878 research outputs found
Measurement of 222Rn dissolved in water at the Sudbury Neutrino Observatory
The technique used at the Sudbury Neutrino Observatory (SNO) to measure the
concentration of 222Rn in water is described. Water from the SNO detector is
passed through a vacuum degasser (in the light water system) or a membrane
contact degasser (in the heavy water system) where dissolved gases, including
radon, are liberated. The degasser is connected to a vacuum system which
collects the radon on a cold trap and removes most other gases, such as water
vapor and nitrogen. After roughly 0.5 tonnes of H2O or 6 tonnes of D2O have
been sampled, the accumulated radon is transferred to a Lucas cell. The cell is
mounted on a photomultiplier tube which detects the alpha particles from the
decay of 222Rn and its daughters. The overall degassing and concentration
efficiency is about 38% and the single-alpha counting efficiency is
approximately 75%. The sensitivity of the radon assay system for D2O is
equivalent to ~3 E(-15) g U/g water. The radon concentration in both the H2O
and D2O is sufficiently low that the rate of background events from U-chain
elements is a small fraction of the interaction rate of solar neutrinos by the
neutral current reaction.Comment: 14 pages, 6 figures; v2 has very minor change
Genetic and biochemical analyses of chromosome and plasmid gene homologues encoding ICL and ArCP domains in Vibrioanguillarum strain 775
Anguibactin, the siderophore produced by Vibrio anguillarum 775 is synthesized from 2,3-dihydroxybenzoic acid (DHBA), cysteine and hydroxyhistamine via a nonribosomal peptide synthetase (NRPS) mechanism. Most of the genes encoding anguibactin biosynthetic proteins are harbored by the pJM1 plasmid. In this work we report the identification of a homologue of the plasmid-encoded angB on the chromosome of strain 775. The product of both genes harbor an isochorismate lyase (ICL) domain that converts isochorismic acid to 2,3-dihydro-2,3-dihydroxybenzoic acid, one of the steps of DHBA synthesis. We show in this work that both ICL domains are functional in the production of DHBA in V. anguillarum as well as in E. coli. Substitution by alanine of the aspartic acid residue in the active site of both ICL domains completely abolishes their isochorismate lyase activity in vivo. The two proteins also carry an aryl carrier protein (ArCP) domain. In contrast with the ICL domains only the plasmid encoded ArCP can participate in anguibactin production as determined by complementation analyses and site-directed mutagenesis in the active site of the plasmid encoded protein, S248A. The site-directed mutants, D37A in the ICL domain and S248A in the ArCP domain of the plasmid encoded AngB were also tested in vitro and clearly show the importance of each residue for the domain function and that each domain operates independently.
How to identify essential genes from molecular networks?
<p>Abstract</p> <p>Background</p> <p>The prediction of essential genes from molecular networks is a way to test the understanding of essentiality in the context of what is known about the network. However, the current knowledge on molecular network structures is incomplete yet, and consequently the strategies aimed to predict essential genes are prone to uncertain predictions. We propose that simultaneously evaluating different network structures and different algorithms representing gene essentiality (centrality measures) may identify essential genes in networks in a reliable fashion.</p> <p>Results</p> <p>By simultaneously analyzing 16 different centrality measures on 18 different reconstructed metabolic networks for <it>Saccharomyces cerevisiae</it>, we show that no single centrality measure identifies essential genes from these networks in a statistically significant way; however, the combination of at least 2 centrality measures achieves a reliable prediction of most but not all of the essential genes. No improvement is achieved in the prediction of essential genes when 3 or 4 centrality measures were combined.</p> <p>Conclusion</p> <p>The method reported here describes a reliable procedure to predict essential genes from molecular networks. Our results show that essential genes may be predicted only by combining centrality measures, revealing the complex nature of the function of essential genes.</p
Intelligent Bayes Classifier (IBC) for ENT infection classification in hospital environment
Electronic Nose based ENT bacteria identification in hospital environment is a classical and challenging problem of classification. In this paper an electronic nose (e-nose), comprising a hybrid array of 12 tin oxide sensors (SnO(2)) and 6 conducting polymer sensors has been used to identify three species of bacteria, Escherichia coli (E. coli), Staphylococcus aureus (S. aureus), and Pseudomonas aeruginosa (P. aeruginosa) responsible for ear nose and throat (ENT) infections when collected as swab sample from infected patients and kept in ISO agar solution in the hospital environment. In the next stage a sub-classification technique has been developed for the classification of two different species of S. aureus, namely Methicillin-Resistant S. aureus (MRSA) and Methicillin Susceptible S. aureus (MSSA). An innovative Intelligent Bayes Classifier (IBC) based on "Baye's theorem" and "maximum probability rule" was developed and investigated for these three main groups of ENT bacteria. Along with the IBC three other supervised classifiers (namely, Multilayer Perceptron (MLP), Probabilistic neural network (PNN), and Radial Basis Function Network (RBFN)) were used to classify the three main bacteria classes. A comparative evaluation of the classifiers was conducted for this application. IBC outperformed MLP, PNN and RBFN. The best results suggest that we are able to identify and classify three bacteria main classes with up to 100% accuracy rate using IBC. We have also achieved 100% classification accuracy for the classification of MRSA and MSSA samples with IBC. We can conclude that this study proves that IBC based e-nose can provide very strong and rapid solution for the identification of ENT infections in hospital environment
Breakup Temperature of Target Spectators in Au + Au Collisions at E/A = 1000 MeV
Breakup temperatures were deduced from double ratios of isotope yields for
target spectators produced in the reaction Au + Au at 1000 MeV per nucleon.
Pairs of He and Li isotopes and pairs of He and H
isotopes (p, d and d, t) yield consistent temperatures after feeding
corrections, based on the quantum statistical model, are applied. The
temperatures rise with decreasing impact parameter from 4 MeV for peripheral to
about 10 MeV for the most central collisions.
The good agreement with the breakup temperatures measured previously for
projectile spectators at an incident energy of 600 MeV per nucleon confirms the
observed universality of the spectator decay at relativistic bombarding
energies. The measured temperatures also agree with the breakup temperatures
predicted by the statistical multifragmentation model. For these calculations a
relation between the initial excitation energy and mass was derived which gives
good simultaneous agreement for the fragment charge correlations.
The energy spectra of light charged particles, measured at =
150, exhibit Maxwellian shapes with inverse slope parameters much
higher than the breakup temperatures. The statistical multifragmentation model,
because Coulomb repulsion and sequential decay processes are included, yields
light-particle spectra with inverse slope parameters higher than the breakup
temperatures but considerably below the measured values. The systematic
behavior of the differences suggests that they are caused by
light-charged-particle emission prior to the final breakup stage.
PACS numbers: 25.70.Mn, 25.70.Pq, 25.75.-qComment: 29 pages, TeX with 11 included figures; Revised version accepted for
publication in Z. Phys. A Two additional figure
Antiferromagnetic spintronics
Antiferromagnetic materials are magnetic inside, however, the direction of
their ordered microscopic moments alternates between individual atomic sites.
The resulting zero net magnetic moment makes magnetism in antiferromagnets
invisible on the outside. It also implies that if information was stored in
antiferromagnetic moments it would be insensitive to disturbing external
magnetic fields, and the antiferromagnetic element would not affect
magnetically its neighbors no matter how densely the elements were arranged in
a device. The intrinsic high frequencies of antiferromagnetic dynamics
represent another property that makes antiferromagnets distinct from
ferromagnets. The outstanding question is how to efficiently manipulate and
detect the magnetic state of an antiferromagnet. In this article we give an
overview of recent works addressing this question. We also review studies
looking at merits of antiferromagnetic spintronics from a more general
perspective of spin-ransport, magnetization dynamics, and materials research,
and give a brief outlook of future research and applications of
antiferromagnetic spintronics.Comment: 13 pages, 7 figure
Characterizing genomic alterations in cancer by complementary functional associations.
Systematic efforts to sequence the cancer genome have identified large numbers of mutations and copy number alterations in human cancers. However, elucidating the functional consequences of these variants, and their interactions to drive or maintain oncogenic states, remains a challenge in cancer research. We developed REVEALER, a computational method that identifies combinations of mutually exclusive genomic alterations correlated with functional phenotypes, such as the activation or gene dependency of oncogenic pathways or sensitivity to a drug treatment. We used REVEALER to uncover complementary genomic alterations associated with the transcriptional activation of β-catenin and NRF2, MEK-inhibitor sensitivity, and KRAS dependency. REVEALER successfully identified both known and new associations, demonstrating the power of combining functional profiles with extensive characterization of genomic alterations in cancer genomes
Constraints on Nucleon Decay via "Invisible" Modes from the Sudbury Neutrino Observatory
Data from the Sudbury Neutrino Observatory have been used to constrain the
lifetime for nucleon decay to ``invisible'' modes, such as n -> 3 nu. The
analysis was based on a search for gamma-rays from the de-excitation of the
residual nucleus that would result from the disappearance of either a proton or
neutron from O16. A limit of tau_inv > 2 x 10^{29} years is obtained at 90%
confidence for either neutron or proton decay modes. This is about an order of
magnitude more stringent than previous constraints on invisible proton decay
modes and 400 times more stringent than similar neutron modes.Comment: Update includes missing efficiency factor (limits change by factor of
2) Submitted to Physical Review Letter
Quantum Gravity in Everyday Life: General Relativity as an Effective Field Theory
This article is meant as a summary and introduction to the ideas of effective
field theory as applied to gravitational systems.
Contents:
1. Introduction
2. Effective Field Theories
3. Low-Energy Quantum Gravity
4. Explicit Quantum Calculations
5. ConclusionsComment: 56 pages, 2 figures, JHEP style, Invited review to appear in Living
Reviews of Relativit
Preventing Bias in Cluster Randomised Trials
Bruno Giraudeau and Philippe Ravaud discuss the difficulties in preventing selection bias and applying intention-to-treat analysis in cluster randomized trials, and propose some solutions
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