pinecone/core-2020-05-10-deduplication huggingface dataset:
Correlations, spin dynamics, defects: the highly-frustrated Kagomé bilayer

21 pages, 24 figuresThe SrCr$_{9p}$Ga$_{12-9p}$O$_{19}$ and Ba$_{2}$Sn$_{2}$ZnGa$_{10-7p}$Cr$_{7p}$O$_{22}$ compounds are two highly-frustrated magnets possessing a quasi-two-dimensional Kagomé bilayer of spin $\frac{3}{2}$ chromium ions with antiferromagnetic interactions. Their magnetic susceptibility was measured by local Nuclear Magnetic Resonance and non-local (SQUID) techniques, and their low-temperature spin dynamics by Muon Spin Resonance. Consistent with the theoretical picture drawn for geometrically frustrated systems, the Kagomé bilayer is shown here to exhibit: (i) short range spin-spin correlations down to a temperature much lower than the Curie-Weiss temperature, no conventional long-range transition occurring; (ii) a Curie contribution to the susceptibility from paramagnetic defects generated by spin vacancies; (iii) low-temperature spin fluctuations, at least down to 30 mK, which are a trademark of a dynamical ground state. These properties point to a spin-liquid ground state, possibly built on Resonating Valence Bonds with unconfined spinons as the magnetic excitations
A consistent dimensional analysis of gas-liquid mass transfer in an aerated stirred tank containing purely viscous fluids with shear-thinning properties

International audienceThis paper deals with gas-liquid mass transfer in an aerated stirred tank containing Newtonian or shearthinning fluids. The aim is to demonstrate that, for a given mixing system, an unique dimensionless correlation gathering all the mass transfer rates (150 kla measurements) can be obtained if and only if the variability of the rheological material parameters is correctly considered when implementing the theory of similarity. More particularly, it is clearly illustrated that a too gross simplification in the relevant list of the parameters characterizing the dependence of apparent viscosity with shear rates leads to pitfalls when building the PI-space set. This is then a striking example showing that a robust predictive correlation can be established when the non-constancy of fluid physical properties ceases to be neglected
Human CD8 T lymphocytes recognize Mycobacterium tuberculosis antigens presented by HLA-E during active tuberculosis and express type 2 cytokines

CD8 T cells contribute to protective immunity against Mycobacterium tuberculosis. In humans, M. tuberculosis reactive CD8 T cells typically recognize peptides associated to classical MHC class Ia molecules, but little information is available on CD8 T cells recognizing M. tuberculosis Ags presented by nonclassical MHC class Ib molecules. We show here that CD8 T cells from tuberculosis (TB) patients recognize HLA-E-binding M. tuberculosis peptides in a CD3/TCR αβ mediated and CD8-dependent manner, and represent an additional type of effector cells playing a role in immune response to M. tuberculosis during active infection. HLA-E-restricted recognition of M. tuberculosis peptides is detectable by a significant enhanced ex vivo frequency of tetramer-specific circulating CD8 T cells during active TB. These CD8 T cells produce type 2 cytokines upon antigenic in vitro stimulation, help B cells for Ab production, and mediate limited TRAIL-dependent cytolytic and microbicidal activity toward M. tuberculosis infected target cells. Our results, together with the finding that HLA-E/M. tuberculosis peptide specific CD8 T cells are detected in TB patients with or without HIV coinfection, suggest that this is a new human T-cell population that participates in immune response in TB
Search for time-independent neutrino emission from astrophysical sources with 3 yr of IceCube data

We present the results of a search for neutrino point sources using the IceCube data collected between 2008 April and 2011 May with three partially completed configurations of the detector: the 40-, 59-, and 79-string configurations. The live-time of this data set is 1040 days. An unbinned maximum likelihood ratio test was used to search for an excess of neutrinos above the atmospheric background at any given direction in the sky. By adding two more years of data with improved event selection and reconstruction techniques, the sensitivity was improved by a factor of 3.5 or more with respect to the previously published results obtained with the 40-string configuration of IceCube. We performed an all-sky survey and a dedicated search using a catalog of a priori selected objects observed by other telescopes. In both searches, the data are compatible with the background-only hypothesis. In the absence of evidence for a signal, we set upper limits on the flux of muon neutrinos. For an E-2 neutrino spectrum, the observed limits are (0.9-5) x 10(-12) TeV-1 cm(-2) s(-1) for energies between 1 TeV and 1 PeV in the northern sky and (0.9-23.2) x 10(-12) TeV-1 cm(-2) s(-1) for energies between 10(2) TeV and 10(2) PeV in the southern sky. We also report upper limits for neutrino emission from groups of sources that were selected according to theoretical models or observational parameters and analyzed with a stacking approach. Some of the limits presented already reach the level necessary to quantitatively test current models of neutrino emission
Nucleosome-interacting proteins regulated by DNA and histone methylation.

Modifications on histones or on DNA recruit proteins that regulate chromatin function. Here, we use nucleosomes methylated on DNA and on histone H3 in an affinity assay, in conjunction with a SILAC-based proteomic analysis, to identify  crosstalk  between these two distinct classes of modification. Our analysis reveals proteins whose binding to nucleosomes is regulated by methylation of CpGs, H3K4, H3K9, and H3K27 or a combination thereof. We identify the origin recognition complex (ORC), including LRWD1 as a subunit, to be a methylation-sensitive nucleosome interactor that is recruited cooperatively by DNA and histone methylation. Other interactors, such as the lysine demethylase Fbxl11/KDM2A, recognize nucleosomes methylated on histones, but their recruitment is disrupted by DNA methylation. These data establish SILAC nucleosome affinity purifications (SNAP) as a tool for studying the dynamics between different chromatin modifications and provide a modification binding  profile  for proteins regulated by DNA and histone methylation
Crystal Plasticity Modelling and HR-DIC Measurement of Slip Activation and Strain Localisation in Single and Oligo-crystal Ni Alloys under Fatigue

Single crystal (CMSX4) and oligocrystal (MAR002) nickel have been studied using three-point beam bending under conditions of cyclic loading. SEM images have enabled identification of slip activation, and high resolution digital image correlation has been utilized to quantify the developing strain fields and the strain localization in both single and oligocrystals in fatigue. The single and oligocrystal microstructures have been replicated within crystal plasticity finite element models and the fatigue loading analysed such that grain-by-grain comparisons of slip may be carried out. Single and multiple slip activation, slip localisation and microstructure-sensitive stress evolution have been examined. Single crystal bend fatigue gives rise to non-symmetric slip fields and localisation depending on crystallographic orientation. Modelling correctly captures slip activation and the developing nonsymmetric slip fields. Oligocrystal slip is markedly heterogeneous, with grain misorientations driving strong variations, also reasonably captured by the model. Microstructure behaviour is found to vary spatially and include elastic-plastic hysteresis which is stable, and which undergoes mean stress relaxation so that plastic shakedown occurs. Remarkable variations occur between locations either side of grain boundaries, providing appropriate opportunities for fatigue crack nucleation
Shared values and deliberative valuation : Future directions

The research underpinning this work was funded through the UK National Ecosystem Assessment Follow-On (Work Package 6: Shared, Plural and Cultural Values), funded by the UK Department of the Environment, Food and Rural Affairs (Defra), the Welsh Government, the UK Natural Environment Research Council (NERC), Economic and Social Research Council (ESRC), and Arts and Humanities Research Council (AHRC). Writing of this paper was supported by funding from the MASTS pooling initiative (The Marine Alliance for Science and Technology for Scotland), funded by the Scottish Funding Council (grant reference HR09011) and contributing institutions, and by the European Union Seventh Framework Programme under grant agreement n° 315925.Peer reviewedPublisher PD
Biogeochemistry of “pristine” freshwater stream and lake systems in the western Canadian Arctic

This work was supported by the UK Natural Environment Research Council (grant numbers NE/K000217/1, NE/K000225/1, NE/K000268/1 and NE/K000284/1). We would like to thank the Aurora Research Institute in Inuvik, Prof Philip Marsh of Wilfrid Laurier University, Dr Oliver Sonnentag of Universite´ de Montre´al and Dr Mark Cooper of the University of Exeter for their support during the field campaigns, and Dr James Weedon of Vrije Universiteit Amsterdam for support with the statistical analyses. We would also like to thank the associate editor for this manuscript—Dr Breck Bowden—and three anonymous reviewers whose comments have substantially improved this paper. The authors declare that they have no conflicts of interest.Peer reviewedPublisher PD
An evaluation of volume-based morphometry for prediction of mild cognitive impairment and Alzheimer's disease.

Voxel-based morphometry from conventional T1-weighted images has proved effective to quantify Alzheimer's disease (AD) related brain atrophy and to enable fairly accurate automated classification of AD patients, mild cognitive impaired patients (MCI) and elderly controls. Little is known, however, about the classification power of volume-based morphometry, where features of interest consist of a few brain structure volumes (e.g. hippocampi, lobes, ventricles) as opposed to hundreds of thousands of voxel-wise gray matter concentrations. In this work, we experimentally evaluate two distinct volume-based morphometry algorithms (FreeSurfer and an in-house algorithm called MorphoBox) for automatic disease classification on a standardized data set from the Alzheimer's Disease Neuroimaging Initiative. Results indicate that both algorithms achieve classification accuracy comparable to the conventional whole-brain voxel-based morphometry pipeline using SPM for AD vs elderly controls and MCI vs controls, and higher accuracy for classification of AD vs MCI and early vs late AD converters, thereby demonstrating the potential of volume-based morphometry to assist diagnosis of mild cognitive impairment and Alzheimer's disease
Lipidomic analyses, breast- and formula-feeding, and growth in infancy

Objective: Suggested benefits of breast-feeding during infancy, including reduced risk of obesity and improved neurodevelopmental outcomes, remain unexplained but could be mediated by or reflected in lipidomic profiles. We evaluated lipidomic differences between breast- and formula-fed infants.
Study design: We utilised high-resolution mass-spectrometry methods to analyse 3.2 mm dried blood spot samples (DBS) collected at ages 3 months (n=241) and 12 months (n=144) from a representative birth cohort study. Lipidomic profiles were compared between infants exclusively breast-fed, formula-fed or mixed-fed, and related to 12-month infancy weight. Data analysis included supervised multivariate statistics (PLS-DA) and univariate analysis with correction for multiple testing.
Results: Distinct differences in 3-month lipidomic profiles were observed between exclusively breast-fed and formula-fed infants; mixed-fed infants showed intermediate profiles. Principal lipidomic characteristics of breast-fed infants were: lower total phosphatidylcholines (PC), with specifically lower short chain unsaturated PC but higher long chain polyunsaturated PC; higher cholesterol esters; variable differences in sphingomyelins.
At 12 months, lipidomic profiles were markedly different to those at 3 months, and differences between the earlier breast/formula/mixed-feeding groups were no longer evident. However, several specific lipid species, associated with breast-feeding at 3 months, also correlated with differences in 3-12 month weight. 
Conclusion: State-of-the-art DBS lipidomic profiling demonstrated striking differences between breast-fed and formula-fed infants. Although these changes diminished with age, breast-fed lipidomic profiles at 3 months were associated with infancy weight and could potentially represent biomarkers of infant nutrition.PP was supported by a UK MRC Clinical Training Fellowship (G1001995). The Cambridge Baby Growth Study has been supported by the European Union, the World Cancer Research Foundation International, the Medical Research Council (including a centenary award), and the NIHR Cambridge Comprehensive Biomedical Research Centre. The lipidomics assays were supported by the Medical Research Council (UD99999906 and Cambridge Lipidomics Biomarker Research Initiative G0800783).This is the final version of the article. It first appeared from Elsevier via http://dx.doi.org/10.1016/j.jpeds.2014.10.02
Search for three-jet resonances in pp collisions at √s = 7 TeV

Results are reported from a search for the production of three-jet resonances in pp collisions at a center-of-mass energy √s = 7 TeV. The study uses the data sample collected by the CMS experiment at the LHC in 2011, corresponding to an integrated luminosity of 5.0 fb[superscript −1]. Events with high jet multiplicity and a large scalar sum of jet transverse momenta are analyzed for the presence of resonances in the three-jet invariant mass spectrum. No evidence for a narrow resonance is found in the data, and limits are set on the cross section for gluino pair production in an R-parity-violating supersymmetry model, for gluino masses greater than 280 GeV. Assuming a branching fraction for gluino decay into three jets of 100%, gluino masses below 460 GeV are excluded at 95% confidence level. These results significantly extend the range of previous limits.European Organization for Nuclear ResearchUnited States. Dept. of EnergyNational Science Foundation (U.S.)Alfred P. Sloan Foundatio
Reconstructing Plants in 3D from a single Image using Analysis by Synthesis

Mature computer vision techniques allow the reconstruction of challenging 3D objects from images. However, due to high complexity of plant topology, dedicated methods for generating 3D plant models must be devised. We propose to generate a 3D model of a plant, using an analysis-by-synthesis method mixing information from a single image and a priori knowledge of the plant species. First, our dedicated skeletonisation algorithm generates a possible branch- ing structure from the foliage segmentation. Then, a 3D generative model, based on a parametric model of branching systems that takes into ac- count botanical knowledge is built. The resulting skeleton follows the hierarchical organisation of natural branching structures. An instance of a 3D model can be generated. Moreover, varying parameter values of the generative model (main branching structure of the plant and foliage), we produce a series of candidate models. The reconstruction is improved by selecting the model among these proposals based on a matching criterion with the image. Realistic results obtained on di erent species of plants illustrate the performance of the proposed method
Pheochromocytoma as a rare cause of arterial hypertension in a patient with autosomal dominant polycystic kidney disease: A diagnostic and therapeutic dilemma.

INTRODUCTION: Individuals with autosomal dominant polycystic kidney disease (ADPKD) frequently suffer arterial hypertension even prior to significant loss of renal function, a clinical situation that obscures detection of modifiable secondary causes of hypertension. PRESENTATION OF CASE: A 50-year-old man with ADPKD and polycystic liver and resistant hypertension is diagnosed with a 4-cm right adrenal mass. Cross-sectional MRI is indicative of pheochromocytoma versus adrenocortical carcinoma or metastasis, though there are no typical PCC symptoms and plasma and urine metanephrines are within normal ranges. Since malignancy cannot be excluded, right adrenalectomy is performed. Considering that the enlarged liver poses an obstacle for transperitoneal open and laparoscopic approaches, a retroperitoneoscopic approach is used. Surgical pathology reveals a 4.5-cm pheochromocytoma; the patient no longer requires antihypertensive therapy. DISCUSSION & CONCLUSION: Pheochromocytoma is a rare but treatable cause of hypertension in ADPKD; given the anatomical complexities these patients present, careful preoperative planning and surgical technique are essential to a favorable outcome
A review of two-phase flow in inclined tubes with specific reference to condensation

Tilting influences the flow patterns and thus the heat transfer and pressure drop during condensation in smooth tubes. However, few studies are available on diabatic two-phase flows in inclined tubes. The purpose of the present paper is to review two-phase flow in inclined tubes, with specific reference to condensation. Firstly, the paper reviews convective condensation in horizontal tubes. Secondly, an overview is given of two-phase flow in inclined tubes. Thirdly, a review is conducted on condensation in inclined tubes. It is shown for convective condensation in inclined tubes that the inclination angle influences the heat transfer coefficient. The heat transfer coefficient can be increased or decreased depending on the experimental conditions, and especially the flow pattern. Under certain conditions, an inclination angle may exist, which leads to an optimum heat transfer coefficient. Furthermore, this paper highlights the lack of experimental studies for the prediction of the inclination angle effect on the flow pattern, the heat transfer coefficient and the pressure drop in two-phase flows during phase change.http://www.elsevier.com/locate/ijmulflowai201
Dissecting subsecond cadherin bound states reveals an efficient way for cells to achieve ultrafast probing of their environment

AbstractCells continuously probe their environment with membrane receptors, achieving subsecond adaptation of their behaviour [Diez, G., Gerisch, G., Anderson, K., Müller-Taubenberger, A. and Bretschneider, T. (2006) Subsecond reorganization of the actin network in cell motility and chemotaxis. Proc. Natl. Acad. Sci. USA 102, 7601–7606, Shamri, R., Grabovsky, V., Gauguet, J.M., Feigelson, S., Manevich, E., Kolanus, W., Robinson, M.K., Staunton, D.E., von Andrian, U.H. and Alon, R. (2005) Lymphocyte arrest requires instantaneous induction of an extended LFA-1 conformation mediated by endothelium-bound chemokines. Nat. Immunol. 6, 497–606, Jiang, G., Huang, A.H., Cai, Y., Tanase, M. and Sheetz, M.P. (2006) Rigidity sensing at the leading edge through αVβ3 integrins and RPTPα. Biophys. J. 90, 1804–2006]. Recently, several receptors, including cadherins, were found to bind ligands with a lifetime of order of one second. Here we show at the single molecule level that homotypic C-cadherin association involves transient intermediates lasting less than a few tens of milliseconds. Further, these intermediates transitionned towards more stable states with a kinetic rate displaying exponential decrease with piconewton forces. These features enable cells to detect ligands or measure surrounding mechanical behaviour within a fraction of a second, much more rapidly than was previously thought
An adaptable parallel algorithm for the direct numerical simulation of incompressible turbulent flows using a Fourier spectral/hp element method and MPI virtual topologies

AbstractA hybrid parallelisation technique for distributed memory systems is investigated for a coupled Fourier-spectral/hp element discretisation of domains characterised by geometric homogeneity in one or more directions. The performance of the approach is mathematically modelled in terms of operation count and communication costs for identifying the most efficient parameter choices. The model is calibrated to target a specific hardware platform after which it is shown to accurately predict the performance in the hybrid regime. The method is applied to modelling turbulent flow using the incompressible Navier–Stokes equations in an axisymmetric pipe and square channel. The hybrid method extends the practical limitations of the discretisation, allowing greater parallelism and reduced wall times. Performance is shown to continue to scale when both parallelisation strategies are used
Coexistence and optimal control problems for a degenerate predator–prey model

AbstractIn this paper we present a predator–prey mathematical model for two biological populations which dislike crowding. The model consists of a system of two degenerate parabolic equations with nonlocal terms and drifts. We provide conditions on the system ensuring the periodic coexistence, namely the existence of two non-trivial non-negative periodic solutions representing the densities of the two populations. We assume that the predator species is harvested if its density exceeds a given threshold. A minimization problem for a cost functional associated with this process and with some other significant parameters of the model is also considered
Magnetic flux inversion in charged BPS vortices in a Lorentz-violating Maxwell–Higgs framework

AbstractWe demonstrate for the first time the existence of electrically charged BPS vortices in a Maxwell–Higgs model supplemented with a parity-odd Lorentz-violating (LV) structure belonging to the CPT-even gauge sector of the standard model extension and a fourth order potential (in the absence of the Chern–Simons term). The modified first order BPS equations provide charged vortex configurations endowed with some interesting features: localized and controllable spatial thickness, integer flux quantization, electric field inversion and localized magnetic flux reversion. This model could possibly be applied on condensed matter systems which support charged vortices carrying integer quantized magnetic flux, endowed with localized flipping of the magnetic flux
Measurement of W+W− production and search for the Higgs boson in pp collisions at s=7 TeV

AbstractA measurement of W+W− production in pp collisions at s=7 TeV and a search for the Higgs boson are reported. The W+W− candidates are selected in events with two leptons, either electrons or muons. The measurement is performed using LHC data recorded with the CMS detector, corresponding to an integrated luminosity of 36 pb−1. The pp → W+W− cross section is measured to be 41.1±15.3(stat)±5.8(syst)±4.5(lumi)pb, consistent with the standard model prediction. Limits on WWγ and WWZ anomalous triple gauge couplings are set. The search for the standard model Higgs boson in the W+W− decay mode does not reveal any evidence of excess above backgrounds. Limits are set on the production of the Higgs boson in the context of the standard model and in the presence of a sequential fourth family of fermions with high masses. In the latter context, a Higgs boson with mass between 144 and 207 GeV/c2 is ruled out at 95% confidence level