divided into multiple subtypes under the IHC classification criteria. The vast majority of patients present with episodic cluster headache (3.1.1). This will be the focus of the presentation. The syndrome is characterized by repeated at...

  16. Active matter clusters at interfaces

    Copenhagen, Katherine

    2016-01-01

    Collective and directed motility or swarming is an emergent phenomenon displayed by many self-organized assemblies of active biological matter such as clusters of embryonic cells during tissue development, cancerous cells during tumor formation and metastasis, colonies of bacteria in a biofilm, or even flocks of birds and schools of fish at the macro-scale. Such clusters typically encounter very heterogeneous environments. What happens when a cluster encounters an interface between two different environments has implications for its function and fate. Here we study this problem by using a mathematical model of a cluster that treats it as a single cohesive unit that moves in two dimensions by exerting a force/torque per unit area whose magnitude depends on the nature of the local environment. We find that low speed (overdamped) clusters encountering an interface with a moderate difference in properties can lead to refraction or even total internal reflection of the cluster. For large speeds (underdamped), wher...

  17. Re-shaping colloidal clusters

    Kraft, Daniela

    2015-03-01

    Controlling the geometry and yield of anisotropic colloidal particles remains a challenge for hierarchical self-assembly. I will discuss a synthetic strategy for fabricating colloidal clusters by creating order in randomly aggregated polymer spheres using surface tension and geometrical constraints. The technique can be extended to a variety of charge-stabilized polymer spheres and offers control over the cluster size distribution. VENI grant from The Netherlands Organization for Scientific Research (NWO).

  18. Fuel assembly

    Purpose: To improve the thermal and mechanical safety of fuel rods and structural components by making the local power coefficient of jointed fuel rods greater than that of other fuel rods in a fuel assembly. Constitution: In a fuel assembly comprising a plurality of fuel rods bundled by a spacer and held at the upper and the lower positions with tie plates for insertion into a channel, the degree of enrichment of uranium 235 for uranium dioxide fuel pellets charged in jointed fuel rods is adjusted such that the local power coefficient of the jointed fuel rods is made greater than that of the other fuel rods. In the case if the upper tie plate is moved upwardly by the extension of the jointed fuel rods, other fuel rods axially free from the upper tie plate receives no tension, whereby the safety of the fuel assembly can be improved. (Moriyama, K.)

  19. Cluster headache

    Histamine headache; Headache - histamine; Migrainous neuralgia; Headache - cluster; Horton's headache ... Doctors do not know exactly what causes cluster headaches. They ... (chemical in the body released during an allergic response) or ...

  20. Isotopic clusters

    Spectra of isotopically mixed clusters (dimers of SF6) are calculated as well as transition frequencies. The result leads to speculations about the suitability of the laser-cluster fragmentation process for isotope separation. (Auth.)

  1. Computer modeling of self-assembly of the crystal structure of zeolite Na384[Al384Si384O1536] (H2O)422 (LTN, cF4080) from suprapolyhedral cluster precursors AB2 (A-K48, B-K24)

    Combinatorial and topological analyses and a simulation of the self-assembly of zeolite crystal structure Na384Al384Si384O1536 · 422H2O (LTN, sp. gr. Fd3 bar) have been performed using computer methods (TOPOS program package). A cubic cell with the parameters a = 36.95 Å and V = 50 449 Å3 contains 768 framework-forming AlO4- and SiO4 tetrahedra (T tetrahedra). The method of complete expansion of a 3D factor graph in nonintersecting cluster substructures in the tetrahedral T framework was used to reveal nanocluster precursors: A composed of 48 T tetrahedra (A-K48) and B composed of 24 T tetrahedra (B-K24). The nanocluster precursors A and B correspond to the polyhedral T clusters (tiles) 48T-grc and 24T-toc; they are involved in the matrix self-assembly of the crystal structure within the supracluster AB2. The centers of clusters A and B occupy the positions of Mg and Cu atoms in the Laves net AB2 = MgCu2; i.e., the zeolite structure is a suprapolyhedral analog of an intermetallic compound. The self-assembly code of a 3D structure from complementary bound nanocluster precursors is completely reconstuctured in the following form: supracluster → primary chain → microlayer → microframework → ...framework. The localization of the Na+ template cations in the 6T- and 8T rings of nanocluster precursors A and B and Na+ spacer cations in the 28T-ltn tile with the formation of tetrahedral configuration and in the center of 6-ring, which arises as a result of bonding two B nanoclusters, is established.

  2. Weighted Clustering

    Ackerman, Margareta; Ben-David, Shai; Branzei, Simina; Loker, David

    2012-01-01

    We investigate a natural generalization of the classical clusteringproblem, considering clustering tasks in which differentinstances may have different weights.We conduct the firstextensive theoretical analysis on the influence of weighteddata on standard clustering algorithms in both the partitionaland hierarchical settings, characterizing the conditions underwhich algorithms react to weights. Extending a recent frameworkfor clustering algorithm selection, we propose intuitiveproperties that...

  3. Meaningful Clusters

    Sanfilippo, Antonio P.; Calapristi, Augustin J.; Crow, Vernon L.; Hetzler, Elizabeth G.; Turner, Alan E.

    2004-05-26

    We present an approach to the disambiguation of cluster labels that capitalizes on the notion of semantic similarity to assign WordNet senses to cluster labels. The approach provides interesting insights on how document clustering can provide the basis for developing a novel approach to word sense disambiguation.

  4. Grid-Assembly: An oligonucleotide composition-based partitioning strategy to aid metagenomic sequence assembly.

    Ghosh, Tarini Shankar; Mehra, Varun; Mande, Sharmila S

    2015-06-01

    Metagenomics approach involves extraction, sequencing and characterization of the genomic content of entire community of microbes present in a given environment. In contrast to genomic data, accurate assembly of metagenomic sequences is a challenging task. Given the huge volume and the diverse taxonomic origin of metagenomic sequences, direct application of single genome assembly methods on metagenomes are likely to not only lead to an immense increase in requirements of computational infrastructure, but also result in the formation of chimeric contigs. A strategy to address the above challenge would be to partition metagenomic sequence datasets into clusters and assemble separately the sequences in individual clusters using any single-genome assembly method. The current study presents such an approach that uses tetranucleotide usage patterns to first represent sequences as points in a three dimensional (3D) space. The 3D space is subsequently partitioned into "Grids". Sequences within overlapping grids are then progressively assembled using any available assembler. We demonstrate the applicability of the current Grid-Assembly method using various categories of assemblers as well as different simulated metagenomic datasets. Validation results indicate that the Grid-Assembly approach helps in improving the overall quality of assembly, in terms of the purity and volume of the assembled contigs. PMID:25790784

  5. A GMBCG Galaxy Cluster Catalog of 55,424 Rich Clusters from SDSS DR7

    Hao, Jiangang; /Fermilab; McKay, Timothy A.; /Michigan U.; Koester, Benjamin P.; /Chicago U.; Rykoff, Eli S.; /UC, Santa Barbara /LBL, Berkeley; Rozo, Eduardo; /Chicago U.; Annis, James; /Fermilab; Wechsler, Risa H.; /SLAC; Evrard, August; /Michigan U.; Siegel, Seth R.; /Michigan U.; Becker, Matthew; /Chicago U.; Busha, Michael; /SLAC; Gerdes, David; /Michigan U.; Johnston, David E.; /Fermilab; Sheldon, Erin; /Brookhaven

    2011-08-22

    We present a large catalog of optically selected galaxy clusters from the application of a new Gaussian Mixture Brightest Cluster Galaxy (GMBCG) algorithm to SDSS Data Release 7 data. The algorithm detects clusters by identifying the red sequence plus Brightest Cluster Galaxy (BCG) feature, which is unique for galaxy clusters and does not exist among field galaxies. Red sequence clustering in color space is detected using an Error Corrected Gaussian Mixture Model. We run GMBCG on 8240 square degrees of photometric data from SDSS DR7 to assemble the largest ever optical galaxy cluster catalog, consisting of over 55,000 rich clusters across the redshift range from 0.1 < z < 0.55. We present Monte Carlo tests of completeness and purity and perform cross-matching with X-ray clusters and with the maxBCG sample at low redshift. These tests indicate high completeness and purity across the full redshift range for clusters with 15 or more members.

  6. Active matter clusters at interfaces.

    Copenhagen, Katherine; Gopinathan, Ajay

    2016-03-01

    Collective and directed motility or swarming is an emergent phenomenon displayed by many self-organized assemblies of active biological matter such as clusters of embryonic cells during tissue development, cancerous cells during tumor formation and metastasis, colonies of bacteria in a biofilm, or even flocks of birds and schools of fish at the macro-scale. Such clusters typically encounter very heterogeneous environments. What happens when a cluster encounters an interface between two different environments has implications for its function and fate. Here we study this problem by using a mathematical model of a cluster that treats it as a single cohesive unit that moves in two dimensions by exerting a force/torque per unit area whose magnitude depends on the nature of the local environment. We find that low speed (overdamped) clusters encountering an interface with a moderate difference in properties can lead to refraction or even total internal reflection of the cluster. For large speeds (underdamped), where inertia dominates, the clusters show more complex behaviors crossing the interface multiple times and deviating from the predictable refraction and reflection for the low velocity clusters. We then present an extreme limit of the model in the absence of rotational damping where clusters can become stuck spiraling along the interface or move in large circular trajectories after leaving the interface. Our results show a wide range of behaviors that occur when collectively moving active biological matter moves across interfaces and these insights can be used to control motion by patterning environments.

  7. Active matter clusters at interfaces.

    Katherine eCopenhagen

    2016-03-01

    Full Text Available Collective and directed motility or swarming is an emergent phenomenon displayed by many self-organized assemblies of active biological matter such as clusters of embryonic cells during tissue development, cancerous cells during tumor formation and metastasis, colonies of bacteria in a biofilm, or even flocks of birds and schools of fish at the macro-scale. Such clusters typically encounter very heterogeneous environments. What happens when a cluster encounters an interface between two different environments has implications for its function and fate. Here we study this problem by using a mathematical model of a cluster that treats it as a single cohesive unit that moves in two dimensions by exerting a force/torque per unit area whose magnitude depends on the nature of the local environment. We find that low speed (overdamped clusters encountering an interface with a moderate difference in properties can lead to refraction or even total internal reflection of the cluster. For large speeds (underdamped, where inertia dominates, the clusters show more complex behaviors crossing the interface multiple times and deviating from the predictable refraction and reflection for the low velocity clusters. We then present an extreme limit of the model in the absence of rotational damping where clusters can become stuck spiraling along the interface or move in large circular trajectories after leaving the interface. Our results show a wide range of behaviors that occur when collectively moving active biological matter moves across interfaces and these insights can be used to control motion by patterning environments.

  8. Fuel assembly

    A fuel assembly is composed of a fuel bundle surrounded by a channel box. The fuel bundle comprises a large number of fuel rods and a water rod secured to upper and lower tie plate by way of a plurality of fuel spacers. Grooves (libretti) are formed in the direction along the flowing direction of coolants to at least one of the surface of the fuel rods, the inner surface of the channel box, the surface of the water rod and spacer constituting components. In this case, the lateral width of the libretto in the flowing direction is determined as the minimum thickness of the bottom layer of a layered flow determined by a coolant flow rate. With such a constitution, abrasion resistance relative to coolants is reduced to reduce the pressure loss of fuel assemblies. (I.N.)

  9. Modeling the Metallicity Distribution of Globular Clusters

    Muratov, Alexander L

    2010-01-01

    Observed metallicities of globular clusters reflect physical conditions in the interstellar medium of their high-redshift host galaxies. Globular cluster systems in most large galaxies display bimodal color and metallicity distributions, which are often interpreted as indicating two distinct modes of cluster formation. The metal-rich and metal-poor clusters have systematically different locations and kinematics in their host galaxies. However, the red and blue clusters have similar internal properties, such as the masses, sizes, and ages. It is therefore interesting to explore whether both metal-rich and metal-poor clusters could form by a common mechanism and still be consistent with the bimodal distribution. We present such a model, which prescribes the formation of globular clusters semi-analytically using galaxy assembly history from cosmological simulations coupled with observed scaling relations for the amount and metallicity of cold gas available for star formation. We assume that massive star clusters...

  10. General Assembly

    Staff Association

    2016-01-01

    5th April, 2016 – Ordinary General Assembly of the Staff Association! In the first semester of each year, the Staff Association (SA) invites its members to attend and participate in the Ordinary General Assembly (OGA). This year the OGA will be held on Tuesday, April 5th 2016 from 11:00 to 12:00 in BE Auditorium, Meyrin (6-2-024). During the Ordinary General Assembly, the activity and financial reports of the SA are presented and submitted for approval to the members. This is the occasion to get a global view on the activities of the SA, its financial management, and an opportunity to express one’s opinion, including taking part in the votes. Other points are listed on the agenda, as proposed by the Staff Council. Who can vote? Only “ordinary” members (MPE) of the SA can vote. Associated members (MPA) of the SA and/or affiliated pensioners have a right to vote on those topics that are of direct interest to them. Who can give his/her opinion? The Ordinary General Asse...

  11. Data Clustering

    Wagstaff, Kiri L.

    2012-03-01

    On obtaining a new data set, the researcher is immediately faced with the challenge of obtaining a high-level understanding from the observations. What does a typical item look like? What are the dominant trends? How many distinct groups are included in the data set, and how is each one characterized? Which observable values are common, and which rarely occur? Which items stand out as anomalies or outliers from the rest of the data? This challenge is exacerbated by the steady growth in data set size [11] as new instruments push into new frontiers of parameter space, via improvements in temporal, spatial, and spectral resolution, or by the desire to "fuse" observations from different modalities and instruments into a larger-picture understanding of the same underlying phenomenon. Data clustering algorithms provide a variety of solutions for this task. They can generate summaries, locate outliers, compress data, identify dense or sparse regions of feature space, and build data models. It is useful to note up front that "clusters" in this context refer to groups of items within some descriptive feature space, not (necessarily) to "galaxy clusters" which are dense regions in physical space. The goal of this chapter is to survey a variety of data clustering methods, with an eye toward their applicability to astronomical data analysis. In addition to improving the individual researcher’s understanding of a given data set, clustering has led directly to scientific advances, such as the discovery of new subclasses of stars [14] and gamma-ray bursts (GRBs) [38]. All clustering algorithms seek to identify groups within a data set that reflect some observed, quantifiable structure. Clustering is traditionally an unsupervised approach to data analysis, in the sense that it operates without any direct guidance about which items should be assigned to which clusters. There has been a recent trend in the clustering literature toward supporting semisupervised or constrained

  12. Cluster Chemistry

    2011-01-01

    @@ Cansisting of eight scientists from the State Key Laboratory of Physical Chemistry of Solid Surfaces and Xiamen University, this creative research group is devoted to the research of cluster chemistry and creation of nanomaterials.After three-year hard work, the group scored a series of encouraging progresses in synthesis of clusters with special structures, including novel fullerenes, fullerene-like metal cluster compounds as well as other related nanomaterials, and their properties study.

  13. Structural insights into dissimilatory sulfite reductases: Structure of desulforubidin from Desulfomicrobium norvegicum

    MargaridaArcher

    2011-04-01

    Full Text Available Dissimilatory sulfite reductases (dSiRs are crucial enzymes in bacterial sulfur-based energy metabolism, which is likely to have been present in some of the earliest life forms on Earth. Several classes of dSiRs have been proposed on the basis of different biochemical and spectroscopic properties. Here, we describe the first structure of a dSiR from the desulforubidin (Drub class isolated from Desulfomicrobium (Dm. norvegicum. The desulforubidin structure is assembled as a2b2c2, in which two DsrC proteins are bound to the core [DsrA]2[DsrB]2 unit, as reported for the desulfoviridin (Dvir structure from Desulfovibrio (D. vulgaris. Unlike desulfoviridin, four sirohemes and eight [4Fe-4S] clusters are present in desulforubidin, but only two of the coupled siroheme-[4Fe-4S] cofactors are likely to be catalytically active. Mass spectrometry studies of purified desulforubidin and desulfoviridin show that both proteins may present different oligomeric complex forms that bind two, one or no DsrC proteins, providing an explanation for conflicting spectroscopic and biochemical results in the literature.

  14. Heater assembly

    An electrical resistance heater, installed in the H1 borehole, is used to thermally perturb the rock mass through a controlled heating and cooling cycle. Heater power levels are controlled by a Variac power transformer and are measured by wattmeters. Temperatures are measured by thermocouples on the borehole wall and on the heater assembly. Power and temperature values are recorded by the DAS described in Chapter 12. The heater assembly consists of a 3.55-m (11.6-ft) long by 20.3-cm (8-in.) O.D., Type 304 stainless steel pipe, containing a tubular hairpin heating element. The element has a heated length of 3 m (9.84 ft). The power rating of the element is 10 kW; however, we plan to operate the unit at a maximum power of only 3 kW. The heater is positioned with its midpoint directly below the axis of the P2 borehole, as shown in the borehole configuration diagram. This heater midpoint position corresponds to a distance of approximately 8.5 m (27.9 ft) from the H1 borehole collar. A schematic of the heater assembly in the borehole is shown. The distance from the borehole collar to the closest point on the assembly (the front end) is 6.5 m (21.3 ft). A high-temperature inflatable packer, used to seal the borehole for moisture collection, is positioned 50 cm (19.7 in.) ahead of the heater front end. The heater is supported and centralized within the borehole by two skids, fabricated from 25-mm (1-in.) O.D. stainless steel pipe. Thermocouples are installed at a number of locations in the H1 borehole. Four thermocouples that are attached to the heater skin monitor temperatures on the outer surface of the can, while three thermocouples that are held in place by rock sections monitor borehole wall temperatures beneath the heater. Temperatures are also monitored at the heater terminal and on the packer hardware

  15. Assembling consumption

    Assembling Consumption marks a definitive step in the institutionalisation of qualitative business research. By gathering leading scholars and educators who study markets, marketing and consumption through the lenses of philosophy, sociology and anthropology, this book clarifies and applies the i...... societies. This is an essential reading for both seasoned scholars and advanced students of markets, economies and social forms of consumption....... the investigative tools offered by assemblage theory, actor-network theory and non-representational theory. Clear theoretical explanation and methodological innovation, alongside empirical applications of these emerging frameworks will offer readers new and refreshing perspectives on consumer culture and market...

  16. Cancer Clusters

    ... of cancer. Cancer clusters can help scientists identify cancer-causing substances in the environment. For example, in the early 1970s, a cluster ... the area and time period over which the cancers were diagnosed. They also ask about specific environmental hazards or concerns in the affected area. If ...

  17. Clustering processes

    Ryabko, Daniil

    2010-01-01

    The problem of clustering is considered, for the case when each data point is a sample generated by a stationary ergodic process. We propose a very natural asymptotic notion of consistency, and show that simple consistent algorithms exist, under most general non-parametric assumptions. The notion of consistency is as follows: two samples should be put into the same cluster if and only if they were generated by the same distribution. With this notion of consistency, clustering generalizes such classical statistical problems as homogeneity testing and process classification. We show that, for the case of a known number of clusters, consistency can be achieved under the only assumption that the joint distribution of the data is stationary ergodic (no parametric or Markovian assumptions, no assumptions of independence, neither between nor within the samples). If the number of clusters is unknown, consistency can be achieved under appropriate assumptions on the mixing rates of the processes. (again, no parametric ...

  18. General Assembly

    Staff Association

    2016-01-01

    Mardi 5 avril à 11 h 00 BE Auditorium Meyrin (6-2-024) Conformément aux statuts de l’Association du personnel, une Assemblée générale ordinaire est organisée une fois par année (article IV.2.1). Projet d’ordre du jour : Adoption de l’ordre du jour. Approbation du procès-verbal de l’Assemblée générale ordinaire du 5 mai 2015. Présentation et approbation du rapport d’activités 2015. Présentation et approbation du rapport financier 2015. Présentation et approbation du rapport des vérificateurs aux comptes pour 2015. Programme de travail 2016. Présentation et approbation du projet de budget 2016 Approbation du taux de cotisation pour 2017. Modifications aux Statuts de l'Association du personnel proposée. Élections des membres de la Commissio...

  19. General Assembly

    Staff Association

    2015-01-01

    Mardi 5 mai à 11 h 00 Salle 13-2-005 Conformément aux statuts de l’Association du personnel, une Assemblée générale ordinaire est organisée une fois par année (article IV.2.1). Projet d’ordre du jour : 1- Adoption de l’ordre du jour. 2- Approbation du procès-verbal de l’Assemblée générale ordinaire du 22 mai 2014. 3- Présentation et approbation du rapport d’activités 2014. 4- Présentation et approbation du rapport financier 2014. 5- Présentation et approbation du rapport des vérificateurs aux comptes pour 2014. 6- Programme 2015. 7- Présentation et approbation du projet de budget 2015 et taux de cotisation pour 2015. 8- Pas de modifications aux Statuts de l'Association du personnel proposée. 9- Élections des membres de la Commission é...

  20. General assembly

    Staff Association

    2015-01-01

    Mardi 5 mai à 11 h 00 Salle 13-2-005 Conformément aux statuts de l’Association du personnel, une Assemblée générale ordinaire est organisée une fois par année (article IV.2.1). Projet d’ordre du jour : Adoption de l’ordre du jour. Approbation du procès-verbal de l’Assemblée générale ordinaire du 22 mai 2014. Présentation et approbation du rapport d’activités 2014. Présentation et approbation du rapport financier 2014. Présentation et approbation du rapport des vérificateurs aux comptes pour 2014. Programme 2015. Présentation et approbation du projet de budget 2015 et taux de cotisation pour 2015. Pas de modifications aux Statuts de l'Association du personnel proposée. Élections des membres de la Commission électorale. &am...

  1. Fuel assembly

    The cross section of a fuel assembly is divided to a first region containing corner portions at which channel fasteners are situated and a second region not containing corner portions. The average enrichment degree of plutonium in the first region is decreased than that of the second region, and the number of fuel rods containing burnable poisons is increased at the first region than that of the second region. In the first region of the fuel assembly, the effect of moderating neutrons is enhanced since the cross section of a moderator flow channel at the outer side of the channel box is large. Therefore, local power peaking is increased in the first region while it is decreased in the second region that opposes to a narrow gap. The average enrichment degree of plutonium in the first region is decreased and that in the second region is increased by so much, to flatten the power distribution. Then, the reduction of the reactivity worth of gadolinia, as burnable poisons, can be suppressed. (N.H.)

  2. Hatch assembly

    This patent describes a nuclear reactor installation including means defining a fuel handling area and means defining a containment area separated from the fuel handling area and including a refuelling cavity; the improvement comprising: (a) a fuel transfer tube connecting the refuelling cavity with the fuel handling area; the fuel transfer tube having a first end in the fuel handling area and a second end in the refueling cavity; (b) valve means for opening and closing the first end; and (c) a hatch assembly mounted on the second end; the hatch assembly including (1) a hatch ring affixed to the fuel transfer tube at the second end the hatch ring has an integral annular seat surrounded by the hatch ring and defines a hatch opening in the second end of the fuel transfer tube; (2) a hatch cover adapts to be positioned on the annular seat for covering the hatch opening; (3) latching units are supported on the hatch ring about the hatch opening, each latching unit

  3. Fuel assembly

    The present invention concerns a fuel assembly of a BWR type reactor, and prevents aging change of flow rate of coolants leaked from a gap between a lower tie plate and a channel box. That is, in the fuel assembly, a great number of fuel rods and a plurality of water rods are bundled by a plurality of spacers, the upper and the lower ends thereof are supported by upper and lower tie plates, and they are contained in a channel box. Plate-like protrusions are disposed rotatably to the lower tie plate at a position corresponding to the lower end of the channel box. In addition, through holes are disposed on the side wall of the lower tie plate. With such a constitution, the protrusions rotate at a connection portion by hydraulic pressure of leaking coolants, and urge the channel box by the other end to control leakage of coolants. Further, since the through holes are disposed on the side wall of the lower tie plate, pressure difference is caused between the upper and the lower surfaces of the plate of the protrusion, to rotate the protrusions at the connection portion, and the other end of the protrusions presses the channel box to obtain the same effect. (I.S.)

  4. First assembly times and equilibration in stochastic coagulation-fragmentation

    We develop a fully stochastic theory for coagulation and fragmentation (CF) in a finite system with a maximum cluster size constraint. The process is modeled using a high-dimensional master equation for the probabilities of cluster configurations. For certain realizations of total mass and maximum cluster sizes, we find exact analytical results for the expected equilibrium cluster distributions. If coagulation is fast relative to fragmentation and if the total system mass is indivisible by the mass of the largest allowed cluster, we find a mean cluster-size distribution that is strikingly broader than that predicted by the corresponding mass-action equations. Combinations of total mass and maximum cluster size under which equilibration is accelerated, eluding late-stage coarsening, are also delineated. Finally, we compute the mean time it takes particles to first assemble into a maximum-sized cluster. Through careful state-space enumeration, the scaling of mean assembly times is derived for all combinations of total mass and maximum cluster size. We find that CF accelerates assembly relative to monomer kinetic only in special cases. All of our results hold in the infinite system limit and can be only derived from a high-dimensional discrete stochastic model, highlighting how classical mass-action models of self-assembly can fail

  5. First assembly times and equilibration in stochastic coagulation-fragmentation

    D’Orsogna, Maria R. [Department of Biomathematics, UCLA, Los Angeles, California 90095-1766 (United States); Department of Mathematics, CSUN, Los Angeles, California 91330-8313 (United States); Lei, Qi [Institute for Computational and Engineering Sciences, University of Texas, Austin, Texas 78712-1229 (United States); Chou, Tom [Department of Biomathematics, UCLA, Los Angeles, California 90095-1766 (United States); Department of Mathematics, UCLA, Los Angeles, California 90095-1555 (United States)

    2015-07-07

    We develop a fully stochastic theory for coagulation and fragmentation (CF) in a finite system with a maximum cluster size constraint. The process is modeled using a high-dimensional master equation for the probabilities of cluster configurations. For certain realizations of total mass and maximum cluster sizes, we find exact analytical results for the expected equilibrium cluster distributions. If coagulation is fast relative to fragmentation and if the total system mass is indivisible by the mass of the largest allowed cluster, we find a mean cluster-size distribution that is strikingly broader than that predicted by the corresponding mass-action equations. Combinations of total mass and maximum cluster size under which equilibration is accelerated, eluding late-stage coarsening, are also delineated. Finally, we compute the mean time it takes particles to first assemble into a maximum-sized cluster. Through careful state-space enumeration, the scaling of mean assembly times is derived for all combinations of total mass and maximum cluster size. We find that CF accelerates assembly relative to monomer kinetic only in special cases. All of our results hold in the infinite system limit and can be only derived from a high-dimensional discrete stochastic model, highlighting how classical mass-action models of self-assembly can fail.

  6. Fuel assembly

    A fuel assembly of a BWR type reactor comprises a rectangular parallelopiped channel box and fuel bundles contained in the channel box. The fuel bundle comprises an upper tie plate, a lower tie plate, a plurality of spacers a plurality of fuel rods and a water rod. In each fuel rod, the amount of fission products is reduced at upper and lower end regions of an effective fuel portion than that in other regions of the effective fuel region. In a portion of the fuel rods, fuel pellets containing burnable poisons are disposed at the upper and lower end regions. In addition, the upper and lower portions are constituted with natural uranium. Each of the upper and lower end regions is not greater than 15% of the effective fuel length. Since this can enhance reactivity control effect without worsening fuel economy, the control amount for excess reactivity upon long-term cycle operation can be increased. (I.N.)

  7. Clustering analysis

    Cluster analysis is the name of group of multivariate techniques whose principal purpose is to distinguish similar entities from the characteristics they process.To study this analysis, there are several algorithms that can be used. Therefore, this topic focuses to discuss the algorithms, such as, similarity measures, and hierarchical clustering which includes single linkage, complete linkage and average linkage method. also, non-hierarchical clustering method, which is popular name K-mean method' will be discussed. Finally, this paper will be described the advantages and disadvantages of every methods

  8. Cluster editing

    Böcker, S.; Baumbach, Jan

    2013-01-01

    The Cluster Editing problem asks to transform a graph into a disjoint union of cliques using a minimum number of edge modifications. Although the problem has been proven NP-complete several times, it has nevertheless attracted much research both from the theoretical and the applied side. The...... algorithms for biological problems. © 2013 Springer-Verlag....... problem has been the inspiration for numerous algorithms in bioinformatics, aiming at clustering entities such as genes, proteins, phenotypes, or patients. In this paper, we review exact and heuristic methods that have been proposed for the Cluster Editing problem, and also applications of these...

  9. Cluster analysis

    Everitt, Brian S; Leese, Morven; Stahl, Daniel

    2011-01-01

    Cluster analysis comprises a range of methods for classifying multivariate data into subgroups. By organizing multivariate data into such subgroups, clustering can help reveal the characteristics of any structure or patterns present. These techniques have proven useful in a wide range of areas such as medicine, psychology, market research and bioinformatics.This fifth edition of the highly successful Cluster Analysis includes coverage of the latest developments in the field and a new chapter dealing with finite mixture models for structured data.Real life examples are used throughout to demons

  10. Spitzer Clusters

    Krick, Kessica

    This proposal is a specific response to the strategic goal of NASA's research program to "discover how the universe works and explore how the universe evolved into its present form." Towards this goal, we propose to mine the Spitzer archive for all observations of galaxy groups and clusters for the purpose of studying galaxy evolution in clusters, contamination rates for Sunyaev Zeldovich cluster surveys, and to provide a database of Spitzer observed clusters to the broader community. Funding from this proposal will go towards two years of support for a Postdoc to do this work. After searching the Spitzer Heritage Archive, we have found 194 unique galaxy groups and clusters that have data from both the Infrared array camera (IRAC; Fazio et al. 2004) at 3.6 - 8 microns and the multiband imaging photometer for Spitzer (MIPS; Rieke et al. 2004) at 24microns. This large sample will add value beyond the individual datasets because it will be a larger sample of IR clusters than ever before and will have sufficient diversity in mass, redshift, and dynamical state to allow us to differentiate amongst the effects of these cluster properties. An infrared sample is important because it is unaffected by dust extinction while at the same time is an excellent measure of both stellar mass (IRAC wavelengths) and star formation rate (MIPS wavelengths). Additionally, IRAC can be used to differentiate star forming galaxies (SFG) from active galactic nuclei (AGN), due to their different spectral shapes in this wavelength regime. Specifically, we intend to identify SFG and AGN in galaxy groups and clusters. Groups and clusters differ from the field because the galaxy densities are higher, there is a large potential well due mainly to the mass of the dark matter, and there is hot X-ray gas (the intracluster medium; ICM). We will examine the impact of these differences in environment on galaxy formation by comparing cluster properties of AGN and SFG to those in the field. Also, we will

  11. Cluster ion impacts on solids

    Experimental methods for the production of cluster ions by expansion of weakly ionized plasmas through a supersonic nozzle and skimmer were described. Techniques for the production of relatively narrow mass distributions of singly charged ions containing as many as thousands of molecules of Hydrogen, Argon, Water, Alcohols and Hydrocarbons were reviewed with an explanation of the dependence of the mean cluster ion size on stagnation conditions in the ion source and the orifice geometry in nozzle or free jet expansions. Diagnostic techniques for the mass analysis and detection of these high molecule weight cluster ions were reviewed. A description of the BNL 400 kilovolt post-acceleration detection system and the advantages of secondary electron pulse distributions were presented and discussed. The application of energetic cluster ion impacts for deposition of large amounts of translational energy in thin films and solid surfaces was the main topic of the presentation. Cluster ions can be used to generate assemblies of atoms in solid surfaces with energies determined by available acceleration facilities. The production of assemblies of thousands of atoms with energies of in excess of several hundred volts per atom is readily achieved. The consequence of the ability of generate high energy densities is among other things the production of craters, cavities and in thin films holes of sizes that are smaller than those achievable by atomic ion bombardment and wet etching techniques. Examples of such results were presented showing holes in thin carbon films obtained by transmissions electron microscopy

  12. Automated quantitative image analysis of nanoparticle assembly

    Murthy, Chaitanya R.; Gao, Bo; Tao, Andrea R.; Arya, Gaurav

    2015-05-01

    The ability to characterize higher-order structures formed by nanoparticle (NP) assembly is critical for predicting and engineering the properties of advanced nanocomposite materials. Here we develop a quantitative image analysis software to characterize key structural properties of NP clusters from experimental images of nanocomposites. This analysis can be carried out on images captured at intermittent times during assembly to monitor the time evolution of NP clusters in a highly automated manner. The software outputs averages and distributions in the size, radius of gyration, fractal dimension, backbone length, end-to-end distance, anisotropic ratio, and aspect ratio of NP clusters as a function of time along with bootstrapped error bounds for all calculated properties. The polydispersity in the NP building blocks and biases in the sampling of NP clusters are accounted for through the use of probabilistic weights. This software, named Particle Image Characterization Tool (PICT), has been made publicly available and could be an invaluable resource for researchers studying NP assembly. To demonstrate its practical utility, we used PICT to analyze scanning electron microscopy images taken during the assembly of surface-functionalized metal NPs of differing shapes and sizes within a polymer matrix. PICT is used to characterize and analyze the morphology of NP clusters, providing quantitative information that can be used to elucidate the physical mechanisms governing NP assembly.The ability to characterize higher-order structures formed by nanoparticle (NP) assembly is critical for predicting and engineering the properties of advanced nanocomposite materials. Here we develop a quantitative image analysis software to characterize key structural properties of NP clusters from experimental images of nanocomposites. This analysis can be carried out on images captured at intermittent times during assembly to monitor the time evolution of NP clusters in a highly automated

  13. Cluster Bulleticity

    Massey, Richard; Kitching, Thomas D.; Nagai, Daisuke

    2010-01-01

    The unique properties of dark matter are revealed during collisions between clusters of galaxies, like the bullet cluster (1E 0657-56) and baby bullet (MACSJ0025-12). These systems provide evidence for an additional, invisible mass in the separation between the distribution of their total mass, measured via gravitational lensing, and their ordinary 'baryonic' matter, measured via its X-ray emission. Unfortunately, the information available from these systems is limited by th...

  14. Cluster Bulleticity

    Massey, R; Kitching, T.; Nagai, D.

    2010-01-01

    The unique properties of dark matter are revealed during collisions between clusters of galaxies, such as the bullet cluster (1E 0657−56) and baby bullet (MACS J0025−12). These systems provide evidence for an additional, invisible mass in the separation between the distributions of their total mass, measured via gravitational lensing, and their ordinary ‘baryonic’ matter, measured via its X-ray emission. Unfortunately, the information available from these systems is limited by their rarity. C...

  15. Cluster generator

    Donchev, Todor I.; Petrov, Ivan G.

    2011-05-31

    Described herein is an apparatus and a method for producing atom clusters based on a gas discharge within a hollow cathode. The hollow cathode includes one or more walls. The one or more walls define a sputtering chamber within the hollow cathode and include a material to be sputtered. A hollow anode is positioned at an end of the sputtering chamber, and atom clusters are formed when a gas discharge is generated between the hollow anode and the hollow cathode.

  16. DNA-Protected Silver Clusters for Nanophotonics

    Elisabeth Gwinn

    2015-02-01

    Full Text Available DNA-protected silver clusters (AgN-DNA possess unique fluorescence properties that depend on the specific DNA template that stabilizes the cluster. They exhibit peak emission wavelengths that range across the visible and near-IR spectrum. This wide color palette, combined with low toxicity, high fluorescence quantum yields of some clusters, low synthesis costs, small cluster sizes and compatibility with DNA are enabling many applications that employ AgN-DNA. Here we review what is known about the underlying composition and structure of AgN-DNA, and how these relate to the optical properties of these fascinating, hybrid biomolecule-metal cluster nanomaterials. We place AgN-DNA in the general context of ligand-stabilized metal clusters and compare their properties to those of other noble metal clusters stabilized by small molecule ligands. The methods used to isolate pure AgN-DNA for analysis of composition and for studies of solution and single-emitter optical properties are discussed. We give a brief overview of structurally sensitive chiroptical studies, both theoretical and experimental, and review experiments on bringing silver clusters of distinct size and color into nanoscale DNA assemblies. Progress towards using DNA scaffolds to assemble multi-cluster arrays is also reviewed.

  17. Fuel assembly

    Since the neutron flux distribution and the power distribution of a fuel assembly in which short fuel rods vary greatly in the vicinity of a boundary where the distribution of uranium amount is different, the reading value of local power range monitors, having the detectors positioned in the vicinity of the boundary is varied. Then in the present invention, the upper end of the effective axial length of fuel rod is so made as not approaching with the detection position of the local power range monitor in a reactor core. Further, the upper end of the effective axial length of fuel rods in a 4 x 4 fuel rod lattice positioned at the corner on the side of the local power range monitor is so made as not approaching the detection position of the local power range monitor. As a result, the change of the neutron flux distribution and power distribution in the vicinity of the position where the detector of the local power range monitor is situated can be extremely reduced. Accordingly, there is no scattering and fluctuation for the reading value by the local power range monitor, to improve the monitoring performance for thermal characteristics in the reactor core. (N.H.)

  18. Fuel assembly

    Purpose: To reconstruct a BWR type reactor into a high conversion reactor with no substantial changes for the reactor inner structure such as control rod structure. Constitution: The horizontal cross sectional shape of a channel box is reformed into a square configuration and the arrangement of fuel rods is formed as a trigonal lattice-like configuration. As a method of improving the conversion ratio, there is considered to use a dense lattice by narrowing the distance between fuel rods and trigonal lattice arrangement for fuel rod is advantageous therefor. A square shape cross sectional configuration having equal length both in the lateral and longitudinal directions is suitable for the channel box as a guide upon movement of the control rod. Fuel rods can be arranged with no loss by the trigonal lattice configuration, by which it is possible to improve the neutron moderation, increase the reactor core reactivity and conduct effective fuel combustion. In this way, it is possible to attain the object by inserting the follower portion of the control rod at the earier half and extracting the same at the latter half during the operation period in the reactor core comprising fuel assemblies suitable to a high conversion BWR type reactor having average conversion ratio of about 0.8. (Kamimura, M.)

  19. Fuel assembly

    Fuel rods are arranged in a lattice-like structure by way of a plurality of spacers and the lower ends thereof are fixed to a lower tie plate for assembling a fuel rod bundle. The outer circumference is surrounded by a basket having a plurality of openings and the basket is surrounded by a channel box. The basket is connected to a handle at the upper end and to a lower tie plate at the lower end and, further, defined with a scraper at each of openings. Coolants flown from the lower tie plate to the channel box flow the channels between the channel box and the basket and a fuel rod bundle, uprise while forming a two-phase flow and flow out from the upper end of the channel box. Since no upper tie plate is present, pressure loss of coolants flow is reduced, and liquid membranes of coolants are peeled off by the scraper disposed at the opening of the basket, which contributes to the improvement of the limit power. In addition, fuel rods are inspected and cleaned easily. (N.H.)

  20. Fuel assembly

    The object of the present invention is to improve the hydrodynamic stability in the fuel channels of BWR type reactors and effectively utilize the coolant driving power corresponding to the reduction due to pressure loss. That is, in a fuel assembly having usual fuel rods and, in addition, water rods and short fuel rods, the structures of water rods, upper tie plates and the spacers are designed from a hydrodynamic point of view, to reduce the pressure loss. On the other hand, a lattice-like flow channel resistance member is disposed to a lower tie plate. The bundle flow rate is made uniform by the flow channel resistance member, and the pressure loss of the tie plate is increased by the reduction of the pressure loss by the arrangement of the short fuel rod and the reduction of the pressure loss described above. Since this increases the ratio of the single phase stream pressure loss in the total reactor core pressure loss, the hydrodynamic stability in the fuel channel is improved. (I.J.)

  1. Nuclear reactor fuel assembly

    A fuel assembly construction for liquid metal cooled fast breeder reactors is described in which the sub-assemblies carry a smaller proportion of parasitic material than do conventional sub-assemblies. (U.K.)

  2. Modeling Formation of Globular Clusters: Beacons of Galactic Star Formation

    Gnedin, Oleg Y

    2010-01-01

    Modern hydrodynamic simulations of galaxy formation are able to predict accurately the rates and locations of the assembly of giant molecular clouds in early galaxies. These clouds could host star clusters with the masses and sizes of real globular clusters. I describe current state-of-the-art simulations aimed at understanding the origin of the cluster mass function and metallicity distribution. Metallicity bimodality of globular cluster systems appears to be a natural outcome of hierarchical formation and gradually declining fraction of cold gas in galaxies. Globular cluster formation was most prominent at redshifts z>3, when massive star clusters may have contributed as much as 20% of all galactic star formation.

  3. Denominators of cluster variables

    Buan, Aslak Bakke; Marsh, Robert J.; Reiten, Idun

    2007-01-01

    Associated to any acyclic cluster algebra is a corresponding triangulated category known as the cluster category. It is known that there is a one-to-one correspondence between cluster variables in the cluster algebra and exceptional indecomposable objects in the cluster category inducing a correspondence between clusters and cluster-tilting objects. Fix a cluster-tilting object T and a corresponding initial cluster. By the Laurent phenomenon, every cluster variable can be written as a Laurent...

  4. Two new polyoxovanadate clusters templated through cysteamine

    K Pavani; S Upreti; A Ramanan

    2006-03-01

    Two new fully oxidized polyoxovanadate cluster-based solids (C4N2S2H14)2[H2V10O28]$\\cdot$4H2O, 1 and (C4N2S2H14)5[H4V15O42]2.10H2O, 2 are crystallized under self-assembly process in the presence of cysteamine. In both 1 and 2, cysteamines are oxidized forming disulphide linkages and occur as counter cations. The organic cations assemble around V10O28 cluster anions in 1 whereas they aggregate around V15O42 clusters in 2. pH appears to be the structure determinant in the occurrence of decavanadate cluster in 1 and pentadecavanadate in 2, with the same counter cation.

  5. Biosynthesis of Iron-Sulfur Clusters

    Yuvaniyama, Pramvadee

    1999-01-01

    It is not known whether biosynthesis of [Fe-S] clusters occurs through a spontaneous self-assembly process or an enzymatic process. However, in the Azotobacter vinelandii nitrogenase system, it has been proposed that NifS and NifU are involved in the mobilization of sulfur and iron necessary for nitrogenase-specific [Fe-S] cluster assembly. The NifS protein has been shown to have cysteine desulfurase activity and can be used to supply sulfur for the in vitro catalytic formation of [Fe-S] cl...

  6. Cluster Bulleticity

    Massey, Richard; Nagai, Daisuke

    2010-01-01

    The unique properties of dark matter are revealed during collisions between clusters of galaxies, like the bullet cluster (1E 0657-56) and baby bullet (MACSJ0025-12). These systems provide evidence for an additional, invisible mass in the separation between the distribution of their total mass, measured via gravitational lensing, and their ordinary 'baryonic' matter, measured via its X-ray emission. Unfortunately, the information available from these systems is limited by their rarity. Constraints on the properties of dark matter, such as its interaction cross-section, are therefore restricted by uncertainties in the individual systems' impact velocity, impact parameter and orientation with respect to the line of sight. Here we develop a complementary, statistical measurement in which every piece of substructure falling into every massive cluster is treated as a bullet. We define 'bulleticity' as the mean separation between dark matter and ordinary matter, and we measure a positive signal in hydrodynamical si...

  7. Amphoteric Aqueous Hafnium Cluster Chemistry.

    Goberna-Ferrón, Sara; Park, Deok-Hie; Amador, Jenn M; Keszler, Douglas A; Nyman, May

    2016-05-17

    Selective dissolution of hafnium-peroxo-sulfate films in aqueous tetramethylammonium hydroxide enables extreme UV lithographic patterning of sub-10 nm HfO2 structures. Hafnium speciation under these basic conditions (pH>10), however, is unknown, as studies of hafnium aqueous chemistry have been limited to acid. Here, we report synthesis, crystal growth, and structural characterization of the first polynuclear hydroxo hafnium cluster isolated from base, [TMA]6 [Hf6 (μ-O2 )6 (μ-OH)6 (OH)12 ]⋅38 H2 O. The solution behavior of the cluster, including supramolecular assembly via hydrogen bonding is detailed via small-angle X-ray scattering (SAXS) and electrospray ionization mass spectrometry (ESI-MS). The study opens a new chapter in the aqueous chemistry of hafnium, exemplifying the concept of amphoteric clusters and informing a critical process in single-digit-nm lithography. PMID:27094575

  8. Hierarchical silica particles by dynamic multicomponent assembly

    Wu, Z. W.; Hu, Q. Y.; Pang, J. B.;

    2005-01-01

    Abstract: Aerosol-assisted assembly of mesoporous silica particles with hierarchically controllable pore structure has been prepared using cetyltrimethylammonium bromide (CTAB) and poly(propylene oxide) (PPO, H[OCH(CH3)CH2],OH) as co-templates. Addition of the hydrophobic PPO significantly...... influences the delicate hydrophilic-hydrophobic balance in the well-studied CTAB-silicate co-assembling system, resulting in various mesostructures (such as hexagonal, lamellar, and hierarchical structure). The co-assembly of CTAB, silicate clusters, and a low-molecular-weight PPO (average M-n 425) results......-silicate assembling system was discussed. The mesostructure of these particles was characterized by transmission electron microscope (TEM), scanning electron microscope (SEM), X-ray diffraction (XRD), and N-2 sorption. (c) 2005 Elsevier Inc. All rights reserved....

  9. Mutants of the Base Excision Repair Glycosylase, Endonuclease III: DNA Charge Transport as a First Step in Lesion Detection

    Romano, Christine A.; Sontz, Pamela A.; Barton, Jacqueline K.

    2011-01-01

    Endonuclease III (EndoIII) is a base excision repair glycosylase that targets damaged pyrimidines and contains a [4Fe-4S] cluster. We have proposed a model where BER proteins that contain redox-active [4Fe-4S] clusters utilize DNA charge transport (CT) as a first step in the detection of DNA lesions. Here, several mutants of EndoIII were prepared to probe their efficiency of DNA/protein charge transport. Cyclic voltammetry experiments on DNA-modified electrodes show that aromatic residues F30...

  10. Fuzzy Clustering

    Berks, G.; Keyserlingk, Diedrich Graf von; Jantzen, Jan;

    2000-01-01

    and clustering are the basic concerns in medicine. Classification depends on definitions of the classes and their required degree of participant of the elements in the cases' symptoms. In medicine imprecise conditions are the rule and therefore fuzzy methods are much more suitable than crisp ones...

  11. Quotients of cluster categories

    Jorgensen, Peter

    2007-01-01

    Higher cluster categories were recently introduced as a generalization of cluster categories. This paper shows that in Dynkin types A and D, half of all higher cluster categories are actually just quotients of cluster categories. The other half can be obtained as quotients of 2-cluster categories, the "lowest" type of higher cluster categories. Hence, in Dynkin types A and D, all higher cluster phenomena are implicit in cluster categories and 2-cluster categories. In contrast, the same is not...

  12. Early assembly of the most massive galaxies

    Collins, Chris A; Hilton, Matt; Kay, Scott T; Stanford, S Adam; Davidson, Michael; Hosmer, Mark; Hoyle, Ben; Liddle, Andrew; Lloyd-Davies, Ed; Mann, Robert G; Mehrtens, Nicola; Miller, Christopher J; Nichol, Robert C; Romer, A Kathy; Sahlen, Martin; Viana, Pedro T P; West, Michael J

    2009-01-01

    The current consensus is that galaxies begin as small density fluctuations in the early Universe and grow by in situ star formation and hierarchical merging. Stars begin to form relatively quickly in sub-galactic sized building blocks called haloes which are subsequently assembled into galaxies. However, exactly when this assembly takes place is a matter of some debate. Here we report that the stellar masses of brightest cluster galaxies, which are the most luminous objects emitting stellar light, some 9 billion years ago are not significantly different from their stellar masses today. Brightest cluster galaxies are almost fully assembled 4-5 Gyrs after the Big Bang, having grown to more than 90% of their final stellar mass by this time. Our data conflict with the most recent galaxy formation models based on the largest simulations of dark matter halo development. These models predict protracted formation of brightest cluster galaxies over a Hubble time, with only 22% of the stellar mass assembled at the epoc...

  13. Regional Innovation Clusters

    Small Business Administration — The Regional Innovation Clusters serve a diverse group of sectors and geographies. Three of the initial pilot clusters, termed Advanced Defense Technology clusters,...

  14. Newnes electronics assembly handbook

    Brindley, Keith

    2013-01-01

    Newnes Electronics Assembly Handbook: Techniques, Standards and Quality Assurance focuses on the aspects of electronic assembling. The handbook first looks at the printed circuit board (PCB). Base materials, basic mechanical properties, cleaning of assemblies, design, and PCB manufacturing processes are then explained. The text also discusses surface mounted assemblies and packaging of electromechanical assemblies, as well as the soldering process. Requirements for the soldering process; solderability and protective coatings; cleaning of PCBs; and mass solder/component reflow soldering are des

  15. Inlet nozzle assembly

    Christiansen, David W.; Karnesky, Richard A.; Precechtel, Donald R.; Smith, Bob G.; Knight, Ronald C.

    1987-01-01

    An inlet nozzle assembly for directing coolant into the duct tube of a fuel assembly attached thereto. The nozzle assembly includes a shell for housing separable components including an orifice plate assembly, a neutron shield block, a neutron shield plug, and a diffuser block. The orifice plate assembly includes a plurality of stacked plates of differently configurated and sized openings for directing coolant therethrough in a predesigned flow pattern.

  16. Tilt assembly for tracking solar collector assembly

    Almy, Charles; Peurach, John; Sandler, Reuben

    2012-01-24

    A tilt assembly is used with a solar collector assembly of the type comprising a frame, supporting a solar collector, for movement about a tilt axis by pivoting a drive element between first and second orientations. The tilt assembly comprises a drive element coupler connected to the drive element and a driver, the driver comprising a drive frame, a drive arm and a drive arm driver. The drive arm is mounted to the drive frame for pivotal movement about a drive arm axis. Movement on the drive arm mimics movement of the drive element. Drive element couplers can extend in opposite directions from the outer portion of the drive arm, whereby the assembly can be used between adjacent solar collector assemblies in a row of solar collector assemblies.

  17. Clustering experiments

    Wang, Zhengwei; Tan, Ken; Di, Zengru; Roehner, Bertrand M

    2011-01-01

    It is well known that bees cluster together in cold weather, in the process of swarming (when the ``old'' queen leaves with part of the colony) or absconding (when the queen leaves with all the colony) and in defense against intruders such as wasps or hornets. In this paper we describe a fairly different clustering process which occurs at any temperature and independently of any special stimulus or circumstance. As a matter of fact, this process is about four times faster at 28 degree Celsius than at 15 degrees. Because of its simplicity and low level of ``noise'' we think that this phenomenon can provide a means for exploring the strength of inter-individual attraction between bees or other living organisms. For instance, and at first sight fairly surprisingly, our observations showed that this attraction does also exist between bees belonging to different colonies. As this study is aimed at providing a comparative perspective, we also describe a similar clustering experiment for red fire ants.

  18. Structural assembly demonstration experiment

    Stokes, J. W.

    1982-01-01

    The experiment is of an operational variety, designed to assess crew capability in Large Space System (LSS) assembly. The six Structural Assembly Demonstration Experiment objectives include: (1) the establishment of a quantitative correlation between LSS neutral buoyancy simulation and on-orbit assembly operations in order to enhance the validity of those assembly simulations; (2) the quantitative study of the capabilities and mechanics of human assembly in an Extravehicular Activity environment; (3) the further corroboration of the LSS Assembly Analysis cost algorithm through the obtainment of hard data base information; (4) the verification of LSS assembly techniques and timeless, as well as the identification of crew imposed loads and assembly aid requirements and concepts; (5) verification of a Launch/Assembly Platform structure concept for other LSS missions; and (6) lastly, to advance thermal control concepts through a flexible heat pipe.

  19. Composite-cluster states and alternative architectures for one-way quantum computation

    Milne, Darran F.; Korolkova, Natalia V.

    2012-01-01

    We propose a new architecture for the measurement-based quantum computation model. The new design relies on small composite light-atom primary clusters. These are then assembled into cluster arrays using ancillary light modes and the actual computation is run on such a cellular cluster. We show how to create the primary clusters, which are Gaussian cluster states composed of both light and atomic modes. These are entangled via QND interactions and beamsplitters and the scheme is well describe...

  20. Factor PD-Clustering

    Gettler Summa, Mireille; Palumbo, Francesco; Tortora, Cristina

    2012-01-01

    Factorial clustering methods have been developed in recent years thanks to the improving of computational power. These methods perform a linear transformation of data and a clustering on transformed data optimizing a common criterion. Factorial PD-clustering is based on Probabilistic Distance clustering (PD-clustering). PD-clustering is an iterative, distribution free, probabilistic, clustering method. Factor PD-clustering make a linear transformation of original variables into a reduced numb...

  1. Firearm trigger assembly

    Crandall, David L.; Watson, Richard W.

    2010-02-16

    A firearm trigger assembly for use with a firearm includes a trigger mounted to a forestock of the firearm so that the trigger is movable between a rest position and a triggering position by a forwardly placed support hand of a user. An elongated trigger member operatively associated with the trigger operates a sear assembly of the firearm when the trigger is moved to the triggering position. An action release assembly operatively associated with the firearm trigger assembly and a movable assembly of the firearm prevents the trigger from being moved to the triggering position when the movable assembly is not in the locked position.

  2. Assembly plans for ITER

    The assembly of ITER represents an extrapolation of a factor of two or more in size over existing large tokamaks. An assembly plan has been developed based on the ITER Outline Design. This plan was reviewed by technical experts and critical issues were identified. Alternate designs are being developed to address the most serious concerns and to minimize cost and assembly schedule. Because ITER has many characteristics of a full-scale nuclear reactor its assembly has challenges not faced previously by the fusion community. Careful assembly planning and well-designed tooling are required to insure success in the assembly of ITER

  3. Characterization of oxidation states of the Fe-protein from Azotobacter vinlandii

    Some of the properties of the [4Fe-4S] cluster of the Fe protein from Azotobacter vinlandii nitrogenase (Av2) were studied by two methods; Fe chelation reactions and Fe exchange reactions. In the presence of the chelator, 2,2-dipyridyl, and MgATP, the oxidized [4Fe-4S] cluster decomposes in a biphasic manner. In the initial fast phase, two Fe are removed; the remainder of the iron is chelated in a much slower process. An intermediate of the chelation reaction, 2Fe-Av2, contains 2Fe/protein. Iron and inorganic sulfur determinations, and visible, EPR, and Moessbauer spectal properties indicate that the 2Fe-Av2 intermediate of the chelation reaction contains a 2Fe-2S cluster. The Fe in the oxidized [4Fe-4S] cluster can be exchanged with radiolabeled iron without loss of activity of the protein. In 100 mM NaCl and MgATP, only two of the Fe in the cluster are exchanged. MgADP prevents exchange of Fe into the cluster. The Fe in the reduced [4Fe-4S] cluster is apparently resistant to exchange with radiolabeled iron. No conditions are found in which significant exchange of iron is observed

  4. Introducing Decorated HODs: modeling assembly bias in the galaxy-halo connection

    Hearin, Andrew P; Bosch, Frank C van den; Campbell, Duncan; Tollerud, Erik

    2015-01-01

    The connection between galaxies and dark matter halos is often inferred from data using probabilistic models, such as the Halo Occupation Distribution (HOD). Conventional HOD formulations assume that only halo mass governs the galaxy-halo connection. Violations of this assumption, known as galaxy assembly bias, threaten the HOD program. We introduce decorated HODs, a new, flexible class of models designed to account for assembly bias. Decorated HODs minimally expand the parameter space and maximize the independence between traditional and novel HOD parameters. We use decorated HODs to quantify the influence of assembly bias on clustering and lensing statistics. For SDSS-like samples, the impact of assembly bias on galaxy clustering can be as large as a factor of two on r ~ 200 kpc scales and ~15% in the linear regime. Assembly bias can either enhance or diminish clustering on large scales, but generally increases clustering on scales r <~ 1 Mpc. We performed our calculations with Halotools, an open-source,...

  5. Evolutionary History Reconstruction for Mammalian Complex Gene Clusters

    Zhang, Yu; Song, Giltae; Vinař, Tomáš; Green, Eric D; Siepel, Adam; Miller, Webb

    2009-01-01

    Clusters of genes that evolved from single progenitors via repeated segmental duplications present significant challenges to the generation of a truly complete human genome sequence. Such clusters can confound both accurate sequence assembly and downstream computational analysis, yet they represent a hotbed of functional innovation, making them of extreme interest. We have developed an algorithm for reconstructing the evolutionary history of gene clusters using only human genomic sequence dat...

  6. Cluster automorphisms and compatibility of cluster variables

    Assem, Ibrahim; Schiffler, Ralf; Shramchenko, Vasilisa

    2013-01-01

    In this paper, we introduce a notion of unistructural cluster algebras, for which the set of cluster variables uniquely determines the clusters. We prove that cluster algebras of Dynkin type and cluster algebras of rank 2 are unistructural, then prove that if $\\mathcal{A}$ is unistructural or of Euclidean type, then $f: \\mathcal{A}\\to \\mathcal{A}$ is a cluster automorphism if and only if $f$ is an automorphism of the ambient field which restricts to a permutation of the cluster variables. In ...

  7. Globular Cluster Formation in the Virgo Cluster

    Moran, C Corbett; Lake, G

    2014-01-01

    Metal poor globular clusters (MPGCs) are a unique probe of the early universe, in particular the reionization era. Systems of globular clusters in galaxy clusters are particularly interesting as it is in the progenitors of galaxy clusters that the earliest reionizing sources first formed. Although the exact physical origin of globular clusters is still debated, it is generally admitted that globular clusters form in early, rare dark matter peaks (Moore et al. 2006; Boley et al. 2009). We provide a fully numerical analysis of the Virgo cluster globular cluster system by identifying the present day globular cluster system with exactly such early, rare dark matter peaks. A popular hypothesis is that that the observed truncation of blue metal poor globular cluster formation is due to reionization (Spitler et al. 2012; Boley et al. 2009; Brodie & Strader 2006); adopting this view, constraining the formation epoch of MPGCs provides a complementary constraint on the epoch of reionization. By analyzing both the l...

  8. Protein–DNA charge transport: Redox activation of a DNA repair protein by guanine radical

    Yavin, Eylon; Boal, Amie K.; Stemp, Eric D. A.; Boon, Elizabeth M; Livingston, Alison L.; O'Shea, Valerie L.; David, Sheila S.; Barton, Jacqueline K.

    2005-01-01

    DNA charge transport (CT) chemistry provides a route to carry out oxidative DNA damage from a distance in a reaction that is sensitive to DNA mismatches and lesions. Here, DNA-mediated CT also leads to oxidation of a DNA-bound base excision repair enzyme, MutY. DNA-bound Ru(III), generated through a flash/quench technique, is found to promote oxidation of the [4Fe-4S](2+) cluster of MutY to [4Fe-4S](3+) and its decomposition product [3Fe-4S](1+). Flash/quench experiments monitored by EPR spec...

  9. Sensor mount assemblies and sensor assemblies

    Miller, David H.

    2012-04-10

    Sensor mount assemblies and sensor assemblies are provided. In an embodiment, by way of example only, a sensor mount assembly includes a busbar, a main body, a backing surface, and a first finger. The busbar has a first end and a second end. The main body is overmolded onto the busbar. The backing surface extends radially outwardly relative to the main body. The first finger extends axially from the backing surface, and the first finger has a first end, a second end, and a tooth. The first end of the first finger is disposed on the backing surface, and the tooth is formed on the second end of the first finger.

  10. Adaptive Evolutionary Clustering

    Xu, Kevin S.; Kliger, Mark; Hero III, Alfred O.

    2011-01-01

    In many practical applications of clustering, the objects to be clustered evolve over time, and a clustering result is desired at each time step. In such applications, evolutionary clustering typically outperforms traditional static clustering by producing clustering results that reflect long-term trends while being robust to short-term variations. Several evolutionary clustering algorithms have recently been proposed, often by adding a temporal smoothness penalty to the cost function of a st...

  11. Relational visual cluster validity

    Ding, Y.; Harrison, R F

    2007-01-01

    The assessment of cluster validity plays a very important role in cluster analysis. Most commonly used cluster validity methods are based on statistical hypothesis testing or finding the best clustering scheme by computing a number of different cluster validity indices. A number of visual methods of cluster validity have been produced to display directly the validity of clusters by mapping data into two- or three-dimensional space. However, these methods may lose too much information to corre...

  12. Soldering in electronics assembly

    Judd, Mike

    2013-01-01

    Soldering in Electronics Assembly discusses several concerns in soldering of electronic assemblies. The book is comprised of nine chapters that tackle different areas in electronic assembly soldering. Chapter 1 discusses the soldering process itself, while Chapter 2 covers the electronic assemblies. Chapter 3 talks about solders and Chapter 4 deals with flux. The text also tackles the CS and SC soldering process. The cleaning of soldered assemblies, solder quality, and standards and specifications are also discussed. The book will be of great use to professionals who deal with electronic assem

  13. Intracluster Light in Galaxy Groups and Clusters

    DeMaio, Tahlia; Gonzalez, Anthony; Zabludoff, Ann I.; Zaritsky, Dennis F.

    2016-01-01

    We present recent results from our study on the origin and assembly history of the intracluster starlight (ICL) for a sample of 29 galaxy groups and clusters with 3x1013BCG). We also find ICL luminosities of 3-9 L* in the range 10 BCG.This sample of groups and clusters is the largest with HST/WFC3 data for ICL analysis that spans two orders of magnitude in halo mass at redshifts >0.3. Because of this we can investigate how the ICL color profile changes as a function of cluster mass for the first time, as well as expand previous studies of the changing fraction of cluster luminosity that is contained in the BCG+ICL as a function of halo mass. We present our preliminary results and describe our next steps using this sample to investigate the intracluster light in massive halos.

  14. IAU Commission 37 "Star Clusters and Associations" Legacy report

    Carraro, Giovanni; Elmegreen, Bruce; Anthony-Twarog, Barbara; Geisler, Douglas; Goodwin, Simon; Stetson, Peter; Minniti, Dante

    2015-01-01

    It is widely accepted that stars do not form in isolation but result from the fragmentation of molecular clouds, which in turn leads to star cluster formation. Over time, clusters dissolve or are destroyed by interactions with molecular clouds or tidal stripping, and their members become part of the general field population. Star clusters are thus among the basic building blocks of galaxies. In turn, star cluster populations, from young associations and open clusters to old globulars, are powerful tracers of the formation, assembly, and evolutionary history of their parent galaxies. Although their importance had been recognised for decades, major progress in this area has only become possible in recent years, both for Galactic and extragalactic cluster populations. Star clusters are the observational foundation for stellar astrophysics and evolution, provide essential tracers of galactic structure, and are unique stellar dynamical environments. Star formation, stellar structure, stellar evolution, and stellar...

  15. Partitional clustering algorithms

    2015-01-01

    This book summarizes the state-of-the-art in partitional clustering. Clustering, the unsupervised classification of patterns into groups, is one of the most important tasks in exploratory data analysis. Primary goals of clustering include gaining insight into, classifying, and compressing data. Clustering has a long and rich history that spans a variety of scientific disciplines including anthropology, biology, medicine, psychology, statistics, mathematics, engineering, and computer science. As a result, numerous clustering algorithms have been proposed since the early 1950s. Among these algorithms, partitional (nonhierarchical) ones have found many applications, especially in engineering and computer science. This book provides coverage of consensus clustering, constrained clustering, large scale and/or high dimensional clustering, cluster validity, cluster visualization, and applications of clustering. Examines clustering as it applies to large and/or high-dimensional data sets commonly encountered in reali...

  16. Assembler for de novo assembly of large genomes

    Chu, Te-Chin; Lu, Chen-Hua; Liu, Tsunglin; Lee, Greg C.; Li, Wen-Hsiung; Shih, Arthur Chun-Chieh

    2013-01-01

    Assembling a large genome faces three challenges: assembly quality, computer memory requirement, and execution time. Our developed assembler, JR-Assembler, uses (a) a strategy that selects good seeds for contig construction, (b) an extension strategy that uses whole sequencing reads to increase the chance to jump over repeats and to expedite extension, and (c) detecting misassemblies by remapping reads to assembled sequences. Compared with current assemblers, JR-Assembler achieves a better ov...

  17. Cluster Evaluation of Density Based Subspace Clustering

    Sembiring, Rahmat Widia; Zain, Jasni Mohamad

    2010-01-01

    Clustering real world data often faced with curse of dimensionality, where real world data often consist of many dimensions. Multidimensional data clustering evaluation can be done through a density-based approach. Density approaches based on the paradigm introduced by DBSCAN clustering. In this approach, density of each object neighbours with MinPoints will be calculated. Cluster change will occur in accordance with changes in density of each object neighbours. The neighbours of each object ...

  18. Clustering with Spectral Methods

    Gaertler, Marco

    2002-01-01

    Grouping and sorting are problems with a great tradition in the history of mankind. Clustering and cluster analysis is a small aspect in the wide spectrum. But these topics have applications in most scientific disciplines. Graph clustering is again a little fragment in the clustering area. Nevertheless it has the potential for new pioneering and innovative methods. One such method is the Markov Clustering presented by van Dongen in 'Graph Clustering by Flow Simulation'. We investigated the qu...

  19. Sparse Convex Clustering

    Wang, Binhuan; Zhang, Yilong; Sun, Wei; Fang, Yixin

    2016-01-01

    Convex clustering, a convex relaxation of k-means clustering and hierarchical clustering, has drawn recent attentions since it nicely addresses the instability issue of traditional nonconvex clustering methods. Although its computational and statistical properties have been recently studied, the performance of convex clustering has not yet been investigated in the high-dimensional clustering scenario, where the data contains a large number of features and many of them carry no information abo...

  20. Assembly tool design

    The reactor core of the International Thermonuclear Experimental Reactor (ITER) is assembled with a number of large and asymmetric components within a tight tolerance in order to assure the structural integrity for various loads and to provide the tritium confinement. In addition, the assembly procedure should be compatible with remote operation since the core structures will be activated by 14-MeV neutrons once it starts operation and thus personal access will be prohibited. Accordingly, the assembly procedure and tool design are quite essential and should be designed from the beginning to facilitate remote operation. According to the ITER Design Task Agreement, the Japan Atomic Energy Research Institute (JAERI) has performed design study to develop the assembly procedures and associated tool design for the ITER tokamak assembly. This report describes outlines of the assembly tools and the remaining issues obtained in this design study. (author)

  1. THE STELLAR MASS GROWTH OF BRIGHTEST CLUSTER GALAXIES IN THE IRAC SHALLOW CLUSTER SURVEY

    The details of the stellar mass assembly of brightest cluster galaxies (BCGs) remain an unresolved problem in galaxy formation. We have developed a novel approach that allows us to construct a sample of clusters that form an evolutionary sequence, and have applied it to the Spitzer IRAC Shallow Cluster Survey (ISCS) to examine the evolution of BCGs in progenitors of present-day clusters with mass of (2.5-4.5) × 1014 M☉. We follow the cluster mass growth history extracted from a high resolution cosmological simulation, and then use an empirical method that infers the cluster mass based on the ranking of cluster luminosity to select high-z clusters of appropriate mass from ISCS to be progenitors of the given set of z = 0 clusters. We find that, between z = 1.5 and 0.5, the BCGs have grown in stellar mass by a factor of 2.3, which is well-matched by the predictions from a state-of-the-art semi-analytic model. Below z = 0.5 we see hints of differences in behavior between the model and observation.

  2. Dynamics of Ag clusters on complex surfaces: Molecular dynamics simulations

    Alkis, S.; Krause, J. L.; Fry, J. N.; Cheng, H.-P.

    2009-03-01

    We study the diffusion of silver nanoparticles on self-assembled monolayers (SAMs). Silver clusters Agn of sizes n=55 , 147, and 1289 were evolved in contact with an alkanethiol (12 carbon, dodecanethiol) SAM deposited on a gold (111) surface. Analysis based on classical molecular dynamics simulations reveals that these systems exhibit a rich variety of behaviors, from superdiffusive for the lightest cluster to pinned for the heaviest, evolution self-similar in lengths and times for the lightest cluster but with characteristic time scales and directional anisotropies emerging for the heavier clusters.

  3. Cluster dynamics transcending chemical dynamics toward nuclear fusion

    Heidenreich, Andreas; Jortner, Joshua; Last, Isidore

    2006-01-01

    Ultrafast cluster dynamics encompasses femtosecond nuclear dynamics, attosecond electron dynamics, and electron-nuclear dynamics in ultraintense laser fields (peak intensities 1015–1020 W·cm−2). Extreme cluster multielectron ionization produces highly charged cluster ions, e.g., (C4+(D+)4)n and (D+I22+)n at IM = 1018 W·cm−2, that undergo Coulomb explosion (CE) with the production of high-energy (5 keV to 1 MeV) ions, which can trigger nuclear reactions in an assembly of exploding clusters. Th...

  4. Radiological characterization of spent control rod assemblies

    Lepel, E.A.; Robertson, D.E.; Thomas, C.W.; Pratt, S.L.; Haggard, D.L. [Pacific Northwest Lab., Richland, WA (United States)

    1995-10-01

    This document represents the final report of an ongoing study to provide radiological characterizations, classifications, and assessments in support of the decommissioning of nuclear power stations. This report describes the results of non-destructive and laboratory radionuclide measurements, as well as waste classification assessments, of BWR and PWR spent control rod assemblies. The radionuclide inventories of these spent control rods were determined by three separate methodologies, including (1) direct assay techniques, (2) calculational techniques, and (3) by sampling and laboratory radiochemical analyses. For the BWR control rod blade (CRB) and PWR burnable poison rod assembly (BPRA), {sup 60}Co and {sup 63}Ni, present in the stainless steel cladding, were the most abundant neutron activation products. The most abundant radionuclide in the PWR rod cluster control assembly (RCCA) was {sup 108m}Ag (130 yr halflife) produced in the Ag-In-Cd alloy used as the neutron poison. This radionuclide will be the dominant contributor to the gamma dose rate for many hundreds of years. The results of the direct assay methods agree very well ({+-}10%) with the sampling/radiochemical measurements. The results of the calculational methods agreed fairly well with the empirical measurements for the BPRA, but often varied by a factor of 5 to 10 for the CRB and the RCCA assemblies. If concentration averaging and encapsulation, as allowed by 10CFR61.55, is performed, then each of the entire control assemblies would be classified as Class C low-level radioactive waste.

  5. Target Assembly Facility

    Federal Laboratory Consortium — The Target Assembly Facility integrates new armor concepts into actual armored vehicles. Featuring the capability ofmachining and cutting radioactive materials, it...

  6. Composite turbine bucket assembly

    Liotta, Gary Charles; Garcia-Crespo, Andres

    2014-05-20

    A composite turbine blade assembly includes a ceramic blade including an airfoil portion, a shank portion and an attachment portion; and a transition assembly adapted to attach the ceramic blade to a turbine disk or rotor, the transition assembly including first and second transition components clamped together, trapping said ceramic airfoil therebetween. Interior surfaces of the first and second transition portions are formed to mate with the shank portion and the attachment portion of the ceramic blade, and exterior surfaces of said first and second transition components are formed to include an attachment feature enabling the transition assembly to be attached to the turbine rotor or disk.

  7. Assembly of ISX

    Durfee, N.W.

    1977-01-01

    The Impurity Study Experiment, a moderate size tokamak, was recently assembled at ORNL. Demountable toroidal field coils allowed for the assembly of major components at remote locations and rapid installation into ISX. A discharge cleaning plasma was generated in ISX six weeks after the arrival of the final toroidal field coil. A chronological summary of the assembly is presented, emphasizing features designed to aid in assembly and maintenance. A cross-section of the machine showing the major mechanical components to be discussed is given.

  8. Method of assembling nuclear fuel assembly

    Thin films are formed to the surface of a fuel rod for preventing the occurrence of injuries at the surface of the fuel rod. That is, in a method of assembling a nuclear fuel assembly by inserting fuel rods into lattice cells of a support lattice, thin films of polyvinyl alcohol are formed to a predetermined thickness at the surface of each of the fuel rods and, after insertion of the fuel rods into the lattice cells, the nuclear fuel assemblies are dipped into water or steams to dissolve and remove the thin films. Since polyvinyl alcohol is noncombustible and not containing nuclear inhibitive material as the ingredient, they cause no undesired effects on plant facilities even if not completely removed from the fuel rods. The polyvinyl alcohol thin films have high strength and can sufficiently protect the fuel rod. Further, scraping damages caused by support members of the support lattice upon insertion can also be prevented. (T.M.)

  9. Cluster categories and cluster-tilted algebras

    Torkildsen, Hermund Andre

    2006-01-01

    We have given an introduction to the theory of cluster categories and cluster-tilted algebras, and this was one of our main objectives in this thesis. We have seen that cluster-tilted algebras are relation-extension algebras, and this gave us a way of constructing the quiver of a cluster-tilted algebra from a tilted algebra. A cluster-tilted algebra of finite representation type is determined by its quiver, and this raised questions about the generality of this result. We defined a new class...

  10. Reactor fuel assemblies

    A description is given of an improved spacer grid for a nuclear fuel assembly comprising fuel rods in a matrix wherein each rod is adapted to be enclosed by a spacer ''cell'' for positioning thereof relative to adjacent rods in the fuel assembly. 7 claims, 12 drawing figures

  11. Extending reference assembly models

    Church, Deanna M.; Schneider, Valerie A.; Steinberg, Karyn Meltz;

    2015-01-01

    The human genome reference assembly is crucial for aligning and analyzing sequence data, and for genome annotation, among other roles. However, the models and analysis assumptions that underlie the current assembly need revising to fully represent human sequence diversity. Improved analysis tools...

  12. Laser bottom hole assembly

    Underwood, Lance D; Norton, Ryan J; McKay, Ryan P; Mesnard, David R; Fraze, Jason D; Zediker, Mark S; Faircloth, Brian O

    2014-01-14

    There is provided for laser bottom hole assembly for providing a high power laser beam having greater than 5 kW of power for a laser mechanical drilling process to advance a borehole. This assembly utilizes a reverse Moineau motor type power section and provides a self-regulating system that addresses fluid flows relating to motive force, cooling and removal of cuttings.

  13. Fuel Assembly Damping Summary

    This paper summary the fuel assembly damping data in air/in still water/under flow, released from foreign fuel vendors, compared our data with the published data. Some technical issues in fuel assembly damping measurement testing are also briefly discussed. Understanding of each fuel assembly damping mechanisms according to the surrounding medium and flow velocity can support the fuel design improvement in fuel assembly dynamics and structural integrity aspect. Because the upgraded requirements of the newly-developed advanced reactor system will demands to minimize fuel design margin in integrity evaluation, reduction in conservatism of fuel assembly damping can contribute to alleviate the fuel design margin for sure. Damping is an energy dissipation mechanism in a vibrating mechanical structure and prevents a resonant structure from having infinite vibration amplitudes. The sources of fuel assembly damping are various from support friction to flow contribution, and it can be increased by the viscosity or drag of surrounding fluid medium or the average velocity of water flowing. Fuel licensing requires fuel design evaluation in transient or accidental condition. Dynamic response analysis of fuel assembly is to show fuel integrity and requires information on assembly-wise damping in dry condition and under wet or water flowing condition. However, damping measurement test for the full-scale fuel assembly prototype is not easy to carry out because of the scale (fuel prototype, test facility), unsteadiness of test data (scattering, random sampling and processing), instrumentation under water flowing (water-proof response measurement), and noise. LWR fuel technology division in KAERI is preparing the infra structure for damping measurement test of full-scale fuel assembly, to support fuel industries and related research activities. Here is a preliminary summary of fuel assembly damping, published in the literature. Some technical issues in fuel assembly damping

  14. Learning predictive clustering rules

    Ženko, Bernard; Džeroski, Sašo; Struyf, Jan

    2005-01-01

    The two most commonly addressed data mining tasks are predictive modelling and clustering. Here we address the task of predictive clustering, which contains elements of both and generalizes them to some extent. We propose a novel approach to predictive clustering called predictive clustering rules, present an initial implementation and its preliminary experimental evaluation.

  15. Clustering of correlated networks

    Dorogovtsev, S. N.

    2003-01-01

    We obtain the clustering coefficient, the degree-dependent local clustering, and the mean clustering of networks with arbitrary correlations between the degrees of the nearest-neighbor vertices. The resulting formulas allow one to determine the nature of the clustering of a network.

  16. Structures of Mn clusters

    Tina M Briere; Marcel H F Sluiter; Vijay Kumar; Yoshiyuki Kawazoe

    2003-01-01

    The geometries of several Mn clusters in the size range Mn13–Mn23 are studied via the generalized gradient approximation to density functional theory. For the 13- and 19-atom clusters, the icosahedral structures are found to be most stable, while for the 15-atom cluster, the bcc structure is more favoured. The clusters show ferrimagnetic spin configurations.

  17. Foodservice Occupations Cluster Guide.

    Oregon State Dept. of Education, Salem.

    Intended to assist vocational teachers in developing and implementing a cluster program in food service occupations, this guide contains sections on cluster organization and implementation and instructional emphasis areas. The cluster organization and implementation section covers goal-based planning and includes a proposed cluster curriculum, a…

  18. Self-assembled nanostructures

    Zhang, Jin Z; Liu, Jun; Chen, Shaowei; Liu, Gang-yu

    2003-01-01

    Nanostructures refer to materials that have relevant dimensions on the nanometer length scales and reside in the mesoscopic regime between isolated atoms and molecules in bulk matter. These materials have unique physical properties that are distinctly different from bulk materials. Self-Assembled Nanostructures provides systematic coverage of basic nanomaterials science including materials assembly and synthesis, characterization, and application. Suitable for both beginners and experts, it balances the chemistry aspects of nanomaterials with physical principles. It also highlights nanomaterial-based architectures including assembled or self-assembled systems. Filled with in-depth discussion of important applications of nano-architectures as well as potential applications ranging from physical to chemical and biological systems, Self-Assembled Nanostructures is the essential reference or text for scientists involved with nanostructures.

  19. Relevant Subspace Clustering

    Müller, Emmanuel; Assent, Ira; Günnemann, Stephan; Krieger, Ralph; Seidl, Thomas

    Subspace clustering aims at detecting clusters in any subspace projection of a high dimensional space. As the number of possible subspace projections is exponential in the number of dimensions, the result is often tremendously large. Recent approaches fail to reduce results to relevant subspace...... clusters. Their results are typically highly redundant, i.e. many clusters are detected multiple times in several projections. In this work, we propose a novel model for relevant subspace clustering (RESCU). We present a global optimization which detects the most interesting non-redundant subspace clusters...... achieves top clustering quality while competing approaches show greatly varying performance....

  20. Occupational Education for Students with Special Needs: Electronic Assembly.

    Nassau County Board of Cooperative Educational Services, Westbury, NY.

    This curriculum resource guide on electronic assembly is one of a series of seventeen specialized curriculum guides for occupational education of the marginal, handicapped, or special needs occupational education student. The guide begins with six behavior clusters that contain a series of forty-two instructional topics designed to teach…

  1. Occupational Education for Students with Special Needs: Wood Products Assembly.

    Nassau County Board of Cooperative Educational Services, Westbury, NY.

    This curriculum resource guide on wood products assembly is one of a series of seventeen specialized curriculum guides for occupational education of the marginal, handicapped, or special needs occupational education student. The guide begins with six behavior clusters that contain a series of forty-two instructional topics designed to teach…

  2. Tilting theory and cluster algebras

    Reiten, Idun

    2010-01-01

    We give an introduction to the theory of cluster categories and cluster tilted algebras. We include some background on the theory of cluster algebras, and discuss the interplay with cluster categories and cluster tilted algebras.

  3. Assembly and clustering of natural antibiotics guides target identification.

    Johnston, Chad W; Skinnider, Michael A; Dejong, Chris A; Rees, Philip N; Chen, Gregory M; Walker, Chelsea G; French, Shawn; Brown, Eric D; Bérdy, János; Liu, Dennis Y; Magarvey, Nathan A

    2016-04-01

    Antibiotics are essential for numerous medical procedures, including the treatment of bacterial infections, but their widespread use has led to the accumulation of resistance, prompting calls for the discovery of antibacterial agents with new targets. A majority of clinically approved antibacterial scaffolds are derived from microbial natural products, but these valuable molecules are not well annotated or organized, limiting the efficacy of modern informatic analyses. Here, we provide a comprehensive resource defining the targets, chemical origins and families of the natural antibacterial collective through a retrobiosynthetic algorithm. From this we also detail the directed mining of biosynthetic scaffolds and resistance determinants to reveal structures with a high likelihood of having previously unknown modes of action. Implementing this pipeline led to investigations of the telomycin family of natural products from Streptomyces canus, revealing that these bactericidal molecules possess a new antibacterial mode of action dependent on the bacterial phospholipid cardiolipin. PMID:26829473

  4. Control rod cluster with removable rods for nuclear fuel assembly

    For each removable control rod, the open end section of the sleeve has a certain length of reduced diameter with openings in its wall. The top end of the rod is joined to an extension tube that surrounds the shaft over part of its lenght. This extension tube fits over the reduced part of the sleeve when the shaft is screwed into the bore of the sleeve. Rotation of the rod in the sleeve is prevented by deforming the extension tube locally in the openings of the end part of the sleeve. The rod is dismantled by exerting a torque on it using a gripping area near the end of the rod

  5. Parallel Local Graph Clustering

    Shun, Julian; Roosta-Khorasani, Farbod; Fountoulakis, Kimon; Mahoney, Michael W.

    2016-01-01

    Graph clustering has many important applications in computing, but due to growing sizes of graph, even traditionally fast clustering methods such as spectral partitioning can be computationally expensive for real-world graphs of interest. Motivated partly by this, so-called local algorithms for graph clustering have received significant interest due to the fact that they can find good clusters in a graph with work proportional to the size of the cluster rather than that of the entire graph. T...

  6. Clustering and classification

    Arabie, Phipps

    1996-01-01

    At a moderately advanced level, this book seeks to cover the areas of clustering and related methods of data analysis where major advances are being made. Topics include: hierarchical clustering, variable selection and weighting, additive trees and other network models, relevance of neural network models to clustering, the role of computational complexity in cluster analysis, latent class approaches to cluster analysis, theory and method with applications of a hierarchical classes model in psychology and psychopathology, combinatorial data analysis, clusterwise aggregation of relations, review

  7. Cluster ion beam facilities

    A brief state-of-the-art review in the field of cluster-surface interactions is presented. Ionised cluster beams could become a powerful and versatile tool for the modification and processing of surfaces as an alternative to ion implantation and ion assisted deposition. The main effects of cluster-surface collisions and possible applications of cluster ion beams are discussed. The outlooks of the Cluster Implantation and Deposition Apparatus (CIDA) being developed in Guteborg University are shown

  8. Graded cluster algebras

    Grabowski, Jan

    2015-01-01

    In the cluster algebra literature, the notion of a graded cluster algebra has been implicit since the origin of the subject. In this work, we wish to bring this aspect of cluster algebra theory to the foreground and promote its study. We transfer a definition of Gekhtman, Shapiro and Vainshtein to the algebraic setting, yielding the notion of a multi-graded cluster algebra. We then study gradings for finite type cluster algebras without coefficients, giving a full classification. Translating ...

  9. Self-assembly of PEGylated gold nanoparticles with satellite structures as seeds.

    Bachelet, Marie; Chen, Rongjun

    2016-07-21

    We report a very simple method for the self-assembly of spherical gold nanoparticles (AuNPs), coated with poly(ethylene glycol) (PEG), through a slow evaporation process at room temperature. Clusters of particles forming satellite structures may act as seeds for the self-assembly in a crystallization-like process. Based on the transmission electron microscopy (TEM) images obtained a mechanism for the self-assembly was suggested. PMID:27384086

  10. Cluster Evaluation of Density Based Subspace Clustering

    Sembiring, Rahmat Widia

    2010-01-01

    Clustering real world data often faced with curse of dimensionality, where real world data often consist of many dimensions. Multidimensional data clustering evaluation can be done through a density-based approach. Density approaches based on the paradigm introduced by DBSCAN clustering. In this approach, density of each object neighbours with MinPoints will be calculated. Cluster change will occur in accordance with changes in density of each object neighbours. The neighbours of each object typically determined using a distance function, for example the Euclidean distance. In this paper SUBCLU, FIRES and INSCY methods will be applied to clustering 6x1595 dimension synthetic datasets. IO Entropy, F1 Measure, coverage, accurate and time consumption used as evaluation performance parameters. Evaluation results showed SUBCLU method requires considerable time to process subspace clustering; however, its value coverage is better. Meanwhile INSCY method is better for accuracy comparing with two other methods, altho...

  11. Characterisation of PduS, the pdu metabolosome corrin reductase, and evidence of substructural organisation within the bacterial microcompartment.

    Joshua B Parsons

    Full Text Available PduS is a corrin reductase and is required for the reactivation of the cobalamin-dependent diol dehydratase. It is one component encoded within the large propanediol utilisation (pdu operon, which is responsible for the catabolism of 1,2-propanediol within a self-assembled proteinaceous bacterial microcompartment. The enzyme is responsible for the reactivation of the cobalamin coenzyme required by the diol dehydratase. The gene for the cobalamin reductase from Citrobacter freundii (pduS has been cloned to allow the protein to be overproduced recombinantly in E. coli with an N-terminal His-tag. Purified recombinant PduS is shown to be a flavoprotein with a non-covalently bound FMN that also contains two coupled [4Fe-4S] centres. It is an NADH-dependent flavin reductase that is able to mediate the one-electron reductions of cob(IIIalamin to cob(IIalamin and cob(IIalamin to cob(Ialamin. The [4Fe-4S] centres are labile to oxygen and their presence affects the midpoint redox potential of flavin. Evidence is presented that PduS is able to bind cobalamin, which is inconsistent with the view that PduS is merely a flavin reductase. PduS is also shown to interact with one of the shell proteins of the metabolosome, PduT, which is also thought to contain an [Fe-S] cluster. PduS is shown to act as a corrin reductase and its interaction with a shell protein could allow for electron passage out of the bacterial microcompartment.

  12. Media Clusters and Media Cluster Policies

    Karlsson, Charlie; Picard, Robert

    2011-01-01

    Large media clusters have emerged in a limited number of large cities, characterizing the geographical concentration of the global media industry. This paper explores the reasons behind the localization patterns of media industries, the effect of the rapid advancement of Information and Communication Technologies (ICT) on media clusters and the role of media cluster policies. One might draw the conclusion that with the developments of the ICT sector and the fact that there are no raw material...

  13. Nuclear fuel assembly

    A nuclear fuel assembly includes and upper yoke, a base, an elongated, outer flow channel disposed substantially along the entire length of the fuel assembly and an elongated, internal, central water cross, formed by four, elongated metal angles, that divides the nuclear fuel assembly into four, separate, elongated fuel sections and that provides a centrally disposed path for the flow of subcooled neutron moderator along the length of the fuel assembly. A separate fuel bundle is located in each of the four fuel sections and includes an upper tie plate, a lower tie plate and a plurality of elongated fuel rods disposed therebetween. Preferably, each upper tie plate is formed from a plurality of interconnected thin metal bars and includes an elongated, axially extending pin that is received by the upper yoke of the fuel assembly for restraining lateral motion of the fuel bundle while permitting axial movement of the fuel bundle with respect to the outer flow channel. The outer flow channel is fixedly secured at its opposite longitudinal ends to the upper yoke and to the base to permit the fuel assembly to be lifted and handled in a vertical position without placing lifting loads or stresses on the fuel rods. The yoke, removably attached at the upper end of the fuel assembly to four structural ribs secured to the inner walls of the outer flow channel, includes, as integrally formed components, a lifting bail or handle, laterally extending bumpers, a mounting post for a spring assembly, four elongated apertures for receiving with a slip fit the axially extending pins mounted on the upper tie plates and slots for receiving the structural ribs secured to the outer flow channel. Locking pins securely attach the yoke to the structural ribs enabling the fuel assembly to be lifted as an entity

  14. Constraining the Mass-Richness Relationship of redMaPPer Clusters with Angular Clustering

    Baxter, Eric J; Jain, Bhuvnesh; Rykoff, Eli; Wechsler, Risa H

    2016-01-01

    The potential of using cluster clustering for calibrating the mass-observable relation of galaxy clusters has been recognized theoretically for over a decade. Here, we demonstrate the feasibility of this technique to achieve high precision mass calibration using redMaPPer clusters in the Sloan Digital Sky Survey North Galactic Cap. By including cross-correlations between several richness bins in our analysis we significantly improve the statistical precision of our mass constraints. The amplitude of the mass-richness relation is constrained to 7% statistical precision. However, the error budget is systematics dominated, reaching an 18% total error that is dominated by theoretical uncertainty in the bias-mass relation for dark matter halos. We perform a detailed treatment of the effects of assembly bias on our analysis, finding that the contribution of such effects to our parameter uncertainties is somewhat greater than that of measurement noise. We confirm the results from Miyatake et al. (2015) that the clus...

  15. Cluster selection in divisive clustering algorithms

    Savaresi, Sergio,; Boley, Daniel L.; Bittanti, Sergio; Gazzaniga, Giovanna

    2002-01-01

    This paper deals with the problem of clustering a data-set. In particular, the bisecting divisive approach is here considered. This approach can be naturally divided into two sub-problems: the problem of choosing which cluster must be divided, and the problem of splitting the selected cluster. The focus here is on the first problem. The contribution of this work is to propose a new technique for the selection of the cluster to split. This technique is based upon the shape of...

  16. DC source assemblies

    Campbell, Jeremy B; Newson, Steve

    2013-02-26

    Embodiments of DC source assemblies of power inverter systems of the type suitable for deployment in a vehicle having an electrically grounded chassis are provided. An embodiment of a DC source assembly comprises a housing, a DC source disposed within the housing, a first terminal, and a second terminal. The DC source also comprises a first capacitor having a first electrode electrically coupled to the housing, and a second electrode electrically coupled to the first terminal. The DC source assembly further comprises a second capacitor having a first electrode electrically coupled to the housing, and a second electrode electrically coupled to the second terminal.

  17. Young massive star clusters

    Zwart, Simon Portegies; Gieles, Mark

    2010-01-01

    Young massive clusters are dense aggregates of young stars that form the fundamental building blocks of galaxies. Several examples exist in the Milky Way Galaxy and the Local Group, but they are particularly abundant in starburst and interacting galaxies. The few young massive clusters that are close enough to resolve are of prime interest for studying the stellar mass function and the ecological interplay between stellar evolution and stellar dynamics. The distant unresolved clusters may be effectively used to study the star-cluster mass function, and they provide excellent constraints on the formation mechanisms of young cluster populations. Young massive clusters are expected to be the nurseries for many unusual objects, including a wide range of exotic stars and binaries. So far only a few such objects have been found in young massive clusters, although their older cousins, the globular clusters, are unusually rich in stellar exotica. In this review we focus on star clusters younger than $\\sim100$\\,Myr, m...

  18. Cluster automorphism groups of cluster algebras with coefficients

    Chang, Wen; Zhu, Bin

    2015-01-01

    We study the cluster automorphism group of a skew-symmetric cluster algebra with geometric coefficients. For this, we introduce the notion of gluing free cluster algebra, and show that under a weak condition the cluster automorphism group of a gluing free cluster algebra is a subgroup of the cluster automorphism group of its principal part cluster algebra (i.e. the corresponding cluster algebra without coefficients). We show that several classes of cluster algebras with coefficients are gluin...

  19. Design strategies for self-assembly of discrete targets

    Both biological and artificial self-assembly processes can take place by a range of different schemes, from the successive addition of identical building blocks to hierarchical sequences of intermediates, all the way to the fully addressable limit in which each component is unique. In this paper, we introduce an idealized model of cubic particles with patterned faces that allows self-assembly strategies to be compared and tested. We consider a simple octameric target, starting with the minimal requirements for successful self-assembly and comparing the benefits and limitations of more sophisticated hierarchical and addressable schemes. Simulations are performed using a hybrid dynamical Monte Carlo protocol that allows self-assembling clusters to rearrange internally while still providing Stokes-Einstein-like diffusion of aggregates of different sizes. Our simulations explicitly capture the thermodynamic, dynamic, and steric challenges typically faced by self-assembly processes, including competition between multiple partially completed structures. Self-assembly pathways are extracted from the simulation trajectories by a fully extendable scheme for identifying structural fragments, which are then assembled into history diagrams for successfully completed target structures. For the simple target, a one-component assembly scheme is most efficient and robust overall, but hierarchical and addressable strategies can have an advantage under some conditions if high yield is a priority

  20. Design strategies for self-assembly of discrete targets

    Madge, Jim; Miller, Mark A.

    2015-07-01

    Both biological and artificial self-assembly processes can take place by a range of different schemes, from the successive addition of identical building blocks to hierarchical sequences of intermediates, all the way to the fully addressable limit in which each component is unique. In this paper, we introduce an idealized model of cubic particles with patterned faces that allows self-assembly strategies to be compared and tested. We consider a simple octameric target, starting with the minimal requirements for successful self-assembly and comparing the benefits and limitations of more sophisticated hierarchical and addressable schemes. Simulations are performed using a hybrid dynamical Monte Carlo protocol that allows self-assembling clusters to rearrange internally while still providing Stokes-Einstein-like diffusion of aggregates of different sizes. Our simulations explicitly capture the thermodynamic, dynamic, and steric challenges typically faced by self-assembly processes, including competition between multiple partially completed structures. Self-assembly pathways are extracted from the simulation trajectories by a fully extendable scheme for identifying structural fragments, which are then assembled into history diagrams for successfully completed target structures. For the simple target, a one-component assembly scheme is most efficient and robust overall, but hierarchical and addressable strategies can have an advantage under some conditions if high yield is a priority.

  1. Climate Modeling with a Linux Cluster

    Renold, M.; Beyerle, U.; Raible, C. C.; Knutti, R.; Stocker, T. F.; Craig, T.

    2004-08-01

    Until recently, computationally intensive calculations in many scientific disciplines have been limited to institutions which have access to supercomputing centers. Today, the computing power of PC processors permits the assembly of inexpensive PC clusters that nearly approach the power of supercomputers. Moreover, the combination of inexpensive network cards and Open Source software provides an easy linking of standard computer equipment to enlarge such clusters. Universities and other institutions have taken this opportunity and built their own mini-supercomputers on site. Computing power is a particular issue for the climate modeling and impacts community. The purpose of this article is to make available a Linux cluster version of the Community Climate System Model developed by the National Center for Atmospheric Research (NCAR; http://www.cgd.ucar.edu/csm).

  2. Nuclear reactor spacer assembly

    A fuel assembly for a nuclear reactor is disclosed wherein the fuel element receiving and supporting grid is comprised of a first metal, the guide tubes which pass through the grid assembly are comprised of a second metal and the grid is supported on the guide tubes by means of expanded sleeves located intermediate the grid and guide tubes. The fuel assembly is fabricated by inserting the sleeves, of initial outer diameter commensurate with the guide tube outer diameters, through the holes in the grid assembly provided for the guide tubes and thereafter expanding the sleeves radially outwardly along their entire length such that the guide tubes can subsequently be passed through the sleeves. The step of radial expansion, as a result of windows provided in the sleeves having dimensions commensurate with the geometry of the grid, mechanically captures the grid and simultaneously preloads the sleeve against the grid whereby relative motion between the grid and guide tube will be precluded

  3. Spent fuel assembly hardware

    When spent nuclear fuel is disposed of in a repository, the waste package will include the spent fuel assembly hardware, the structural portion of the fuel assembly, and the fuel pins. The spent fuel assembly hardware is the subject of this paper. The basic constituent parts of the fuel assembly will be described with particular attention on the materials used in their construction. The results of laboratory analyses performed to determine radionuclide inventories and trace impurities also will be described. Much of this work has been incorporated into a US Department of Energy (DOE) database maintained by Oak Ridge National Laboratory (ORNL). This database is documented in DOE/RW-0184 and can be obtained from Karl Notz at ORNL. The database provides a single source for information regarding wastes that may be sent to the repository

  4. Steam separator latch assembly

    Challberg, Roy C.; Kobsa, Irvin R.

    1994-01-01

    A latch assembly removably joins a steam separator assembly to a support flange disposed at a top end of a tubular shroud in a nuclear reactor pressure vessel. The assembly includes an annular head having a central portion for supporting the steam separator assembly thereon, and an annular head flange extending around a perimeter thereof for supporting the head to the support flange. A plurality of latches are circumferentially spaced apart around the head flange with each latch having a top end, a latch hook at a bottom end thereof, and a pivot support disposed at an intermediate portion therebetween and pivotally joined to the head flange. The latches are pivoted about the pivot supports for selectively engaging and disengaging the latch hooks with the support flange for fixedly joining the head to the shroud or for allowing removal thereof.

  5. What Makes Clusters Decline?

    Østergaard, Christian Richter; Park, Eun Kyung

    2015-01-01

    Most studies on regional clusters focus on identifying factors and processes that make clusters grow. However, sometimes technologies and market conditions suddenly shift, and clusters decline. This paper analyses the process of decline of the wireless communication cluster in Denmark. The...... longitudinal study on the high-tech cluster reveals that technological lock-in and exit of key firms have contributed to decline. Entrepreneurship has a positive effect on the cluster’s adaptive capabilities, while multinational companies have contradicting effects by bringing in new resources to the cluster...

  6. High speed door assembly

    Shapiro, C.

    1991-12-31

    This invention is comprised of a high speed door assembly, comprising an actuator cylinder and piston rods, a pressure supply cylinder and fittings, an electrically detonated explosive bolt, a honeycomb structured door, a honeycomb structured decelerator, and a structural steel frame encasing the assembly to close over a 3 foot diameter opening within 50 milliseconds of actuation, to contain hazardous materials and vapors within a test fixture.

  7. Fuel assembly reconstitution

    Fuel failures have been happened in Nuclear Power Plants worldwide, without lost of integrity and safety, mainly for the public, environment and power plants workers. The most common causes of these events are corrosion (CRUD), fretting and pellet cladding interaction. These failures are identified by increasing the activity of fission products, verified by chemical analyses of reactor coolant. Through these analyses, during the fourth operation cycle of Angra 2 Nuclear Power Plant, was possible to observe fuel failure indication. This indication was confirmed in the end of the cycle during the unloading of reactor core through leakage tests of fuel assembly, using the equipment called 'In Mast Sipping' and 'Box Sipping'. After confirmed, the fuel assembly reconstitution was scheduled, and happened in April, 2007, where was identified the cause and the fuel rod failure, which was substitute by dummy rods (zircaloy). The cause was fretting by 'debris'. The actions to avoid and prevent fuel assemblies failures are important. The goals of this work are to describe the methodology of fuel assembly reconstitution using the FARE (Fuel Assembly Reconstitution Equipment) system, to describe the results of this task in economic and security factors of the company and show how the fuel assembly failures are identified during operation and during the outage. (author)

  8. Polymer Directed Protein Assemblies

    Patrick van Rijn

    2013-05-01

    Full Text Available Protein aggregation and protein self-assembly is an important occurrence in natural systems, and is in some form or other dictated by biopolymers. Very obvious influences of biopolymers on protein assemblies are, e.g., virus particles. Viruses are a multi-protein assembly of which the morphology is dictated by poly-nucleotides namely RNA or DNA. This “biopolymer” directs the proteins and imposes limitations on the structure like the length or diameter of the particle. Not only do these bionanoparticles use polymer-directed self-assembly, also processes like amyloid formation are in a way a result of directed protein assembly by partial unfolded/misfolded biopolymers namely, polypeptides. The combination of proteins and synthetic polymers, inspired by the natural processes, are therefore regarded as a highly promising area of research. Directed protein assembly is versatile with respect to the possible interactions which brings together the protein and polymer, e.g., electrostatic, v.d. Waals forces or covalent conjugation, and possible combinations are numerous due to the large amounts of different polymers and proteins available. The protein-polymer interacting behavior and overall morphology is envisioned to aid in clarifying protein-protein interactions and are thought to entail some interesting new functions and properties which will ultimately lead to novel bio-hybrid materials.

  9. Analysis of Various Clustering Algorithms

    Asst Prof. Sunila Godara,; Ms. Amita Verma,

    2013-01-01

    Data clustering is a process of putting similar data into groups. A clustering algorithm partitions a data set into several groups such that the similarity within a group is larger than among groups. This paper reviews four types of clustering techniques- k-Means Clustering, Farther first clustering, Density Based Clustering, Filtered clusterer. These clustering techniques are implemented and analyzed using a clustering tool WEKA. Performance of the 4 techniques are presented and compared.

  10. Computational study of trimer self-assembly and fluid phase behavior

    The fluid phase diagram of trimer particles composed of one central attractive bead and two repulsive beads was determined as a function of simple geometric parameters using flat-histogram Monte Carlo methods. A variety of self-assembled structures were obtained including spherical micelle-like clusters, elongated clusters, and densely packed cylinders, depending on both the state conditions and shape of the trimer. Advanced simulation techniques were employed to determine transitions between self-assembled structures and macroscopic phases using thermodynamic and structural definitions. Simple changes in particle geometry yield dramatic changes in phase behavior, ranging from macroscopic fluid phase separation to molecular-scale self-assembly. In special cases, both self-assembled, elongated clusters and bulk fluid phase separation occur simultaneously. Our work suggests that tuning particle shape and interactions can yield superstructures with controlled architecture

  11. DFT evaluation of the electronic structures and spectroscopic properties of the self-assembled [Pt_2M_4(C≡CH)_8](M=Cu,Ag)clusters%利用DFT方法探究一类自组装[Pt_2M_4(C≡CH)_8](M=Cu,Ag)簇合物的电子结构和光谱性质

    白福全; 夏宝辉; 张红星; 杨宝珠; 王建; 孙磊

    2009-01-01

    应用TD-DFT(time-dependent density functional theory)并PCM(polarizable continuum model)模型研究了一类自组装的[Pt_2M_4(C≡CH)_8](M=Cu,Ag)簇合物的电子结构和光谱性质.应用DFT(density functional theory)方法优化了该簇合物的基态及激发态结构.综合计算结果,得到与试验结果相一致的结构与光谱特点.[Pt_2Ag_4(C≡CH)_8]具有呈D_4和D_(4h)对称性的两个稳定的基态几何结构.Pt-M距离预示弱相互作用的存在.Cu-Cu距离大于俩个Cu原子的范德华半径和而Ag-Ag间距与俩个Ag原子的范德华半径和差别不大.激发过程使得Pt…M,Ag…Ag作用增强,虽然Cu…Cu距离也相应缩短,但是其仍大于范德华半径之和.[Pt_2Cu_4(C≡CH)_8]、[Pt_2Ag_4(C≡CH)_8](A)和(B)的最低能吸收在450、365和375 nm处,发射在611、431和435nm处.红外可见谱范围内,[Pt_2M_4(C≡CH)_8]的吸收波带都有Cu或Ag成分的贡献,所以没有ILCT或M_(Pt)LCT跃迁特征出现(ILCT:intraligand charge transfer;MLCT:metal-to-ligand charge transfer).由于最低能吸收和发射具有不同的跃迁特征,所以发射不是来自于最低能吸收.[Pt_2Ag_4(C≡CH)_8]簇合物的M…M相互作用在激发态增强,发射光谱具有显著的ILCT特点,这也是[Pt_2Ag_4(C≡CH)_8]的发射波长相对于其对应的同配体前躯体[Pt(C≡CH)_4]~(2-)有少许蓝移的原因.%Electronic structures and spectroscopic properties of self-assembled [Pt_2M_4(C=CH)_8] (M=Cu,Ag) clusters have been studied by the TD-DFT (time-dependent density functional theory) calculations with the polarizable continuum model (PCM).The ground- and excited-state structures were optimized by the DFT (density functional theory) methods.The calculated structures and spectroscopic properties are in agreement with the corresponding experimental results.The [Pt_2Ag_4(C=CH)_8] clusters have two stable ground state geometries (D_4 and D_(4h) symmetry).The calculated Pt-M distances suggest only very weak

  12. Human Assisted Assembly Processes

    CALTON,TERRI L.; PETERS,RALPH R.

    2000-01-01

    Automatic assembly sequencing and visualization tools are valuable in determining the best assembly sequences, but without Human Factors and Figure Models (HFFMs) it is difficult to evaluate or visualize human interaction. In industry, accelerating technological advances and shorter market windows have forced companies to turn to an agile manufacturing paradigm. This trend has promoted computerized automation of product design and manufacturing processes, such as automated assembly planning. However, all automated assembly planning software tools assume that the individual components fly into their assembled configuration and generate what appear to be a perfectly valid operations, but in reality the operations cannot physically be carried out by a human. Similarly, human figure modeling algorithms may indicate that assembly operations are not feasible and consequently force design modifications; however, if they had the capability to quickly generate alternative assembly sequences, they might have identified a feasible solution. To solve this problem HFFMs must be integrated with automated assembly planning to allow engineers to verify that assembly operations are possible and to see ways to make the designs even better. Factories will very likely put humans and robots together in cooperative environments to meet the demands for customized products, for purposes including robotic and automated assembly. For robots to work harmoniously within an integrated environment with humans the robots must have cooperative operational skills. For example, in a human only environment, humans may tolerate collisions with one another if they did not cause much pain. This level of tolerance may or may not apply to robot-human environments. Humans expect that robots will be able to operate and navigate in their environments without collisions or interference. The ability to accomplish this is linked to the sensing capabilities available. Current work in the field of cooperative

  13. An update on complex I assembly: the assembly of players

    Vartak, Rasika S.; Semwal, Manpreet Kaur; Bai, Yidong

    2014-01-01

    Defects in Complex I assembly is one of the emerging underlying causes of severe mitochondrial disorders. The assembly of Complex I has been difficult to understand due to its large size, dual genetic control and the number of proteins involved. Mutations in Complex I subunits as well as assembly factors have been reported to hinder its assembly and give rise to a range of mitochondria disorders. In this review, we summarize the recent progress made in understanding the Complex I assembly pat...

  14. Clustering high dimensional data

    Assent, Ira

    2012-01-01

    for clustering are required. Consequently, recent research has focused on developing techniques and clustering algorithms specifically for high-dimensional data. Still, open research issues remain. Clustering is a data mining task devoted to the automatic grouping of data based on mutual similarity. Each cluster......High-dimensional data, i.e., data described by a large number of attributes, pose specific challenges to clustering. The so-called ‘curse of dimensionality’, coined originally to describe the general increase in complexity of various computational problems as dimensionality increases, is known...... groups objects that are similar to one another, whereas dissimilar objects are assigned to different clusters, possibly separating out noise. In this manner, clusters describe the data structure in an unsupervised manner, i.e., without the need for class labels. A number of clustering paradigms exist...

  15. Star clusters and associations

    All 33 papers presented at the symposium were inputted to INIS. They dealt with open clusters, globular clusters, stellar associations and moving groups, and local kinematics and galactic structures. (E.S.)

  16. Assembly factors for the membrane arm of human complex I

    Andrews, Byron; Carroll, Joe; Ding, Shujing; Fearnley, Ian M.; Walker, John E.

    2013-01-01

    Mitochondrial respiratory complex I is a product of both the nuclear and mitochondrial genomes. The integration of seven subunits encoded in mitochondrial DNA into the inner membrane, their association with 14 nuclear-encoded membrane subunits, the construction of the extrinsic arm from 23 additional nuclear-encoded proteins, iron–sulfur clusters, and flavin mononucleotide cofactor require the participation of assembly factors. Some are intrinsic to the complex, whereas others participate transiently. The suppression of the expression of the NDUFA11 subunit of complex I disrupted the assembly of the complex, and subcomplexes with masses of 550 and 815 kDa accumulated. Eight of the known extrinsic assembly factors plus a hydrophobic protein, C3orf1, were associated with the subcomplexes. The characteristics of C3orf1, of another assembly factor, TMEM126B, and of NDUFA11 suggest that they all participate in constructing the membrane arm of complex I. PMID:24191001

  17. The properties of small Ag clusters bound to DNA bases

    Soto-Verdugo, Víctor; Metiu, Horia; Gwinn, Elisabeth

    2010-05-01

    We study the binding of neutral silver clusters, Agn (n=1-6), to the DNA bases adenine (A), cytosine (C), guanine (G), and thymine (T) and the absorption spectra of the silver cluster-base complexes. Using density functional theory (DFT), we find that the clusters prefer to bind to the doubly bonded ring nitrogens and that binding to T is generally much weaker than to C, G, and A. Ag3 and Ag4 make the stronger bonds. Bader charge analysis indicates a mild electron transfer from the base to the clusters for all bases, except T. The donor bases (C, G, and A) bind to the sites on the cluster where the lowest unoccupied molecular orbital has a pronounced protrusion. The site where cluster binds to the base is controlled by the shape of the higher occupied states of the base. Time-dependent DFT calculations show that different base-cluster isomers may have very different absorption spectra. In particular, we find new excitations in base-cluster molecules, at energies well below those of the isolated components, and with strengths that depend strongly on the orientations of planar clusters with respect to the base planes. Our results suggest that geometric constraints on binding, imposed by designed DNA structures, may be a feasible route to engineering the selection of specific cluster-base assemblies.

  18. Melting of clusters

    Haberland, H. [Freiburg Univ., Facultat fur Physik (Germany)

    2001-07-01

    An experiment is described which allows to measure the caloric curve of size selected sodium cluster ions. This allows to determine rather easily the melting temperatures, and latent heats in the size range between 55 and 340 atoms per cluster. A more detailed analysis is necessary to show that the cluster Na{sub 147}{sup +} has a negative microcanonical heat capacity, and how to determine the entropy of the cluster from the data. (authors)

  19. Cluster beam sources. Part 1. Methods of cluster beams generation

    A.Ju. Karpenko

    2012-10-01

    Full Text Available The short review on cluster beams generation is proposed. The basic types of cluster sources are considered and the processes leading to cluster formation are analyzed. The parameters, that affects the work of cluster sources are presented.

  20. Cluster beam sources. Part 1. Methods of cluster beams generation

    A.Ju. Karpenko; V.A. Baturin

    2012-01-01

    The short review on cluster beams generation is proposed. The basic types of cluster sources are considered and the processes leading to cluster formation are analyzed. The parameters, that affects the work of cluster sources are presented.

  1. Method of loading fuel assembly

    Purpose: To shorten the fuel assembly loading time by loading fuel assembly group as one body into the reactor core. Method: A fuel assembly is fed from an auxiliary reactor building via a pit crane into the reactor container, and is stood from lateral position to vertical position. Further, the fuel assemblies are moved laterallyiin a pool of the container, and every four assembly groups are formed by an aligning jig. These assembly groups are associated into one body and loaded into the container. Thus, the round trip time of the crane in the fuel assembly loading work can be shortened. (Yoshihara, H.)

  2. Multireference Coupled Cluster Ansatz

    Jeziorski, Bogumil

    2010-01-01

    Abstract The origin of the multireference coupled cluster Ansatz for the wave function and the wave operator, discovered in Quantum Theory Project in 1981, is presented from the historical perspective. Various methods of obtaining the cluster amplitudes - both state universal and state selective are critically reviewed and further prospects of using the multireference coupled cluster Ansatz in electronic structure theory are briefly discussed.

  3. Quantum Annealing for Clustering

    Kurihara, Kenichi; Tanaka, Shu; Miyashita, Seiji

    2014-01-01

    This paper studies quantum annealing (QA) for clustering, which can be seen as an extension of simulated annealing (SA). We derive a QA algorithm for clustering and propose an annealing schedule, which is crucial in practice. Experiments show the proposed QA algorithm finds better clustering assignments than SA. Furthermore, QA is as easy as SA to implement.

  4. The Durban Auto Cluster

    Lorentzen, Jochen; Robbins, Glen; Barnes, Justin

    2004-01-01

    The paper describes the formation of the Durban Auto Cluster in the context of trade liberalization. It argues that the improvement of operational competitiveness of firms in the cluster is prominently due to joint action. It tests this proposition by comparing the gains from cluster activities i...

  5. Relational aspects of clusters

    Gjerding, Allan Næs

    The present paper is the first preliminary account of a project being planned for 2013, focussing on the development of the biomedico cluster in North Denmark. The project focusses on the relational capabilities of the cluster in terms of a number of organizational roles which are argued to be...... necessary for the development and growth of the upcoming cluster in question....

  6. Minimalist's linux cluster

    Using barebone PC components and NIC's, we construct a linux cluster which has 2-dimensional mesh structure. This cluster has smaller footprint, is less expensive, and use less power compared to conventional linux cluster. Here, we report our experience in building such a machine and discuss our current lattice project on the machine

  7. Cluster Physics with Merging Galaxy Clusters

    Sandor M. Molnar

    2016-02-01

    Full Text Available Collisions between galaxy clusters provide a unique opportunity to study matter in a parameter space which cannot be explored in our laboratories on Earth. In the standard LCDM model, where the total density is dominated by the cosmological constant ($Lambda$ and the matter density by cold dark matter (CDM, structure formation is hierarchical, and clusters grow mostly by merging.Mergers of two massive clusters are the most energetic events in the universe after the Big Bang,hence they provide a unique laboratory to study cluster physics.The two main mass components in clusters behave differently during collisions:the dark matter is nearly collisionless, responding only to gravity, while the gas is subject to pressure forces and dissipation, and shocks and turbulenceare developed during collisions. In the present contribution we review the different methods used to derive the physical properties of merging clusters. Different physical processes leave their signatures on different wavelengths, thusour review is based on a multifrequency analysis. In principle, the best way to analyze multifrequency observations of merging clustersis to model them using N-body/HYDRO numerical simulations. We discuss the results of such detailed analyses.New high spatial and spectral resolution ground and space based telescopeswill come online in the near future. Motivated by these new opportunities,we briefly discuss methods which will be feasible in the near future in studying merging clusters.

  8. Clustering high dimensional data using subspace and projected clustering algorithms

    Rahmat Widia Sembiring; Jasni Mohamad Zain; Abdullah Embong

    2010-01-01

    Problem statement: Clustering has a number of techniques that have been developed in statistics, pattern recognition, data mining, and other fields. Subspace clustering enumerates clusters of objects in all subspaces of a dataset. It tends to produce many over lapping clusters. Approach: Subspace clustering and projected clustering are research areas for clustering in high dimensional spaces. In this research we experiment three clustering oriented algorithms, PROCLUS, P3C and STATPC. Results...

  9. Photovoltaic self-assembly.

    Lavin, Judith; Kemp, Richard Alan; Stewart, Constantine A.

    2010-10-01

    This late-start LDRD was focused on the application of chemical principles of self-assembly on the ordering and placement of photovoltaic cells in a module. The drive for this chemical-based self-assembly stems from the escalating prices in the 'pick-and-place' technology currently used in the MEMS industries as the size of chips decreases. The chemical self-assembly principles are well-known on a molecular scale in other material science systems but to date had not been applied to the assembly of cells in a photovoltaic array or module. We explored several types of chemical-based self-assembly techniques, including gold-thiol interactions, liquid polymer binding, and hydrophobic-hydrophilic interactions designed to array both Si and GaAs PV chips onto a substrate. Additional research was focused on the modification of PV cells in an effort to gain control over the facial directionality of the cells in a solvent-based environment. Despite being a small footprint research project worked on for only a short time, the technical results and scientific accomplishments were significant and could prove to be enabling technology in the disruptive advancement of the microelectronic photovoltaics industry.

  10. Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat

    Schreiber Andreas W

    2012-09-01

    Full Text Available Abstract Background Bread wheat is one of the world’s most important food crops and considerable efforts have been made to develop genomic resources for this species. This includes an on-going project by the International Wheat Genome Sequencing Consortium to assemble its large and complex genome, which is hexaploid and contains three closely related ‘homoeologous’ copies for each chromosome. This multi-national effort avoids the complications polyploidy entails for correct assembly of the genome by sequencing flow-sorted chromosome arms one at a time. Here we report on an alternate approach, a direct homoeolog-specific assembly of the expressed portion of the genome, the transcriptome. Results After assessment of the ability of various assemblers to generate homoeolog-specific assemblies, we employed a two-stage assembly process to produce a high-quality assembly of the transcriptome of hexaploid wheat from Roche-454 and Illumina GAIIx paired-end sequence reads. The assembly process made use of a rapid partitioning of expressed sequences into homoeologous clusters, followed by a parallel high-fidelity assembly of each cluster on a 1150-processor compute cloud. We assessed assembly quality through comparison to known wheat gene sequences and found that in ca. 98.5% of cases the assembly was sufficiently accurate for homoeologous triplets to be cleanly separated into either two or three separate contigs. Comparison to publicly available transcript collections suggests that the assembly covers ~75-80% of the complete transcriptome. Conclusions This work therefore describes the first homoeolog-specific sequence assembly of the wheat transcriptome and provides a reference transcriptome for future wheat research. Furthermore, our assembly methodology is transferable to other polyploid organisms.

  11. Modular Fixture Assembly Model for Virtual Assembly Design

    PENG Gao-liang; CHEN Guang-feng; LIU Xin-hua

    2009-01-01

    To support modular fixture assembly design in virtual environment, a multi-view based modular fixture virtual assembly model is proposed. Instead of squeezing all assembly related information into a single model, three complementary views of assembly model, element information, function and structure, and assembly relationship are proposed to be used. The first view contains the detailed element information, while the other two explicitly capture the hierarchical function relationships and mating relationships respectively. These views are complementary in the sense that each view only contains a specific aspect of assembly related information while together they include required assembly related information. The proposed assembly model is specialized to accommodate the features of modular fixture virtual assembly design and applied in our developed prototype system.

  12. Polynuclear technetium halide clusters

    Development of chemistry of polynuclear technetium halide clusters in works devoted to synthesis, structure and investigation of their chemical and physical properties is considered. The role of academician V.I. Spitsyn as an initiator of investigation of polynuclear technetium halide clusters in the Institute of Physical Chemistry of Academy of Science of USSR is noted. Reactions and stability of cluster halides, their molecular and electronic structures are analyzed. Prospects of development of polynuclear technetium halide clusters chemistry as a direction being on the junction of cluster chemistry and theory of metal-metal multiple bonds are appreciated

  13. Cluster analysis for applications

    Anderberg, Michael R

    1973-01-01

    Cluster Analysis for Applications deals with methods and various applications of cluster analysis. Topics covered range from variables and scales to measures of association among variables and among data units. Conceptual problems in cluster analysis are discussed, along with hierarchical and non-hierarchical clustering methods. The necessary elements of data analysis, statistics, cluster analysis, and computer implementation are integrated vertically to cover the complete path from raw data to a finished analysis.Comprised of 10 chapters, this book begins with an introduction to the subject o

  14. Nuclear fuel assembly

    A fuel assembly of PWR comprises a fuel bundle portion supported by a plurality of support lattices and an upper and lower nozzles each secured to the upper and lower portions. Leaf springs are attached to the four sides of the upper nozzle for preventing rising of the fuel assembly by streams of cooling water by the contact with an upper reactor core plate. The leaf springs are attached to the upper nozzle so that four leaf springs are laminated. The uppermost leaf spring is bent slightly upwardly from the mounted portion and the other leaf springs are extended linearly from the mounted portion without being bent. The mounted portions of the leaf springs are stacked and secured to the upper nozzle by a bolt obliquely relative to the axial line of the fuel assembly. (I.N.)

  15. Blade attachment assembly

    Garcia-Crespo, Andres Jose; Delvaux, John McConnell; Miller, Diane Patricia

    2016-05-03

    An assembly and method for affixing a turbomachine rotor blade to a rotor wheel are disclosed. In an embodiment, an adaptor member is provided disposed between the blade and the rotor wheel, the adaptor member including an adaptor attachment slot that is complementary to the blade attachment member, and an adaptor attachment member that is complementary to the rotor wheel attachment slot. A coverplate is provided, having a coverplate attachment member that is complementary to the rotor wheel attachment slot, and a hook for engaging the adaptor member. When assembled, the coverplate member matingly engages with the adaptor member, and retains the blade in the adaptor member, and the assembly in the rotor wheel.

  16. Power module assembly

    Campbell, Jeremy B.; Newson, Steve

    2011-11-15

    A power module assembly of the type suitable for deployment in a vehicular power inverter, wherein the power inverter has a grounded chassis, is provided. The power module assembly comprises a conductive base layer electrically coupled to the chassis, an insulating layer disposed on the conductive base layer, a first conductive node disposed on the insulating layer, a second conductive node disposed on the insulating layer, wherein the first and second conductive nodes are electrically isolated from each other. The power module assembly also comprises a first capacitor having a first electrode electrically connected to the conductive base layer, and a second electrode electrically connected to the first conductive node, and further comprises a second capacitor having a first electrode electrically connected to the conductive base layer, and a second electrode electrically connected to the second conductive node.

  17. Lead Test Assembly program

    Implementation of the new/alternative fuel requires addressing all aspects of the fuel assembly design basis (mechanical, fuel handling, thermal-hydraulic, nuclear design, chemistry, safety analysis and licensing and including mix core effects. The scope of the work is minimized by implementing a Lead Test Assembly (LTA) program with a limited number of assemblies (6 or more), using approved designed features, and placing the LTAs in a unlimited core power location. The topics discussed in the contribution include plant licensing basis and regulatory requirements, plant interface review, compatibility with resident fuel and reactor environment, safety analysis, and post radiation examination. It is concluded that the LTA program is a prudent means of introducing new core designs into existing cores. (P.A.)

  18. Optical interconnect assembly

    Laughlin, Daric; Abel, Philip

    2015-06-09

    An optical assembly includes a substrate with a first row of apertures and a second row of apertures. A first optical die includes a first plurality of optical transducer elements and is mounted on the substrate such that an optical signal interface of each transducer element is aligned with an aperture of the first row of optical apertures. A second optical die includes a second plurality of optical transducer elements and is mounted on the substrate such that an optical signal interface of each of the second plurality of optical transducer elements is aligned with an aperture of the second row of optical apertures. A connector configured to mate with the optical assembly supports a plurality of optical fibers. A terminal end of each optical fiber protrudes from the connector and extends into one of the apertures when the connector is coupled with the optical assembly.

  19. Bulk synthesis of polymer-inorganic colloidal clusters.

    Perro, Adeline; Manoharan, Vinothan N

    2010-12-21

    We describe a procedure to synthesize colloidal clusters with polyhedral morphologies in high yield (liter quantities at up to 70% purity) using a combination of emulsion polymerization and inorganic surface chemistry. We show that the synthesis initially used for silica-polystyrene hybrid clusters can be generalized to create clusters from other inorganic and polymer particles. We also show that high yields of particular morphologies can be obtained by precise control of the inorganic seed particle size, a finding that can be explained using a hard-sphere packing model. These clusters can be further chemically modified for a variety of applications. Introducing a cross-linker leads to colloidal clusters that can be index matched in an appropriate solvent, allowing them to be used for particle tracking or optical studies of colloidal self-assembly. Also, depositing a thin silica layer on these colloids allows the surface properties to be controlled using silane chemistry. PMID:21080658

  20. An Approach to Assembly Sequence Plannning Based on Hierarchical Strategy and Genetic Algorithm

    Niu Xinwen; Ding Han; Xiong Youlun

    2001-01-01

    Using group and subassembly cluster methods, the hierarchical structure of a product is.generated automatically, which largely reduces the complexity of planning. Based on genetic algofithn the optimal of assembly sequence of each stracture level can be obtained by sequence-bysequence search. As a result, a better assembly sequence of the product can be generated by combining the assembly sequences of all hierarchical structures, which provides more parallelism and flexibility for assembly operations. An industrial example is solved by this new approach.

  1. Survey on Text Document Clustering

    M.Thangamani; Dr.P.Thangaraj

    2010-01-01

    Document clustering is also referred as text clustering, and its concept is merely equal to data clustering. It is hardly difficult to find the selective information from an ‘N’number of series information, so that document clustering came into picture. Basically cluster means a group of similar data, document clustering means segregating the data into different groups of similar data. Clustering can be of mathematical, statistical or numerical domain. Clustering is a fundamental data analysi...

  2. Unconventional methods for clustering

    Kotyrba, Martin

    2016-06-01

    Cluster analysis or clustering is a task of grouping a set of objects in such a way that objects in the same group (called a cluster) are more similar (in some sense or another) to each other than to those in other groups (clusters). It is the main task of exploratory data mining and a common technique for statistical data analysis used in many fields, including machine learning, pattern recognition, image analysis, information retrieval, and bioinformatics. The topic of this paper is one of the modern methods of clustering namely SOM (Self Organising Map). The paper describes the theory needed to understand the principle of clustering and descriptions of algorithm used with clustering in our experiments.

  3. Clusters in nuclei

    Beck, Christian

    Following the pioneering discovery of alpha clustering and of molecular resonances, the field of nuclear clustering is today one of those domains of heavy-ion nuclear physics that faces the greatest challenges, yet also contains the greatest opportunities. After many summer schools and workshops, in particular over the last decade, the community of nuclear molecular physicists has decided to collaborate in producing a comprehensive collection of lectures and tutorial reviews covering the field. This third volume follows the successful Lect. Notes Phys. 818 (Vol. 1) and 848 (Vol. 2), and comprises six extensive lectures covering the following topics:  - Gamma Rays and Molecular Structure - Faddeev Equation Approach for Three Cluster Nuclear Reactions - Tomography of the Cluster Structure of Light Nuclei Via Relativistic Dissociation - Clustering Effects Within the Dinuclear Model : From Light to Hyper-heavy Molecules in Dynamical Mean-field Approach - Clusterization in Ternary Fission - Clusters in Light N...

  4. Spatial cluster modelling

    Lawson, Andrew B

    2002-01-01

    Research has generated a number of advances in methods for spatial cluster modelling in recent years, particularly in the area of Bayesian cluster modelling. Along with these advances has come an explosion of interest in the potential applications of this work, especially in epidemiology and genome research. In one integrated volume, this book reviews the state-of-the-art in spatial clustering and spatial cluster modelling, bringing together research and applications previously scattered throughout the literature. It begins with an overview of the field, then presents a series of chapters that illuminate the nature and purpose of cluster modelling within different application areas, including astrophysics, epidemiology, ecology, and imaging. The focus then shifts to methods, with discussions on point and object process modelling, perfect sampling of cluster processes, partitioning in space and space-time, spatial and spatio-temporal process modelling, nonparametric methods for clustering, and spatio-temporal ...

  5. Transfer of fuel assemblies

    Fuel assemblies of a nuclear reactor are transferred during fueling or refueling or the like by a crane. The work-engaging fixture of the crane picks up an assembly, removes it from this slot, transfers it to the deposit site and deposits it in its slot at the deposit site. The control for the crane includes a strain gauge connected to the crane line which raises and lowers the load. The strain gauge senses the load on the crane. The signal from the strain gauge is compared with setpoints; a high-level setpoint, a low-level setpoint and a slack-line setpoint. If the strain gauge signal exceeds the high-level setpoint, the line drive is disabled. This event may occur during raising of a fuel assembly which encounters resistance. The high-level setpoint may be overridden under proper precautions. The line drive is also disabled if the strain gauge signal is less than the low-level setpoint. This event occurs when a fuel assembly being deposited contacts the bottom of its slot or an obstruction in, or at the entry to the slot. To preclude lateral movement and possible damage to a fuel assembly suspended from the crane line, the traverse drive of the crane is disabled once the strain-gauge exceets the lov-level setpoint. The traverse drive can only be enabled after the strain-gauge signal is less than the slack-line set-point. This occurs when the lines has been set in slack-line setting. When the line is tensioned after slack-li ne setting, the traverse drive remains enabled only if the line has been disconnected from the fuel assembly

  6. Assembling Sustainable Territories

    Vandergeest, Peter; Ponte, Stefano; Bush, Simon

    2015-01-01

    The authors show how certification assembles ‘sustainable’ territories through a complex layering of regulatory authority in which both government and nongovernment entities claim rule-making authority, sometimes working together, sometimes in parallel, sometimes competitively. It is argued that...... dynamic in assembling sustainable territories, and that certification always involves state agencies in determining how the key elements that comprise it are defined. Whereas some state agencies have been suspicious of sustainability certification, others have embraced it or even used it to extend their...

  7. SERS Substrates by the Assembly of Silver Nano cubes: High-Throughput and Enhancement Reliability Considerations

    Small clusters of nanoparticles are ideal substrates for SERS measurements, but the SERS signal enhancement by a particular cluster is strongly dependent on its structural characteristics and the measurement conditions. Two methods for high-throughput assembly of silver nano cubes into small clusters at predetermined locations on a substrate are presented. These fabrication techniques make it possible to study both the structure and the plasmonic properties of hundreds of nanoparticle clusters. The variations in SERS enhancement factors from cluster to cluster were analyzed and correlated with cluster size and configuration, and laser frequency and polarization. Using Raman instruments with 633 nm and 785 nm lasers and linear clusters of nano cubes, an increase in the reproducibility of the enhancement and an increase in the average enhancement values were achieved by increasing the number of nano cubes in the cluster, up to 4 nano cubes per cluster. By examining the effect of cluster configuration, it is shown that linear clusters with nano cubes attached in a face-to-face configuration are not as effective SERS substrates as linear clusters in which nano cubes are attached along an edge

  8. Agricultural Clusters in the Netherlands

    Schouten, M.A.; Heijman, W.J.M.

    2012-01-01

    Michael Porter was the first to use the term cluster in an economic context. He introduced the term in The Competitive Advantage of Nations (1990). The term cluster is also known as business cluster, industry cluster, competitive cluster or Porterian cluster. This article aims at determining and mea

  9. Fire resistant PV shingle assembly

    Lenox, Carl J.

    2012-10-02

    A fire resistant PV shingle assembly includes a PV assembly, including PV body, a fire shield and a connection member connecting the fire shield below the PV body, and a support and inter-engagement assembly. The support and inter-engagement assembly is mounted to the PV assembly and comprises a vertical support element, supporting the PV assembly above a support surface, an upper interlock element, positioned towards the upper PV edge, and a lower interlock element, positioned towards the lower PV edge. The upper interlock element of one PV shingle assembly is inter-engageable with the lower interlock element of an adjacent PV shingle assembly. In some embodiments the PV shingle assembly may comprise a ventilation path below the PV body. The PV body may be slidably mounted to the connection member to facilitate removal of the PV body.

  10. An Interactive Assembly Process Planner

    廖华飞; 张林鍹; 肖田元; 曾理; 古月

    2004-01-01

    This paper describes the implementation and performance of the virtual assembly support system (VASS), a new system that can provide designers and assembly process engineers with a simulation and visualization environment where they can evaluate the assemblability/disassemblability of products, and thereby use a computer to intuitively create assembly plans and interactively generate assembly process charts. Subassembly planning and assembly priority reasoning techniques were utilized to find heuristic information to improve the efficiency of assembly process planning. Tool planning was implemented to consider tool requirements in the product design stage. New methods were developed to reduce the computation amount involved in interference checking. As an important feature of the VASS, human interaction was integrated into the whole process of assembly process planning, extending the power of computer reasoning by including human expertise, resulting in better assembly plans and better designs.

  11. Rod cluster control assemblies and rod cluster control guide tubes: wear and drop time

    The wear of RCCAs and of RCC guide tubes is due to two quite different mechanisms and the remedies to apply for each case might lead to contradictory solutions: - the impact/sliding wear for the seldom moving RCCAs, namely the shutdown RCCAs, under flow-induced vibrations, - the axial sliding wear for the control rods subjected to the stepping movements ordered by the acting load. In this case the hydraulic sticking forces are those which produce an evolution of the surface states that may increase the drop time. The introduction, an historical survey of the encountered difficulties, is followed by short description of the components and then the paper presents contributions of EDF in the R and D field, which take place in two successive multi-annual projects. Lastly, some information is given about the recent evolutions and new problems as well for impact/sliding wear as for drop time under normal or seismic conditions. (author)

  12. Spool assembly support analysis

    This document provides the wind/seismic analysis and evaluation for the pump pit spool assemblies. Hand calculations were used for the analysis. UBC, AISC, and load factors were used in this evaluation. The results show that the actual loads are under the allowable loads and all requirements are met

  13. Rotary shaft sealing assembly

    Dietle, Lannie L.; Schroeder, John E.; Kalsi, Manmohan S.; Alvarez, Patricio D.

    2010-09-21

    A rotary shaft sealing assembly in which a first fluid is partitioned from a second fluid in a housing assembly having a rotary shaft located at least partially within. In one embodiment a lip seal is lubricated and flushed with a pressure-generating seal ring preferably having an angled diverting feature. The pressure-generating seal ring and a hydrodynamic seal may be used to define a lubricant-filled region with each of the seals having hydrodynamic inlets facing the lubricant-filled region. Another aspect of the sealing assembly is having a seal to contain pressurized lubricant while withstanding high rotary speeds. Another rotary shaft sealing assembly embodiment includes a lubricant supply providing a lubricant at an elevated pressure to a region between a lip seal and a hydrodynamic seal with a flow control regulating the flow of lubricant past the lip seal. The hydrodynamic seal may include an energizer element having a modulus of elasticity greater than the modulus of elasticity of a sealing lip of the hydrodynamic seal.

  14. Corium protection assembly

    Gou, Perng-Fei; Townsend, Harold E.; Barbanti, Giancarlo

    1994-01-01

    A corium protection assembly includes a perforated base grid disposed below a pressure vessel containing a nuclear reactor core and spaced vertically above a containment vessel floor to define a sump therebetween. A plurality of layers of protective blocks are disposed on the grid for protecting the containment vessel floor from the corium.

  15. Ordinary General Assembly

    Staff Association

    2011-01-01

    Tuesday 12 April at 14.00 Council Chamber, Bldg 503 In conformity with the Statutes of the Staff Association, an ordinary General Assembly is organized once a year (article IV.2.1). Agenda   Adoption of the Agenda Approval of the Draft Minutes of the Ordinary General Assembly of 20 April 2010 Presentation and approval of the Activity Report 2010 Presentation and approval of the Financial Report 2010 Presentation and approval of the Auditors Report 2010 Programme for 2011 Presentation et and approval of the draft budget and subscription rate 2012 Election of the Election Committee Election of the Board of Auditors Miscellaneous We remind members of article IV.3.4 in the Statutes of the Association which reads: “After having dealt with all the items on the agenda, the members may, with the consent of the Assembly, have other matters discussed, but decisions may be taken only on the items listed on the agenda. Nevertheless, the Assembly ma...

  16. Ordinary General Assembly

    Staff Association

    2011-01-01

    Tuesday 12 April at 14.00 Council Chamber, Bldg 503 In conformity with the Statutes of the Staff Association, an ordinary General Assembly is organized once a year (article IV.2.1). Agenda   Adoption of the Agenda Approval of the Draft Minutes of the Ordinary General Assembly of 20 April 2010 Presentation and approval of the Activity Report 2010 Presentation and approval of the Financial Report 2010 Presentation and approval of the Auditors Report 2010 Programme for 2011 Presentation and approval of the draft budget and subscription rate 2012 Election of the Election Committee Election of the Board of Auditors Miscellaneous We remind members of article IV.3.4 in the Statutes of the Association which reads: “After having dealt with all the items on the agenda, the members may, with the consent of the Assembly, have other matters discussed, but decisions may be taken only on the items listed on the agenda. Nevertheless, the Assembly may r...

  17. Assembly of primary cilia

    Pedersen, Lotte B; Veland, Iben R; Schrøder, Jacob M;

    2008-01-01

    our current knowledge about IFT is based on studies performed in Chlamydomonas and Caenorhabditis elegans. Therefore, our review of the IFT literature includes studies performed in these two model organisms. The role of several non-IFT proteins (e.g., centrosomal proteins) in the ciliary assembly...

  18. Ordinary General Assembly

    Staff Association

    2010-01-01

    Tuesday 20 April at 10.00 Council Chamber, Bldg 503 In conformity with the Statutes of the Staff Association, an ordinary General Assembly is organized once a year (article IV.2.1). Agenda   Adoption of the Agenda Approval of the Draft Minutes of the Ordinary General Assembly of 12 May 2009 Presentation and approval of the Activity Report 2009 Presentation and approval of the Financial Report 2009 Presentation and approval of the Auditors Report 2009 Programme for 2010 Presentation et and approval of the draft budget and subscription rate 2010 Election of the Election Committee Election of the Board of Auditors Miscellaneous We remind members of article IV.3.4 in the Statutes of the Association which reads: “After having dealt with all the items on the agenda, the members may, with the consent of the Assembly, have other matters discussed, but decisions may be taken only on the items listed on the agenda. Nevertheless, the Assembly may require t...

  19. Nuclear fuel assembly spacer

    In a fuel assembly for a nuclear reactor a fuel element spacer formed of an array of laterally positioned cojoined tubular ferrules each providing a passage for one of the fuel elements, the elements being laterally supported in the ferrules between slender spring members and laterally oriented rigid stops

  20. Turneri preemia 2015: Assemble

    2015-01-01

    Turneri 2015. aasta preemia pälvis radikaalne noorte arhitektide kollektiiv Assemble. Rühmitus on 18-liikmeline ja baseerub Ida-Londonis ning selle tegevust võib üldistatult nimetada hüljatud ruumide taaselustamiseks kogukondlike aktsioonide kaudu

  1. The redistribution of matter in the cores of galaxy clusters

    Laporte, Chervin F. P.; White, Simon D. M.

    2015-08-01

    We present cosmological N-body resimulations of the assembly of the Brightest Cluster Galaxies (BCGs) in rich clusters. At z = 2, we populate dark matter subhaloes with self-gravitating stellar systems whose abundance and structure match observed high-redshift galaxies. By z = 0, mergers have built much larger galaxies at cluster centre. Their dark matter density profiles are shallower than in corresponding dark-matter-only simulations, but their total mass density profiles (stars + dark matter) are quite similar. Differences are found only at radii where the effects of central black holes may be significant. Dark matter density slopes shallower than γ = 1.0 occur for r/r200 BCG cores as large as rc ˜ 3 kpc. The good agreement of all these properties with recent observational studies of BCG structure suggests that dissipational processes have not played a dominant role in the assembly of the observed systems.

  2. Introducing Decorated HODs: modeling assembly bias in the galaxy-halo connection

    Hearin, Andrew P.; Zentner, Andrew R.; van den Bosch, Frank C.; Campbell, Duncan; Tollerud, Erik

    2016-05-01

    The connection between galaxies and dark matter halos is often inferred from data using probabilistic models, such as the Halo Occupation Distribution (HOD). Conventional HOD formulations assume that only halo mass governs the galaxy-halo connection. Violations of this assumption, known as galaxy assembly bias, threaten the HOD program. We introduce decorated HODs, a new, flexible class of models designed to account for assembly bias. Decorated HODs minimally expand the parameter space and maximize the independence between traditional and novel HOD parameters. We use decorated HODs to quantify the influence of assembly bias on clustering and lensing statistics. For SDSS-like samples, the impact of assembly bias on galaxy clustering can be as large as a factor of two on r ˜ 200 kpc scales and ˜15% in the linear regime. Assembly bias can either enhance or diminish clustering on large scales, but generally increases clustering on scales r ≲ 1 Mpc. We performed our calculations with Halotools, an open-source, community-driven python package for studying the galaxy-halo connection (http://halotools.readthedocs.org). We conclude by describing the use of decorated HODs to treat assembly bias in otherwise conventional likelihood analyses.

  3. Introducing decorated HODs: modelling assembly bias in the galaxy-halo connection

    Hearin, Andrew P.; Zentner, Andrew R.; van den Bosch, Frank C.; Campbell, Duncan; Tollerud, Erik

    2016-08-01

    The connection between galaxies and dark matter haloes is often inferred from data using probabilistic models, such as the halo occupation distribution (HOD). Conventional HOD formulations assume that only halo mass governs the galaxy-halo connection. Violations of this assumption, known as galaxy assembly bias, threaten the HOD programme. We introduce decorated HODs, a new, flexible class of models designed to account for assembly bias. Decorated HODs minimally expand the parameter space and maximize the independence between traditional and novel HOD parameters. We use decorated HODs to quantify the influence of assembly bias on clustering and lensing statistics. For SDSS-like samples, the impact of assembly bias on galaxy clustering can be as large as a factor of 2 on r ˜ 200 kpc scales and ˜15 per cent in the linear regime. Assembly bias can either enhance or diminish clustering on large scales, but generally increases clustering on scales r ≲ 1 Mpc. We performed our calculations with HALOTOOLS, an open-source, community-driven PYTHON package for studying the galaxy-halo connection (http://halotools.readthedocs.org). We conclude by describing the use of decorated HODs to treat assembly bias in otherwise conventional likelihood analyses.

  4. A Proposed Role for the Azotobacter vinelandii NfuA Protein as an Intermediate Iron-Sulfur Cluster Carrier*

    Bandyopadhyay, Sibali; Naik, Sunil G.; O'Carroll, Ina P.; Huynh, Boi-Hanh; Dean, Dennis R.; Johnson, Michael K.; Dos Santos, Patricia C.

    2008-01-01

    Iron-sulfur clusters ([Fe-S] clusters) are assembled on molecular scaffolds and subsequently used for maturation of proteins that require [Fe-S] clusters for their functions. Previous studies have shown that Azotobacter vinelandii produces at least two [Fe-S] cluster assembly scaffolds: NifU, required for the maturation of nitrogenase, and IscU, required for the general maturation of other [Fe-S] proteins. A. vinelandii also encodes a protein designated NfuA, which shares amino acid sequence ...

  5. Spatial Scan Statistic: Selecting clusters and generating elliptic clusters

    Christiansen, Lasse Engbo; Andersen, Jens Strodl

    2004-01-01

    The spatial scan statistic is widely used to search for clusters. This paper shows that the usually applied elimination of overlapping clusters to find secondary clusters is sensitive to smooth changes in the shape of the clusters. We present an algorithm for generation of set of confocal elliptic...... clusters. In addition, we propose a new way to present the information in a given set of clusters based on the significance of the clusters....

  6. Cluster brand as a competitive advantage. Case: Airport cluster Finland

    Väinölä, Lotta-Elviira

    2015-01-01

    Objective of the Study: The objective of this study is to explore the phenomenon of cluster branding. This study investigates cluster brand as a competitive advantage that impacts the success or decline of the cluster. The research questions examine three aspects: (1) cluster branding as a process, (2) the concrete tools that can be used in cluster branding and (3) the perceived benefits of cluster brand. The study aims to produce a generic model for cluster branding, which can be used as...

  7. Integrating cluster formation and cluster evaluation in interactive visual analysis

    Turkay, C.; Parulek, J.; Reuter, N.; Hauser, H.

    2011-01-01

    Cluster analysis is a popular method for data investigation where data items are structured into groups called clusters. This analysis involves two sequential steps, namely cluster formation and cluster evaluation. In this paper, we propose the tight integration of cluster formation and cluster evaluation in interactive visual analysis in order to overcome the challenges that relate to the black-box nature of clustering algorithms. We present our conceptual framework in the form of an interac...

  8. Clustering Categorical Data:A Cluster Ensemble Approach

    He Zengyou(何增友); Xu Xiaofei; Deng Shengchun

    2003-01-01

    Clustering categorical data, an integral part of data mining,has attracted much attention recently. In this paper, the authors formally define the categorical data clustering problem as an optimization problem from the viewpoint of cluster ensemble, and apply cluster ensemble approach for clustering categorical data. Experimental results on real datasets show that better clustering accuracy can be obtained by comparing with existing categorical data clustering algorithms.

  9. Disentangling Porterian Clusters

    Jagtfelt, Tue

    This dissertation investigates the contemporary phenomenon of industrial clusters based on the work of Michael E. Porter, the central progenitor and promoter of the cluster notion. The dissertation pursues two central questions: 1) What is a cluster? and 2) How could Porter’s seemingly fuzzy......, contested theory become so widely disseminated and applied as a normative and prescriptive strategy for economic development? The dissertation traces the introduction of the cluster notion into the EU’s Lisbon Strategy and demonstrates how its inclusion originates from Porter’s colleagues: Professor Örjan...... Sölvell, Dr. Christian Ketels and Dr. Göran Lindqvist. Taking departure in Porter’s works and the cluster literature, the dissertations shows a considerable paradigmatic shift has occurred from the first edition of Nations to the present state of cluster cooperation. To elaborate on this change and the...

  10. From collisions to clusters

    Loukonen, Ville; Bork, Nicolai; Vehkamaki, Hanna

    2014-01-01

    overcome the possible initial non-optimal collision orientations. No post-collisional cluster break up is observed. The reasons for the efficient clustering are (i) the proton transfer reaction which takes place in each of the collision simulations and (ii) the subsequent competition over the proton......The clustering of sulphuric acid with base molecules is one of the main pathways of new-particle formation in the Earth's atmosphere. First step in the clustering process is likely the formation of a (sulphuric acid)1(base)1(water)n cluster. Here, we present results from direct first......-principles molecular dynamics collision simulations of (sulphuric acid)1(water)0, 1 + (dimethylamine) → (sulphuric acid)1(dimethylamine)1(water)0, 1 cluster formation processes. The simulations indicate that the sticking factor in the collisions is unity: the interaction between the molecules is strong enough to...

  11. Cosmology with cluster surveys

    Subhabrata Majumdar

    2004-10-01

    Surveys of clusters of galaxies provide us with a powerful probe of the density and nature of the dark energy. The red-shift distribution of detected clusters is highly sensitive to the dark energy equation of state parameter . Upcoming Sunyaev–Zel'dovich (SZ) surveys would provide us large yields of clusters to very high red-shifts. Self-calibration of cluster scaling relations, possible for such a huge sample, would be able to constrain systematic biases on mass estimators. Combining cluster red-shift abundance with limited mass follow-up and cluster mass power spectrum can then give constraints on , as well as on 8 and to a few per cents.

  12. Cluster Management Institutionalization

    Normann, Leo; Agger Nielsen, Jeppe

    2015-01-01

    This article explores a new management form – cluster management – in Danish public sector day care. Although cluster management has been widely adopted in Danish day care at the municipality level, it has attracted only sparse research attention. We use theoretical insights from Scandinavian...... institutionalism together with a longitudinal case-based inquiry into how cluster management has entered and penetrated the management practices of day care in Denmark. We demonstrate how cluster management became widely adopted in the day care field not only because of its intrinsic properties but also because...... of how it was legitimized as a “ready-to-use” management model. Further, our account reveals how cluster management translated into considerably different local variants as it travelled into specific organizations. However, these processes have not occurred sequentially with cluster management first...

  13. Top-down assembly design using assembly features

    石万凯; DENEUX; Dominique; 等

    2002-01-01

    The primary task of top-down assembly desig is to define a product's detailed physical description satisfying its functional requirements identified during the functional design phase.The implementation of this design process requires two things,that is ,product functional representation and a general assembly model.Product functions are not only the formulation of a customer's needs,but also the input data of assembly design.A general assembly model is to support the evolving process of the elaboration of a product structure.The assembly feature of extended concept is taken as a functional carrier,which is a generic relation among assembly-modeled entities.The model of assembly features describes the link between product functions and form features of parts.On the basis of this link,the propagation of design modifications is discussed so as to preserve the functionality and the coherence of the assembly model.The formal model of assembly design process describes the top-down process of creating an assembly model.This formal model is represented by the combination of assembly feature operations,the assembly model and the evaluation process.A design case study is conducted to verify the applicability of the presented approaches.

  14. Clustering Techniques in Bioinformatics

    Muhammad Ali Masood

    2015-01-01

    Full Text Available Dealing with data means to group information into a set of categories either in order to learn new artifacts or understand new domains. For this purpose researchers have always looked for the hidden patterns in data that can be defined and compared with other known notions based on the similarity or dissimilarity of their attributes according to well-defined rules. Data mining, having the tools of data classification and data clustering, is one of the most powerful techniques to deal with data in such a manner that it can help researchers identify the required information. As a step forward to address this challenge, experts have utilized clustering techniques as a mean of exploring hidden structure and patterns in underlying data. Improved stability, robustness and accuracy of unsupervised data classification in many fields including pattern recognition, machine learning, information retrieval, image analysis and bioinformatics, clustering has proven itself as a reliable tool. To identify the clusters in datasets algorithm are utilized to partition data set into several groups based on the similarity within a group. There is no specific clustering algorithm, but various algorithms are utilized based on domain of data that constitutes a cluster and the level of efficiency required. Clustering techniques are categorized based upon different approaches. This paper is a survey of few clustering techniques out of many in data mining. For the purpose five of the most common clustering techniques out of many have been discussed. The clustering techniques which have been surveyed are: K-medoids, K-means, Fuzzy C-means, Density-Based Spatial Clustering of Applications with Noise (DBSCAN and Self-Organizing Map (SOM clustering.

  15. Cluster Symmetries and Dynamics

    Freer Martin

    2016-01-01

    Full Text Available Many light nuclei display behaviour that indicates that rather than behaving as an A-body systems, the protons and neutrons condense into clusters. The α-particle is the most obvious example of such clustering. This contribution examines the role of such α-clustering on the structure, symmetries and dynamics of the nuclei 8Be, 12C and 16O, recent experimental measurements and future perspectives.

  16. Agricultural Clusters in China

    Kiminami, Lily; Kiminami, Akira

    2009-01-01

    The purpose of this study is to assess the potential of clustering in the development of agriculture and rural communities in China. We shall examine in detail the food industry, which is the link in the food chain that propels the industrialization of agriculture, and identify instances of industrial agglomeration and business collaboration. Next, we shall analyze the externalities (i.e. spillovers) of clusters, demand conditions in cluster formation, and the effectiveness of business collab...

  17. The Durban Auto Cluster

    Lorentzen, Jochen; Robbins, Glen; Barnes, Justin

    2004-01-01

    The paper describes the formation of the Durban Auto Cluster in the context of trade liberalization. It argues that the improvement of operational competitiveness of firms in the cluster is prominently due to joint action. It tests this proposition by comparing the gains from cluster activities in the areas of supplier development, human resource development, logistics, and benchmarking, and by contrasting the impact of joint action against a host of other variables, notably international com...

  18. Securing personal network clusters

    Jehangir, Assed; Heemstra de Groot, Sonia M.

    2007-01-01

    A Personal Network is a self-organizing, secure and private network of a user’s devices notwithstanding their geographic location. It aims to utilize pervasive computing to provide users with new and improved services. In this paper we propose a model for securing Personal Network clusters. Clusters are ad-hoc networks of co-located personal devices. The ad-hoc makeup of clusters, coupled with the resource constrained nature of many constituent devices, makes enforcing security a challenging ...

  19. Cluster headache with aura

    Martínez-Fernández, Eva; Alberca, Roman; Mir, Pablo; Franco, Emilio; Montes, Enrique; Lozano, Pilar

    2002-01-01

    The objective of our study is to report the frequency and characteristics of cluster headache with aura among the population of patients with cluster headache treated in our outpatient neurology clinic. 254 patients were submitted to semi-structured interviews to identify the presence of symptoms similar to the migraine aura. 5 patients who suffered from a cluster headache with aura filled a diary with the characteristics of the pain attacks and the aura. All the patients with either episodic...

  20. [Transcript assembly and quality assessment].

    Deng, Feilong; Jia, Xianbo; Lai, Songjia; Liu, Yiping; Chen, Shiyi

    2015-09-01

    The transcript assembly is essential for transcriptome studies trom next-generation sequencing data. However, there are still many faults of algorithms in the present assemblers, which should be largely improved in the future. According to the requirement of reference genome or not, the transcript assembly could be classified into the genome-guided and de novo methods. The two methods have different algorithms and implementation processes. The quality of assembled transcripts depends on a large number of factors, such as the PCR amplification, sequencing techniques, assembly algorithm and genome character. Here, we reviewed the present tools of transcript assembly and various indexes for assessing the quality of assembled transcripts, which would help biologists to determine which assembler should be used in their studies. PMID:26955705

  1. School Assemblies: The Lost Art.

    Beach, Daniel R.

    1979-01-01

    Guidelines and suggestions are offered for successful school assemblies. The school assembly should be a positive event; an occasion for developing unity, group loyalty, and desirable audience habits. (Author/MLF)

  2. X-Ray Assembler Data

    U.S. Department of Health & Human Services — Federal regulations require that an assembler who installs one or more certified components of a diagnostic x-ray system submit a report of assembly. This database...

  3. Optical Space Telescope Assembly Project

    National Aeronautics and Space Administration — The Optical Space Telescope Assembly (OSTA) task is to demonstrate the technology readiness of assembling large space telescopes on orbit in 2015. This task is an...

  4. 15th Cluster workshop

    Laakso, Harri; Escoubet, C. Philippe; The Cluster Active Archive : Studying the Earth’s Space Plasma Environment

    2010-01-01

    Since the year 2000 the ESA Cluster mission has been investigating the small-scale structures and processes of the Earth's plasma environment, such as those involved in the interaction between the solar wind and the magnetospheric plasma, in global magnetotail dynamics, in cross-tail currents, and in the formation and dynamics of the neutral line and of plasmoids. This book contains presentations made at the 15th Cluster workshop held in March 2008. It also presents several articles about the Cluster Active Archive and its datasets, a few overview papers on the Cluster mission, and articles reporting on scientific findings on the solar wind, the magnetosheath, the magnetopause and the magnetotail.

  5. Management of cluster headache.

    Tfelt-Hansen, Peer C; Jensen, Rigmor H

    2012-07-01

    The prevalence of cluster headache is 0.1% and cluster headache is often not diagnosed or misdiagnosed as migraine or sinusitis. In cluster headache there is often a considerable diagnostic delay - an average of 7 years in a population-based survey. Cluster headache is characterized by very severe or severe orbital or periorbital pain with a duration of 15-180 minutes. The cluster headache attacks are accompanied by characteristic associated unilateral symptoms such as tearing, nasal congestion and/or rhinorrhoea, eyelid oedema, miosis and/or ptosis. In addition, there is a sense of restlessness and agitation. Patients may have up to eight attacks per day. Episodic cluster headache (ECH) occurs in clusters of weeks to months duration, whereas chronic cluster headache (CCH) attacks occur for more than 1 year without remissions. Management of cluster headache is divided into acute attack treatment and prophylactic treatment. In ECH and CCH the attacks can be treated with oxygen (12 L/min) or subcutaneous sumatriptan 6 mg. For both oxygen and sumatriptan there are two randomized, placebo-controlled trials demonstrating efficacy. In both ECH and CCH, verapamil is the prophylactic drug of choice. Verapamil 360 mg/day was found to be superior to placebo in one clinical trial. In clinical practice, daily doses of 480-720 mg are mostly used. Thus, the dose of verapamil used in cluster headache treatment may be double the dose used in cardiology, and with the higher doses the PR interval should be checked with an ECG. At the start of a cluster, transitional preventive treatment such as corticosteroids or greater occipital nerve blockade can be given. In CCH and in long-standing clusters of ECH, lithium, methysergide, topiramate, valproic acid and ergotamine tartrate can be used as add-on prophylactic treatment. In drug-resistant CCH, neuromodulation with either occipital nerve stimulation or deep brain stimulation of the hypothalamus is an alternative treatment strategy

  6. Fast Density Based Clustering Algorithm

    Priyanka Trikha; Singh Vijendra

    2013-01-01

    Clustering problem is an unsupervised learning problem. It is a procedure that partition data objects into matching clusters. The data objects in the same cluster are quite similar to each other and dissimilar in the other clusters. The traditional algorithms do not meet the latest multiple requirements simultaneously for objects. Density-based clustering algorithms find clusters based on density of data points in a region. DBSCAN algorithm is one of the density-based clustering algorithms. I...

  7. Statistical Properties of Convex Clustering

    Tan, Kean Ming; Witten, Daniela

    2015-01-01

    In this manuscript, we study the statistical properties of convex clustering. We establish that convex clustering is closely related to single linkage hierarchical clustering and $k$-means clustering. In addition, we derive the range of tuning parameter for convex clustering that yields a non-trivial solution. We also provide an unbiased estimate of the degrees of freedom, and provide a finite sample bound for the prediction error for convex clustering. We compare convex clustering to some tr...

  8. A Uniqueness Theorem for Clustering

    Zadeh, Reza Bosagh; Ben-David, Shai

    2012-01-01

    Despite the widespread use of Clustering, there is distressingly little general theory of clustering available. Questions like "What distinguishes a clustering of data from other data partitioning?", "Are there any principles governing all clustering paradigms?", "How should a user choose an appropriate clustering algorithm for a particular task?", etc. are almost completely unanswered by the existing body of clustering literature. We consider an axiomatic approach to the theory of Clustering...

  9. Statistical properties of convex clustering

    Tan, Kean Ming; Witten, Daniela

    2015-01-01

    In this manuscript, we study the statistical properties of convex clustering. We establish that convex clustering is closely related to single linkage hierarchical clustering and $k$-means clustering. In addition, we derive the range of the tuning parameter for convex clustering that yields a non-trivial solution. We also provide an unbiased estimator of the degrees of freedom, and provide a finite sample bound for the prediction error for convex clustering. We compare convex clustering to so...

  10. Document Clustering Based on Semi-Supervised Term Clustering

    Hamid Mahmoodi

    2012-05-01

    Full Text Available The study is conducted to propose a multi-step feature (term selection process and in semi-supervised fashion, provide initial centers for term clusters. Then utilize the fuzzy c-means (FCM clustering algorithm for clustering terms. Finally assign each of documents to closest associated term clusters. While most text clustering algorithms directly use documents for clustering, we propose to first group the terms using FCM algorithm and then cluster documents based on terms clusters. We evaluate effectiveness of our technique on several standard text collections and compare our results with the some classical text clustering algorithms.

  11. Reflector-moderated critical assemblies

    Experiments with reflector-moderated critical assemblies were part of the Rover Program at the Los Alamos Scientific Laboratory (LASL). These assemblies were characterized by thick D2O or beryllium reflectors surrounding large cavities that contained highly enriched uranium at low average densities. Because interest in this type of system has been revived by LASL Plasma Cavity Assembly studies, more detailed descriptions of the early assemblies than had been available in the unclassified literature are provided. (U.S.)

  12. Self-Assembly of Plasmonic Nanoclusters for Optical Metauids

    Schade, Nicholas Benjamin

    I discuss experimental progress towards developing a material with an isotropic, negative index of refraction at optical frequencies. The simplest way to make such a material is to create a metafluid, or a disordered collection of subwavelength, isotropic electromagnetic resonators. Small clusters of metal particles, such as tetrahedra, serve as these constituents. What is needed are methods for manufacturing these structures with high precision and in sufficient yield that their resonances are identical. Jonathan Fan et al. [Science, 328 (5982), 1135-1138, 2010] demonstrated that colloidal self-assembly is a means of preparing electromagnetic resonators from metal nanoparticles. However, the resonances are sensitive to the separation gaps between particles. Standard synthesis routes for metal nanoparticles yield crystals or nanoshells that are inadequate for metafluids due to polydispersity, faceting, and thermal instabilities. To ensure that the separation gaps and resonances are uniform, more monodisperse spherical particles are needed. An additional challenge is the self-assembly of tetrahedral clusters in high yield from these particles. In self-assembly approaches that others have examined previously, the yield of any particular type of cluster is low. In this dissertation I present solutions to several of these problems, developed in collaboration with my research group and others. We demonstrate that slow chemical etching can transform octahedral gold crystals into ultrasmooth, monodisperse nanospheres. The particles can serve as seeds for the growth of larger octahedra which can in turn be etched. The size of the gold nanospheres can therefore be adjusted as desired. We further show that in colloidal mixtures of two sphere species that strongly bind to one another, the sphere size ratio determines the size distribution of self-assembled clusters. At a critical size ratio, tetrahedral clusters assemble in high yield. We explain the experimentally observed

  13. Lifting to cluster-tilting objects in higher cluster categories

    Liu, Pin

    2008-01-01

    In this note, we consider the $d$-cluster-tilted algebras, the endomorphism algebras of $d$-cluster-tilting objects in $d$-cluster categories. We show that a tilting module over such an algebra lifts to a $d$-cluster-tilting object in this $d$-cluster category.

  14. Green fluorescent protein nanopolygons as monodisperse supramolecular assemblies of functional proteins with defined valency

    Kim, Young Eun; Kim, Yu-Na; Kim, Jung A.; Kim, Ho Min; Jung, Yongwon

    2015-05-01

    Supramolecular protein assemblies offer novel nanoscale architectures with molecular precision and unparalleled functional diversity. A key challenge, however, is to create precise nano-assemblies of functional proteins with both defined structures and a controlled number of protein-building blocks. Here we report a series of supramolecular green fluorescent protein oligomers that are assembled in precise polygonal geometries and prepared in a monodisperse population. Green fluorescent protein is engineered to be self-assembled in cells into oligomeric assemblies that are natively separated in a single-protein resolution by surface charge manipulation, affording monodisperse protein (nano)polygons from dimer to decamer. Several functional proteins are multivalently displayed on the oligomers with controlled orientations. Spatial arrangements of protein oligomers and displayed functional proteins are directly visualized by a transmission electron microscope. By employing our functional protein assemblies, we provide experimental insight into multivalent protein-protein interactions and tools to manipulate receptor clustering on live cell surfaces.

  15. Galaxy Proto-clusters as an Interface Between Structure, Cluster, and Galaxy Formation

    Chiang, Yi-Kuan

    2016-01-01

    Proto-clusters, the progenitor large-scale structures of present day galaxy clusters, are unique laboratories to study dark matter assembly, cosmic baryon cycle, galaxy growth, and environmental impact on galaxy evolution. In this dissertation talk, I will present our recent progress in this subject, both theoretical and observational. Using a set of cosmological N-body simulations and semi-analytic galaxy models, we extract the mass, size, and overdensity evolution for ˜3000 simulated clusters from z=8 to z=0. In line with the scenario of cosmic downsizing, the models predict that the fraction of cosmic star formation rate occurs in (proto-)clusters increases from <1% at z=0 to 20-30% at z=8. This result demonstrates that the seemingly sharp distinction when discussing field and cluster galaxy evolution has to be blurred at high redshift, and a significant fraction of cosmic reionization was done by cluster progenitors. Observationally, we focus on the epoch of z≈2 when the first cluster scale halos (1014 M⊙) were about to form. We perform a systematic proto-cluster search using a photometric redshift catalog in the COSMOS field, revealing a large sample of 36 candidate proto-clusters at 1.6cluster in this field at z=2.44 with Mz=0 = 1014.5±0.4 M⊙ using a sample of Lyα emitters (LAE) in the HETDEX Pilot Survey with a highly homogeneous selection function in 3D redshift space. Compared to the cosmic mean, this structure shows a LAE overdensity of 4 on a scale of few tens cMpc, a 5 times higher fraction of extended Lya blobs, a 2 times higher median stellar mass of NIR selected galaxies with photometric redshift, and a significantly enhanced intergalactic gas revealed in the Lyα absorption maps of Lee et al. (2014, 2015). With these results, I will discuss proto-clusters in the context of

  16. Measurement Technology for Engine Assembly

    GAO Li; ZHENG Zeyu; DAI Shangping

    2006-01-01

    In many industrial, it is often necessary to analyze the engine assembly. This paper introduces three kinds of new technologies on the assembly line of engine in recent years, it have played the positive role in improving the quality of assembling.

  17. Fuzzy Clustering: Determining the Number of Clusters

    Řezanková, H.; Húsek, Dušan

    Piscataway : IEEE, 2012, s. 277-282. ISBN 978-1-4673-4793-8. [CASoN 2012. International Conference on Computational Aspects of Social Networks /4./. Sao Carlos (BR), 21.11.2012-23.11.2012] R&D Projects: GA ČR GAP202/10/0262 Grant ostatní: GA MŠk(CZ) ED1.1.00/02.0070 Institutional support: RVO:67985807 Keywords : fuzzy cluster analysis * determining number of clusters * Dunn’s coefficient * average silhouette width Subject RIV: BB - Applied Statistics, Operational Research

  18. Structure and dynamics of optically directed self-assembly of nanoparticles

    Roy, Debjit; Mondal, Dipankar; Goswami, Debabrata

    2016-03-01

    Self-assembly of nanoparticles leading to the formation of colloidal clusters often serves as the representative analogue for understanding molecular assembly. Unravelling the in situ structure and dynamics of such clusters in liquid suspensions is highly challenging. Presently colloidal clusters are first isolated from their generating environment and then their structures are probed by light scattering methods. In order to measure the in situ structure and dynamics of colloidal clusters, we have generated them using the high-repetition-rate femtosecond laser pulse optical tweezer. Since the constituent of our dimer, trimer or tetramer clusters are 250 nm radius two-photon resonant fluorophore coated nanospheres under the optical trap, they inherently produce Two-Photon Fluorescence, which undergo intra-nanosphere Fluorescence Energy Transfer. This unique energy transfer signature, in turn, enables us to visualize structures and orientations of these colloidal clusters during the process of their formation and subsequent dynamics in a liquid suspension. We also show that due to shape-birefringence, orientation and structural control of these colloidal clusters are possible as the polarization of the trapping laser is changed from linear to circular. We thus report important progress in sampling the smallest possible aggregates of nanoparticles, dimers, trimers or tetramers, formed early in the self-assembly process.

  19. Integrated magnetic transformer assembly

    2014-01-01

    The present invention relates to an integrated magnetics transformer assembly comprising a first magnetically permeable core forming a first substantially closed magnetic flux path and a second magnetically permeable core forming a second substantially closed magnetic flux path. A first input...... inductor winding is wound around a first predetermined segment of the first magnetically permeable core and a second input inductor winding is wound around a first predetermined segment of the second magnetically permeable core. The integrated magnetics transformer assembly further comprises a first output...... inductor winding comprising series coupled first and second half-windings wherein the first half-winding is wound around a second predetermined segment of the first magnetically permeable core and the second half-winding is wound around a second predetermined segment of the second magnetically permeable...

  20. Fuel assemblies chemical cleaning

    NPP Paks found a thermal-hydraulic anomaly in the reactor core during cycle 14 that was caused by corrosion product deposits on fuel assemblies (FAs) that increased the hydraulic resistance of the FAs. Consequently, the coolant flow through the FAs was insufficient resulting in a temperature asymmetry inside the reactor core. Based on this fact NPP Paks performed differential pressure measurements of all fuel assemblies in order to determine the hydraulic resistance and subsequently the limit values for the hydraulic acceptance of FAs to be used. Based on the hydraulic investigations a total number of 170 FAs was selected for cleaning. The necessity for cleaning the FAs was explained by the fact that the FAs were subjected to a short term usage in the reactor core only maximum of 1,5 years and had still a capacity for additional 2 fuel cycles. (authors)

  1. Ingestion resistant seal assembly

    Little, David A.

    2011-12-13

    A seal assembly limits gas leakage from a hot gas path to one or more disc cavities in a gas turbine engine. The seal assembly includes a seal apparatus associated with a blade structure including a row of airfoils. The seal apparatus includes an annular inner shroud associated with adjacent stationary components, a wing member, and a first wing flange. The wing member extends axially from the blade structure toward the annular inner shroud. The first wing flange extends radially outwardly from the wing member toward the annular inner shroud. A plurality of regions including one or more recirculation zones are defined between the blade structure and the annular inner shroud that recirculate working gas therein back toward the hot gas path.

  2. Turbine seal assembly

    Little, David A.

    2013-04-16

    A seal assembly that limits gas leakage from a hot gas path to one or more disc cavities in a turbine engine. The seal assembly includes a seal apparatus that limits gas leakage from the hot gas path to a respective one of the disc cavities. The seal apparatus comprises a plurality of blade members rotatable with a blade structure. The blade members are associated with the blade structure and extend toward adjacent stationary components. Each blade member includes a leading edge and a trailing edge, the leading edge of each blade member being located circumferentially in front of the blade member's corresponding trailing edge in a direction of rotation of the turbine rotor. The blade members are arranged such that a space having a component in a circumferential direction is defined between adjacent circumferentially spaced blade members.

  3. Fuel nozzle assembly

    Johnson, Thomas Edward; Ziminsky, Willy Steve; Lacey, Benjamin Paul; York, William David; Stevenson, Christian Xavier

    2011-08-30

    A fuel nozzle assembly is provided. The assembly includes an outer nozzle body having a first end and a second end and at least one inner nozzle tube having a first end and a second end. One of the nozzle body or nozzle tube includes a fuel plenum and a fuel passage extending therefrom, while the other of the nozzle body or nozzle tube includes a fuel injection hole slidably aligned with the fuel passage to form a fuel flow path therebetween at an interface between the body and the tube. The nozzle body and the nozzle tube are fixed against relative movement at the first ends of the nozzle body and nozzle tube, enabling the fuel flow path to close at the interface due to thermal growth after a flame enters the nozzle tube.

  4. Nuclear fuel assembly

    Purpose: To increase the fuel assembly rigidity while making balance in view of the dimension thereby improving the earthquake proofness. Constitution: In a nuclear fuel assembly having a control rod guide thimble tube, the gap between the thimble tube and fuel insert (inner diameter of the guiding thimble tube-outer diameter of the fuel insert) is made greater than 1.0 mm. Further, the wall thickness of the thimble tube is made to about 4 - 5 % of the outer diameter, while the flowing fluid pore cross section S in the thimble tube is set as: S = S0 x A0/A where S0: cross section of the present flowing fluid pore, A: effective cross section after improvement, = Π/4(d2 - D2) in which d is the thimble tube inner diameter and the D is the fuel insert outer diameter. A0: present effective cross section. (Seki, T.)

  5. Diffuse Light in the Virgo Cluster

    Mihos, C; Feldmeier, J; Morrison, H; Mihos, Chris; Harding, Paul; Feldmeier, John; Morrison, Heather

    2005-01-01

    We present deep optical imaging of the inner 1.5 x 1.5 degrees of the Virgo cluster to search for diffuse intracluster light (ICL). Our image reaches a 1 sigma depth of mu_v=28.5 mag/arcsec^2 -- 1.5 mag/arcsec^2 deeper than previous surveys -- and reveals an intricate web of diffuse intracluster light. We see several long (>100 kpc) tidal streamers, as well as a myriad of smaller-scale tidal tails and bridges between galaxies. The diffuse halo of M87 is traced out to nearly 200 kpc, appearing very irregular on these scales, while significant diffuse light is also detected around the M84/M86 pair. Several galaxies in the core are embedded in common envelopes, suggesting they are true physical subgroups. The complex substructure of Virgo's diffuse ICL reflects the hierarchical nature of cluster assembly, rather than being the product of smooth accretion around a central galaxy.

  6. THE NEXT GENERATION VIRGO CLUSTER SURVEY. IV. NGC 4216: A BOMBARDED SPIRAL IN THE VIRGO CLUSTER

    The final stages of mass assembly of present-day massive galaxies are expected to occur through the accretion of multiple satellites. Cosmological simulations thus predict a high frequency of stellar streams resulting from this mass accretion around the massive galaxies in the Local Volume. Such tidal streams are difficult to observe, especially in dense cluster environments, where they are readily destroyed. We present an investigation into the origins of a series of interlaced narrow filamentary stellar structures, loops and plumes in the vicinity of the Virgo Cluster, edge-on spiral galaxy, NGC 4216 that were previously identified by the Blackbird telescope. Using the deeper, higher-resolution, and precisely calibrated optical CFHT/MegaCam images obtained as part of the Next Generation Virgo Cluster Survey (NGVS), we confirm the previously identified features and identify a few additional structures. The NGVS data allowed us to make a physical study of these low surface brightness features and investigate their origin. The likely progenitors of the structures were identified as either already cataloged Virgo Cluster Catalog dwarfs or newly discovered satellites caught in the act of being destroyed. They have the same g – i color index and likely contain similar stellar populations. The alignment of three dwarfs along an apparently single stream is intriguing, and we cannot totally exclude that these are second-generation dwarf galaxies being born inside the filament from the debris of an original dwarf. The observed complex structures, including in particular a stream apparently emanating from a satellite of a satellite, point to a high rate of ongoing dwarf destruction/accretion in the region of the Virgo Cluster where NGC 4216 is located. We discuss the age of the interactions and whether they occurred in a group that is just falling into the cluster and shows signs of the so-called pre-processing before it gets affected by the cluster environment, or in a

  7. THE NEXT GENERATION VIRGO CLUSTER SURVEY. IV. NGC 4216: A BOMBARDED SPIRAL IN THE VIRGO CLUSTER

    Paudel, Sanjaya; Duc, Pierre-Alain; Ferriere, Etienne [Laboratoire AIM Paris-Saclay, CNRS/INSU, Universite Paris Diderot, CEA/IRFU/SAp, F-91191 Gif-sur-Yvette Cedex (France); Cote, Patrick; Ferrarese, Laura; Gwyn, Stephen D. J.; MacArthur, Lauren A. [National Research Council of Canada, Victoria, BC V9E 2E7 (Canada); Cuillandre, Jean-Charles [Canada-France-Hawaii Telescope Corporation, Kamuela, HI 96743 (United States); Mihos, J. Christopher [Department of Astronomy, Case Western Reserve University, 10900 Euclid Avenue, Cleveland, OH 44106 (United States); Vollmer, Bernd [Observatoire Astronomique, Universite de Strasbourg and CNRS UMR 7550, 11 rue de l' Universite, F-67000 Strasbourg (France); Balogh, Michael L. [Department of Physics and Astronomy, University of Waterloo, Waterloo, ON N2L 3G1 (Canada); Carlberg, Ray G. [Department of Astronomy and Astrophysics, University of Toronto, Toronto, ON M5S 3H4 (Canada); Boissier, Samuel; Boselli, Alessandro [Aix Marseille Universite, CNRS, LAM (Laboratoire d' Astrophysique de Marseille) UMR 7326, F-13388 Marseille (France); Durrell, Patrick R. [Department of Physics and Astronomy, Youngstown State University, One University Plaza, Youngstown, OH 44555 (United States); Emsellem, Eric; Michel-Dansac, Leo [Universite de Lyon 1, CRAL, Observatoire de Lyon, CNRS UMR 5574, 9 av. Charles Andre, F-69230 Saint-Genis Laval (France); Mei, Simona; Van Driel, Wim, E-mail: sanjaya.paudel@cea.fr [GEPI, Observatoire de Paris, CNRS, Universite Paris Diderot, 5 Place J. Janssen, F-92190 Meudon Cedex (France)

    2013-04-20

    The final stages of mass assembly of present-day massive galaxies are expected to occur through the accretion of multiple satellites. Cosmological simulations thus predict a high frequency of stellar streams resulting from this mass accretion around the massive galaxies in the Local Volume. Such tidal streams are difficult to observe, especially in dense cluster environments, where they are readily destroyed. We present an investigation into the origins of a series of interlaced narrow filamentary stellar structures, loops and plumes in the vicinity of the Virgo Cluster, edge-on spiral galaxy, NGC 4216 that were previously identified by the Blackbird telescope. Using the deeper, higher-resolution, and precisely calibrated optical CFHT/MegaCam images obtained as part of the Next Generation Virgo Cluster Survey (NGVS), we confirm the previously identified features and identify a few additional structures. The NGVS data allowed us to make a physical study of these low surface brightness features and investigate their origin. The likely progenitors of the structures were identified as either already cataloged Virgo Cluster Catalog dwarfs or newly discovered satellites caught in the act of being destroyed. They have the same g - i color index and likely contain similar stellar populations. The alignment of three dwarfs along an apparently single stream is intriguing, and we cannot totally exclude that these are second-generation dwarf galaxies being born inside the filament from the debris of an original dwarf. The observed complex structures, including in particular a stream apparently emanating from a satellite of a satellite, point to a high rate of ongoing dwarf destruction/accretion in the region of the Virgo Cluster where NGC 4216 is located. We discuss the age of the interactions and whether they occurred in a group that is just falling into the cluster and shows signs of the so-called pre-processing before it gets affected by the cluster environment, or in a

  8. Composite airfoil assembly

    Garcia-Crespo, Andres Jose

    2015-03-03

    A composite blade assembly for mounting on a turbine wheel includes a ceramic airfoil and an airfoil platform. The ceramic airfoil is formed with an airfoil portion, a blade shank portion and a blade dovetail tang. The metal platform includes a platform shank and a radially inner platform dovetail. The ceramic airfoil is captured within the metal platform, such that in use, the ceramic airfoil is held within the turbine wheel independent of the metal platform.

  9. Uniform Test Assembly

    Belov, Dmitry I.

    2008-01-01

    In educational practice, a test assembly problem is formulated as a system of inequalities induced by test specifications. Each solution to the system is a test, represented by a 0-1 vector, where each element corresponds to an item included (1) or not included (0) into the test. Therefore, the size of a 0-1 vector equals the number of items "n"…

  10. Nuclear fuel assembly spacer

    A spacer for use in a fuel assembly of a nuclear reactor having thin, full-height divider members, slender spring members and laterally oriented rigid stops and wherein the total amount of spacer material, the amount of high neutron cross section material, the projected area of the spacer structure and changes in cross section area of the spacer structure are minimized whereby neutron absorption by the spacer and coolant flow resistance through the spacer are minimized

  11. REACTOR NOZZLE ASSEMBLY

    Capuder, F.C.; Dearwater, J.R.

    1959-02-10

    An improved nozzle assembly useful in a process for the direct reduction of uranium hexafluoride to uranium tetrafluoride by means of dissociated ammonia in a heated reaction vessel is descrlbed. The nozzle design provides for intimate mixing of the two reactants and at the same time furnishes a layer of dissociated ammonia adjacent to the interior wall of the reaction vessel, thus preventing build-up of the reaction product on the vessel wall.

  12. Assembling Toyota in Portugal

    Machado, Tiago; Moniz, António

    2003-01-01

    A lot has been written over the last decade with regard to Toyota and the productive model associated to it (toyota-ism). And more specifically concerning the "(…) best-seller that changed the... sociological world" (Castillo, 1998: 31). But the case of Salvador Caetano’s Ovar Industrial Division (OID), that assembles Toyota light commercial vehicles in Portugal, allows us to put forward a sub-hypothesis that fits into the analysis schema proposed in the First GERPISA International Program – ...

  13. Semiconductor nanocrystals covalently bound to solid inorganic surfaces using self-assembled monolayers

    Alivisatos, A. Paul; Colvin, Vicki L.

    1998-01-01

    Methods are described for attaching semiconductor nanocrystals to solid inorganic surfaces, using self-assembled bifunctional organic monolayers as bridge compounds. Two different techniques are presented. One relies on the formation of self-assembled monolayers on these surfaces. When exposed to solutions of nanocrystals, these bridge compounds bind the crystals and anchor them to the surface. The second technique attaches nanocrystals already coated with bridge compounds to the surfaces. Analyses indicate the presence of quantum confined clusters on the surfaces at the nanolayer level. These materials allow electron spectroscopies to be completed on condensed phase clusters, and represent a first step towards synthesis of an organized assembly of clusters. These new products are also disclosed.

  14. SCT Barrel Assembly Complete

    L. Batchelor

    As reported in the April 2005 issue of the ATLAS eNews, the first of the four Semiconductor Tracker (SCT) barrels, complete with modules and services, arrived safely at CERN in January of 2005. In the months since January, the other three completed barrels arrived as well, and integration of the four barrels into the entire barrel assembly commenced at CERN, in the SR1 building on the ATLAS experimental site, in July. Assembly was completed on schedule in September, with the addition of the innermost layer to the 4-barrel assembly. Work is now underway to seal the barrel thermal enclosure. This is necessary in order to enclose the silicon tracker in a nitrogen atmosphere and provide it with faraday-cage protection, and is a delicate and complicated task: 352 silicon module powertapes, 352 readout-fibre bundles, and over 400 Detector Control System sensors must be carefully sealed into the thermal enclosure bulkhead. The team is currently verifying the integrity of the low mass cooling system, which must be d...

  15. Ordinary General Assembly

    Association du personnel

    2010-01-01

    Tuesday 20 April at 10.00 Council Chamber, Bldg 503 In conformity with the Statutes of the Staff Association, an ordinary General Assembly is organized once a year (article IV.2.1). Agenda Adoption of the Agenda Approval of the Draft Minutes of the Ordinary General Assembly of 12 May 2009 Presentation and approval of the Activity Report 2009 Presentation and approval of the Financial Report 2009 Presentation and approval of the Auditors Report 2009 Programme for 2010 Presentation et and approval of the draft budget and subscription rate 2010 Modifications to the statutes of the association Election of the Election Committee Election of the Board of Auditors Miscellaneous We remind members of article IV.3.4 in the Statutes of the Association which reads: “After having dealt with all the items on the agenda, the members may, with the consent of the Assembly, have other matters discussed, but decisions may be taken only on the items listed on the agenda...

  16. Gas sealed assembly

    A gas sealed assembly is disposed to a reactor core of an LMFBR type reactor. The gas sealed assembly has a cylindrical duct, and an entrance nozzle having a coolant flowing hole is connected to the lower portion of the duct. Sodium coolants and a sealed gas comprising inert gases such as argon are contained in the duct. A black material is disposed on the inner surface of the duct. Chromium carbide, for example, is used as the black material. Since the black material is disposed to the inner surface of the duct, heat from sodium at the circumference is transferred to the sealed gas by radiation by way of the duct, the gas expands sufficiently. Therefore, when the pressure of coolants is lowered and the temperature of coolants is elevated upon occurrence of an accident such as of stoppage of pumps, the liquid level of the coolants in the gas sealed assembly can be lowered reliably. Accordingly, the reactor shut down can be conducted safely. (I.N.)

  17. Fourth Doctoral Student Assembly

    Ingrid Haug

    2016-01-01

    On 10 May, over 130 PhD students and their supervisors, from both CERN and partner universities, gathered for the 4th Doctoral Student Assembly in the Council Chamber.   The assembly was followed by a poster session, at which eighteen doctoral students presented the outcome of their scientific work. The CERN Doctoral Student Programme currently hosts just over 200 students in applied physics, engineering, computing and science communication/education. The programme has been in place since 1985. It enables students to do their research at CERN for a maximum of three years and to work on a PhD thesis, which they defend at their University. The programme is steered by the TSC committee, which holds two selection committees per year, in June and December. The Doctoral Student Assembly was opened by the Director-General, Fabiola Gianotti, who stressed the importance of the programme in the scientific environment at CERN, emphasising that there is no more rewarding activity than lear...

  18. The Cluster Substructure - Alignment Connection

    Plionis, M

    2002-01-01

    Using the APM cluster data we investigate whether the dynamical status of clusters is related to the large-scale structure of the Universe. We find that cluster substructure is strongly correlated with the tendency of clusters to be aligned with their nearest neighbour and in general with the nearby clusters that belong to the same supercluster. Furthermore, dynamically young clusters are more clustered than the overall cluster population. These are strong indications that cluster develop in a hierarchical fashion by anisotropy merging along the large-scale filamentary superclusters within which they are embedded.

  19. Subhalo abundance matching and assembly bias in the EAGLE simulation

    Chaves-Montero, Jonás; Angulo, Raul E.; Schaye, Joop; Schaller, Matthieu; Crain, Robert A.; Furlong, Michelle; Theuns, Tom

    2016-08-01

    Subhalo abundance matching (SHAM) is a widely used method to connect galaxies with dark matter structures in numerical simulations. SHAM predictions agree remarkably well with observations, yet they still lack strong theoretical support. We examine the performance, implementation, and assumptions of SHAM using the `Evolution and Assembly of Galaxies and their Environment' (EAGLE) project simulations. We find that Vrelax, the highest value of the circular velocity attained by a subhalo while it satisfies a relaxation criterion, is the subhalo property that correlates most strongly with galaxy stellar mass (Mstar). Using this parameter in SHAM, we retrieve the real-space clustering of EAGLE to within our statistical uncertainties on scales greater than 2 Mpc for galaxies with 8.77 assembly bias. We demonstrate assembly bias alters the clustering in EAGLE by 20 per cent and Vrelax captures its effect to within 15 per cent. We trace small differences in the clustering to the failure of SHAM as typically implemented, i.e. the Mstar assigned to a subhalo does not depend on (i) its host halo mass, (ii) whether it is a central or a satellite. In EAGLE, we find that these assumptions are not completely satisfied.

  20. On detecting halo assembly bias with galaxy populations

    Lin, Yen-Ting; Mandelbaum, Rachel; Huang, Yun-Hsin; Huang, Hung-Jin; Dalal, Neal; Diemer, Benedikt; Kravtsov, Andrey

    2016-01-01

    The fact that the clustering and concentration of dark matter halos depend not only on their mass, but also the formation epoch, is a prominent, albeit subtle, feature of the cold dark matter structure formation theory, and is known as assembly bias. At low mass scales (~1012 Msun), early-forming halos are predicted to be more strongly clustered than the late-forming ones. In this study we aim to robustly detect the signature of assembly bias observationally, making use of formation time indicators of central galaxies in low mass halos as a proxy for the halo formation history. Weak gravitational lensing is employed to ensure our early- and late-forming halo samples have similar masses, and are free of contamination of satellites from more massive halos. For the two formation time indicators used (resolved star formation history and current specific star formation rate), we do not find convincing evidence of assembly bias. We attribute the lack of detection to the possibility that these indicators do not correlate well with the halo formation history, and suggest alternatives that should perform better for future studies. In addition, we have developed a method to constrain the probability distribution function of halo mass of a given galaxy sample, and also demonstrate that the abundance matching-based halo mass assignments to galaxy groups and clusters may be biased, likely due to interlopers from more massive galactic systems.

  1. Study of pressure losses in the EL 4 cluster

    The evolution of research on the EL-4 cluster is examined here from the pressure losses point of view. These may be split up into separate pressure losses along the rode and in pressure losses corresponding to various particularities of the cluster. Tests have been carried out on series of three or four clusters placed in a channel. Water was first used, and then carbon dioxide at 60 bars. In all cases the following two parameters were varied: the Reynolds' number, and the rotation of a cluster around its axis with respect to the surrounding clusters. The influence of the gap between to successive clusters has also been studied. The first tests were carried out on clusters without jackets, the subsequent ones on clusters fitted with jackets. It was thus possible to study various types of element assemblies. The results are given in the form of curves representing: the evolution of the independent pressure loss coefficients as a function of the Reynolds number. (author)

  2. Supported silver and copper clusters for photocatalysis

    Popok, Vladimir; Barke, Ingo; Neubauer, Antje; Lochbrunner, Stefan; Meiwes-Broer, Karl-Heinz [Institut fuer Physik, Universitaet Rostock, Universitaetsplatz 3, 18051 Rostock (Germany)

    2011-07-01

    Nanometer-sized metal particles deposited onto surfaces are of significant interest for applications in catalysis. In the current study, nanoparticles of silver and copper in the size range from ca. 5 to 18 nm were formed using arc-discharge and magnetron sputtering cluster ion sources and deposited on silica glass substrates. The prepared cluster-assembled samples have been studied in order to increase the efficiency of existing catalytic schemes for hydrogen production, which is of high practical importance. In particular, Ir photosensitizers (PS) in combination with palladium, platinum or iron catalysts are known to be promising systems for reduction of aqueous protons to hydrogen. We deposited the PS on cluster-covered samples and studied their optical properties. It is found that in presence of metal clusters the ligand-centered optical transitions of the PS are significantly increased accompanied by a change of the photoluminescence. These findings indicate considerable effect of the metal nanoparticles on the electronic structure of the PS, a fact that might be of relevance for the improvement of photo-catalytic reactions.

  3. Mixed-Initiative Clustering

    Huang, Yifen

    2010-01-01

    Mixed-initiative clustering is a task where a user and a machine work collaboratively to analyze a large set of documents. We hypothesize that a user and a machine can both learn better clustering models through enriched communication and interactive learning from each other. The first contribution or this thesis is providing a framework of…

  4. Density Adaptive Parallel Clustering

    La Rocca, Marcello

    2014-01-01

    In this paper we are going to introduce a new nearest neighbours based approach to clustering, and compare it with previous solutions; the resulting algorithm, which takes inspiration from both DBscan and minimum spanning tree approaches, is deterministic but proves simpler, faster and doesnt require to set in advance a value for k, the number of clusters.

  5. Star Formation in Clusters

    Larsen, S S

    2004-01-01

    HST is very well tailored for observations of extragalactic star clusters. One obvious reason is HST's high spatial resolution, but equally important is the wavelength range offered by the instruments on board HST, in particular the blue and near-UV coverage which is essential for age-dating young clusters. HST observations have helped establish the ubiquity of young massive clusters (YMCs) in a wide variety of star-forming environments, from dwarf galaxies and spiral disks to nuclear starbursts and mergers. These YMCs have masses and sizes similar to those of old globular clusters (GCs), and the two may be closely related. A large fraction of all stars seem to be born in clusters, but most clusters disrupt rapidly and the stars disperse to become part of the field population. In most cases studied to date the luminosity functions of young cluster systems are well fit by power-laws dN(L)/dL ~ L^-2, and the luminosity of the brightest cluster can (with few exceptions) be predicted from simple sampling statisti...

  6. Coma cluster of galaxies

    1999-01-01

    Atlas Image mosaic, covering 34' x 34' on the sky, of the Coma cluster, aka Abell 1656. This is a particularly rich cluster of individual galaxies (over 1000 members), most prominently the two giant ellipticals, NGC 4874 (right) and NGC 4889 (left). The remaining members are mostly smaller ellipticals, but spiral galaxies are also evident in the 2MASS image. The cluster is seen toward the constellation Coma Berenices, but is actually at a distance of about 100 Mpc (330 million light years, or a redshift of 0.023) from us. At this distance, the cluster is in what is known as the 'Hubble flow,' or the overall expansion of the Universe. As such, astronomers can measure the Hubble Constant, or the universal expansion rate, based on the distance to this cluster. Large, rich clusters, such as Coma, allow astronomers to measure the 'missing mass,' i.e., the matter in the cluster that we cannot see, since it gravitationally influences the motions of the member galaxies within the cluster. The near-infrared maps the overall luminous mass content of the member galaxies, since the light at these wavelengths is dominated by the more numerous older stellar populations. Galaxies, as seen by 2MASS, look fairly smooth and homogeneous, as can be seen from the Hubble 'tuning fork' diagram of near-infrared galaxy morphology. Image mosaic by S. Van Dyk (IPAC).

  7. Computing upper cluster algebras

    Matherne, Jacob; Muller, Greg

    2013-01-01

    This paper develops techniques for producing presentations of upper cluster algebras. These techniques are suited to computer implementation, and will always succeed when the upper cluster algebra is totally coprime and finitely generated. We include several examples of presentations produced by these methods.

  8. Cluster growth kinetics

    Processes of some traffic blocking coming into existence are considered as probabilistic ones. We study analytic solutions for models for the dynamics of both cluster growth and cluster growth with fragmentation in the systems of finite number of objects. Assuming rates constancy of both coalescence and fragmentation, the models under consideration are linear on the probability functions

  9. Clustering Text Data Streams

    Yu-Bao Liu; Jia-Rong Cai; Jian Yin; Ada Wai-Chee Fu

    2008-01-01

    Clustering text data streams is an important issue in data mining community and has a number of applications such as news group filtering, text crawling, document organization and topic detection and tracing etc. However, most methods are similarity-based approaches and only use the TF*IDF scheme to represent the semantics of text data and often lead to poor clustering quality. Recently, researchers argue that semantic smoothing model is more efficient than the existing TF.IDF scheme for improving text clustering quality. However, the existing semantic smoothing model is not suitable for dynamic text data context. In this paper, we extend the semantic smoothing model into text data streams context firstly. Based on the extended model, we then present two online clustering algorithms OCTS and OCTSM for the clustering of massive text data streams. In both algorithms, we also present a new cluster statistics structure named cluster profile which can capture the semantics of text data streams dynamically and at the same time speed up the clustering process. Some efficient implementations for our algorithms are also given. Finally, we present a series of experimental results illustrating the effectiveness of our technique.

  10. Phases of cluster states

    The question of phases and phase transitions of cluster states is reviewed. First some features of the vibron model are recalled, then its extensions are investigated. Preliminary results are also presented from a study on the cluster-shell competition. (authors)

  11. Illinois' Career Cluster Model

    Jankowski, Natasha A.; Kirby, Catherine L.; Bragg, Debra D.; Taylor, Jason L.; Oertle, Kathleen M.

    2009-01-01

    This booklet provides information to multiple stakeholders on the implementation of career clusters in Illinois. The booklet is an extension of the previous edition titled "An Introduction to Illinois CTE Programs of Study" (2008), and provides a resource for partners to understand Illinois' Career Cluster Model as its own adaptation of the…

  12. Calixarene-supported clusters

    Taylor, Stephanie M.; McIntosh, Ruaraidh D.; Piligkos, Stergios; Dalgarno, Scott J.; Brechin, Euan K.

    2012-01-01

    A combination of complementary cluster ligands results in the formation of a new calixarene-supported ferromagnetic [Mn(5)] cage that displays the characteristic bonding modes of each support.......A combination of complementary cluster ligands results in the formation of a new calixarene-supported ferromagnetic [Mn(5)] cage that displays the characteristic bonding modes of each support....

  13. Brightest Cluster Galaxy Identification

    Leisman, Luke; Haarsma, D. B.; Sebald, D. A.; ACCEPT Team

    2011-01-01

    Brightest cluster galaxies (BCGs) play an important role in several fields of astronomical research. The literature includes many different methods and criteria for identifying the BCG in the cluster, such as choosing the brightest galaxy, the galaxy nearest the X-ray peak, or the galaxy with the most extended profile. Here we examine a sample of 75 clusters from the Archive of Chandra Cluster Entropy Profile Tables (ACCEPT) and the Sloan Digital Sky Survey (SDSS), measuring masked magnitudes and profiles for BCG candidates in each cluster. We first identified galaxies by hand; in 15% of clusters at least one team member selected a different galaxy than the others.We also applied 6 other identification methods to the ACCEPT sample; in 30% of clusters at least one of these methods selected a different galaxy than the other methods. We then developed an algorithm that weighs brightness, profile, and proximity to the X-ray peak and centroid. This algorithm incorporates the advantages of by-hand identification (weighing multiple properties) and automated selection (repeatable and consistent). The BCG population chosen by the algorithm is more uniform in its properties than populations selected by other methods, particularly in the relation between absolute magnitude (a proxy for galaxy mass) and average gas temperature (a proxy for cluster mass). This work supported by a Barry M. Goldwater Scholarship and a Sid Jansma Summer Research Fellowship.

  14. Management of cluster headache

    Tfelt-Hansen, Peer C; Jensen, Rigmor H

    2012-01-01

    should be checked with an ECG. At the start of a cluster, transitional preventive treatment such as corticosteroids or greater occipital nerve blockade can be given. In CCH and in long-standing clusters of ECH, lithium, methysergide, topiramate, valproic acid and ergotamine tartrate can be used as add...

  15. Blue emitting undecaplatinum clusters

    Chakraborty, Indranath; Bhuin, Radha Gobinda; Bhat, Shridevi; Pradeep, T.

    2014-07-01

    A blue luminescent 11-atom platinum cluster showing step-like optical features and the absence of plasmon absorption was synthesized. The cluster was purified using high performance liquid chromatography (HPLC). Electrospray ionization (ESI) and matrix assisted laser desorption ionization (MALDI) mass spectrometry (MS) suggest a composition, Pt11(BBS)8, which was confirmed by a range of other experimental tools. The cluster is highly stable and compatible with many organic solvents.A blue luminescent 11-atom platinum cluster showing step-like optical features and the absence of plasmon absorption was synthesized. The cluster was purified using high performance liquid chromatography (HPLC). Electrospray ionization (ESI) and matrix assisted laser desorption ionization (MALDI) mass spectrometry (MS) suggest a composition, Pt11(BBS)8, which was confirmed by a range of other experimental tools. The cluster is highly stable and compatible with many organic solvents. Electronic supplementary information (ESI) available: Details of experimental procedures, instrumentation, chromatogram of the crude cluster; SEM/EDAX, DLS, PXRD, TEM, FT-IR, and XPS of the isolated Pt11 cluster; UV/Vis, MALDI MS and SEM/EDAX of isolated 2 and 3; and 195Pt NMR of the K2PtCl6 standard. See DOI: 10.1039/c4nr02778g

  16. Melting of graphene clusters

    Singh, Sandeep Kumar; Neek-Amal, M.; Peeters, F. M.

    2013-01-01

    Density-functional tight-binding and classical molecular dynamics simulations are used to investigate the structural deformations and melting of planar carbon nano-clusters $C_{N}$ with N=2-55. The minimum energy configurations for different clusters are used as starting configuration for the study of the temperature effects on the bond breaking/rotation in carbon lines (N$

  17. Cold cluster ferromagnetism

    Bertsch, G.F. [Washington Univ., Seattle, WA (United States). Inst. for Nuclear Theory; Yabana, K. [Niigata Univ. (Japan). Dept. of Physics

    1993-12-31

    We examine the magnetic moment distribution of ferromagnetic clusters under conditions where the magnetic moment is aligned with the internal cluster axis. Analytic expressions are obtained for the moment distribution and the adiabatic average moment induced in low fields. The result differs from the low-field Langevin function by a factor 2/3.

  18. Structure and Function of 4-Hydroxyphenylacetate Decarboxylase and Its Cognate Activating Enzyme.

    Selvaraj, Brinda; Buckel, Wolfgang; Golding, Bernard T; Ullmann, G Matthias; Martins, Berta M

    2016-01-01

    4-Hydroxyphenylacetate decarboxylase (4Hpad) is the prototype of a new class of Fe-S cluster-dependent glycyl radical enzymes (Fe-S GREs) acting on aromatic compounds. The two-enzyme component system comprises a decarboxylase responsible for substrate conversion and a dedicated activating enzyme (4Hpad-AE). The decarboxylase uses a glycyl/thiyl radical dyad to convert 4-hydroxyphenylacetate into p-cresol (4-methylphenol) by a biologically unprecedented Kolbe-type decarboxylation. In addition to the radical dyad prosthetic group, the decarboxylase unit contains two [4Fe-4S] clusters coordinated by an extra small subunit of unknown function. 4Hpad-AE reductively cleaves S-adenosylmethionine (SAM or AdoMet) at a site-differentiated [4Fe-4S]2+/+ cluster (RS cluster) generating a transient 5'-deoxyadenosyl radical that produces a stable glycyl radical in the decarboxylase by the abstraction of a hydrogen atom. 4Hpad-AE binds up to two auxiliary [4Fe-4S] clusters coordinated by a ferredoxin-like insert that is C-terminal to the RS cluster-binding motif. The ferredoxin-like domain with its two auxiliary clusters is not vital for SAM-dependent glycyl radical formation in the decarboxylase, but facilitates a longer lifetime for the radical. This review describes the 4Hpad and cognate AE families and focuses on the recent advances and open questions concerning the structure, function and mechanism of this novel Fe-S-dependent class of GREs. PMID:26959876

  19. Orientational nanoparticle assemblies and biosensors.

    Ma, Wei; Xu, Liguang; Wang, Libing; Kuang, Hua; Xu, Chuanlai

    2016-05-15

    Assemblies of nanoparticles (NPs) have regional correlated properties with new features compared to individual NPs or random aggregates. The orientational NP assembly contributes greatly to the collective interaction of individual NPs with geometrical dependence. Therefore, orientational NPs assembly techniques have emerged as promising tools for controlling inorganic NPs spatial structures with enhanced interesting properties. The research fields of orientational NP assembly have developed rapidly with characteristics related to the different methods used, including chemical, physical and biological techniques. The current and potential applications, important challenges remain to be investigated. An overview of recent developments in orientational NPs assemblies, the multiple strategies, biosensors and challenges will be discussed in this review. PMID:26708241

  20. Assembly of transmembrane proteins on oil-water interfaces

    Yunker, Peter; Landry, Corey; Chong, Shaorong; Weitz, David

    2015-03-01

    Transmembrane proteins are difficult to handle by aqueous solution-based biochemical and biophysical approaches, due to the hydrophobicity of transmembrane helices. Detergents can solubilize transmembrane proteins; however, surfactant coated transmembrane proteins are not always functional, and purifying detergent coated proteins in a micellar solution can be difficult. Motivated by this problem, we study the self-assembly of transmembrane proteins on oil-water interfaces. We found that the large water-oil interface of oil drops prevents nascent transmembrane proteins from forming non-functional aggregates. The oil provides a hydrophobic environment for the transmembrane helix, allowing the ectodomain to fold into its natural structure and orientation. Further, modifying the strength or valency of hydrophobic interactions between transmembrane proteins results in the self-assembly of spatially clustered, active proteins on the oil-water interface. Thus, hydrophobic interactions can facilitate, rather than inhibit, the assembly of transmembrane proteins.

  1. Comparing open and closed molecular self-assembly

    Castelnovo, Martin; Foret, Lionel

    2014-01-01

    We study theoretically in the present work the self-assembly of molecules in an open system, which is fed by monomers and depleted in partial or complete clusters. Such a scenario is likely to occur for example in the context of viral self-assembly. We provide a general formula for the mean-field size distribution which is valid both at equilibrium in a closed system, and in the stationary state in an open system. This allows us to explore in a simple way out-of-equilibrium features for self-assembly and compare them to equilibrium properties. In particular, we identify a region of parameter space for which the out-of-equilibrium size distribution in the presence of external fluxes is equal to the equilibrium size distribution in the absence of external fluxes, up to a constant renormalization factor. The range of validity of this result and its consequences are discussed.

  2. Calculation of drop course of control rod assembly in PWR

    The validation of control rod drop performance is an important part of safety analysis of nuclear power plant. Development of computer code for calculating control rod drop course will be useful for validating and improving the design of control rod drive line. Based on structural features of the drive line, the driving force on moving assembly was analyzed and decomposed, the transient value of each component of the driving force was calculated by choosing either theoretical method or numerical method, and the simulation code for calculating rod cluster control assembly (RCCA) drop course by time step increase was achieved. The analysis results of control rod assembly drop course calculated by theoretical model and numerical method were validated by comparing with RCCA drop test data of Qinshan Phase Ⅱ 600 MW PWR. It is shown that the developed RCCA drop course calculation code is suitable for RCCA in PWR and can correctly simulate the drop course and the stress of RCCA. (authors)

  3. THE HST/ACS COMA CLUSTER SURVEY. IV. INTERGALACTIC GLOBULAR CLUSTERS AND THE MASSIVE GLOBULAR CLUSTER SYSTEM AT THE CORE OF THE COMA GALAXY CLUSTER

    Intracluster stellar populations are a natural result of tidal interactions in galaxy clusters. Measuring these populations is difficult, but important for understanding the assembly of the most massive galaxies. The Coma cluster of galaxies is one of the nearest truly massive galaxy clusters and is host to a correspondingly large system of globular clusters (GCs). We use imaging from the HST/ACS Coma Cluster Survey to present the first definitive detection of a large population of intracluster GCs (IGCs) that fills the Coma cluster core and is not associated with individual galaxies. The GC surface density profile around the central massive elliptical galaxy, NGC 4874, is dominated at large radii by a population of IGCs that extend to the limit of our data (R +4000-5000 (systematic) IGCs out to this radius, and that they make up ∼70% of the central GC system, making this the largest GC system in the nearby universe. Even including the GC systems of other cluster galaxies, the IGCs still make up ∼30%-45% of the GCs in the cluster core. Observational limits from previous studies of the intracluster light (ICL) suggest that the IGC population has a high specific frequency. If the IGC population has a specific frequency similar to high-SN dwarf galaxies, then the ICL has a mean surface brightness of μV ∼ 27 mag arcsec-2 and a total stellar mass of roughly 1012 Msun within the cluster core. The ICL makes up approximately half of the stellar luminosity and one-third of the stellar mass of the central (NGC 4874+ICL) system. The color distribution of the IGC population is bimodal, with blue, metal-poor GCs outnumbering red, metal-rich GCs by a ratio of 4:1. The inner GCs associated with NGC 4874 also have a bimodal distribution in color, but with a redder metal-poor population. The fraction of red IGCs (20%), and the red color of those GCs, implies that IGCs can originate from the halos of relatively massive, L* galaxies, and not solely from the disruption of dwarf

  4. Investigation of Cluster and Cluster Queuing System

    Halifu, Saerda

    2008-01-01

    Cluster became main platform as parallel and distributed computing structure for high performance computing. Following the development of high performance computer architecture more and more different branches of natural science benefit fromhuge and efficient computational power. For instance bio-informatics, climate science, computational physics, computational chemistry, marine science, etc. Efficient and reliable computing powermay not only expending demand of existing high performance com...

  5. Job Oriented Monitoring Clusters

    Vijayalaxmi Cigala,

    2011-03-01

    Full Text Available There has been a lot of development in the field of clusters and grids. Recently, the use of clusters has been on rise in every possible field. This paper proposes a system that monitors jobs onlarge computational clusters. Monitoring jobs is essential to understand how jobs are being executed. This helps us in understanding the complete life cycle of the jobs being executed on large clusters. Also, this paper describes how the information obtained by monitoring the jobs would help in increasing the overall throughput of clusters. Heuristics help in efficient job distribution among the computational nodes, thereby accomplishing fair job distribution policy. The proposed system would be capable of loadbalancing among the computational nodes, detecting failures, taking corrective actions after failure detection, job monitoring, system resource monitoring, etc.

  6. Cool Cluster Correctly Correlated

    Sergey Aleksandrovich Varganov

    2005-12-17

    Atomic clusters are unique objects, which occupy an intermediate position between atoms and condensed matter systems. For a long time it was thought that physical and chemical properties of atomic dusters monotonically change with increasing size of the cluster from a single atom to a condensed matter system. However, recently it has become clear that many properties of atomic clusters can change drastically with the size of the clusters. Because physical and chemical properties of clusters can be adjusted simply by changing the cluster's size, different applications of atomic clusters were proposed. One example is the catalytic activity of clusters of specific sizes in different chemical reactions. Another example is a potential application of atomic clusters in microelectronics, where their band gaps can be adjusted by simply changing cluster sizes. In recent years significant advances in experimental techniques allow one to synthesize and study atomic clusters of specified sizes. However, the interpretation of the results is often difficult. The theoretical methods are frequently used to help in interpretation of complex experimental data. Most of the theoretical approaches have been based on empirical or semiempirical methods. These methods allow one to study large and small dusters using the same approximations. However, since empirical and semiempirical methods rely on simple models with many parameters, it is often difficult to estimate the quantitative and even qualitative accuracy of the results. On the other hand, because of significant advances in quantum chemical methods and computer capabilities, it is now possible to do high quality ab-initio calculations not only on systems of few atoms but on clusters of practical interest as well. In addition to accurate results for specific clusters, such methods can be used for benchmarking of different empirical and semiempirical approaches. The atomic clusters studied in this work contain from a few atoms

  7. Pulsars in Globular Clusters

    Camilo, F; Camilo, Fernando; Rasio, Frederic A.

    2005-01-01

    More than 100 radio pulsars have been detected in 24 globular clusters. The largest observed samples are in Terzan 5 and 47 Tucanae, which together contain 45 pulsars. Accurate timing solutions, including positions in the cluster, are known for many of these pulsars. Here we provide an observational overview of some properties of pulsars in globular clusters, as well as properties of the globular clusters with detected pulsars. The many recent detections also provide a new opportunity to re-examine theoretically the formation and evolution of recycled pulsars in globular clusters. Our brief review considers the most important dynamical interaction and binary evolution processes: collisions, exchange interactions, mass transfer, and common-envelope phases.

  8. Cluster ion beam evaporation

    Cluster ions can be made by the supercooling due to adiabatic expansion of substances to be vaporized which are ejected from a nozzle. This paper is described on the recent progress of studies concerning the cluster beam. The technique of cluster ion beam has been applied for the studies of thermonuclear plasma, the fabrication of thin films, crystal growth and electronic devices. The density of cluster ion beam is larger than that of atomic ion beam, and the formation of thin films can be easily done in high vacuum. This method is also useful for epitaxial growth. Metallic vapour cluster beam was made by the help of jetting rare gas beam. Various beam sources were developed. The characteristics of these sources were measured and analyzed. (Kato, T.)

  9. On TPC cluster reconstruction

    Dydak, F; Nefedov, Y; Wotschack, J; Zhemchugov, A

    2004-01-01

    For a bias-free momentum measurement of TPC tracks, the correct determination of cluster positions is mandatory. We argue in particular that (i) the reconstruction of the entire longitudinal signal shape in view of longitudinal diffusion, electronic pulse shaping, and track inclination is important both for the polar angle reconstruction and for optimum r phi resolution; and that (ii) self-crosstalk of pad signals calls for special measures for the reconstruction of the z coordinate. The problem of 'shadow clusters' is resolved. Algorithms are presented for accepting clusters as 'good' clusters, and for the reconstruction of the r phi and z cluster coordinates, including provisions for 'bad' pads and pads next to sector boundaries, respectively.

  10. Mathematical classification and clustering

    Mirkin, Boris

    1996-01-01

    I am very happy to have this opportunity to present the work of Boris Mirkin, a distinguished Russian scholar in the areas of data analysis and decision making methodologies. The monograph is devoted entirely to clustering, a discipline dispersed through many theoretical and application areas, from mathematical statistics and combina­ torial optimization to biology, sociology and organizational structures. It compiles an immense amount of research done to date, including many original Russian de­ velopments never presented to the international community before (for instance, cluster-by-cluster versions of the K-Means method in Chapter 4 or uniform par­ titioning in Chapter 5). The author's approach, approximation clustering, allows him both to systematize a great part of the discipline and to develop many in­ novative methods in the framework of optimization problems. The optimization methods considered are proved to be meaningful in the contexts of data analysis and clustering. The material presented in ...

  11. Bayesian History Reconstruction of Complex Human Gene Clusters on a Phylogeny

    Vinař, Tomáš; Song, Giltae; Siepel, Adam

    2009-01-01

    Clusters of genes that have evolved by repeated segmental duplication present difficult challenges throughout genomic analysis, from sequence assembly to functional analysis. Improved understanding of these clusters is of utmost importance, since they have been shown to be the source of evolutionary innovation, and have been linked to multiple diseases, including HIV and a variety of cancers. Previously, Zhang et al. (2008) developed an algorithm for reconstructing parsimonious evolutionary histories of such gene clusters, using only human genomic sequence data. In this paper, we propose a probabilistic model for the evolution of gene clusters on a phylogeny, and an MCMC algorithm for reconstruction of duplication histories from genomic sequences in multiple species. Several projects are underway to obtain high quality BAC-based assemblies of duplicated clusters in multiple species, and we anticipate that our method will be useful in analyzing these valuable new data sets.

  12. Improved Suffix Tree Clustering for Efficient Document Clustering

    Sonia Bansal; Niranjan Kumar

    2010-01-01

    Document clustering is a technology that puts pages into groups and is useful for categorizing, organizing, and refining search results. When clustering using only documents, Suffix Tree Clustering (STC) outperforms other clustering algorithms by making use of phrases and allowing clusters to overlap. STC is a linear time clustering which is based on identifying phrases that are common to groups of documents. STC treats a document as a string, making use of proximity information between words...

  13. Document clustering methods, document cluster label disambiguation methods, document clustering apparatuses, and articles of manufacture

    Sanfilippo, Antonio; Calapristi, Augustin J.; Crow, Vernon L.; Hetzler, Elizabeth G.; Turner, Alan E.

    2009-12-22

    Document clustering methods, document cluster label disambiguation methods, document clustering apparatuses, and articles of manufacture are described. In one aspect, a document clustering method includes providing a document set comprising a plurality of documents, providing a cluster comprising a subset of the documents of the document set, using a plurality of terms of the documents, providing a cluster label indicative of subject matter content of the documents of the cluster, wherein the cluster label comprises a plurality of word senses, and selecting one of the word senses of the cluster label.

  14. The physics and modes of star cluster formation: simulations

    Clarke, Cathie

    2009-01-01

    We review progress in numerical simulations of star cluster formation. These simulations involve the bottom-up assembly of clusters through hierarchical mergers, which produces a fractal stellar distribution at young (~0.5 Myr) ages. The resulting clusters are predicted to be mildly aspherical and highly mass-segregated, except in the immediate aftermath of mergers. The upper initial mass function within individual clusters is generally somewhat flatter than for the aggregate population. Recent work has begun to clarify the factors that control the mean stellar mass in a star-forming cloud and also the efficiency of star formation. The former is sensitive to the thermal properties of the gas while the latter depends both on the magnetic field and the initial degree of gravitational boundedness of the natal cloud. Unmagnetized clouds that are initially bound undergo rapid collapse, which is difficult to reverse by ionization feedback or stellar winds.

  15. Plant mitochondrial Complex I composition and assembly: A review.

    Subrahmanian, Nitya; Remacle, Claire; Hamel, Patrice Paul

    2016-07-01

    In the mitochondrial inner membrane, oxidative phosphorylation generates ATP via the operation of several multimeric enzymes. The proton-pumping Complex I (NADH:ubiquinone oxidoreductase) is the first and most complicated enzyme required in this process. Complex I is an L-shaped enzyme consisting of more than 40 subunits, one FMN molecule and eight Fe-S clusters. In recent years, genetic and proteomic analyses of Complex I mutants in various model systems, including plants, have provided valuable insights into the assembly of this multimeric enzyme. Assisted by a number of key players, referred to as "assembly factors", the assembly of Complex I takes place in a sequential and modular manner. Although a number of factors have been identified, their precise function in mediating Complex I assembly still remains to be elucidated. This review summarizes our current knowledge of plant Complex I composition and assembly derived from studies in plant model systems such as Arabidopsis thaliana and Chlamydomonas reinhardtii. Plant Complex I is highly conserved and comprises a significant number of subunits also present in mammalian and fungal Complexes I. Plant Complex I also contains additional subunits absent from the mammalian and fungal counterpart, whose function in enzyme activity and assembly is not clearly understood. While 14 assembly factors have been identified for human Complex I, only two proteins, namely GLDH and INDH, have been established as bona fide assembly factors for plant Complex I. This article is part of a Special Issue entitled Respiratory complex I, edited by Volker Zickermann and Ulrich Brandt. PMID:26801215

  16. Self-assembly of cyclo-diphenylalanine peptides in vacuum.

    Jeon, Joohyun; Shell, M Scott

    2014-06-19

    The diphenylalanine (FF) peptide self-assembles into a variety of nanostructures, including hollow nanotubes that form in aqueous solution with an unusually high degree of hydrophilic surface area. In contrast, diphenylalanine can also be vapor-deposited in vacuum to produce rodlike assemblies that are extremely hydrophobic; in this process FF has been found to dehydrate and cyclize to cyclo-diphenylalanine (cyclo-FF). An earlier study used all-atom molecular dynamics (MD) simulations to understand the early stages of the self-assembly of linear-FF peptides in solution. Here, we examine the self-assembly of cyclo-FF peptides in vacuum and compare it to these previous results to understand the differences underlying the two cases. Using all-atom replica exchange MD simulations, we consider systems of 50 cyclo-FF peptides and examine free energies along various structural association coordinates. We find that cyclo-FF peptides form ladder-like structures connected by double hydrogen bonds, and that multiple such ladders linearly align in a cooperative manner to form larger-scale, elongated assemblies. Unlike linear-FFs which mainly assemble through the interplay between hydrophobic and hydrophilic interactions, the assembly of cyclo-FFs in vacuum is primarily driven by electrostatic interactions along the backbone that induce alignment at long-range, followed by van der Waals interactions between side chains that become important for close-range packing. While both solution and vacuum phase driving forces result in ladder-like structures, the clustering of ladders is opposite: linear-FF peptide ladders form assemblies with side-chains buried inward, while cyclo-FF ladders point outward. PMID:24877752

  17. Red sequence modal colour gradients across intermediate X-ray luminosity galaxy clusters

    Jensen, Peter C

    2012-01-01

    [Abridged] We assemble a sample of 45 intermediate X-ray luminosity galaxy clusters at low redshifts using SDSS data to conduct a comprehensive investigation into the photometric variation of red sequence modal galaxy colours with environment. The clusters span a range of Bautz-Morgan types and evolutionary stages and are representative of the global underlying intermediate L_X cluster sample. We define cluster membership using SDSS spectroscopic data and characterize the clusters by deriving new recession velocities, velocity dispersions and other parameters for each. We construct colour-magnitude diagrams for each of these clusters and obtain the position of the red sequence using a robust line fitting algorithm with a Lorentzian merit function. In doing so, we describe a population of discordant points on the colour-magnitude plane which are the result of photometric blending, dust and other causes. By fitting the clusters with Schechter functions to derive M* values in each SDSS passband, we combine the r...

  18. Self-assembly and flux closure studies of magnetic nanoparticle rings

    Wei, Alexander; Kasama, Takeshi; Dunin-Borkowski, Rafal E.

    2011-01-01

    Thermoremanent magnetic nanoparticles (MNPs) can self-assemble into rings through dipolar interactions, when dispersed under appropriate conditions. Analysis of individual MNP rings and clusters by off-axis electron holography reveals bistable flux closure (FC) states at ambient temperatures, and...... their reversible switching by magnetic field gradients. We introduce a line-bond formalism to describe the coupling between MNPs.......Thermoremanent magnetic nanoparticles (MNPs) can self-assemble into rings through dipolar interactions, when dispersed under appropriate conditions. Analysis of individual MNP rings and clusters by off-axis electron holography reveals bistable flux closure (FC) states at ambient temperatures, and...

  19. Textile Industrial Clusters in China

    2010-01-01

    "National Textile Industry Cluster Development Seminar" convened, held by China National Textile and Apparel Council, 23 cities and towns were awarded as China’s Textile Industry Cluster Pilot District. By far, China’s textile industrial clusters have grown

  20. Spanning Tree Based Attribute Clustering

    Zeng, Yifeng; Jorge, Cordero Hernandez

    2009-01-01

    inconsistent edges from a maximum spanning tree by starting appropriate initial modes, therefore generating stable clusters. It discovers sound clusters through simple graph operations and achieves significant computational savings. We compare the Star Discovery algorithm against earlier attribute clustering...

  1. Effect of self-assembly of fullerene nano-particles on lipid membrane.

    Saiqun Zhang

    Full Text Available Carbon nanoparticles can penetrate the cell membrane and cause cytotoxicity. The diffusion feature and translocation free energy of fullerene through lipid membranes is well reported. However, the knowledge on self-assembly of fullerenes and resulting effects on lipid membrane is poorly addressed. In this work, the self-assembly of fullerene nanoparticles and the resulting influence on the dioleoylphosphtidylcholine (DOPC model membrane were studied by using all-atom molecular dynamics simulations with explicit solvents. Our simulation results confirm that gathered small fullerene cluster can invade lipid membrane. Simulations show two pathways: 1 assembly process is completely finished before penetration; 2 assembly process coincides with penetration. Simulation results also demonstrate that in the membrane interior, fullerene clusters tend to stay at the position which is 1.0 nm away from the membrane center. In addition, the diverse microscopic stacking mode (i.e., equilateral triangle, tetrahedral pentahedral, trigonal bipyramid and octahedron of these small fullerene clusters are well characterized. Thus our simulations provide a detailed high-resolution characterization of the microscopic structures of the small fullerene clusters. Further, we found the gathered small fullerene clusters have significant adverse disturbances to the local structure of the membrane, but no great influence on the global integrity of the lipid membrane, which suggests the prerequisite of high-content fullerene for cytotoxicity.

  2. Software-Defined Cluster

    聂华; 杨晓君; 刘淘英

    2015-01-01

    The cluster architecture has played an important role in high-end computing for the past 20 years. With the advent of Internet services, big data, and cloud computing, traditional clusters face three challenges: 1) providing flexible system balance among computing, memory, and I/O capabilities;2) reducing resource pooling overheads;and 3) addressing low performance-power efficiency. This position paper proposes a software-defined cluster (SDC) architecture to deal with these challenges. The SDC architecture inherits two features of traditional cluster: its architecture is multicomputer and it has loosely-coupled interconnect. SDC provides two new mechanisms: global I/O space (GIO) and hardware-supported native access (HNA) to remote devices. Application software can define a virtual cluster best suited to its needs from resources pools provided by a physical cluster, and traditional cluster ecosystems need no modification. We also discuss a prototype design and implementation of a 32-processor cloud server utilizing the SDC architecture.

  3. Cluster knockout reactions

    Arun K Jain; B N Joshi

    2014-04-01

    Cluster knockout reactions are expected to reveal the amount of clustering (such as that of , d and even of heavier clusters such as 12C, 16O etc.) in the target nucleus. In simple terms, incident medium high-energy nuclear projectile interacts strongly with the cluster (present in the target nucleus) as if it were existing as a free entity. Theoretically, the relatively softer interactions of the two outgoing particles with the residual nucleus lead to optical distortions and are treated in terms of distorted wave (DW) formalism. The long-range projectile–cluster interaction is accounted for, in terms of the finite range (FR) direct reaction formalism, as against the more commonly adopted zero-range (ZR) distorted wave impulse approximation (DWIA) formalism. Comparison of the DWIA calculations with the observed data provide information about the momentum distribution and the clustering spectroscopic factor of the target nucleus. Interesting results and some recent advancements in the area of (, 2) reactions and heavy cluster knockout reactions are discussed. Importance of the finite-range vertex and the final-state interactions are brought out.

  4. Multivalent Protein Assembly Using Monovalent Self-Assembling Building Blocks

    Katja Petkau-Milroy

    2013-10-01

    Full Text Available Discotic molecules, which self-assemble in water into columnar supramolecular polymers, emerged as an alternative platform for the organization of proteins. Here, a monovalent discotic decorated with one single biotin was synthesized to study the self-assembling multivalency of this system in regard to streptavidin. Next to tetravalent streptavidin, monovalent streptavidin was used to study the protein assembly along the supramolecular polymer in detail without the interference of cross-linking. Upon self-assembly of the monovalent biotinylated discotics, multivalent proteins can be assembled along the supramolecular polymer. The concentration of discotics, which influences the length of the final polymers at the same time dictates the amount of assembled proteins.

  5. Robotic Thumb Assembly

    Ihrke, Chris A. (Inventor); Bridgwater, Lyndon (Inventor); Platt, Robert (Inventor); Wampler, II, Charles W. (Inventor); Goza, S. Michael (Inventor)

    2013-01-01

    An improved robotic thumb for a robotic hand assembly is provided. According to one aspect of the disclosure, improved tendon routing in the robotic thumb provides control of four degrees of freedom with only five tendons. According to another aspect of the disclosure, one of the five degrees of freedom of a human thumb is replaced in the robotic thumb with a permanent twist in the shape of a phalange. According to yet another aspect of the disclosure, a position sensor includes a magnet having two portions shaped as circle segments with different center points. The magnet provides a linearized output from a Hall effect sensor.

  6. FORTRAN and ASSEMBLER programs

    A collection of programs written in FORTRAN and ASSEMBLER programming languages used in DOS-IBM is presented. The problems solved are of different sorts: linear programming, integration, matrix calculus, computation of absorbed doses in teletherapy, data sets (files) on magnetic tapes and disks, completion of DOS operating system etc. For reasons of space no details are given on the numerical methods or supplements and devices developed in order to achieve superior programs as to computation time and accuracy of result, although these might have been of use. All the programs in the collection have been checked up on an IBM 370/135 computer. (author)

  7. Nuclear fuel assembly

    Purpose: To obtain a nuclear fuel assembly having a function of eliminating corrosion products exfoliating from the surface of a fuel can, thereby reduce the radioactive crud in primary sodium coolant during operation of a FBR type reactor. Constitution: Nickel plates or grids made of metal plate with a nickel coated on the surface thereof are inserted in the upper blanket of a nuclear fuel element and between nuclear fuel element corresponding to the gas plenum. The nickel becomes helpful at high temperature in adsorbing Mn-54 which accounts for a major portion of the corrosion products. (J.P.N.)

  8. Motile Microbots from Dynamically Interacting and Self-Reconfiguring Assemblies of Metallo-Dielectric Janus Microcubes

    Han, Koohee; Shields, C. Wyatt, IV; Bharti, Bhuvnesh; Lopez, Gabriel P.; Velev, Orlin D.

    A new class of dynamically and reversibly reconfigurable active matter made by magnetic assembly and actuation of metallo-dielectric microcubes will be presented. We describe how magnetically responsive Janus microcubes can be assembled hierarchically into dynamically reconfiguring microclusters. Ferromagnetic cobalt patches of the cubes act as assembly directors. The residual magnetic polarization of the metal-coated facets leads to directional dipole-dipole and field-dipole interactions and reconfiguration of the neighboring cubic particles, which is directed by the conformational restrictions. Dynamic reconfiguration of assembled clusters can be achieved by on-demand switching between the dipole-field interaction and the residual dipole-dipole interaction when the field is turned on and off. We show how pre-assembled Janus microcube clusters can be directionally motile in non-Newtonian fluids by applying asymmetric magnetic fields. The modulation of the viscosity of non-Newtonian fluids upon varying the shear rate allowed demonstrating directional motion, resulting from time-asymmetric stroke patterns (e.g., rapid opening and slow closing). These motile clusters can serve as early prototypes of self-propelling microswimmers capable of in-situ assembly. NSF Grant #DMR-1121107.

  9. Introduction to cluster dynamics

    Reinhard, Paul-Gerhard

    2008-01-01

    Clusters as mesoscopic particles represent an intermediate state of matter between single atoms and solid material. The tendency to miniaturise technical objects requires knowledge about systems which contain a ""small"" number of atoms or molecules only. This is all the more true for dynamical aspects, particularly in relation to the qick development of laser technology and femtosecond spectroscopy. Here, for the first time is a highly qualitative introduction to cluster physics. With its emphasis on cluster dynamics, this will be vital to everyone involved in this interdisciplinary subje

  10. Raspberry Pi super cluster

    Dennis, Andrew K

    2013-01-01

    This book follows a step-by-step, tutorial-based approach which will teach you how to develop your own super cluster using Raspberry Pi computers quickly and efficiently.Raspberry Pi Super Cluster is an introductory guide for those interested in experimenting with parallel computing at home. Aimed at Raspberry Pi enthusiasts, this book is a primer for getting your first cluster up and running.Basic knowledge of C or Java would be helpful but no prior knowledge of parallel computing is necessary.

  11. Partially supervised speaker clustering.

    Tang, Hao; Chu, Stephen Mingyu; Hasegawa-Johnson, Mark; Huang, Thomas S

    2012-05-01

    Content-based multimedia indexing, retrieval, and processing as well as multimedia databases demand the structuring of the media content (image, audio, video, text, etc.), one significant goal being to associate the identity of the content to the individual segments of the signals. In this paper, we specifically address the problem of speaker clustering, the task of assigning every speech utterance in an audio stream to its speaker. We offer a complete treatment to the idea of partially supervised speaker clustering, which refers to the use of our prior knowledge of speakers in general to assist the unsupervised speaker clustering process. By means of an independent training data set, we encode the prior knowledge at the various stages of the speaker clustering pipeline via 1) learning a speaker-discriminative acoustic feature transformation, 2) learning a universal speaker prior model, and 3) learning a discriminative speaker subspace, or equivalently, a speaker-discriminative distance metric. We study the directional scattering property of the Gaussian mixture model (GMM) mean supervector representation of utterances in the high-dimensional space, and advocate exploiting this property by using the cosine distance metric instead of the euclidean distance metric for speaker clustering in the GMM mean supervector space. We propose to perform discriminant analysis based on the cosine distance metric, which leads to a novel distance metric learning algorithm—linear spherical discriminant analysis (LSDA). We show that the proposed LSDA formulation can be systematically solved within the elegant graph embedding general dimensionality reduction framework. Our speaker clustering experiments on the GALE database clearly indicate that 1) our speaker clustering methods based on the GMM mean supervector representation and vector-based distance metrics outperform traditional speaker clustering methods based on the “bag of acoustic features” representation and statistical

  12. Dwarfs in Coma Cluster

    2007-01-01

    [figure removed for brevity, see original site] Click on image for larger poster version This false-color mosaic of the central region of the Coma cluster combines infrared and visible-light images to reveal thousands of faint objects (green). Follow-up observations showed that many of these objects, which appear here as faint green smudges, are dwarf galaxies belonging to the cluster. Two large elliptical galaxies, NGC 4889 and NGC 4874, dominate the cluster's center. The mosaic combines visible-light data from the Sloan Digital Sky Survey (color coded blue) with long- and short-wavelength infrared views (red and green, respectively) from NASA's Spitzer Space Telescope.

  13. Clustering in nuclear environment

    The properties of few-body clusters (mass number A ≤ 4) are modified if they are immersed in a nuclear medium. In particular, Pauli blocking that reflects the antisymmetrization of the many-body wave function is responsible for the medium modification of light clusters and the dissolution with increasing density. A more consistent description is given with takes also the contribution of correlations in the continuum into account. The relation between cluster formation in warm dense matter and in nuclear structure is discussed

  14. Parallelized short read assembly of large genomes using de Bruijn graphs

    Liu Yongchao

    2011-08-01

    Full Text Available Abstract Background Next-generation sequencing technologies have given rise to the explosive increase in DNA sequencing throughput, and have promoted the recent development of de novo short read assemblers. However, existing assemblers require high execution times and a large amount of compute resources to assemble large genomes from quantities of short reads. Results We present PASHA, a parallelized short read assembler using de Bruijn graphs, which takes advantage of hybrid computing architectures consisting of both shared-memory multi-core CPUs and distributed-memory compute clusters to gain efficiency and scalability. Evaluation using three small-scale real paired-end datasets shows that PASHA is able to produce more contiguous high-quality assemblies in shorter time compared to three leading assemblers: Velvet, ABySS and SOAPdenovo. PASHA's scalability for large genome datasets is demonstrated with human genome assembly. Compared to ABySS, PASHA achieves competitive assembly quality with faster execution speed on the same compute resources, yielding an NG50 contig size of 503 with the longest correct contig size of 18,252, and an NG50 scaffold size of 2,294. Moreover, the human assembly is completed in about 21 hours with only modest compute resources. Conclusions Developing parallel assemblers for large genomes has been garnering significant research efforts due to the explosive size growth of high-throughput short read datasets. By employing hybrid parallelism consisting of multi-threading on multi-core CPUs and message passing on compute clusters, PASHA is able to assemble the human genome with high quality and in reasonable time using modest compute resources.

  15. A Deep Look at the Fornax Cluster

    Kohler, Susanna

    2016-04-01

    Traditionally, dense cluster centers are cannibalistic environments, with larger galaxies stripping stars from smaller interlopers in minor mergers and dynamical harassment. A recent survey of the Fornax cluster, one example of such an environment, reveals how this cluster may have been built.Clues in HalosContext for the southern constellation Fornax (the furnace). The Fornax cluster is marked with a red circle. [ESO, IAU and Sky Telescope]Deep surveys of dense cluster environments are necessary because the imprint of mass assembly is hidden in galactic halos, the faint outer regions of galaxies. Deep observations can reveal answers to questions about how the galaxies in these extreme environments formed and evolved for instance, did the majority of the galaxies stars form in situ, or were they accreted from interactions with other galaxies?The Fornax Deep Survey (FDS) is just such a campaign. FDS uses the European Southern Observatorys VLT Survey Telescope to obtain deep photometry of the entire 26 square degrees of the Fornax cluster, a spectacular galaxy cluster located 65 million light-years away.Central ObservationsThe FDS team plans to release the full results from the survey soon. For now, in an initial study led by Enrichetta Iodice (INAFs Astronomical Observatory of Capodimonte, Italy), the team presents their first findings from the two square degrees around NGC 1399, a supergiant elliptical galaxy in the cluster center.The two main results from this study are:The discovery of a faint stellar bridge between NGC 1399 and a nearby galaxy, NGC 1387.The characterization of NGC 1399s light profile, which shows that the galaxy consists of two main components separated by a strong break. The bright central galaxy is likely composed of stars that formed in situ, whereas the exponential outer component is a stellar halo composed of stars likely captured from accretion events.What do these points tell us about the history of the center of the Fornax cluster? These

  16. Nanodroplet cluster formation in ionic liquid microemulsions.

    Gao, Yanan; Voigt, Andreas; Hilfert, Liane; Sundmacher, Kai

    2008-08-01

    A common ionic liquid (IL), 1-butyl-3-methylimidazolium tetrafluoroborate (bmimBF(4)), is used as polar solvent to induce the formation of a reverse bmimBF(4)-in-toluene IL microemulsion with the aid of the nonionic surfactant Triton X-100. The swelling process of the microemulsion droplets by increasing bmimBF(4) content is detected by dynamic light scattering (DLS), conductivity, UV/Vis spectroscopy, and freeze-fracture transmission electron microscopy (FF-TEM). The results show that the microemulsion droplets initially formed are enlarged by the addition of bmimBF(4). However, successive addition of bmimBF(4) lead to the appearance of large-sized microemulsion droplet clusters (200-400 nm). NMR spectroscopic analysis reveal that the special structures and properties of bmimBF(4) and Triton X-100 together with the polar nature of toluene contribute to the formation of such self-assemblies. These unique self-assembled structures of IL-based microemulsion droplet clusters may have some unusual and unique properties with a number of interesting possibilities for potential applications. PMID:18576451

  17. Phylogenetic comparative assembly

    Husemann Peter

    2010-01-01

    Full Text Available Abstract Background Recent high throughput sequencing technologies are capable of generating a huge amount of data for bacterial genome sequencing projects. Although current sequence assemblers successfully merge the overlapping reads, often several contigs remain which cannot be assembled any further. It is still costly and time consuming to close all the gaps in order to acquire the whole genomic sequence. Results Here we propose an algorithm that takes several related genomes and their phylogenetic relationships into account to create a graph that contains the likelihood for each pair of contigs to be adjacent. Subsequently, this graph can be used to compute a layout graph that shows the most promising contig adjacencies in order to aid biologists in finishing the complete genomic sequence. The layout graph shows unique contig orderings where possible, and the best alternatives where necessary. Conclusions Our new algorithm for contig ordering uses sequence similarity as well as phylogenetic information to estimate adjacencies of contigs. An evaluation of our implementation shows that it performs better than recent approaches while being much faster at the same time.

  18. ANNUAL GENERAL ASSEMBLY

    2001-01-01

    All members and beneficiaries of the Pension Fund are invited to attend the Annual General Asssembly to be held in the CERN Auditorium on Wednesday 3 October 2001 at 14.30 hrs The Agenda comprises:   Opening Remarks (P. Levaux) Some aspects of risk in a pension fund (C. Cuénoud) Annual Report 2000: Presentation and results (C. Cuénoud) Copies of the Report are available from divisional secretariats. Results of the actuarial reviews (G. Maurin) Questions from members and beneficiaries Persons wishing to ask questions are encouraged to submit them, where possible, in writing in advance, addressed to Mr C. Cuénoud, Administrator of the Fund. Conclusions (P. Levaux) As usual, participants are invited to drinks after the assembly. NB The minutes of the 2000 General Assembly are available from the Administration of the Fund (tel. + 41 22 767 91 94; e-mail Graziella.Praire@cern.ch) The English version will be published next week.

  19. Progress of EMBarrel assembly

    Chalifour, M

    2002-01-01

    The assembly of the sixteen "M" modules into a vertical axis cylinder has been achieved last Friday, completing the first wheel of the Electromagnetic Barrel Calorimeter (see picture). With this, an important milestone in the construction of the ATLAS detector has been reached. Future steps are the rotation of the cylinder axis into horizontal position, in order to integrate the presamplers and heat exchangers by the end of October. The transportation of the wheel and its insertion into the cryostat is the next major milestone, and is planned for the beginning of 2003. The construction of the modules (the so-called "P" modules) of the second wheel is ongoing at Saclay, Annecy and CERN, and will be completed in the coming months. The assembly of the second wheel should start at CERN in February, and its insertion in the cryostat is scheduled for June 2003. This achievement is the result of a successful collaboration of all institutes involved in the construction of the EM Barrel, namely Annecy, Saclay and CE...

  20. Fuel assembly supporting structure

    For use in forming the core of a pressurized-water reactor, a fuel assembly supporting structure for holding a bundle of interspaced fuel rods, is formed by interspaced end pieces having holes in which the end portions of control rod guide tubes are inserted, fuel rod spacer grids being positioned by these guide tubes between the end pieces. The end pieces are fastened to the end portions of the guide tubes, to integrate the supporting structure, and in the case of at least one of the end pieces, this is done by means which releases that end piece from the guide tubes when the end pieces receive an abnormal thrust force directed towards each other and which would otherwise place the guide tubes under a compressive stress that would cause them to buckle. The spacer grids normally hold the fuel rods interspaced by distances determined by nuclear physics, and buckling of the control rod guide tubes can distort the fuel rod spacer grids with consequent dearrangement of the fuel rod interspacing. A sudden loss of pressure in a pressurized-water reactor pressure vessel can result in the pressurized coolant in the vessel discharging from the vessel at such high velocity as to result in the abnormal thrust force on the end pieces of each fuel assembly, which could cause buckling of the control rod guide tubes when the end pieces are fixed to them in the normal rigid and unyielding manner

  1. Comparison three methods of clustering: k-means, spectral clustering and hierarchical clustering

    Kowsari, Kamran

    2013-01-01

    Comparison of three kind of the clustering and find cost function and loss function and calculate them. Error rate of the clustering methods and how to calculate the error percentage always be one on the important factor for evaluating the clustering methods, so this paper introduce one way to calculate the error rate of clustering methods. Clustering algorithms can be divided into several categories including partitioning clustering algorithms, hierarchical algorithms and density based algor...

  2. Ribosome Assembly as Antimicrobial Target.

    Nikolay, Rainer; Schmidt, Sabine; Schlömer, Renate; Deuerling, Elke; Nierhaus, Knud H

    2016-01-01

    Many antibiotics target the ribosome and interfere with its translation cycle. Since translation is the source of all cellular proteins including ribosomal proteins, protein synthesis and ribosome assembly are interdependent. As a consequence, the activity of translation inhibitors might indirectly cause defective ribosome assembly. Due to the difficulty in distinguishing between direct and indirect effects, and because assembly is probably a target in its own right, concepts are needed to identify small molecules that directly inhibit ribosome assembly. Here, we summarize the basic facts of ribosome targeting antibiotics. Furthermore, we present an in vivo screening strategy that focuses on ribosome assembly by a direct fluorescence based read-out that aims to identify and characterize small molecules acting as primary assembly inhibitors. PMID:27240412

  3. A Uniqueness Theorem for Clustering

    Zadeh, Reza Bosagh

    2012-01-01

    Despite the widespread use of Clustering, there is distressingly little general theory of clustering available. Questions like "What distinguishes a clustering of data from other data partitioning?", "Are there any principles governing all clustering paradigms?", "How should a user choose an appropriate clustering algorithm for a particular task?", etc. are almost completely unanswered by the existing body of clustering literature. We consider an axiomatic approach to the theory of Clustering. We adopt the framework of Kleinberg, [Kle03]. By relaxing one of Kleinberg's clustering axioms, we sidestep his impossibility result and arrive at a consistent set of axioms. We suggest to extend these axioms, aiming to provide an axiomatic taxonomy of clustering paradigms. Such a taxonomy should provide users some guidance concerning the choice of the appropriate clustering paradigm for a given task. The main result of this paper is a set of abstract properties that characterize the Single-Linkage clustering function. ...

  4. Modes of clustered star formation

    Pfalzner, S; Olczak, C

    2012-01-01

    The realization that most stars form in clusters, raises the question of whether star/planet formation are influenced by the cluster environment. The stellar density in the most prevalent clusters is the key factor here. Whether dominant modes of clustered star formation exist is a fundamental question. Using near-neighbour searches in young clusters Bressert et al. (2010) claim this not to be the case and conclude that star formation is continuous from isolated to densely clustered. We investigate under which conditions near-neighbour searches can distinguish between different modes of clustered star formation. Near-neighbour searches are performed for model star clusters investigating the influence of the combination of different cluster modes, observational biases, and types of diagnostic and find that the cluster density profile, the relative sample sizes, limitations in observations and the choice of diagnostic method decides whether modelled modes of clustered star formation are detected. For centrally ...

  5. Clustering of Emerging Flux

    Ruzmaikin, A.

    1997-01-01

    Observations show that newly emerging flux tends to appear on the Solar surface at sites where there is flux already. This results in clustering of solar activity. Standard dynamo theories do not predict this effect.

  6. Dynamic Bayesian clustering.

    Fowler, Anna; Menon, Vilas; Heard, Nicholas A

    2013-10-01

    Clusters of time series data may change location and memberships over time; in gene expression data, this occurs as groups of genes or samples respond differently to stimuli or experimental conditions at different times. In order to uncover this underlying temporal structure, we consider dynamic clusters with time-dependent parameters which split and merge over time, enabling cluster memberships to change. These interesting time-dependent structures are useful in understanding the development of organisms or complex organs, and could not be identified using traditional clustering methods. In cell cycle data, these time-dependent structure may provide links between genes and stages of the cell cycle, whilst in developmental data sets they may highlight key developmental transitions. PMID:24131050

  7. Internal Cluster Structure

    Bartelmann, Matthias; Meneghetti, Massimo; Schmidt, Robert

    2013-01-01

    The core structure of galaxy clusters is fundamentally important. Even though self-gravitating systems have no stable equilibrium state due to their negative heat capacity, numerical simulations find density profiles which are universal in the sense that they are fairly flat within a scale radius and gradually steepen farther outward, asymptotically approaching a logarithmic slope of $\\approx-3$ near the virial radius. We argue that the reason for the formation of this profile is not satisfactorily understood. The ratio between the virial radius and the scale radius, the so-called concentration, is found in simulations to be closely related to the mass and the redshift and low for cluster-sized haloes, but observed to be substantially higher at least in a subset of observed clusters. Haloes formed from cold dark matter should furthermore be richly substructured. We review theoretical and observational aspects of cluster cores here, discuss modifications by baryonic physics and observables that can provide bet...

  8. Evolution of clustered storage

    CERN. Geneva; Van de Vyvre, Pierre

    2007-01-01

    The session actually featured two presentations: * Evolution of clustered storage by Lance Hukill, Quantum Corporation * ALICE DAQ - Usage of a Cluster-File System: Quantum StorNext by Pierre Vande Vyvre, CERN-PH the second one prepared at short notice by Pierre (thanks!) to present how the Quantum technologies are being used in the ALICE experiment. The abstract to Mr Hukill's follows. Clustered Storage is a technology that is driven by business and mission applications. The evolution of Clustered Storage solutions starts first at the alignment between End-users needs and Industry trends: * Push-and-Pull between managing for today versus planning for tomorrow * Breaking down the real business problems to the core applications * Commoditization of clients, servers, and target devices * Interchangeability, Interoperability, Remote Access, Centralized control * Oh, and yes, there is a budget and the "real world" to deal with This presentation will talk through these needs and trends, and then ask the question, ...

  9. A revolution in star cluster research: setting the scene

    de Grijs, Richard

    2009-01-01

    Star clusters and their stellar populations play a significant role in the context of galaxy evolution, across space (from local to high redshift) and time (from currently forming to fossil remnants). We are now within reach of answering a number of fundamental questions that will have a significant impact on our understanding of key open issues in contemporary astrophysics, ranging from the formation, assembly and evolution of galaxies to the details of the star-formation process. Our improved understanding of the physics driving star cluster formation and evolution has led to the emergence of crucial new open questions that will most likely be tackled in a systematic way in the next decade.

  10. Formation of Cool Cores in Galaxy Clusters via Hierarchical Mergers

    Motl, P M; Loken, C; Norman, M L; Bryan, G; Motl, Patrick M.; Burns, Jack O.; Loken, Chris; Norman, Michael L.; Bryan, Greg

    2004-01-01

    We present a new scenario for the formation of cool cores in rich galaxy clusters based on results from recent high spatial dynamic range, adaptive mesh Eulerian hydrodynamic simulations of large-scale structure formation. We find that cores of cool gas, material that would be identified as a classical cooling flow based on its X-ray luminosity excess and temperature profile, are built from the accretion of discrete, stable subclusters. Any ``cooling flow'' present is overwhelmed by the velocity field within the cluster - the bulk flow of gas through the cluster typically has speeds up to about 2,000 km s^-1 and significant rotation is frequently present in the cluster core. The inclusion of consistent initial cosmological conditions for the cluster within its surrounding supercluster environment is crucial when simulating the evolution of cool cores in rich galaxy clusters. This new model for the hierarchical assembly of cool gas naturally explains the high frequency of cool cores in rich galaxy clusters des...

  11. Growth of brightest cluster galaxies via mergers since z = 1

    Burke, Claire

    2013-01-01

    Hierarchical assembly within clusters of galaxies is tied directly to the evolution of the Brightest Cluster Galaxies (BCGs), which dominate the stellar light in the centres of rich clusters. In this paper we investigate the number of mergers onto BCGs in 14 X-ray selected clusters over the redshift range 0.8 < z < 1.4 using HST imaging data. We find significant differences in the numbers of companion galaxies to BCGs between the clusters in our sample indicating that BCGs in similar mass clusters can have very different merging histories. Within a 50 kpc radius around the BCGs we find an average of 6.45 \\pm 1.15 companion galaxies with mass ratios (companion:BCG) between 1:1 and 1:20. The infalling companions show a 50/50 split between major (1:1 - 1:2) and minor (1:3 - 1:20) mergers. When compared to similar work using lower redshift clusters, these results demonstrate that both major and minor merging was more common in the past. Since the dynamical timescales for merging onto the BCG are relatively ...

  12. Comparative genomics of chondrichthyan Hoxa clusters

    Zhong Ying-Fu

    2009-09-01

    Full Text Available Abstract Background The chondrichthyan or cartilaginous fish (chimeras, sharks, skates and rays occupy an important phylogenetic position as the sister group to all other jawed vertebrates and as an early lineage to diverge from the vertebrate lineage following two whole genome duplication events in vertebrate evolution. There have been few comparative genomic analyses incorporating data from chondrichthyan fish and none comparing genomic information from within the group. We have sequenced the complete Hoxa cluster of the Little Skate (Leucoraja erinacea and compared to the published Hoxa cluster of the Horn Shark (Heterodontus francisci and to available data from the Elephant Shark (Callorhinchus milii genome project. Results A BAC clone containing the full Little Skate Hoxa cluster was fully sequenced and assembled. Analyses of coding sequences and conserved non-coding elements reveal a strikingly high level of conservation across the cartilaginous fish, with twenty ultraconserved elements (100%,100 bp found between Skate and Horn Shark, compared to three between human and marsupials. We have also identified novel potential non-coding RNAs in the Skate BAC clone, some of which are conserved to other species. Conclusion We find that the Little Skate Hoxa cluster is remarkably similar to the previously published Horn Shark Hoxa cluster with respect to sequence identity, gene size and intergenic distance despite over 180 million years of separation between the two lineages. We suggest that the genomes of cartilaginous fish are more highly conserved than those of tetrapods or teleost fish and so are more likely to have retained ancestral non-coding elements. While useful for isolating homologous DNA, this complicates bioinformatic approaches to identify chondrichthyan-specific non-coding DNA elements

  13. Assembly of diblock copolymer functionalized spherical nanoparticles as a function of copolymer composition

    Estridge, Carla E.; Jayaraman, Arthi

    2014-04-01

    In this work, we use coarse-grained molecular dynamics simulations to study spherical nanoparticles functionalized with AB diblock copolymer chains at low grafting density, to obtain a design library linking copolymer composition, monomer-monomer interaction strengths, graft lengths, particle sizes, and monomer solvent-philicity to the two stages of nanoparticle assembly: the initial formation of patches within the copolymer-grafted particles from attractive monomers aggregating, and then the (equilibrium) assembled cluster formation. With regards to patch formation, as the fraction of the solvent-phobic (A or B) block decreases along the graft and the interaction strength decreases, the propensity to form patches on the particles decreases. As the fraction of the solvent-phobic block increases, the time for patch formation decreases, in particular if the inner A block is solvent-phobic. As the ratio of graft length to particle size increases the propensity to form fewer patches increases due to inter-graft monomer aggregation. For all compositions, the assembled clusters formed in B-selective solvents (solvent-phobic A block) have a higher fraction of particles at smaller inter-particle distances than in A-selective solvents (solvent-phobic B block). In an A-selective solvent at low interaction strengths, as the graft length to particle diameter ratio is increased, the tendency to form isotropic clusters at equilibrium is increased, and intermediate anisotropic chain-like assembly is observed. When these anisotropic intermediate states are observed, they accelerate the formation of equilibrium isotropic clusters. With increasing strength of interaction between solvent-phobic B monomers, the intermediate states disappear from the assembly pathway. At low and intermediate interaction strengths, as fraction of A block increases, the clusters' outer shell of solvent-philic A monomers which surrounds the patch of solvent-phobic B monomers becomes dense, hindering

  14. Reference-assisted chromosome assembly

    Kim, Jaebum; Larkin, Denis M; Cai, Qingle; Asan,; Zhang, Yongfen; Ge, Ri-Li; Auvil, Loretta; Capitanu, Boris; Zhang, Guojie; Lewin, Harris A.; Ma, Jian

    2013-01-01

    One of the most difficult problems in modern genomics is the assembly of full-length chromosomes using next generation sequencing (NGS) data. To address this problem, we developed “reference-assisted chromosome assembly” (RACA), an algorithm to reliably order and orient sequence scaffolds generated by NGS and assemblers into longer chromosomal fragments using comparative genome information and paired-end reads. Evaluation of results using simulated and real genome assemblies indicates that ou...

  15. Self-assembly via microfluidics

    Wang, Lei; Sánchez, Samuel

    2015-01-01

    The self-assembly of amphiphilic building blocks has attracted extensive interest in myriad fields in recent years, due to their great potential in the nanoscale design of functional hybrid materials. Microfluidic techniques provide an intriguing method to control kinetic aspects of the self-assembly of molecular amphiphiles by the facile adjustment of the hydrodynamics of the fluids. Up to now, there have been several reports about one-step direct self-assembly of different building blocks w...

  16. Coded nanoscale self-assembly

    Prathyush Samineni; Debabrata Goswami

    2008-12-01

    We demonstrate coded self-assembly in nanostructures using the code seeded at the component level through computer simulations. Defects or cavities occur in all natural assembly processes including crystallization and our simulations capture this essential aspect under surface minimization constraints for self-assembly. Our bottom-up approach to nanostructures would provide a new dimension towards nanofabrication and better understanding of defects and crystallization process.

  17. Cauchy cluster process

    Ghorbani, Mohammad

    2013-01-01

    In this paper we introduce an instance of the well-know Neyman–Scott cluster process model with clusters having a long tail behaviour. In our model the offspring points are distributed around the parent points according to a circular Cauchy distribution. Using a modified Cramér-von Misses test...... statistic and the simulated pointwise envelopes it is shown that this model fits better than the Thomas process to the frequently analyzed long-leaf pine data-set....

  18. Bayesian Nonparametric Graph Clustering

    Banerjee, Sayantan; Akbani, Rehan; Baladandayuthapani, Veerabhadran

    2015-01-01

    We present clustering methods for multivariate data exploiting the underlying geometry of the graphical structure between variables. As opposed to standard approaches that assume known graph structures, we first estimate the edge structure of the unknown graph using Bayesian neighborhood selection approaches, wherein we account for the uncertainty of graphical structure learning through model-averaged estimates of the suitable parameters. Subsequently, we develop a nonparametric graph cluster...

  19. Finnish Mobile Gaming Cluster

    Masira, Elijah; Chowdhury, Nafis Ahmed

    2014-01-01

    Abstract The Finnish mobile gaming cluster is one of the most promising industries that have been growing significantly in the past few years to become a substantial cultural export product / service of Finland. The main objective of this research was to gain a persuasive understanding about the emergence of the mobile gaming cluster in Finland and explore the factors behind its success. The literature review centers on M. E Porter’s publications on competitiveness and other publication...

  20. Industry clusters and SMEs

    Arnoud Muizer; Gert Jan Hospers

    1999-01-01

    Studie naar de rol van clusters van bedrijven in de economie. Clusters van bedrijven krijgen een groeiende aandacht op alle bestuurlijke niveaus. De achterliggende gedachte is dat samenwerking tussen bedrijven op technologisch gebied leidt tot de creatie van extra toegevoegde waarde, niet alleen voor de samenwerkingspartners zelf, maar ook voor de lokale, regionale en nationale economie. In de studie wordt een clusterdefinitie gepresenteerd en een raamwerk dat als basis kan dienen voor nader ...