Prognostic value of troponins in acute coronary syndrome depends upon patient age

Peer reviewedPostprin

Measurement of Cosmic-ray Muons and Muon-induced Neutrons in the Aberdeen Tunnel Underground Laboratory

We have measured the muon flux and production rate of muon-induced neutrons at a depth of 611 m water equivalent. Our apparatus comprises three layers of crossed plastic scintillator hodoscopes for tracking the incident cosmic-ray muons and 760 L of gadolinium-doped liquid scintillator for producing and detecting neutrons. The vertical muon intensity was measured to be $I_{\mu} = (5.7 \pm 0.6) \times 10^{-6}$ cm$^{-2}$s$^{-1}$sr$^{-1}$. The yield of muon-induced neutrons in the liquid scintillator was determined to be $Y_{n} = (1.19 \pm 0.08 (stat) \pm 0.21 (syst)) \times 10^{-4}$ neutrons/($\mu\cdot$g$\cdot$cm$^{-2}$). A fit to the recently measured neutron yields at different depths gave a mean muon energy dependence of $\left\langle E_{\mu} \right\rangle^{0.76 \pm 0.03}$ for liquid-scintillator targets.Comment: 14 pages, 17 figures, 3 table

Coronavirus Genomics and Bioinformatics Analysis

The drastic increase in the number of coronaviruses discovered and coronavirus genomes being sequenced have given us an unprecedented opportunity to perform genomics and bioinformatics analysis on this family of viruses. Coronaviruses possess the largest genomes (26.4 to 31.7 kb) among all known RNA viruses, with G + C contents varying from 32% to 43%. Variable numbers of small ORFs are present between the various conserved genes (ORF1ab, spike, envelope, membrane and nucleocapsid) and downstream to nucleocapsid gene in different coronavirus lineages. Phylogenetically, three genera, Alphacoronavirus, Betacoronavirus and Gammacoronavirus, with Betacoronavirus consisting of subgroups A, B, C and D, exist. A fourth genus, Deltacoronavirus, which includes bulbul coronavirus HKU11, thrush coronavirus HKU12 and munia coronavirus HKU13, is emerging. Molecular clock analysis using various gene loci revealed that the time of most recent common ancestor of human/civet SARS related coronavirus to be 1999–2002, with estimated substitution rate of 4×10−4 to 2×10−2 substitutions per site per year. Recombination in coronaviruses was most notable between different strains of murine hepatitis virus (MHV), between different strains of infectious bronchitis virus, between MHV and bovine coronavirus, between feline coronavirus (FCoV) type I and canine coronavirus generating FCoV type II, and between the three genotypes of human coronavirus HKU1 (HCoV-HKU1). Codon usage bias in coronaviruses were observed, with HCoV-HKU1 showing the most extreme bias, and cytosine deamination and selection of CpG suppressed clones are the two major independent biological forces that shape such codon usage bias in coronaviruses

CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes

The recent SARS epidemic has boosted interest in the discovery of novel human and animal coronaviruses. By July 2007, more than 3000 coronavirus sequence records, including 264 complete genomes, are available in GenBank. The number of coronavirus species with complete genomes available has increased from 9 in 2003 to 25 in 2007, of which six, including coronavirus HKU1, bat SARS coronavirus, group 1 bat coronavirus HKU2, groups 2c and 2d coronaviruses, were sequenced by our laboratory. To overcome the problems we encountered in the existing databases during comparative sequence analysis, we built a comprehensive database, CoVDB (http://covdb.microbiology.hku.hk), of annotated coronavirus genes and genomes. CoVDB provides a convenient platform for rapid and accurate batch sequence retrieval, the cornerstone and bottleneck for comparative gene or genome analysis. Sequences can be directly downloaded from the website in FASTA format. CoVDB also provides detailed annotation of all coronavirus sequences using a standardized nomenclature system, and overcomes the problems of duplicated and identical sequences in other databases. For complete genomes, a single representative sequence for each species is available for comparative analysis such as phylogenetic studies. With the annotated sequences in CoVDB, more specific blast search results can be generated for efficient downstream analysis

Characterization of Toxoplasma gondii isolates in free-range chickens from Chile, South America

The prevalence of Toxoplasma gondii in free-ranging chickens is a good indicator of the prevalence of T. gondii oocysts in the soil because chickens feed from the ground. The prevalence of T. gondii in 85 free-range chickens (Gallus domesticus) from Chile was determined. Antibodies to T. gondii were assayed by the modified agglutination test (MAT), and found in 47 of 85 (55.3.9%) chickens with titers of 1:5 in six, 1:10 in four, 1:20 in four 1: 40 in three, 1: 80 in nine, 1: 160 in four 1:320 in nine, and 1: 640 or higher in eight. Hearts and brains of 47 chickens with titers of 1:5 or higher were pooled for each chicken and bioassayed in mice. Tissues from 16 seronegative (MAT < 1:5) chickens were pooled and fed to one T. gondii-free cat. Feces of the cat were examined for oocysts but none was found based on bioassay of fecal floats in mice. Hearts and brains from seven seronegative (<1:5) were pooled and bioassayed in mice; T. gondii was not isolated. T. gondii was isolated by bioassay in mice from 22 chickens with MAT titers of 1:20 or higher. Genotyping of these 22 isolates using polymorphisms at the loci SAG1, SAG2, SAG3, BTUB and GRA6 revealed three genotypes. Seventeen isolates had type II alleles and four isolates had type III alleles at all loci. One isolate contained the combination of type I and III alleles. This is the first report of genetic characterization of T. gondii isolates from Chile, South America

Novel polarization maintaining actively mode locked fiber ring laser

Abstract: A 10 GHz polarization-maintaining actively mode-locked fiber ring laser was demonstrated. A Fabry Perot laser diode was incorporated into the ring cavity as an all-optical polarizer

Mid Infrared Photometry of Mass-Losing AGB Stars

We present ground-based mid-infrared imaging for 27 M-, S- and C-type Asymptotic Giant Branch (AGB) stars. The data are compared with those of the database available thanks to the IRAS, ISO, MSX and 2MASS catalogues. Our goal is to establish relations between the IR colors, the effective temperature $T_{eff}$, the luminosity $L$ and the mass loss rate $\dot M$, for improving the effectiveness of AGB modelling. Bolometric (absolute) magnitudes are obtained through distance compilations, and by applying previously-derived bolometric corrections; the variability is also studied, using data accumulated since the IRAS epoch. The main results are: i) Values of $L$ and $\dot M$ for C stars fit relations previously established by us, with Miras being on average more evolved and mass losing than Semiregulars. ii) Moderate IR excesses (as compared to evolutionary tracks) are found for S and M stars in our sample: they are confirmed to originate from the dusty circumstellar environment. iii) A larger reddening characterizes C-rich Miras and post-AGBs. In this case, part of the excess is due to AGB models overestimating $T_{eff}$ for C-stars, as a consequence of the lack of suitable molecular opacities. This has a large effect on the colors of C-rich sources and sometimes disentangling the photospheric and circumstellar contributions is difficult; better model atmospheres should be used in stellar evolutionary codes for C stars. iv) The presence of a long-term variability at mid-IR wavelengths seems to be limited to sources with maximum emission in the 8 -- 20 $\mu$m region, usually Mira variables (1/3 of our sample). Most Semiregular and post-AGB stars studied here remained remarkably constant in mid-IR over the last twenty years.Comment: Accepted for publication in the Astronomical Journal - 35 pages (in preprint), 9 figures, 5 table

Kinetic Theory of Flux Line Hydrodynamics:LIQUID Phase with Disorder

We study the Langevin dynamics of flux lines of high--T$_c$ superconductors in the presence of random quenched pinning. The hydrodynamic theory for the densities is derived by starting with the microscopic model for the flux-line liquid. The dynamic functional is expressed as an expansion in the dynamic order parameter and the corresponding response field. We treat the model within the Gaussian approximation and calculate the dynamic structure function in the presence of pinning disorder. The disorder leads to an additive static peak proportional to the disorder strength. On length scales larger than the line static transverse wandering length and at long times, we recover the hydrodynamic results of simple frictional diffusion, with interactions additively renormalizing the relaxational rate. On shorter length and time scales line internal degrees of freedom significantly modify the dynamics by generating wavevector-dependent corrections to the density relaxation rate.Comment: 61 pages and 6 figures available upon request, plain TEX using Harvard macro