Multiplexed holographic transmission gratings recorded in holographic polymer-dispersed liquid crystals: static and dynamic studies

The optimization of the experimental parameters of two multiplexed holographic transmission gratings recorded in holographic polymer-dispersed liquid crystals is investigated. Two methods are used to record the holograms: simultaneous and sequential multiplexing. These two processes are optimized to produce two multiplexed Bragg gratings that have the same and the highest possible diffraction efficiencies in the first order. The two methods show similar results when suitable recording parameters are used. The parameters of the recorded gratings (mainly the refractive-index modulation) are retrieved by use of an extension of the rigorous coupled-wave theory to multiplexed gratings. Finally, the response of the holograms to an electric field is studied. We demonstrate few coupling effects between the behavior of both gratings, and we expect a possibility of switching from one grating to the other

Uncertainty in 2-point correlation function estimators and BAO detection in SDSS DR7

We study the uncertainty in different two-point correlation function (2PCF) estimators in currently available galaxy surveys. This is motivated by the active subject of using the baryon acoustic oscillations (BAOs) feature in the correlation function as a tool to constrain cosmological parameters, which requires a fine analysis of the statistical significance. We discuss how estimators are affected by both the uncertainty in the mean density $\bar{n}$ and the integral constraint $\frac{1}{V^2}\int_{V^2} \hat{\xi} (r) d^3r =0$ which necessarily causes a bias. We quantify both effects for currently available galaxy samples using simulated mock catalogues of the Sloan Digital Sky Survey (SDSS) following a lognormal model, with a Lambda-Cold Dark Matter ($\Lambda\text{CDM}$) correlation function and similar properties as the samples (number density, mean redshift for the $\Lambda\text{CDM}$ correlation function, survey geometry, mass-luminosity bias). Because we need extensive simulations to quantify small statistical effects, we cannot use realistic N-body simulations and some physical effects are neglected. Our simulations still enable a comparison of the different estimators by looking at their biases and variances. We also test the reliability of the BAO detection in the SDSS samples and study the compatibility of the data results with our $\Lambda\text{CDM}$ simulations.Comment: 14 pages, 6 figures, 3 table

Cosmological constraints from the capture of non-Gaussianity in Weak Lensing data

Weak gravitational lensing has become a common tool to constrain the cosmological model. The majority of the methods to derive constraints on cosmological parameters use second-order statistics of the cosmic shear. Despite their success, second-order statistics are not optimal and degeneracies between some parameters remain. Tighter constraints can be obtained if second-order statistics are combined with a statistic that is efficient to capture non-Gaussianity. In this paper, we search for such a statistical tool and we show that there is additional information to be extracted from statistical analysis of the convergence maps beyond what can be obtained from statistical analysis of the shear field. For this purpose, we have carried out a large number of cosmological simulations along the {\sigma}8-{\Omega}m degeneracy, and we have considered three different statistics commonly used for non-Gaussian features characterization: skewness, kurtosis and peak count. To be able to investigate non-Gaussianity directly in the shear field we have used the aperture mass definition of these three statistics for different scales. Then, the results have been compared with the results obtained with the same statistics estimated in the convergence maps at the same scales. First, we show that shear statistics give similar constraints to those given by convergence statistics, if the same scale is considered. In addition, we find that the peak count statistic is the best to capture non-Gaussianities in the weak lensing field and to break the {\sigma}8-{\Omega}m degeneracy. We show that this statistical analysis should be conducted in the convergence maps: first, because there exist fast algorithms to compute the convergence map for different scales, and secondly because it offers the opportunity to denoise the reconstructed convergence map, which improves non-Gaussian features extraction.Comment: Accepted for publication in MNRAS (11 pages, 5 figures, 9 tables

Current–Voltage Characteristics in Individual Polypyrrole Nanotube, Poly(3,4-ethylenedioxythiophene) Nanowire, Polyaniline Nanotube, and CdS Nanorope

In this paper, we focus on current–voltage (I–V) characteristics in several kinds of quasi-one-dimensional (quasi-1D) nanofibers to investigate their electronic transport properties covering a wide temperature range from 300 down to 2 K. Since the complex structures composed of ordered conductive regions in series with disordered barriers in conducting polymer nanotubes/wires and CdS nanowires, all measured nonlinearI–Vcharacteristics show temperature and field-dependent features and are well fitted to the extended fluctuation-induced tunneling and thermal excitation model (Kaiser expression). However, we find that there are surprisingly similar deviations emerged between theI–Vdata and fitting curves at the low bias voltages and low temperatures, which can be possibly ascribed to the electron–electron interaction in such quasi-1D systems with inhomogeneous nanostructures

Salivary α-Amylase of Stem Borer Hosts Determines Host Recognition and Acceptance for Oviposition by Cotesia spp. (Hymenoptera, Braconidae)

Foraging insect parasitoids use specific chemical cues to discriminate between host and non-host species. Several compounds have been identified in “host location and acceptance.” However, nothing is known about the molecular variations in these compounds that could account for host-range differences between parasitoid species. In a previous study, it was shown that during the host-finding process, contact between the braconid Cotesia flavipes and its host is crucial, and that α-amylase of oral secretions from the host plays a key role for host acceptance and oviposition by the parasitoid. The present study sought to establish whether the variations in this enzyme could explain specific host recognition in different host-parasitoid associations. Different species and populations of the C. flavipes complex specialized on graminaceous lepidopteran stemborers were used. Electrophoresis of α-amylase revealed different isoforms that mediate the parasitoid's oviposition acceptance and preference for a specific host. This discovery opens up new avenues for investigating the evolutionary processes at play in chemically-mediated host specialization in the species-rich Cotesia genus

The pandemic toll and post-acute sequelae of SARS-CoV-2 in healthcare workers at a Swiss University Hospital.

Healthcare workers have potentially been among the most exposed to SARS-CoV-2 infection as well as the deleterious toll of the pandemic. This study has the objective to differentiate the pandemic toll from post-acute sequelae of SARS-CoV-2 infection in healthcare workers compared to the general population. The study was conducted between April and July 2021 at the Geneva University Hospitals, Switzerland. Eligible participants were all tested staff, and outpatient individuals tested for SARS-CoV-2 at the same hospital. The primary outcome was the prevalence of symptoms in healthcare workers compared to the general population, with measures of COVID-related symptoms and functional impairment, using prevalence estimates and multivariable logistic regression models. Healthcare workers (n=3,083) suffered mostly from fatigue (25.5%), headache (10.0%), difficulty concentrating (7.9%), exhaustion/burnout (7.1%), insomnia (6.2%), myalgia (6.7%) and arthralgia (6.3%). Regardless of SARS-CoV-2 infection, all symptoms were significantly higher in healthcare workers than the general population (n=3,556). SARS-CoV-2 infection in healthcare workers was associated with loss or change in smell, loss or change in taste, palpitations, dyspnea, difficulty concentrating, fatigue, and headache. Functional impairment was more significant in healthcare workers compared to the general population (aOR 2.28; 1.76-2.96), with a positive association with SARS-CoV-2 infection (aOR 3.81; 2.59-5.60). Symptoms and functional impairment in healthcare workers were increased compared to the general population, and potentially related to the pandemic toll as well as post-acute sequelae of SARS-CoV-2 infection. These findings are of concern, considering the essential role of healthcare workers in caring for all patients including and beyond COVID-19

Peri-operative red blood cell transfusion in neonates and infants: NEonate and Children audiT of Anaesthesia pRactice IN Europe: A prospective European multicentre observational study

BACKGROUND: Little is known about current clinical practice concerning peri-operative red blood cell transfusion in neonates and small infants. Guidelines suggest transfusions based on haemoglobin thresholds ranging from 8.5 to 12 g dl-1, distinguishing between children from birth to day 7 (week 1), from day 8 to day 14 (week 2) or from day 15 (≥week 3) onwards. OBJECTIVE: To observe peri-operative red blood cell transfusion practice according to guidelines in relation to patient outcome. DESIGN: A multicentre observational study. SETTING: The NEonate-Children sTudy of Anaesthesia pRactice IN Europe (NECTARINE) trial recruited patients up to 60 weeks' postmenstrual age undergoing anaesthesia for surgical or diagnostic procedures from 165 centres in 31 European countries between March 2016 and January 2017. PATIENTS: The data included 5609 patients undergoing 6542 procedures. Inclusion criteria was a peri-operative red blood cell transfusion. MAIN OUTCOME MEASURES: The primary endpoint was the haemoglobin level triggering a transfusion for neonates in week 1, week 2 and week 3. Secondary endpoints were transfusion volumes, 'delta haemoglobin' (preprocedure - transfusion-triggering) and 30-day and 90-day morbidity and mortality. RESULTS: Peri-operative red blood cell transfusions were recorded during 447 procedures (6.9%). The median haemoglobin levels triggering a transfusion were 9.6 [IQR 8.7 to 10.9] g dl-1 for neonates in week 1, 9.6 [7.7 to 10.4] g dl-1 in week 2 and 8.0 [7.3 to 9.0] g dl-1 in week 3. The median transfusion volume was 17.1 [11.1 to 26.4] ml kg-1 with a median delta haemoglobin of 1.8 [0.0 to 3.6] g dl-1. Thirty-day morbidity was 47.8% with an overall mortality of 11.3%. CONCLUSIONS: Results indicate lower transfusion-triggering haemoglobin thresholds in clinical practice than suggested by current guidelines. The high morbidity and mortality of this NECTARINE sub-cohort calls for investigative action and evidence-based guidelines addressing peri-operative red blood cell transfusions strategies. TRIAL REGISTRATION: ClinicalTrials.gov, identifier: NCT02350348

A targeted next-generation sequencing assay for the molecular diagnosis of genetic disorders with orodental involvement.

BACKGROUND: Orodental diseases include several clinically and genetically heterogeneous disorders that can present in isolation or as part of a genetic syndrome. Due to the vast number of genes implicated in these disorders, establishing a molecular diagnosis can be challenging. We aimed to develop a targeted next-generation sequencing (NGS) assay to diagnose mutations and potentially identify novel genes mutated in this group of disorders. METHODS: We designed an NGS gene panel that targets 585 known and candidate genes in orodental disease. We screened a cohort of 101 unrelated patients without a molecular diagnosis referred to the Reference Centre for Oro-Dental Manifestations of Rare Diseases, Strasbourg, France, for a variety of orodental disorders including isolated and syndromic amelogenesis imperfecta (AI), isolated and syndromic selective tooth agenesis (STHAG), isolated and syndromic dentinogenesis imperfecta, isolated dentin dysplasia, otodental dysplasia and primary failure of tooth eruption. RESULTS: We discovered 21 novel pathogenic variants and identified the causative mutation in 39 unrelated patients in known genes (overall diagnostic rate: 39%). Among the largest subcohorts of patients with isolated AI (50 unrelated patients) and isolated STHAG (21 unrelated patients), we had a definitive diagnosis in 14 (27%) and 15 cases (71%), respectively. Surprisingly, COL17A1 mutations accounted for the majority of autosomal-dominant AI cases. CONCLUSIONS: We have developed a novel targeted NGS assay for the efficient molecular diagnosis of a wide variety of orodental diseases. Furthermore, our panel will contribute to better understanding the contribution of these genes to orodental disease. TRIAL REGISTRATION NUMBERS: NCT01746121 and NCT02397824.journal articleresearch support, non-u.s. gov't2016 Feb2015 10 26importe

Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.Peer reviewe

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

Funder: NCI U24CA211006Abstract: The Cancer Genome Atlas (TCGA) and International Cancer Genome Consortium (ICGC) curated consensus somatic mutation calls using whole exome sequencing (WES) and whole genome sequencing (WGS), respectively. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2,658 cancers across 38 tumour types, we compare WES and WGS side-by-side from 746 TCGA samples, finding that ~80% of mutations overlap in covered exonic regions. We estimate that low variant allele fraction (VAF < 15%) and clonal heterogeneity contribute up to 68% of private WGS mutations and 71% of private WES mutations. We observe that ~30% of private WGS mutations trace to mutations identified by a single variant caller in WES consensus efforts. WGS captures both ~50% more variation in exonic regions and un-observed mutations in loci with variable GC-content. Together, our analysis highlights technological divergences between two reproducible somatic variant detection efforts