Article discussing the bacterial composition of subgingival plaque among diabetic and non-diabetic subjects to determine the effect that diabetes mellitus has on dental health.

Article on nutrient-deprivation autophagy factor-1 (NAF-1) and biochemical properties of a novel cellular target for anti-diabetic drugs.

Article on nutrient-deprivation autophagy factor-1 (NAF-1) and biochemical properties of a novel cellular target for anti-diabetic drugs.

In hierarchical structure formation, merging of galaxies is frequent and known to dramatically affect their properties. To comprehend these interactions high-resolution simulations are indispensable because of the nonlinear coupling between pc and Mpc scales. To this end, we present the first adaptive mesh refinement (AMR) simulation of two merging, low mass, initially gas-rich galaxies (1.8 x 10{sup 10} M{sub {circle_dot}} each), including star formation and feedback. With galaxies resolved by {approx} 2 x 10{sup 7} total computational elements, we achieve unprecedented resolution of the multiphase interstellar medium, finding a widespread starburst in the merging galaxies via shock-induced star formation. The high dynamic range of AMR also allows us to follow the interplay between the galaxies and their embedding medium depicting how galactic outflows and a hot metal-rich halo form. These results demonstrate that AMR provides a powerful tool in understanding interacting galaxies.

This article demonstrates that the relaxation in the sub-radiant system leads to the population of the sub-radiant states by dephasing the super-radiant Dicke states giving rise to the bi-exponential decay in agreement with the experiments.

We have studied the formation and evolution of shock-induced mix resulting from interface features in a divergent cylindrical geometry. In this research a cylindrical core of high-explosive was detonated to create an oblique shock wave and accelerate the interface. The interfaces studied were between the high-explosive/aluminum, aluminum/plastic, and finally plastic/air. Pre-emplaced surface features added to the aluminum were used to modify this interface. Time sequence radiographic imaging quantified the resulting instability formation from the growth phase to over 60 {micro}s post-detonation. Thus allowing the study of the onset of mix and evolution to turbulence. The plastic used here was porous polyethylene. Radiographic image data are compared with numerical simulations of the experiments.

Advanced architectures can deliver dramatically increased throughput for genomics and proteomics applications, reducing time-to-completion in some cases from days to minutes. One such architecture, hybrid-core computing, marries a traditional x86 environment with a reconfigurable coprocessor, based on field programmable gate array (FPGA) technology. In addition to higher throughput, increased performance can fundamentally improve research quality by allowing more accurate, previously impractical approaches. We will discuss the approach used by Convey?s de Bruijn graph constructor for short-read, de-novo assembly. Bioinformatics applications that have random access patterns to large memory spaces, such as graph-based algorithms, experience memory performance limitations on cache-based x86 servers. Convey?s highly parallel memory subsystem allows application-specific logic to simultaneously access 8192 individual words in memory, significantly increasing effective memory bandwidth over cache-based memory systems. Many algorithms, such as Velvet and other de Bruijn graph based, short-read, de-novo assemblers, can greatly benefit from this type of memory architecture. Furthermore, small data type operations (four nucleotides can be represented in two bits) make more efficient use of logic gates than the data types dictated by conventional programming models.JGI is comparing the performance of Convey?s graph constructor and Velvet on both synthetic and real data. We will present preliminary results on …

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We studied the reaction of phenyl radicals (C6H5) with propylene (C3H6) exploiting a high temperature chemical reactor under combustion-like conditions (300 Torr, 1,200-1,500 K). The reaction products were probed in a supersonic beam by utilizing tunable vacuum ultraviolet (VUV) radiation from the Advanced Light Source and recording the photoionization efficiency (PIE) curves at mass-to-charge ratios of m/z = 118 (C9H10+) and m/z = 104 (C8H8+). Our results suggest that the methyl and atomic hydrogen losses are the two major reaction pathways with branching ratios of 86 10 percent and 14 10 percent. The isomer distributions were probed by fitting the recorded PIE curves with a linear combination of the PIE curves of the individual C9H10 and C8H8 isomers. Styrene (C6H5C2H3) was found to be the exclusive product contributing to m/z = 104 (C8H8+), whereas 3-phenylpropene, cis-1-phenylpropene, and 2-phenylpropene with branching ratios of 96 4 percent, 3 3 percent, and 1 1 percent could account for signal at m/z = 118 (C9H10+). Although searched for carefully, no evidence of the bicyclic indane molecule could be provided. The reaction mechanisms and branching ratios are explained in terms of electronic structure calculations nicely agreeing with a recent crossed molecular beam study on this …

Magnetic (Ga{sub x}Fe{sub 1-x}){sub 3}O{sub 4} nanoparticles with 5%-33% gallium doping (x = 0.05-0.33) were measured using x-ray absorption spectroscopy and x-ray magnetic circular dichroism to determine that the Ga dopant is substituting for Fe{sub 3+} as Ga{sub 3+} in the tetrahedral A-site of the spinel structure, resulting in an overall increase in the total moment of the material. Frequency-dependent alternating-current magnetic susceptibility measurements showed these particles to be weakly interacting with a reduction of the cubic anisotropy energy term with Ga concentration. The element-specific dichroism spectra show that the average Fe moment is observed to increase with Ga concentration, a result consistent with the replacement of A-site Fe by Ga.

We discuss a standard model of heavy ion collisions that has emerged both from experimental results of the RHIC program and associated theoretical developments. We comment briefly on the impact of early results of the LHC program on this picture. We consider how this standard model of heavy ion collisions could be solidified or falsified in future experiments at RHIC, the LHC and a future Electro-Ion Collider.

New Abelian vector bosons can kinetically mix with the hypercharge gauge boson of the Standard Model. This letter computes the model independent limits on vector bosons with masses from 1 GeV to 1 TeV. The limits arise from the numerous e{sup +}e{sup -} experiments that have been performed in this energy range and bound the kinetic mixing by {epsilon} {approx}< 0.03 for most of the mass range studied, regardless of any additional interactions that the new vector boson may have.

In the present paper we review recent experimental results from the BABAR experiment concerning the measurement of the CKM angles. A particular highlight is given to the novel independent determination of the angle {alpha} from B{sup 0} {yields} a{sub 1}(1260){sup {+-}}{pi}{sup {-+}} and to the recent full-luminosity updates of several angle {gamma} measurements.

The authors present the detection of volatile organic compounds directly in their vapor phase by surface-enhanced Raman scattering (SERS) substrates based on lithographically-defined two-dimensional rectangular array of nanopillars. The type of nanopillars is known as the tapered pillars. For the tapered pillars, SERS enhancement arises from the nanofocusing effect due to the sharp tip on top. SERS experiments were carried out on these substrates using various concentrations of toluene vapor. The results show that SERS signal from a toluene vapor concentration of ppm level can be achieved, and the toluene vapor can be detected within minutes of exposing the SERS substrate to the vapor. A simple adsorption model is developed which gives results matching the experimental data. The results also show promising potential for the use of these substrates in environmental monitoring of gases and vapors.

There are many simulation codes for accelerator modelling; each one has some strength but not all. A platform which can host multiple modelling tools would be ideal for various purposes. The model platform along with infrastructure support can be used not only for online applications but also for offline purposes. Collaboration is formed for the effort of providing such a platform. In order to achieve such a platform, a set of common physics data structure has to be set. Application Programming Interface (API) for physics applications should also be defined within a model data provider. A preliminary platform design and prototype is discussed.

A new proton synchrotron, the PS2, is under design study to replace the current proton synchrotron at CERN for the LHC upgrade. Nonlinear space charge effects could cause significant beam emittance growth and particle losses and limit the performance of the PS2. In this paper, we report on studies of the potential space-charge effects at the PS2 using three-dimensional self-consistent macroparticle tracking codes, IMPACT, MaryLie/IMPACT, and Synergia. We will present initial benchmark results among these codes. Effects of space-charge on the emittance growth, especially due to synchrotron coupling, aperture sizes, initial painted distribution, and RF ramping scheme will also be discussed.

Synthetic CdZnTe or ''CZT'' crystals are highly suitable for {gamma}-spectrometers operating at the room temperature. Secondary phases (SP) in CZT are known to inhibit detector performance, particularly when they are present in large numbers or dimensions. These SP may exist as voids or composites of non-cubic phase metallic Te layers with bodies of polycrystalline and amorphous CZT material and voids. Defects associated with crystal twining may also influence detector performance in CZT. Using transmission electron microscopy, we identify two types of defects that are on the nano scale. The first defect consists of 40 nm diameter metallic Pd/Te bodies on the grain boundaries of Te-rich composites. Although the nano-Pd/Te bodies around these composites may be unique to the growth source of this CZT material, noble metal impurities like these may contribute to SP formation in CZT. The second defect type consists of atom-scale grain boundary dislocations. Specifically, these involve inclined ''finite-sized'' planar defects or interfaces between layers of atoms that are associated with twins. Finite-sized twins may be responsible for the subtle but observable striations that can be seen with optical birefringence imaging and synchrotron X-ray topographic imaging.

The production of the heavy (c{bar c})-quarkonium, (c{bar b})-quarkonium, and (b{bar b})-quarkonium states [({bar Q}') quarkonium for short], via the W{sup +} semi-inclusive decays, has been systematically studied within the framework of the nonrelativistic QCD. In addition to the two color-singlet S-wave states, we also discuss the production of the four color-singlet P-wave states |(Q{bar Q}')({sup 1}P{sub 1}){sub 1}> and |(Q{bar Q}')({sup 3}P{sub J}){sub 1}> [with J = (0,1,2)] together with the two color-octet components |(Q{bar Q}')({sup 1}S{sub 0}){sub 8}> and |(Q{bar Q}')({sup 3}S{sub 1}){sub 8}>. Improved trace technology is adopted to derive the simplified analytic expressions at the amplitude level, which shall be useful for dealing with the following cascade decay channels. At the LHC with the luminosity L {proportional_to} 10{sup 34} cm{sup -2} s{sup -1} and the center-of-mass energy {radical}S = 14 TeV, sizable heavy-quarkonium events can be produced through the W{sup +} boson decays; i.e., 2.57 x 10{sup 6} {eta}{sub c}, 2.65 x 10{sup 6} J/{Psi}, and 2.40 x 10{sup 6} P-wave charmonium events per year can be obtained, and 1.01 x 10{sup 5} B{sub c}, 9.11 x 10{sup 4} B*{sub c}, and 3.16 x 10{sup 4} P-wave (c{bar b})-quarkonium events per year can be obtained. Main …

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Recent initiatives at UCLA concerning ultra-short, GeV electron beam generation have been aimed at achieving sub-fs pulses capable of driving X-ray free-electron lasers (FELs) in single-spike mode. This use of very low Q beams may allow existing FEL injectors to produce few-100 attosecond pulses, with very high brightness. Towards this end, recent experiments at the LCLS have produced {approx}2 fs, 20 pC electron pulses. We discuss here extensions of this work, in which we seek to exploit the beam brightness in FELs, in tandem with new developments in cryogenic undulator technology, to create compact accelerator-undulator systems that can lase below 0.15 {angstrom}, or be used to permit 1.5 {angstrom} operation at 4.5 GeV. In addition, we are now developing experiments which use the present LCLS fs pulses to excite plasma wakefields exceeding 1 TV/m, permitting a table-top TeV accelerator for frontier high energy physics applications.

A series of forty experiments on the National Ignition Facility (NIF) [E. I. Moses et al., Phys. Plasmas 16, 041006 (2009)] to study energy balance and implosion symmetry in reduced- and full-scale ignition hohlraums was shot at energies up to 1.3 MJ. This paper reports the findings of the analysis of the ensemble of experimental data obtained that has produced an improved model for simulating ignition hohlraums. Last year the first observation in a NIF hohlraum of energy transfer between cones of beams as a function of wavelength shift between those cones was reported [P. Michel, et al, Phys of Plasmas, 17, 056305, (2010)]. Detailed analysis of hohlraum wall emission as measured through the laser entrance hole (LEH) has allowed the amount of energy transferred versus wavelength shift to be quantified. The change in outer beam brightness is found to be quantitatively consistent with LASNEX [G. B. Zimmerman and W. L. Kruer, Comments Plasma Phys. Control. Fusion 2, 51 (1975)] simulations using the predicted energy transfer when possible saturation of the plasma wave mediating the transfer is included. The effect of the predicted energy transfer on implosion symmetry is also found to be in good agreement with gated x-ray framing …

This note provides details of the 5th Extremely Large Databases Conference and Invitational Workshop that were held in 2011 on 18-19 October and 20 October, respectively, at the SLAC National Accelerator Laboratory in Menlo Park, California. The main goals of the conference were: (1) Encourage and accelerate the exchange of ideas between users trying to build extremely large databases worldwide and database solution providers; (2) Share lessons, trends, innovations, and challenges related to building extremely large databases; (3) Facilitate the development and growth of practical technologies for extremely large databases; and (4) Strengthen, expand, and engage the XLDB community.

Versatile Broensted-Evans-Polanyi (BEP) relations are found from density functional theory for a wide range of transition metal oxides including rutiles and perovskites. For oxides, the relation depends on the type of oxide, the active site and the dissociating molecule. The slope of the BEP relation is strongly coupled to the adsorbate geometry in the transition state. If it is final state-like the dissociative chemisorption energy can be considered as a descriptor for the dissociation. If it is initial state-like, on the other hand, the dissociative chemisorption energy is not suitable as descriptor for the dissociation. Dissociation of molecules with strong intramolecular bonds belong to the former and molecules with weak intramolecular bonds to the latter group. We show, for the prototype system La-perovskites, that there is a 'cyclic' behavior in the transition state characteristics upon change of the active transition metal of the oxide.