pinecone/core-2020-05-10-deduplication huggingface dataset:
Heart failure after conventional metal-on-metal hip replacements: a retrospective cohort study

Background and purpose - It is unclear whether metal particles and ions produced by mechanical wear and corrosion of hip prostheses with metal-on-metal (MoM) bearings have systemic adverse effects on health. We compared the risk of heart failure in patients with conventional MoM total hip arthroplasty (THA) and in those with metal-on-polyethylene (MoP) THA. Patients and methods - We conducted a retrospective cohort study using data from the Australian Government Department of Veterans' Affairs health claims database on patients who received conventional THA for osteoarthritis between 2004 and 2012. The MoM THAs were classified into groups: Articular Surface Replacement (ASR) XL Acetabular System, other large-head (LH) (> 32 mm) MoM, and small-head (SH) (≤ 32 mm) MoM. The primary outcome was hospitalization for heart failure after THA. Results - 4,019 patients with no history of heart failure were included (56% women). Men with an ASR XL THA had a higher rate of hospitalization for heart failure than men with MoP THA (hazard ratio (HR) = 3.2, 95% CI: 1.6-6.5). No statistically significant difference in the rate of heart failure was found with the other LH MoM or SH MoM compared to MoP in men. There was no statistically significant difference in heart failure rate between exposure groups in women. Interpretation - An association between ASR XL and hospitalization for heart failure was found in men. While causality between ASR XL and heart failure could not be established in this study, it highlights an urgent need for further studies to investigate the possibility of systemic effects associated with MoM THA.Marianne H Gillam, Nicole L Pratt, Maria C S Inacio, Elizabeth E Roughead, Sepehr Shakib, Stephen J Nicholls & Stephen E Grave
Open City Data Pipeline

Statistical data about cities, regions and at country level is collected for various purposes and from various institutions. Yet, while\ud
access to high quality and recent such data is crucial both for decision makers as well as for the public, all to often such collections of\ud
data remain isolated and not re-usable, let alone properly integrated. In this paper we present the Open City Data Pipeline, a focused\ud
attempt to collect, integrate, and enrich statistical data collected at city level worldwide, and republish this data in a reusable manner\ud
as Linked Data. The main feature of the Open City Data Pipeline are: (i) we integrate and cleanse data from several sources in a\ud
modular and extensible, always up-to-date fashion; (ii) we use both Machine Learning techniques as well as ontological reasoning\ud
over equational background knowledge to enrich the data by imputing missing values, (iii) we assess the estimated accuracy of such\ud
imputations per indicator. Additionally, (iv) we make the integrated and enriched data available both in a we browser interface and as\ud
machine-readable Linked Data, using standard vocabularies such as QB and PROV, and linking to e.g. DBpedia.\ud
Lastly, in an exhaustive evaluation of our approach, we compare our enrichment and cleansing techniques to a preliminary version\ud
of the Open City Data Pipeline presented at ISWC2015: firstly, we demonstrate that the combination of equational knowledge and\ud
standard machine learning techniques significantly helps to improve the quality of our missing value imputations; secondly, we\ud
arguable show that the more data we integrate, the more reliable our predictions become. Hence, over time, the Open City Data\ud
Pipeline shall provide a sustainable effort to serve Linked Data about cities in increasing quality.Series: Working Papers on Information Systems, Information Business and Operation
Search for direct production of supersymmetric partners of the top quark
  in the all-jets final state in proton-proton collisions at sqrt(s) = 13 TeV

A search for direct production of top squark pairs in events with jets and
large transverse momentum imbalance is presented. The data are based on
proton-proton collisions at a center-of-mass energy of 13 TeV, collected in
2016 at the CERN LHC, and correspond to an integrated luminosity of 35.9
inverse femtobarns. The search considers a variety of R-parity conserving
supersymmetric models, including ones for which the top squark and neutralino
masses are nearly degenerate. Specialized jet reconstruction tools are
developed to exploit the unique characteristics of the signal topologies. With
no significant excess of events observed above the standard model expectations,
upper limits are set on the direct top squark pair production cross section in
the context of simplified supersymmetric models for various decay hypotheses.
Models with larger differences in mass between the top squark and neutralino
are probed for masses up to 1040 and 500 GeV, respectively, whereas models with
a more compressed mass hierarchy are probed up to 660 and 610 GeV,
respectively. The smallest mass difference probed is for masses near to 550 and
540 GeV, respectively.Comment: Replaced with the published version. Added the journal reference and
  DOI. All the figures and tables, including additional supplemental figures
  and tables, can be found at
  http://cms-results.web.cern.ch/cms-results/public-results/publications/SUS-16-049
  (CMS Public Pages
Studies of global and local entanglements of individual protein chains using the concept of knotoids.

We study here global and local entanglements of open protein chains by implementing the concept of knotoids. Knotoids have been introduced in 2012 by Vladimir Turaev as a generalization of knots in 3-dimensional space. More precisely, knotoids are diagrams representing projections of open curves in 3D space, in contrast to knot diagrams which represent projections of closed curves in 3D space. The intrinsic difference with classical knot theory is that the generalization provided by knotoids admits non-trivial topological entanglement of the open curves provided that their geometry is frozen as it is the case for crystallized proteins. Consequently, our approach doesn't require the closure of chains into loops which implies that the geometry of analysed chains does not need to be changed by closure in order to characterize their topology. Our study revealed that the knotoid approach detects protein regions that were classified earlier as knotted and also new, topologically interesting regions that we classify as pre-knotted
5-Fluorouracil signaling through a calcium-calmodulin-dependent pathway is required for p53 activation and apoptosis in colon carcinoma cells

5-Fluorouracil (5-FU) is an anti-metabolite that is in clinical use for treatment of several cancers. In cells, it is converted into three distinct fluoro-based nucleotide analogs, which interfere with DNA synthesis and repair, leading to genome impairment and, eventually, apoptotic cell death. Current knowledge states that in certain cell types, 5-FU-induced stress is signaling through a p53-dependent induction of tumor necrosis factor-receptor oligomerization required for death-inducing signaling complex formation and caspase-8 activation. Here we establish a role of calcium (Ca 2+) as a messenger for p53 activation in response to 5-FU. Using a combination of pharmacological and genetic approaches, we show that treatment of colon carcinoma cells stimulates entry of extracellular Ca 2+ through long lasting-type plasma membrane channels, which further directs posttranslational phosphorylation of at least three p53 serine residues (S15, S33 and S37) by means of calmodulin (CaM) activity. Obstructing this pathway by the Ca 2+ -chelator BAPTA (1,2-bis(o-aminophenoxy)ethane- N,N,N',N'-tetraacetic acid) or by inhibitors of CaM efficiently reduces 5-FU-induced caspase activities and subsequent cell death. Moreover, ectopic expression of p53 S15A in HCT116 p53 -/- cells confirmed the importance of a Ca 2+ -CaM-p53 axis in 5-FU-induced extrinsic apoptosis. The fact that a widely used therapeutic drug, such as 5-FU, is operating via this pathway could provide new therapeutic intervention points, or specify new combinatorial treatment regimes. © 2013 Macmillan Publishers Limited.Swedish Science Foundation; Swedish and Stockholm Cancer Societies; Swedish Childhood Cancer Foundation; EC-FP-6 (Chemores); EC-FP-7 (APO-SYS
Sphingolipid synthesis and scavenging in the intracellular apicomplexan parasite, Toxoplasma gondii.

Sphingolipids are essential components of eukaryotic cell membranes, particularly the plasma membrane, and are involved in a diverse array of signal transduction pathways. Mammals produce sphingomyelin (SM) as the primary complex sphingolipid via the well characterised SM synthase. In contrast yeast, plants and some protozoa utilise an evolutionarily related inositol phosphorylceramide (IPC) synthase to synthesize IPC. This activity has no mammalian equivalent and IPC synthase has been proposed as a target for anti-fungals and anti-protozoals. However, detailed knowledge of the sphingolipid biosynthetic pathway of the apicomplexan protozoan parasites was lacking. In this study bioinformatic analyses indicated a single copy orthologue of the putative SM synthase from the apicomplexan Plasmodium falciparum (the causative agent of malaria) was a bona fide sphingolipid synthase in the related model parasite, Toxoplasma gondii (TgSLS). Subsequently, TgSLS was indicated, by complementation of a mutant cell line, to be a functional orthologue of the yeast IPC synthase (AUR1p), demonstrating resistance to the well characterised AUR1p inhibitor aureobasidin A. In vitro, recombinant TgSLS exhibited IPC synthase activity and, for the first time, the presence of IPC was demonstrated in T. gondii lipid extracts by mass spectrometry. Furthermore, host sphingolipid biosynthesis was indicated to influence, but be non-essential for, T. gondii proliferation, suggesting that whilst scavenging does take place de novo sphingolipid synthesis may be important for parasitism
The BASES expert statement on the use of music in exercise

The use of music during exercise has become ubiquitous over the past two decades and is now supported by a burgeoning body of research detailing its effects and the contingencies surrounding its use. The purpose of this statement is to present a synopsis of the body of knowledge, with selected references, and to provide practical recommendations for exercise practitioners regarding music selection. Following the identification of methodological shortcomings in early studies, researchers have been guided by new conceptual frameworks, and have produced more consistent findings as a consequence. The use of music has been found to yield ergogenic effects in the exercise domain while also promoting psychological (e.g. enhanced affect) and psychophysical (reduced ratings of perceived exertion) benefits. There is a paucity of research examining the longitudinal effects of music on key outcome variables such as exercise adherence.
The paleobiology of two adult skeletons from Baousso da Torre (Bausu da Ture) (Liguria, Italy) : implications for Gravettian lifestyle.

This article presents the main skeletal characteristics of the two largely unpublished Gravettian adult skeletons from Baousso da Torre (Liguria, Italy). BT1 and BT2 were two adult tall males, who died aged respectively between 20 and 50 years, and between 20 and 30 years. Their body proportions fall within the range of variation known for the middle Upper Paleolithic, and their skeletal remains are characterized by considerable osteometric values, which fall consistently in the upper part of the Upper Paleolithic male sample variation. They show a high degree of upper limb lateralization, implying that they were likely involved in strenuous and/or repetitive unimanual tasks. They also exhibit very robust lower limbs, likely related to repeated long-distance travels in mountainous terrains. These results are in total agreement with previous hypotheses on Late Pleistocene population behavioral patterns
A QTL study on late leaf spot and rust revealed one major QTL for molecular breeding for rust resistance in groundnut Arachis hypogaea L.)

Late leaf spot (LLS) and rust are two major\ud
foliar diseases of groundnut (Arachis hypogaea L.) that\ud
often occur together leading to 50–70% yield loss in the\ud
crop. A total of 268 recombinant inbred lines of a mapping\ud
population TAG 24 £ GPBD 4 segregating for LLS and\ud
rust were used to undertake quantitative trait locus (QTL)\ud
analysis. Phenotyping of the population was carried out\ud
under artiWcial disease epiphytotics. Positive correlations\ud
between diVerent stages, high to very high heritability and\ud
independent nature of inheritance between both the\ud
diseases were observed. Parental genotypes were screened\ud
with 1,089 simple sequence repeat (SSR) markers, of which\ud
67 (6.15%) were found polymorphic. Segregation data\ud
obtained for these markers facilitated development of partial\ud
linkage map (14 linkage groups) with 56 SSR loci.\ud
Composite interval mapping (CIM) undertaken on genotyping\ud
and phenotyping data yielded 11 QTLs for LLS (explaining\ud
1.70–6.50% phenotypic variation) in three environments\ud
and 12 QTLs for rust (explaining 1.70–55.20% phenotypic\ud
variation). Interestingly a major QTL associated with rust\ud
(QTLrust01), contributing 6.90–55.20% variation, was identiWed\ud
by both CIM and single marker analysis (SMA). A\ud
candidate SSR marker (IPAHM 103) linked with this QTL\ud
was validated using a wide range of resistant/susceptible\ud
breeding lines as well as progeny lines of another mapping\ud
population (TG 26 £ GPBD 4). Therefore, this marker\ud
should be useful for introgressing the major QTL for rust in\ud
desired lines/varieties of groundnut through markerassisted\ud
backcrossing
Human complement factor H. Two factor H proteins are derived from alternatively spliced transcripts

The human complement factor H is an important component in the control of the
alternative pathway of complement activation. We have previously shown that at
least three factor H homologous mRNA species of 4.3 kb, 1.8 kb and 1.4 kb in
length are constitutively expressed in human liver. In addition, several factor Hrelated
proteins have been detected in human sera using antibodies directed
against the classical human factor H glycoprotein of 150 kDa.The structure of the
additional polypeptides has not been shown so far. Circumstantial evidence
suggests that the 1.8-kb mRNA might encode the 43-kDa factor H-like
polypeptide. Here we report the isolation, characterization and eukaryotic
expression of the first full-length cDNA representing the major 4.3-kb mRNA
and the 1.8-kb mRNA of human factor H. We show that the 4.3-kb transcript
encodes the 150-kDa-factor H glycoprotein and the 1.8-kb mRNA the 43-kDa
factorH polypeptide. The identity of the two cDNA in a region of 1400
nucleotides suggests that the two factor H-related transcripts are derived from
one gene by a process of alternative splicing.
Chaperone-mediated native folding of a β-scorpion toxin in the periplasm of E.coli

Background: Animal neurotoxin peptides are valuable probes for investigating ion channel structure/function relationships and represent lead compounds for novel therapeutics and insecticides. However, misfolding and aggregation are common outcomes when toxins containing multiple disulfides are expressed in bacteria.\ud
\ud
Methods: The ß-scorpion peptide toxin Bj-xtrIT from Hottentotta judaica and four chaperone enzymes (DsbA, DsbC, SurA and FkpA) were co-secreted into the oxidizing environment of the E.coli periplasm. Expressed Bj-xtrIT was purified and analyzed by HPLC and FPLC chromatography. Its thermostability was assessed using synchrotron radiation circular dichroism spectroscopy and its crystal structure was determined.\ud
\ud
Results: Western blot analysis showed that robust expression was only achieved when cells co-expressed the chaperones. The purified samples were homogenous and monodisperse and the protein was thermostable. The crystal structure of the recombinant toxin confirmed that it adopts the native disulfide connectivity and fold.\ud
\ud
Conclusions: The chaperones enabled correct folding of the four-disulfide-bridged Bj-xtrIT toxin. There was no apparent sub-population of misfolded Bj-xtrIT, which attests to the effectiveness of this expression method.\ud
\ud
General Significance: We report the first example of a disulfide-linked scorpion toxin natively folded during bacterial expression. This method eliminates downstream processing steps such as oxidative refolding or cleavage of a fusion-carrier and therefore enables efficient production of insecticidal Bj-xtrIT. Periplasmic chaperone activity may produce native folding of other extensively disulfide-reticulated proteins including animal neurotoxins. This work is therefore relevant to venomics and studies of a wide range of channels and receptors
Your own actions influence how you perceive other people : a misattribution of action appraisals

The attribution of personal traits to other persons depends on the actions the observer performs at the same time (Bach & Tipper, 2007). Here, we show that the effect reflects a misattribution of appraisals of the observers’ own actions to the actions of others. We exploited spatial compatibility effects to manipulate how fluently — how fast and how accurately — participants identified two individuals performing sporty or academic actions. The traits attributed to each person in a subsequent rating task depended on the fluency of participants' responses in a specific manner. An individual more fluently identified while performing the academic action appeared more academic and less sporty. An individual more fluently identified while performing the sporty action appeared sportier. Thus, social perception is — at least partially — embodied. The ease of our own responses can be misattributed to the actions of others, affecting which personal traits are attributed to them
Analysis of clinical and environmental Candida parapsilosis isolates by microsatellite genotyping – a tool for hospital infections surveillance

Candida parapsilosis emerged as an important opportunistic pathogen, causing candidaemia worldwide. Nosocomial outbreaks triggered by this species have been frequently described, particularly in cancer patients. For a better understanding of its epidemiology, several typing methods are used and microsatellite analysis has been reported as highly discriminant. The main objective of this work was to study C. parapsilosis isolates by application of microsatellite genotyping to distinguish epidemiologically related strains, compare clinical and environmental isolates and determine possible routes of dispersion of the isolates in the hospital setting. A total of 129 C. parapsilosis isolates from different origins, including hospital environment and hands of healthcare workers, were genotyped using four microsatellite markers. The isolates were recovered from different health institutions. Analysis of C. parapsilosis isolates from hospital environment showed great genotypic diversity; however, the same or very similar genotypes were also found. The same multilocus genotype was shared by isolates recovered from the hand of a healthcare worker, from the hospital environment and from patients of the same healthcare institution, suggesting that these could be possible routes of transmission and that infections due to C. parapsilosis may be mainly related with exogenous transmission to the patient. Examination of sequential isolates from the same patients showed that colonizing and bloodstream isolates had the same multilocus genotype in the majority of cases. We demonstrate that this typing method is able to distinguish clonal clusters from genetically unrelated genotypes and can be a valuable tool to support epidemiologic investigations in the hospital setting.This research was supported by FCT/MEC, Portugal through Portuguese funds (PIDDAC) - Pest-OE/BIA/UI4050/2014 (CBMA), University of Minho. Raquel Sabino was financially supported by a fellowship from FCT, Portugal (contract BD/22100/2005).info:eu-repo/semantics/publishedVersio
Neutron spectroscopy of 26Mg states: Constraining the stellar neutron source 22Ne(α,n)25Mg

This work reports on accurate, high-resolution measurements of the 25Mg(n , γ)26Mg and 25Mg(n , tot) cross sections in the neutron energy range from thermal to about 300 keV, leading to a significantly improved 25Mg(n , γ)26Mg parametrization. The relevant resonances for n+25Mg were characterized from a combined R-matrix analysis of the experimental data. This resulted in an unambiguous spin/parity assignment of the corresponding excited states in 26Mg. With this information experimental upper limits of the reaction rates for 22Ne(α , n)25Mg and 22Ne(α , γ)26Mg were established, potentially leading to a significantly higher (α , n) / (α , γ) ratio than previously evaluated. The impact of these results has been studied for stellar models in the mass range 2 to 25 M⊙
Trial by Dutch laboratories for evaluation of non-invasive prenatal testing. Part I—clinical impact

Objective: To evaluate the clinical impact of nationwide implementation of genome-wide non-invasive prenatal testing (NIPT) in pregnancies at increased risk for fetal trisomies 21, 18 and 13 (TRIDENT study). Method: Women with elevated risk based on first trimester combined testing (FCT ≥ 1:200) or medical history, not advanced maternal age alone, were offered NIPT as contingent screening test, performed by Dutch University Medical laboratories. We analyzed uptake, test performance, redraw/failure rate, turn-around time and pregnancy outcome. Results: Between 1 April and 1 September 2014, 1413/23 232 (6%) women received a high-risk FCT result. Of these, 1211 (85.7%) chose NIPT. One hundred seventy-nine women had NIPT based on medical history. In total, 1386/1390 (99.7%) women received a result, 6 (0.4%) after redraw. Mean turn-around time was 14 days. Follow-up was available in 1376 (99.0%) pregnancies. NIPT correctly predicted 37/38 (97.4%) trisomies 21, 18 or 13 (29/30, 4/4 and 4/4 respectively); 5/1376 (0.4%) cases proved to be false positives: trisomies 21 (n = 2), 18 (n = 1) and 13 (n = 2). Estimated reduction in invasive testing was 62%. Conclusion: Introduction of NIPT in the Dutch National healthcare-funded Prenatal Screening Program resulted in high uptake and a vast reduction of invasive testing. Our study supports offering NIPT to pregnant women at increased risk for fetal trisomy. © 2016 The Authors. Prenatal Diagnosis published by John Wiley & Sons, Ltd. © 2016 The Authors. Prenatal Diagnosis published by John Wiley & Sons, Ltd
Pseudorapidity distributions of charged hadrons in proton-lead collisions at √sNN = 5.02 and 8.16 TeV

The pseudorapidity distributions of charged hadrons in proton-lead collisions at nucleon-nucleon center-of-mass energies √sNN = 5.02 and 8.16 TeV are presented. The measurements are based on data samples collected by the CMS experiment at the LHC. The number of primary charged hadrons produced in non-single-diffractive proton-lead collisions is determined in the pseudorapidity range |ηlab| < 2.4. The charged-hadron multiplicity distributions are compared to the predictions from theoretical calculations and Monte Carlo event generators. In the center-of-mass pseudorapidity range |ηcm| < 0.5, the average charged-hadron multiplicity densities 〈dNch/dηcm〉|ηcm|< 0.5 are 17.31 ± 0.01 (stat) ± 0.59 (syst) and 20.10 ± 0.01 (stat) ± 0.85(syst) at sNN=5.02 and 8.16 TeV, respectively. The particle densities per participant nucleon are compared to similar measurements in proton-proton, proton-nucleus, and nucleus-nucleus collisions.[Figure not available: see fulltext.]. Keywords: 
Hadron-Hadron scattering (experiments); Heavy-ion collisio