pinecone/core-2020-05-10-deduplication huggingface dataset:
Genome-wide RNAi screen reveals role for multi-pass membrane protein in endosome-to-Golgi retrieval

Endosome-to-Golgi retrieval is an essential membrane trafficking pathway required for many important physiological processes and linked to neurodegenerative disease and infection by bacterial and viral pathogens. The prototypical cargo protein for this pathway is the cation-independent mannose 6-phosphate receptor (CIMPR), which delivers lysosomal hydrolases to endosomes. Efficient retrieval of CIMPR to the Golgi requires the retromer complex but other aspects of the endosome-to-Golgi retrieval pathway are poorly understood. Employing an image-based antibody-uptake assay, we conducted a genome-wide RNAi loss-of-function screen for novel regulators of this trafficking pathway, and report ~90 novel genes that are required for endosome-to-Golgi retrieval of a CD8-CIMPR reporter protein. Among these novel regulators of endosome-to-Golgi retrieval are a number of multi-pass membrane spanning proteins, a class of proteins often overlooked with respect to a role in membrane trafficking. We further demonstrate a novel role for three multi-pass membrane proteins, SFT2D2, ZDHHC5 and GRINA, in endosome-to-Golgi retrieval.This work was financially supported through a Medical Research Council Senior Research Fellowship awarded to MNJS. Work in the CIMR is also supported by a Welcome Trust Strategic Award (100140).This is the final version of the article. It first appeared from Cell Press via http://dx.doi.org/10.1016/j.celrep.2014.10.05
A family intervention to reduce delirium in hospitalzed ICU patients: a feasibility randomized controlled trial

Background: \ud
Family members could play an important role in preventing and reducing the development of delirium in Intensive Care Units (ICU) patients. This study sought to assess the feasibility of design and recruitment, and accept ability for family members and nurses of a family delivered intervention to reduce delirium in ICU patients.\ud
\ud
Method:\ud
A single centre randomised controlled trial in an Australian medical/surgical ICU was conducted. Sixty-one family members were randomised (29 in intervention and 32 in non-intervention group). Following instructions, the intervention comprised the family members providing orientation, or memory clues (family photographs, orientation to surroundings) to their relative each day. In addition, family members conducted sensory checks (vision and hearing with glasses and hearing aids); and 5 therapeutic or cognitive stimulation (discussing family life, reminiscing) daily. Eleven ICU nurses were interviewed to gain insight into the feasibility and acceptability of implementing the intervention from their perspective.  \ud
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Results:\ud
Recruitment rate was 28% of eligible patients (recruited n=90, attrition n=1). Following instruction by the research nurse the family member delivered the intervention which was assessed to be feasible and acceptable by family members and nurses. Protocol adherence could be improved with alternative data collection methods. Nurses considered the activities acceptable.  \ud
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Conclusion: \ud
The study was able to recruit, randomise, and retain family member participants. Further strategies are required to assess intervention fidelity and improve data collection
THE MEGASECOND CHANDRA X-RAY VISIONARY PROJECT OBSERVATION OF NGC 3115. II. PROPERTIES OF POINT SOURCES

We carried out an in-depth study of low-mass X-ray binaries (LMXBs) detected in the nearby lenticular galaxy NGC 3115 using the Megasecond Chandra X-ray Visionary Project observation (total exposure time 1.1 Ms). In total we found 136 candidate LMXBs in the field and 49 in globular clusters (GCs) above 2σ detection, with 0.3–8 keV luminosity L[subscript X] ~ 10[superscript 36]–10[superscript 39] erg s[superscript −1]. Other than 13 transient candidates, the sources overall have less long-term variability at higher luminosity, at least at L[subscript X] [> over ~] 2 X 10[superscript 37] erg s[superscript −1]. In order to identify the nature and spectral state of our sources, we compared their collective spectral properties based on single-component models (a simple power law or a multicolor disk) with the spectral evolution seen in representative Galactic LMXBs. We found that in the L[subscript X] versus photon index Γ[subscript PL] and L[subscript X] versus disk temperature kT[subscript MCD] plots, most of our sources fall on a narrow track in which the spectral shape hardens with increasing luminosity below L[subscript X] ~ 7 X 10[superscript 37] erg s[superscript −1], but is relatively constant (Γ[subscript PL] ~ 1.5 or kT[subscript MCD] ~ 1.5 keV) above this luminosity, which is similar to the spectral evolution of Galactic neutron star (NS) LMXBs in the soft state in the Chandra bandpass. Therefore, we identified the track as the NS LMXB soft-state track and suggested sources with L[subscript X] [< over ~] 7 X 10[superscript 37] erg s[superscript −1] as atolls in the soft state and those with L[subscript X] [> over ~] 7 X 10[superscript 37] erg s[superscript −1] as Z sources. Ten other sources (five are transients) displayed significantly softer spectra and are probably black hole X-ray binaries in the thermal state. One of them (persistent) is in a metal-poor GC
Search for neutral MSSM Higgs bosons decaying to μ+μ− in pp collisions at $\sqrt{s}$ = 7 and 8 TeV

A search for neutral Higgs bosons predicted in the minimal supersymmetric standard model (MSSM) for$μ^{+}μ^{−}$ decay channels is presented. The analysis uses data collected by the CMS experiment at the LHC in proton–proton collisions at centre-of-mass energies of 7 and 8 TeV, corresponding to integrated luminosities of 5.1 and 19.3 fb$^{−1}$ , respectively. The search is sensitive to Higgs bosons produced either through the gluon fusion process or in association with a bb‾ quark pair. No statistically significant excess is observed in the $μ^{+}μ^{−}$ mass spectrum. Results are interpreted in the framework of several benchmark scenarios, and the data are used to set an upper limit on the MSSM parameter tan⁡β as a function of the mass of the pseudoscalar A boson in the range from 115 to 300 GeV. Model independent upper limits are given for the product of the cross section and branching fraction for gluon fusion and b quark associated production at $\sqrt{s}$=8 TeV . They are the most stringent limits obtained to date in this channel
The Odd story of $\alpha'$-corrections

The $\alpha'$-deformed frame-like Double Field Theory (DFT) is a T-duality
and gauge invariant extension of DFT in which generalized Green-Schwarz
transformations provide a gauge principle that fixes the higher-derivative
corrections. It includes all the first order $\alpha'$-corrections of the
bosonic and heterotic string low energy effective actions and of the
Hohm-Siegel-Zwiebach $\alpha'$-geometry. Here we gauge this theory and
parameterize it in terms of a frame, a two-form, a dilaton, gauge vectors and
scalar fields. This leads to a unified framework that extends the previous
construction by including all duality constrained interactions in generic
(gauged/super)gravity effective field theories in arbitrary number of
dimensions, to first order in $\alpha'$.Comment: 52 page
Identification of formation-stages in a polymeric foam customised by sonication via electrical resistivity measurements

The final publication is available at Springer via: http://dx.doi.org/10.1007/s10965-008-9249-4.The polymerisation reactions associated with foam formation have distinct stages (i.e. nucleation, growth, packing, stiffening, solidification) some of which are known to be more sensitive to external inputs than others. Consequently, precise detection of the start and end points of each of the polymerisation stages would enable the fine control of material properties such as porosity in solid foams. The development of such process control can only be pursued if those sensitive stages can be clearly distinguished during the manufacture process. This paper reports how an electrical resistivity tracking method was used to assess the differences in the foaming processes when ultrasound was irradiated to polymeric melts undergoing foaming with the aim of tailoring the architecture of the final solid matrix. The electrical resistivity tracking method is also appraised with regard to its suitability to accurately identify the formation stages in the foam
Hunt for new phenomena using large jet multiplicities and missing transverse momentum with ATLAS in 4.7 fb(-1) of root s = 7 TeV proton-proton collisions

ATLAS Collaboration Contributor: M. White for the University of Adelaide.Results are presented of a search for new particles decaying to large numbers of jets in association with missing transverse momentum, using 4.7 fb -1 of pp collision data at s root=7TeV collected by the ATLAS experiment at the Large Hadron Collider in 2011. The event selection requires missing transverse momentum, no isolated electrons or muons, and from >/-6 to >/-9 jets. No evidence is found for physics beyond the Standard Model. The results are interpreted in the context of a MSUGRA/CMSSM supersymmetric model, where, for large universal scalar mass m 0, gluino masses smaller than 840 GeV are excluded at the 95% confidence level, extending previously published limits. Within a simplified model containing only a gluino octet and a neutralino, gluino masses smaller than 870 GeV are similarly excluded for neutralino masses below 100 GeV.The ATLAS collaboratio
Practical Application of Total Quality Management Systemto Education of International Students

This paper deals with the acute question of education of international students. The main principles of the Total QualityManagement System (TQM) were implemented in the planning and organization of educational and other processes which areimportant to education. The development of new forms and methods of educational activity, the establishment of new linksbetween different issues, and understanding effective management of all processes are vital to achieving successful results. Theelements of the TQM connected with the cycle "Plan-Do-Check-Action" (PDCA) define the policy of organization in theeducational process for international students. Innovative services, techniques and forms of education, information technologies,and professional development improve the outcomes of teaching goals and the educational system as a whole
Search for the standard model Higgs boson decaying into two photons in pp collisions at s=7 TeV

AbstractA search for a Higgs boson decaying into two photons is described. The analysis is performed using a dataset recorded by the CMS experiment at the LHC from pp collisions at a center-of-mass energy of 7 TeV, which corresponds to an integrated luminosity of 4.8 fb−1. Limits are set on the cross section of the standard model Higgs boson decaying to two photons. The expected exclusion limit at 95% confidence level is between 1.4 and 2.4 times the standard model cross section in the mass range between 110 and 150 GeV. The analysis of the data excludes, at 95% confidence level, the standard model Higgs boson decaying into two photons in the mass range 128 to 132 GeV. The largest excess of events above the expected standard model background is observed for a Higgs boson mass hypothesis of 124 GeV with a local significance of 3.1σ. The global significance of observing an excess with a local significance ⩾3.1σ anywhere in the search range 110–150 GeV is estimated to be 1.8σ. More data are required to ascertain the origin of this excess
Artemisinin resistance in Plasmodium falciparum: A process linked to dormancy?

AbstractArtemisinin (ART) based combination therapy (ACT) is used as the first line treatment of uncomplicated falciparum malaria in over 100 countries and is the cornerstone of malaria control and elimination programs in these areas. However, despite the high potency and rapid parasite killing action of ART derivatives there is a high rate of recrudescence associated with ART monotherapy and recrudescence is not uncommon even when ACT is used. Compounding this problem are reports that some parasites in Cambodia, a known foci of drug resistance, have decreased in vivo sensitivity to ART. This raises serious concerns for the development of ART resistance in the field even though no major phenotypic and genotypic changes have yet been identified in these parasites. In this article we review available data on the characteristics of ART, its effects on Plasmodium falciparum parasites and present a hypothesis to explain the high rate of recrudescence associated with this potent class of drugs and the current enigma surrounding ART resistance
Identification of distinct nisin leader peptide regions that determine interactions with the modification enzymes NisB and NisC

AbstractNisin is the most prominent and applied bacteriocin that serves as a model for class I lantibiotics. The nisin leader peptide importantly determines interactions between precursor nisin and its modification enzymes NisB and NisC that mature nisin posttranslationally. NisB dehydrates serines and threonines, while NisC catalyzes the subsequent coupling of the formed dehydroamino acids to form lanthionines. Currently, little is known about how the nisin leader interacts with NisB and even less is known about its interactions with NisC. To investigate the nisin leader peptide requirements for functional interaction with the modification enzymes NisB and NisC, we systematically replaced six regions, of 2–4 amino acids each, with all-alanine regions. By performing NisB and NisC co-purification studies with these mutant leader peptides, we demonstrate that the nisin leader regions STKD(-22-19), FNLD(-18-15) and PR(-2-1) importantly contribute to the interactions of precursor nisin with both NisB and NisC, whereas the nisin leader region LVSV(-14-11) additionally contributes to the interaction of precursor nisin with NisC
Immunization with H1, HASPB1 and MML Leishmania proteins in a vaccine trial against experimental canine leishmaniasis

AbstractThe protective capabilities of three Leishmania recombinant proteins – histone 1 (H1) and hydrophilic acylated surface protein B1 (HASPB1) immunized singly, or together as a protein cocktail vaccine with Montanide™, and the polyprotein MML immunized with MPL®-SE adjuvant – were assessed in beagle dogs. Clinical examination of the dogs was carried out periodically under blinded conditions and the condition of the dogs defined as asymptomatic or symptomatic. At the end of the trial, we were able to confirm that following infection with L. infantum promastigotes, five out of eight dogs immunized with H1 Montanide™, and four out of eight dogs immunized with either the combination of HASPB1 with Montanide™ or the combination of H1+HASPB1 with Montanide™, remained free of clinical signs, compared with two out of seven dogs immunized with the polyprotein MML and adjuvant MPL®-SE, and two out of eight dogs in the control group. The results demonstrate that HASPB1 and H1 antigens in combination with Montanide™ were able to induce partial protection against canine leishmaniasis, even under extreme experimental challenge conditions
Isomorphism property in nonstandard extensions of theZFC universe

AbstractWe study models ofHST (a nonstandard set theory which includes, in particular, the Replacement and Separation schemata ofZFC in the language containing the membership and standardness predicates, and Saturation for well-orderable families of internal sets). This theory admits an adequate formulation of the isomorphism propertyIP, which postulates that any two elementarily equivalent internally presented structures of a well-orderable language are isomorphic. We prove thatIP is independent ofHST (using the class of all sets constructible from internal sets) and consistent withHST (using generic extensions of a constructible model ofHST by a sufficient number of generic isomorphisms)
The factorial structure of cognitive abilities in childhood

AbstractRecent studies have shown contradictory evidence regarding cognitive abilities differentiation and organization in childhood. Cattell's investment theory postulated that during the early stages of life, the individual begins with a single and general ability (fluid intelligence), in which the relevance tends to decrease during adolescence, due to the appearance of differentiated abilities developed through the process of socialization and associated with the motivations, interests and experiences. This study analyses whether the factorial structure of the results in a battery of tests supports the existence of a general factor or, instead, a structure formed by different specific factors. A sample of 472 Portuguese children, aged between 4 and 10 years old, completed the Cognitive Competencies Scale for Children (ECCOs 4/10), and four subtests of the Wechsler Intelligence Scale for Children-Third Edition (WISC-III) and Wechsler Preschool and Primary Scale of Intelligence – Revised (WPPSI-R). The adjustment of some models that reflect different psychometric theories of intelligence was tested by several confirmatory factor analyses (CFA). The implications of the tested models in the organization of cognitive abilities for cognitive development and school learning in childhood are also discussed
Reliability of measurement of endothelial function across multiple institutions and establishment of reference values in Japanese

AbstractAimsFor the standardization of flow-mediated vasodilatation (FMD) assessment as a clinical tool, validation of its reliability across multiple institutions and the establishment of normal/reference values based on reliable data from multiple institutions are needed.Methods and resultsIn Study 1, assessment of FMD (scan recording and analysis) using an ultrasonographic semi-automatic measuring system (sFMD) was conducted at 18 participating institutions (sFMD-INST) (n = 981). All of the brachial arterial scans were also analyzed at a core laboratory (sFMD-COLB). After 111 subjects with inadequate sFMD recordings were excluded (n = 880), the correlation between the sFMD-INST and sFMD-COLB improved from R = 0.725 to R = 0.838 (p < 0.001). In Study 2, based on good-quality sFMD data obtained from 6660 subjects without cardiovascular disease (CVD) and 729 subjects with CVD from 27 institutions, reference values of sFMD are proposed by the Framingham risk score (FRS)-based risk categories and according to gender and age. The receiver-operating characteristic curve analysis revealed a significant power of sFMD values in reference ranges to discriminate between subjects with and without CVD (e.g., area under curve = 0.64 in the FRS-low risk group).ConclusionsWhen the analysis was limited to cases with clear sFMD recordings, the reliability of the sFMD assessment (scan and its analysis) conducted in individual institutions appeared to be acceptable. Reference sFMD values (lower cuff occlusion) for the Japanese population are proposed based on reliable data derived from multiple institutions, and the reference values may identify patients without advanced vascular damage
QED as the tensionless limit of the spinning string with contact interaction

AbstractQED with spinor matter is argued to correspond to the tensionless limit of spinning strings with contact interactions. The strings represent electric lines of force with charges at their ends. The interaction is constructed from a delta-function on the world-sheet which, although off-shell, decouples from the world-sheet metric. Integrating out the string degrees of freedom with fixed boundary generates the super-Wilson loop that couples spinor matter to electromagnetism in the world-line formalism. World-sheet and world-line, but not spacetime, supersymmetry underpin the model
Monopole creation operators as confinement–deconfinement order parameters

AbstractWe study numerically two versions of the monopole creation operators proposed by Fröhlich and Marchetti. The disadvantage of the old version of the monopole creation operator is due to visibility of the Dirac string entering the definition of the creation operator in the theories with coexisting electric and magnetic charges. This problem does not exist for the new creation operator which is rather complicated. Using the Abelian Higgs model with a compact gauge field we show that both definitions of the monopole creation operator can serve as order parameters for the confinement–deconfinement phase transition. The value of the monopole condensate for the old version depends on the length of Dirac string. However, as soon as the length is fixed the old operator certainly discriminates between the phases with condensed and noncondensed monopoles
RNS derivation of N-point disk amplitudes from the revisited S-matrix approach

AbstractRecently, in [7] we proposed a revisited S-matrix approach to efficiently find the bosonic terms of the open superstring low energy effective lagrangian (OSLEEL). This approach allows to compute the α′N terms of the OSLEEL using open superstring n-point amplitudes in which n is considerably lower than (N+2) (which is the order of the required amplitude to obtain those α′N terms by means of the conventional S-matrix approach). In this work we use our revisited S-matrix approach to examine the structure of the scattering amplitudes, arriving at a closed form for them. This is a RNS derivation of the formula first found by Mafra, Schlotterer and Stieberger [21], using the pure spinor formalism. We have succeeded doing this for the 5, 6 and 7-point amplitudes. In order to achieve these results we have done a careful analysis of the kinematical structure of the amplitudes, finding as a by-product a purely kinematical derivation of the BCJ relations (for N=4,5,6 and 7). Also, following the spirit of the revisited S-matrix approach, we have found the α′ expansions for these amplitudes up to α′6 order in some cases, by only using the well known open superstring 4-point amplitude, cyclic symmetry and tree level unitarity: we have not needed to compute any numerical series or any integral involving polylogarithms, at any moment
Separation Logic for Multiple Inheritance

AbstractAs an extension to Floyd-Hoare logic, separation logic has been used to facilitate reasoning about imperative programs manipulating shared mutable data structures. Recently, it has also been extended to support modular reasoning in Java-like object-oriented languages where only single inheritance is allowed. In this paper we propose an extension of separation logic to support also the reasoning for multiple inheritance in C++ -like languages. To cater for multiple inheritance, we modified the standard storage model for separation logic in a way that the correct reference to a field or a method can be easily determined. On top of this storage model, a set of proof rules are proposed. Our verification system also provides basic support for behavioral subtyping
Hybrid tractability of valued constraint problems

AbstractThe constraint satisfaction problem (CSP) is a central generic problem in computer science and artificial intelligence: it provides a common framework for many theoretical problems as well as for many real-life applications. Valued constraint problems are a generalisation of the CSP which allow the user to model optimisation problems. Considerable effort has been made in identifying properties which ensure tractability in such problems. In this work, we initiate the study of hybrid tractability of valued constraint problems; that is, properties which guarantee tractability of the given valued constraint problem, but which do not depend only on the underlying structure of the instance (such as being tree-structured) or only on the types of valued constraints in the instance (such as submodularity). We present several novel hybrid classes of valued constraint problems in which all unary constraints are allowed, which include a machine scheduling problem, constraint problems of arbitrary arities with no overlapping nogoods, and the SoftAllDiff constraint with arbitrary unary valued constraints. An important tool in our investigation will be the notion of forbidden substructures