Structure and Magnetism of well-defined cobalt nanoparticles embedded in a niobium matrix

Our recent studies on Co-clusters embedded in various matrices reveal that the co-deposition technique (simultaneous deposition of two beams : one for the pre-formed clusters and one for the matrix atoms) is a powerful tool to prepare magnetic nanostructures with any couple of materials even though they are miscible. We study, both sharply related, structure and magnetism of the Co/Nb system. Because such a heterogeneous system needs to be described at different scales, we used microscopic and macroscopic techniques but also local selective absorption ones. We conclude that our clusters are 3 nm diameter f.c.c truncated octahedrons with a pure cobalt core and a solid solution between Co and Nb located at the interface which could be responsible for the magnetically inactive monolayers we found. The use of a very diluted Co/Nb film, further lithographed, would allow us to achieve a pattern of microsquid devices in view to study the magnetic dynamics of a single-Co cluster.Comment: 7 TeX pages, 9 Postscript figures, detailed heading adde

Theory of proximity effect in superconductor/ferromagnet heterostructures

We present a microscopic theory of proximity effect in the ferromagnet/superconductor/ferromagnet (F/S/F) nanostructures where S is s-wave low-T_c superconductor and F's are layers of 3d transition ferromagnetic metal. Our approach is based on the solution of Gor'kov equations for the normal and anomalous Green's functions together with a self-consistent evaluation of the superconducting order parameter. We take into account the elastic spin-conserving scattering of the electrons assuming s-wave scattering in the S layer and s-d scattering in the F layers. In accordance with the previous quasiclassical theories, we found that due to exchange field in the ferromagnet the anomalous Green's function F(z) exhibits the damping oscillations in the F-layer as a function of distance z from the S/F interface. In the given model a half of period of oscillations is determined by the length \xi_m^0 = \pi v_F/E_ex, where v_F is the Fermi velocity and E_ex is the exchange field, while damping is governed by the length l_0 = (1/l_{\uparrow} + 1/l_{\downarrow})^{-1} with l_{\uparrow} and l_{\downarrow} being spin-dependent mean free paths in the ferromagnet. The superconducting transition temperature T_c(d_F) of the F/S/F trilayer shows the damping oscillations as a function of the F-layer thickness d_F with period \xi_F = \pi/\sqrt{m E_ex}, where m is the effective electron mass. We show that strong spin-conserving scattering either in the superconductor or in the ferromagnet significantly suppresses these oscillations. The calculated T_c(d_F) dependences are compared with existing experimental data for Fe/Nb/Fe trilayers and Nb/Co multilayers.Comment: 13 pages, REVTeX4, 8 PS-figures; improved version, submitted to PR

Why honey is effective as a medicine. 1. Its use in modern medicine

Honey has been used as a medicine for thousands of years and its curative properties are well documented. However, modern medicine turned its back on honey and it is only now, with the advent of multi-resistant bacteria, that the antibiotic properties of honey are being rediscovered

Effects of Climate Change on Fluted Pumpkin Production and Adaptaton Measures Used Among Farmers in Rivers State

The importance of fluted pumpkin crop in rural household economy cannot be over emphasized. Farmers in the South South Nigeria depend greatly on fluted pumpkin for its many uses. The production however is beset with a myriad of constraints of which climate change is one of the most outstanding. The study assessed the effects of climate change and adaptation measures used by fluted pumpkin farmers in Ikwerre Local Government Area(LGA) of Rivers State, Southsouth Nigeria. Multi-stage sampling technique was used to select respondents for the study. Out of the twelve communities that make up Ikwerre LGA, six communities were randomly chosen from which one hundred and eighty fluted pumpkin farmers were proportionately selected. Interview schedule and focus group discussion were used to elicit in depth information from respondents. Data were analyzed using percentage, frequency count and mean. Tables and charts were used in presentation of data. The result of the study showed that 51 percent of the respondents were female, majority were married (77 percent) and were full time farmers (79 percent). Relatively large proportion had no formal education (42 percent) and indicated both consumption and sale (79 percent) as the major aim of production. The respondents perceived that unpredictable climate condition, changes in rainfall pattern, changes in rainfall distribution, reduced yield of fluted pumpkin and reduction of family income were the major effects of climate change on fluted pumpkin production. A combination of fluted pumpkin production with other income generating activities was shown to be the most widely used adaptation strategy by respondents. Based on the results of the study it was recommended that improved extension services that can provide the needed farming inputs (fluted pumpkin seedlings, fertilizers e.t.c) as well as useful and relevant information on climate change and adaptation strategies should be made available to the people

Effects of Climate Change on Fluted Pumpkin Production and Adaptaton Measures Used Among Farmers in Rivers State

The importance of fluted pumpkin crop in rural household economy cannot be over emphasized. Farmers in the South South Nigeria depend greatly on fluted pumpkin for its many uses. The production however is beset with a myriad of constraints of which climate change is one of the most outstanding. The study assessed the effects of climate change and adaptation measures used by fluted pumpkin farmers in Ikwerre Local Government Area(LGA) of Rivers State, Southsouth Nigeria. Multi-stage sampling technique was used to select respondents for the study. Out of the twelve communities that make up Ikwerre LGA, six communities were randomly chosen from which one hundred and eighty fluted pumpkin farmers were proportionately selected. Interview schedule and focus group discussion were used to elicit in depth information from respondents. Data were analyzed using percentage, frequency count and mean. Tables and charts were used in presentation of data. The result of the study showed that 51 percent of the respondents were female, majority were married (77 percent) and were full time farmers (79 percent). Relatively large proportion had no formal education (42 percent) and indicated both consumption and sale (79 percent) as the major aim of production. The respondents perceived that unpredictable climate condition, changes in rainfall pattern, changes in rainfall distribution, reduced yield of fluted pumpkin and reduction of family income were the major effects of climate change on fluted pumpkin production. A combination of fluted pumpkin production with other income generating activities was shown to be the most widely used adaptation strategy by respondents. Based on the results of the study it was recommended that improved extension services that can provide the needed farming inputs (fluted pumpkin seedlings, fertilizers e.t.c) as well as useful and relevant information on climate change and adaptation strategies should be made available to the people

Metagenomic analysis of DNA viruses with targeted sequence capture of canine lobular orbital adenomas and normal conjunctiva

Our study aims are: (1) to evaluate phenotypically normal canine conjunctival and orbital tissue and tissue from canine lobular orbital adenomas (CLOAs) for the presence of viral genomic material and (2) phylogenetically classify detected DNA viruses to determine if a DNA virus is associated with CLOAs. A total of 31 formalin fixed paraffin embedded CLOA tissue samples, 4 papillomas or sarcoid, and 10 fresh clinically normal conjunctival tissues were included in this study. Genomic DNA was isolated from all samples and sequencing libraries were prepared. The libraries were molecularly indexed and pooled and viral DNA was enriched via targeted sequence capture utilizing ViroCap. The libraries were sequenced on the Illumina HiSeq platform and compared to known viral DNA reference genomes to identify viral DNA. Carnivore parvovirus was identified in 6.4% and 20% of CLOA tissue and normal conjunctival samples, respectively. This study showed that conjunctival tissue from healthy dogs and CLOAs uncommonly harbor DNA viruses, and no DNA virus was associated with these tumors. Further studies are needed to evaluate the etiologic cause of CLOAs

Josephson effect in double-barrier superconductor-ferromagnet junctions

We study the Josephson effect in ballistic double-barrier SIFIS planar junctions, consisting of bulk superconductors (S), a clean metallic ferromagnet (F), and insulating interfaces (I). We solve the scattering problem based on the Bogoliubov--de Gennes equations and derive a general expression for the dc Josephson current, valid for arbitrary interfacial transparency and Fermi wave vectors mismatch (FWVM). We consider the coherent regime in which quasiparticle transmission resonances contribute significantly to the Andreev process. The Josephson current is calculated for various parameters of the junction, and the influence of both interfacial transparency and FWVM is analyzed. For thin layers of strong ferromagnet and finite interfacial transparency, we find that coherent (geometrical) oscillations of the maximum Josephson current are superimposed on the oscillations related to the crossover between 0 and $\pi$ states. For the same case we find that the temperature-induced $0-\pi$ transition occurs if the junction is very close to the crossovers at zero temperature.Comment: 13 pages, 6 figure

Standard operating procedure for curation and clinical interpretation of variants in cancer

Manually curated variant knowledgebases and their associated knowledge models are serving an increasingly important role in distributing and interpreting variants in cancer. These knowledgebases vary in their level of public accessibility, and the complexity of the models used to capture clinical knowledge. CIViC (Clinical Interpretation of Variants in Cancer - www.civicdb.org) is a fully open, free-to-use cancer variant interpretation knowledgebase that incorporates highly detailed curation of evidence obtained from peer-reviewed publications and meeting abstracts, and currently holds over 6300 Evidence Items for over 2300 variants derived from over 400 genes. CIViC has seen increased adoption by, and also undertaken collaboration with, a wide range of users and organizations involved in research. To enhance CIViC\u27s clinical value, regular submission to the ClinVar database and pursuit of other regulatory approvals is necessary. For this reason, a formal peer reviewed curation guideline and discussion of the underlying principles of curation is needed. We present here the CIViC knowledge model, standard operating procedures (SOP) for variant curation, and detailed examples to support community-driven curation of cancer variants

Using antenatal care as a platform for malaria surveillance data collection: study protocol

BACKGROUND: While many malaria-endemic countries have health management information systems that can measure and report malaria trends in a timely manner, these routine systems have limitations. Periodic community cross-sectional household surveys are used to estimate malaria prevalence and intervention coverage but lack geographic granularity and are resource intensive. Incorporating malaria testing for all women at their first antenatal care (ANC) visit (i.e., ANC1) could provide a more timely and granular source of data for monitoring trends in malaria burden and intervention coverage. This article describes a protocol designed to assess if ANC-based surveillance could be a pragmatic tool to monitor malaria. METHODS: This is an observational, cross-sectional study conducted in Benin, Burkina Faso, Mozambique, Nigeria, Tanzania, and Zambia. Pregnant women attending ANC1 in selected health facilities will be tested for malaria infection by rapid diagnostic test and administered a brief questionnaire to capture key indicators of malaria control intervention coverage and care-seeking behaviour. In each location, contemporaneous cross-sectional household surveys will be leveraged to assess correlations between estimates obtained using each method, and the use of ANC data as a tool to track trends in malaria burden and intervention coverage will be validated. RESULTS: This study will assess malaria prevalence at ANC1 aggregated at health facility and district levels, and by gravidity relative to current pregnancy (i.e., gravida 1, gravida 2, and gravida 3 +). ANC1 malaria prevalence will be presented as monthly trends. Additionally, correlation between ANC1 and household survey-derived estimates of malaria prevalence, bed net ownership and use, and care-seeking will be assessed. CONCLUSION: ANC1-based surveillance has the potential to provide a cost-effective, localized measure of malaria prevalence that is representative of the general population and useful for tracking monthly changes in parasite prevalence, as well as providing population-representative estimates of intervention coverage and care-seeking behavior. This study will evaluate the representativeness of these measures and collect information on operational feasibility, usefulness for programmatic decision-making, and potential for scale-up of malaria ANC1 surveillance

Integrated analysis of genomic and transcriptomic data for the discovery of splice-associated variants in cancer

Somatic mutations within non-coding regions and even exons may have unidentified regulatory consequences that are often overlooked in analysis workflows. Here we present RegTools ( www.regtools.org ), a computationally efficient, free, and open-source software package designed to integrate somatic variants from genomic data with splice junctions from bulk or single cell transcriptomic data to identify variants that may cause aberrant splicing. We apply RegTools to over 9000 tumor samples with both tumor DNA and RNA sequence data. RegTools discovers 235,778 events where a splice-associated variant significantly increases the splicing of a particular junction, across 158,200 unique variants and 131,212 unique junctions. To characterize these somatic variants and their associated splice isoforms, we annotate them with the Variant Effect Predictor, SpliceAI, and Genotype-Tissue Expression junction counts and compare our results to other tools that integrate genomic and transcriptomic data. While many events are corroborated by the aforementioned tools, the flexibility of RegTools also allows us to identify splice-associated variants in known cancer drivers, such as TP53, CDKN2A, and B2M, and other genes