rPICARD: A CASA-based Calibration Pipeline for VLBI Data

Currently, HOPS and AIPS are the primary choices for the time-consuming process of (millimeter) Very Long Baseline Interferometry (VLBI) data calibration. However, for a full end-to-end pipeline, they either lack the ability to perform easily scriptable incremental calibration or do not provide full control over the workflow with the ability to manipulate and edit calibration solutions directly. The Common Astronomy Software Application (CASA) offers all these abilities, together with a secure development future and an intuitive Python interface, which is very attractive for young radio astronomers. Inspired by the recent addition of a global fringe-fitter, the capability to convert FITS-IDI files to measurement sets, and amplitude calibration routines based on ANTAB metadata, we have developed the the CASA-based Radboud PIpeline for the Calibration of high Angular Resolution Data (rPICARD). The pipeline will be able to handle data from multiple arrays: EHT, GMVA, VLBA and the EVN in the first release. Polarization and phase-referencing calibration are supported and a spectral line mode will be added in the future. The large bandwidths of future radio observatories ask for a scalable reduction software. Within CASA, a message passing interface (MPI) implementation is used for parallelization, reducing the total time needed for processing. The most significant gain is obtained for the time-consuming fringe-fitting task where each scan be processed in parallel.Comment: 6 pages, 1 figure, EVN 2018 symposium proceeding

Gravitational Waves Probe the Coalescence Rate of Massive Black Hole Binaries

We calculate the expected nHz--$\mu$Hz gravitational wave (GW) spectrum from coalescing Massive Black Hole (MBH) binaries resulting from mergers of their host galaxies. We consider detection of this spectrum by precision pulsar timing and a future Pulsar Timing Array. The spectrum depends on the merger rate of massive galaxies, the demographics of MBHs at low and high redshift, and the dynamics of MBH binaries. We apply recent theoretical and observational work on all of these fronts. The spectrum has a characteristic strain $h_c(f)~10^{-15} (f/yr^{-1})^{-2/3}$, just below the detection limit from recent analysis of precision pulsar timing measurements. However, the amplitude of the spectrum is still very uncertain owing to approximations in the theoretical formulation of the model, to our lack of knowledge of the merger rate and MBH population at high redshift, and to the dynamical problem of removing enough angular momentum from the MBH binary to reach a GW-dominated regime.Comment: 31 Pages, 8 Figures, small changes to match the published versio

Elastic energy of polyhedral bilayer vesicles

In recent experiments [M. Dubois, B. Dem\'e, T. Gulik-Krzywicki, J.-C. Dedieu, C. Vautrin, S. D\'esert, E. Perez, and T. Zemb, Nature (London) Vol. 411, 672 (2001)] the spontaneous formation of hollow bilayer vesicles with polyhedral symmetry has been observed. On the basis of the experimental phenomenology it was suggested [M. Dubois, V. Lizunov, A. Meister, T. Gulik-Krzywicki, J. M. Verbavatz, E. Perez, J. Zimmerberg, and T. Zemb, Proc. Natl. Acad. Sci. U.S.A. Vol. 101, 15082 (2004)] that the mechanism for the formation of bilayer polyhedra is minimization of elastic bending energy. Motivated by these experiments, we study the elastic bending energy of polyhedral bilayer vesicles. In agreement with experiments, and provided that excess amphiphiles exhibiting spontaneous curvature are present in sufficient quantity, we find that polyhedral bilayer vesicles can indeed be energetically favorable compared to spherical bilayer vesicles. Consistent with experimental observations we also find that the bending energy associated with the vertices of bilayer polyhedra can be locally reduced through the formation of pores. However, the stabilization of polyhedral bilayer vesicles over spherical bilayer vesicles relies crucially on molecular segregation of excess amphiphiles along the ridges rather than the vertices of bilayer polyhedra. Furthermore, our analysis implies that, contrary to what has been suggested on the basis of experiments, the icosahedron does not minimize elastic bending energy among arbitrary polyhedral shapes and sizes. Instead, we find that, for large polyhedron sizes, the snub dodecahedron and the snub cube both have lower total bending energies than the icosahedron

HLA gene expression is altered in whole blood and placenta from women who later developed preeclampsia

Preeclampsia is a multi-system disease that significantly contributes to maternal and fetal morbidity and mortality. In this study, we used a non-biased microarray approach to identify dysregulated genes in maternal whole blood samples which may be associated with the development of preeclampsia. Whole blood samples were obtained at 28 weeks of gestation from 5 women who later developed preeclampsia (cases) and 10 matched women with normotensive pregnancies (controls). Placenta samples were obtained from an independent cohort of 19 women with preeclampsia matched with 19 women with normotensive pregnancies. We studied gene expression profiles using Illumina microarray in blood and validated changes in gene expression in whole blood and placenta tissue by qPCR. We found a transcriptional profile differentiating cases from controls; 236 genes were significantly dysregulated in blood from women who developed preeclampsia. Functional annotation of microarray results indicated that most of the genes found to be dysregulated were involved in inflammatory pathways. Whilst general trends were preserved, only HLA-A was validated in whole blood samples from cases using qPCR (2.30 ± 0.9 fold change) whereas in placental tissue HLA-DRB1 expression was found to be significantly increased in samples from women with preeclampsia (5.88 ± 2.24 fold change). We have identified that HLA-A is up-regulated in the circulation of women who went on to develop preeclampsia. In placenta of women with preeclampsia we identified that HLA-DRB1 is up-regulated. Our data provide further evidence for involvement of the HLA gene family in the pathogenesis of preeclampsia

Electric Field Modulation of Galvanomagnetic Properties of Mesoscopic Graphite

Electric field effect devices based on mesoscopic graphite are fabricated for galvanomagnetic measurements. Strong modulation of magneto-resistance and Hall resistance as a function of gate voltage is observed as sample thickness approaches the screening length. Electric field dependent Landau level formation is detected from Shubnikov de Haas oscillations in magneto-resistance. The effective mass of electron and hole carriers has been measured from the temperature dependant behavior of these oscillations.Comment: 4 pages, 4 figures included, submitted to Phys. Rev. Let

Biomarkers of Tuberculosis Severity and Treatment Effect: A Directed Screen of 70 Host Markers in a Randomized Clinical Trial.

More efficacious treatment regimens are needed for tuberculosis, however, drug development is impeded by a lack of reliable biomarkers of disease severity and of treatment effect. We conducted a directed screen of host biomarkers in participants enrolled in a tuberculosis clinical trial to address this need. Serum samples from 319 protocol-correct, culture-confirmed pulmonary tuberculosis patients treated under direct observation as part of an international, phase 2 trial were screened for 70 markers of infection, inflammation, and metabolism. Biomarker assays were specifically developed for this study and quantified using a novel, multiplexed electrochemiluminescence assay. We evaluated the association of biomarkers with baseline characteristics, as well as with detailed microbiologic data, using Bonferroni-adjusted, linear regression models. Across numerous analyses, seven proteins, SAA1, PCT, IL-1β, IL-6, CRP, PTX-3 and MMP-8, showed recurring strong associations with markers of baseline disease severity, smear grade and cavitation; were strongly modulated by tuberculosis treatment; and had responses that were greater for patients who culture-converted at 8weeks. With treatment, all proteins decreased, except for osteocalcin, MCP-1 and MCP-4, which significantly increased. Several previously reported putative tuberculosis-associated biomarkers (HOMX1, neopterin, and cathelicidin) were not significantly associated with treatment response. In conclusion, across a geographically diverse and large population of tuberculosis patients enrolled in a clinical trial, several previously reported putative biomarkers were not significantly associated with treatment response, however, seven proteins had recurring strong associations with baseline radiographic and microbiologic measures of disease severity, as well as with early treatment response, deserving additional study

Results of an aqueous source term model for a radiological risk assessment of the Drigg LLW Site, U.K.

A radionuclide source term model has been developed which simulates the biogeochemical evolution of the Drigg low level waste (LLW) disposal site. The DRINK (DRIgg Near field Kinetic) model provides data regarding radionuclide concentrations in groundwater over a period of 100,000 years, which are used as input to assessment calculations for a groundwater pathway. The DRINK model also provides input to human intrusion and gaseous assessment calculations through simulation of the solid radionuclide inventory. These calculations are being used to support the Drigg post closure safety case. The DRINK model considers the coupled interaction of the effects of fluid flow, microbiology, corrosion, chemical reaction, sorption and radioactive decay. It represents the first direct use of a mechanistic reaction-transport model in risk assessment calculations

The Fall of the Quasar Population

We derive quantitative predictions of the optical and X-ray luminosity functions (LF) for QSs in the redshift range $z<3$. Based on BH paradigm, we investigate how the accretion is controlled by the surrounding structures, as these grow hierarchically. We argue that for $z < 3$ efficient black hole fueling is triggered by the encounters of a gas-rich host with its companions in a group. The dispersion of the dynamical parameters in the encounters produces a double power-law LF. Strong luminosity evolution (LE) is produced as these encounters deplete the gas supply in the host; an additional, milder density evolution obtains since the interactions become progressively rarer as the groups grow richer but less dense. From the agreement with the optical and the X-ray data, we conclude that the evolution of the bright quasars is articulated in two ways. Earlier than $z~3$ the gas-rich protogalaxies grow by merging, which also induces parallel growth of central holes accreting at Eddington rates. In the later era of group assemblage the host encounters with companions drive onto already existing holes further but meager accretion; these consume the gas in the hosts, and cause supply-limited emissions which are intermittent, go progressively sub-Eddington and peter out. Then other fueling processes come to the foreground; we discuss the faint emissions, especially noticeable in X-rays, which are expected when hosts in the field cannibalize satellite galaxies with their meager gas contents.Comment: 12 pages Latex + 3 EPS figures, ApJ in press, we have corrected the previous printing problems with the style \ca