Weighing simulated galaxy clusters using lensing and X-ray

We aim at investigating potential biases in lensing and X-ray methods to measure the cluster mass profiles. We do so by performing realistic simulations of lensing and X-ray observations that are subsequently analyzed using observational techniques. The resulting mass estimates are compared among them and with the input models. Three clusters obtained from state-of-the-art hydrodynamical simulations, each of which has been projected along three independent lines-of-sight, are used for this analysis. We find that strong lensing models can be trusted over a limited region around the cluster core. Extrapolating the strong lensing mass models to outside the Einstein ring can lead to significant biases in the mass estimates, if the BCG is not modeled properly for example. Weak lensing mass measurements can be largely affected by substructures, depending on the method implemented to convert the shear into a mass estimate. Using non-parametric methods which combine weak and strong lensing data, the projected masses within R200 can be constrained with a precision of ~10%. De-projection of lensing masses increases the scatter around the true masses by more than a factor of two due to cluster triaxiality. X-ray mass measurements have much smaller scatter (about a factor of two smaller than the lensing masses) but they are generally biased low by 5-20%. This bias is ascribable to bulk motions in the gas of our simulated clusters. Using the lensing and the X-ray masses as proxies for the true and the hydrostatic equilibrium masses of the simulated clusters and averaging over the cluster sample we are able to measure the lack of hydrostatic equilibrium in the systems we have investigated.Comment: 27 pages, 21 figures, accepted for publication on A&A. Version with full resolution images can be found at http://pico.bo.astro.it/~massimo/Public/Papers/massComp.pd

Engineering Silicon Nanocrystals: Theoretical study of the effect of Codoping with Boron and Phosphorus

We show that the optical and electronic properties of nanocrystalline silicon can be efficiently tuned using impurity doping. In particular, we give evidence, by means of ab-initio calculations, that by properly controlling the doping with either one or two atomic species, a significant modification of both the absorption and the emission of light can be achieved. We have considered impurities, either boron or phosphorous (doping) or both (codoping), located at different substitutional sites of silicon nanocrystals with size ranging from 1.1 nm to 1.8 nm in diameter. We have found that the codoped nanocrystals have the lowest impurity formation energies when the two impurities occupy nearest neighbor sites near the surface. In addition, such systems present band-edge states localized on the impurities giving rise to a red-shift of the absorption thresholds with respect to that of undoped nanocrystals. Our detailed theoretical analysis shows that the creation of an electron-hole pair due to light absorption determines a geometry distortion that in turn results in a Stokes shift between adsorption and emission spectra. In order to give a deeper insight in this effect, in one case we have calculated the absorption and emission spectra going beyond the single-particle approach showing the important role played by many-body effects. The entire set of results we have collected in this work give a strong indication that with the doping it is possible to tune the optical properties of silicon nanocrystals.Comment: 14 pages 19 figure

Hematological and Genetic Markers in the Rational Approach to Patients With HCV Sustained Virological Response With or Without Persisting Cryoglobulinemic Vasculitis

Background and Aims: Direct-acting antivirals (DAAs) usually lead to improvement/remission of cryoglobulinemic vasculitis (CV), although symptoms may persist/recur after a sustained virological response (SVR). We evaluated hematological and genetic markers in patients with HCV-SVR vasculitis with and without persisting/recurring symptoms to early predict the CV outcome. Approach and Results: Ninety-eight patients with HCV-CV were prospectively enrolled after a DAA-induced SVR: Group A: 52 with complete clinical response; Group B: 46 with symptom maintenance/recurrence. Monoclonal B-cell lymphocytosis, t(14;18) translocation, and abnormal free light chains κ/λ ratios were detected by flow cytometry or nested-PCR or nephelometry in 4% Group A versus 17% Group B (P = 0.04) patients, 17% Group A versus 40% Group B patients (P = 0.02), and 17% Group A versus 47% Group B (P = 0.003) patients, respectively. At least 1 out of 3 clonality markers was altered/positive in 29% of Group A versus 70% of Group B patients (P < 0.0001). When available, pretherapy samples were also tested for t(14;18) translocation (detected in 12/37 [32%] Group A and 21/38 [55%] Group B) and κ/λ ratios (abnormal in 5/35 [14%] Group A and 20/38 [53%] Group B) (P = 0.0006), whereas at least one clonality marker was detected/altered in 16/37 (43%) Group A and 30/38 (79%) Group B (P = 0.002). CV-associated single-nucleotide polymorphisms were tested by real-time PCR. Among them, notch4 rs2071286 T minor allele and TT genotype showed a higher frequency in Group B versus Group A (46% vs. 29%, P = 0.01, and 17% vs. 2%, P = 0.006, respectively). Conclusions: Hematological or genetic analyses could be used to foresee the CV clinical response after DAA therapy and could be valuable to assess a rational flowchart to manage CV during follow-up

New multi-zoom method for N-body simulations: application to galaxy growth by accretion

In this work we focus on the properties of accretion onto galaxies. Through numerical simulations we investigate the geometrical properties of accretion. To span the scale range required in these simulations we have developed a new numerical technique: the multi-zoom method. We run a series of Tree-SPH simulations in smaller and smaller boxes at higher and higher mass resolution, using data recorded at the previous level to account for the matter inflow and the tidal field from outside matter. The code is parallelized using OpenMP. We present a validation test to evaluate the robustness of the method: the pancake collapse. We apply this new multizoom method to study the accretion properties. Zooming in onto galaxies from a cosmological simulation, we select a sample of 10 well resolved galaxies (5000 baryonic particles or more). We sum up their basic properties and plot a Tully-Fisher relation. We find that smooth accretion of intergalactic cold gas dominates mergers for the mass growth of galaxies at z < 2. Next we study the baryonic accretion rate which shows different behaviours depending on the galaxy mass. The bias is also computed at different radii and epochs. Then we present galactocentric angular maps for the accretion integrated between z=2 and z=0, which reveal that accretion is highly anisotropic. Average accretion rates plotted against galactocentric latitude show a variety of behaviours. In general, accretion in the galactic plane is favored, even more for baryonic matter than for dark matter.Comment: Page lay out fix u

Discovering study-specific gene regulatory networks

This article has been made available through the Brunel Open Access Publishing Fund.Microarrays are commonly used in biology because of their ability to simultaneously measure thousands of genes under different conditions. Due to their structure, typically containing a high amount of variables but far fewer samples, scalable network analysis techniques are often employed. In particular, consensus approaches have been recently used that combine multiple microarray studies in order to find networks that are more robust. The purpose of this paper, however, is to combine multiple microarray studies to automatically identify subnetworks that are distinctive to specific experimental conditions rather than common to them all. To better understand key regulatory mechanisms and how they change under different conditions, we derive unique networks from multiple independent networks built using glasso which goes beyond standard correlations. This involves calculating cluster prediction accuracies to detect the most predictive genes for a specific set of conditions. We differentiate between accuracies calculated using cross-validation within a selected cluster of studies (the intra prediction accuracy) and those calculated on a set of independent studies belonging to different study clusters (inter prediction accuracy). Finally, we compare our method's results to related state-of-the art techniques. We explore how the proposed pipeline performs on both synthetic data and real data (wheat and Fusarium). Our results show that subnetworks can be identified reliably that are specific to subsets of studies and that these networks reflect key mechanisms that are fundamental to the experimental conditions in each of those subsets

B-cell activating factor (BAFF), BAFF promoter and BAFF receptor allelic variants in hepatitis C virus related Cryoglobulinemic Vasculitis and Non-Hodgkin's Lymphoma

Cryoglobulinemic Vasculitis (CV) is an autoimmune/lymphoproliferative disorder associated with HCV infection that in 5%–10% of cases evolves into a B cell Non-Hodgkin's Lymphoma (NHL). B-cell activating factor (BAFF) is a key regulator in B-cell development and survival. Particular genetic variants are responsible for BAFF signaling impairment in autoimmune and neoplastic diseases. We evaluated BAFF and BAFF-receptor (BAFF-R) polymorphisms in order to determine if they predispose to HCV-related CV and NHL. The analysis was performed on 416 HCV-chronically infected patients: 136 HCV without signs/symptoms of lymphoproliferations/autoimmunity (HCV), 166 HCV with CV (HCV-CV) and 114 HCV with NHL (HCV-NHL). Rs9514828 SNP on BAFF promoter, rs61756766 on BAFF-R and rs12428930 on the BAFF gene were evaluated by Real-Time PCR. Concerning rs9514828, the frequency of C/T genotype was significantly higher in HCV-CV than in HCV. The difference in the distribution of the T/T mutant genotype in HCV-CV compared to HCV was significant as well as the distribution of C/T and T/T genotype in HCV-NHL versus HCV. T minor allele was more frequent in HCV-NHL and HCV-CV than in HCV. The distribution of C/T + T/T (for the dominant model of penetrance C/T + T/T vs. C/C) was significantly higher in HCV-CV and HCV-NHL than in HCV. Genotyping of rs61756766 on BAFF-R coding gene, revealed C/T heterozygosis at a frequency of 11% in HCV-NHL versus 3% in HCV. The T minor allele frequency was higher in HCV-NHL than in HCV. No differences emerged by genotyping rs12428930 SNP on BAFF coding gene. Our results reinforce the hypothesis that BAFF/BAFF-R genetic pattern has a role in the pathogenesis of HCV-related lymphoproliferations. BAFF/BAFF-R variants could identify a risk haplotype for HCV related CV and NHL and a BAFF/BAFF-R genetic profile assessment could potentially contribute to tailoring anti-BAFF therapy by identifying patients with BAFF alterations in which the treatment could be more beneficial

The Qatar Biobank: background and methods

Background: The Qatar Biobank aims to collect extensive lifestyle, clinical, and biological information from up to 60,000 men and women Qatari nationals and long-term residents (individuals living in the country for ≥15 years) aged ≥18 years (approximately one-fifth of all Qatari citizens), to follow up these same individuals over the long term to record any subsequent disease, and hence to study the causes and progression of disease, and disease burden, in the Qatari population. Methods: Between the 11th-December-2012 and 20th-February-2014, 1209 participants were recruited into the pilot study of the Qatar Biobank. At recruitment, extensive phenotype information was collected from each participant, including information/measurements of socio-demographic factors, prevalent health conditions, diet, lifestyle, anthropometry, body composition, bone health, cognitive function, grip strength, retinal imaging, total body dual energy X-ray absorptiometry, and measurements of cardiovascular and respiratory function. Blood, urine, and saliva were collected and stored for future research use. A panel of 66 clinical biomarkers was routinely measured on fresh blood samples in all participants. Rates of recruitment are to be progressively increased in the coming period and the recruitment base widened to achieve a cohort of consented individuals broadly representative of the eligible Qatari population. In addition, it is planned to add additional measures in sub-samples of the cohort, including Magnetic Resonance Imaging (MRI) of the brain, heart and abdomen. Results: The mean time for collection of the extensive phenotypic information and biological samples from each participant at the baseline recruitment visit was 179 min. The 1209 pilot study participants (506 men and 703 women) were aged between 28–80 years (median 39 years); 899 (74.4 %) were Qatari nationals and 310 (25.6 %) were long-term residents. Approximately two-thirds of pilot participants were educated to graduate level or above. Conclusions: The pilot has proven that recruitment of volunteers into the Qatar Biobank project with intensive baseline measurements of behavioural, physical, and clinical characteristics is well accepted and logistically feasible. Qatar Biobank will provide a powerful resource to investigate the major determinants of ill-health and well-being in Qatar, providing valuable insights into the current and future public health burden that faces the country.Qatar Foundation for Education, Science and Community Development and the Supreme Council of Healt

MENINGITE VIRALE DA HHV7. DESCRIZIONE DI UN CASO IN ADULTO IMMUNOCOMPETENTE

INTRODUZIONE: Human Herpesvirus 7 (HHV7) è un virus erpetico ubiquitario, la cui patogenicità non è ancora del tutto nota. Nella maggior parte dei casi l’infezione è asintomatica, sebbene siano descritti casi di febbre, exanthema subitum o convulsioni febbrili in età pediatrica. Nel paziente adulto, immunodepresso e non, sono riportati casi aneddotici di coinvolgimento del SNC (encefalite e mielite). OBIETTIVI: Descriviamo un caso clinico di meningite a liquor limpido con isolamento liquorale di HHV-7, in giovane adulto immunocompetente.CASO CLINICO: Maschio di 18 anni originario della Guinea, in Italia da 3 anni senza precedenti anamnestici. Giungeva alla nostra osservazione per febbre e cefalea con quadro clinico obiettivo di irritazione meningea, in assenza di deficit neurologici focali o alterazione del sensorio. Gli esami ematochimici mostravano PCR 1,09 mg/dl, emocromo con formula e funzionalità epatorenale nei limiti. Veniva eseguito prelievo di liquido cefalorachidiano che si presentava lievemente torbido; l’esame chimico-fisico evidenziava glicorrachia nella norma, iperprotidorrachia (87 mg/dl) e pleiocitosi (574 cell/mmc di cui 81,7% mononucleati). Su liquor sono risultati negativi: coltura per batteri e miceti, diagnosi molecolare (film array multiplex o PCR) per E. coli, H. influenzae, L. monocytogenes e N. meningitidis, S. pneumoniae, HSV 1-2, Cryptococcus, CMV, EBV, Toscana virus, Picornavirus, West- Nile virus, Usutu virus, HHV6, HHV8, Chikungunya virus, Adenovirus, Parechovirus. Positiva la PCR su liquor per HHV-7. Negativi inoltre test HIV, sierologia per HCV, VDRL e TPHA; il quadro sierologico per HBV era compatibile con vaccinazione pregressa. Nei limiti RX torace, ECG ed ecocardiogramma. Il paziente, sottoposto a terapia sintomatica, presentava rapido sfebbramento con regressione del quadro clinico. CONCLUSIONI. Sebbene l’isolamento di HHV7 su liquor potrebbe rappresentare un evento aspecifico, espressione di riattivazione di infezione latente, la negatività delle altre indagini microbiologiche effettuate e l’assenza di immunodeficit, rendono plausibile una correlazione eziologica del virus con la forma di meningite linfomonocitaria descritta

Expression of microRNA in human retinal pigment epithelial cells following infection with Zaire ebolavirus

© The Author(s) 2019. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/ publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.Objective: Survivors of Ebola virus disease (EVD) are at risk of developing blinding intraocular inflammation—or uveitis—which is associated with retinal pigment epithelial (RPE) scarring and persistence of live Zaire ebolavirus (EBOV) within the eye. As part of a large research project aimed at defining the human RPE cell response to being infected with EBOV, this work focused on the microRNAs (miRNAs) associated with the infection. Results: Using RNA-sequencing, we detected 13 highly induced and 2 highly repressed human miRNAs in human ARPE-19 RPE cells infected with EBOV, including hsa-miR-1307-5p, hsa-miR-29b-3p and hsa-miR-33a-5p (up-regulated), and hsa-miR-3074-3p and hsa-miR-27b-5p (down-regulated). EBOV-miR-1-5p was also found in infected RPE cells. Through computational identification of putative miRNA targets, we predicted a broad range of regulatory activities, including effects on innate and adaptive immune responses, cellular metabolism, cell cycle progression, apoptosis and autophagy. The most highly-connected molecule in the miR-target network was leucine-rich repeat kinase 2, which is involved in neuroinflammation and lysosomal processing. Our findings should stimulate new studies on the impact of miRNA changes in EBOV-infected RPE cells to further understanding of intraocular viral persistence and the pathogenesis of uveitis in EVD survivors