Towards Constructing a Corpus for Studying the Effects of Treatments and Substances Reported in PubMed Abstracts

We present the construction of an annotated corpus of PubMed abstracts reporting about positive, negative or neutral effects of treatments or substances. Our ultimate goal is to annotate one sentence (rationale) for each abstract and to use this resource as a training set for text classification of effects discussed in PubMed abstracts. Currently, the corpus consists of 750 abstracts. We describe the automatic processing that supports the corpus construction, the manual annotation activities and some features of the medical language in the abstracts selected for the annotated corpus. It turns out that recognizing the terminology and the abbreviations is key for determining the rationale sentence. The corpus will be applied to improve our classifier, which currently has accuracy of 78.80% achieved with normalization of the abstract terms based on UMLS concepts from specific semantic groups and an SVM with a linear kernel. Finally, we discuss some other possible applications of this corpus.Comment: medical relation extraction, rationale extraction, effects and treatments, bioNL

Electron and Spin Transport in the Presence of Complex Absorbing Potential

We examine the impact of a complex absorbing potential on electron transport, both in the continuum and on a lattice. This requires the use of non-Hermitian Hamiltonians; the required formalism is briefly outlined. The lattice formulation allows us to study the interesting problem of an electron interacting with a stationary spin, and the subsequent time evolution of the electron and spin properties as the electron is absorbed after the initial interaction. Remarkably, the properties of the localized spin are affected 'at-a-distance' by the interaction of the (now entangled) electron with a complex potential.Comment: to be published in Phys. Rev.

INVESTIGATING HOW PARENTS, WHO GUIDE THEIR PRESCHOOL CHILDREN TOWARDS SPORTS, PERCEIVE SPORTS ACTIVITIES

Objectives: The aim of this study was to investigate parents’ expectations about general sport activities for their pre-school children. It is well documented that the awareness of sports knowledge of the parents are essential for the development of healthy life and acquiring a social dimension with a growth of healthy generations. Method: We administrated the ‘’Parents' Expectations of Their Children Questionnaire’’ developed by Keskin (2006). The questionnaire was a Likert type scale from ‘’totally agree’’ to ‘’totally disagree’’ and validity and reliability studies were reported by Keskin as Cronbach’s alpha was 0,86. A total of 125 participants (male; N = 39, Mage=35, 24 ± 5,48 , female; N = 86 and Mage=37,92 ± 6,65) were voluntarily participated from 10 different kinder gardens in Bursa province. The evaluation of the data was analysed with the Chi Square Test. Result: Our results revealed a statistical differences (p < .05) according to the sex groups of parents ‘’I believe my child will gain good eating habits by getting involved with sports activities’’ and age groups of parents; ‘’I believe by getting involved with sport activities, my child will stay away from psychological stress’’. Conclusion: According to parents’ belief and their expectations, attending sports activities for children provides physical, cognitive and social development for them. Developing countries (as well as developed ones) that are aware of the role of the parents on development of human being via sport and exercise activities should take into account their expectations especially in terms of sports policies.  Article visualizations

The Effect of Tranexamic Acid and Tourniquet Use on Tibial Cement Penetration in Primary Total Knee Arthroplasties

Background: In this study, our aim was to compare the effects of tourniquet and tranexamic acid (TXA) use on tibial cement penetration in primary total knee arthroplasty (TKA) using radiograph images. In addition, we also aimed at investigating the effects of age, gender, body mass index (BMI), and bone mineral density on cement penetration. Methods: One hundred seventy patients who underwent TKA for primary osteoarthritis were retrospectively evaluated. TXA was administered to patients in group 1 (n = 96), and tourniquet application was used in patients in group 2 (n = 74). Tibial cement penetration was evaluated radiologically on a total of 4 zones: 2 anteroposterior and 2 lateral zones. In addition, age, gender, BMI, and bone mineral density were recorded in each group. Results: The mean cement penetration in the total study population was 2.34 ± 0.24 mm, with a mean of 2.33 ± 0.25 mm in the TXA group and a mean of 2.35 ± 0.24 mm in the tourniquet group (P = .453). A negative correlation was detected between BMI and anteroposterior 1 values in the total and TXA groups (P = .022 and P = .029). In the evaluation of the differences between genders, significantly higher penetration values were observed only in the females in the tourniquet group (P = .024). Conclusions: The use of TXA instead of a tourniquet does not reduce the depth of cement penetration in TKA. The clinical implications of individual-induced penetration differences may be significant for future implant survival. © 2020 The Author

Factors leading to dissemination of cutaneous anthrax: an international ID-IRI study

Background: Although anthrax is a rare zoonotic infection, it still causes significant mortality and morbidity. In this multicenter study, which is the largest anthrax case series ever reported, we aimed to describe the factors leading to dissemination of cutaneous anthrax. Methods: Adult patients with cutaneous anthrax from 16 referral centers were pooled. The study had a retrospective design, and included patients treated between January 1, 1990 and December 1, 2019. Probable, and confirmed cases based upon CDC anthrax 2018 case definition were included in the study. A descriptive statistical analysis was performed for all variables. Results: A total of 141 cutaneous anthrax patients were included. Of these, 105 (74%) patients had probable and 36 (26%) had confirmed diagnosis. Anthrax meningitis and bacteremia occurred in three and six patients, respectively. Sequelae were observed in three patients: cicatricial ectropion followed by ocular anthrax (n = 2) and movement restriction on the left hand after surgical intervention (n = 1). One patient had gastrointestinal anthrax. The parameters related to poor outcome (p < 0.05) were fever, anorexia, hypoxia, malaise/fatigue, cellulitis, fasciitis, lymphadenopathy, leukocytosis, high CRP and creatinine levels, longer duration of antimicrobial therapy, and combined therapy. The last two were seemingly the consequences of dissemination rather than being the reasons. The fatality rate was 1.4%. Conclusions: Rapid identification of anthrax is crucial for prompt and effective treatment. Systemic symptoms, disseminated local infection, and high inflammatory markers should alert the treating physicians for the dissemination of the disease. © 2022 The Author

Improvement of n-GaN Schottky diode rectifying characteristics using KOH etching

KOH etch was investigated as a means to improve the I–Vcharacteristics of Schottky diodes onn-type GaNgrown by molecular-beam epitaxy on sapphire, or on hydride vapor phase epitaxy templates. Atomic force microscopy images and I–Vcharacteristics are presented. After etching as-grown films in molten KOH, Schottky diodes on c-plane GaN had orders of magnitude reduction in reverse leakage current. The best devices had leakage currents less than 10−12 A (10−8 A/cm2) at −5 V, and ideality factors of 1.04. Measurements on several different sample structures indicate a correlation between surface roughness and saturation current, and an improvement in ideality factor when etched in KOH. Phosphoric acid was also investigated, but did not result in significant improvements in I–Vcharacteristics

Access regulation and the transition from copper to fiber networks in telecoms

In this paper we study the impact of different forms of access obligations on firms' incentives to migrate from the legacy copper network to ultra-fast broadband infrastructures. We analyze three different kinds of regulatory interventions: geographical regulation of access to copper networks-where access prices are differentiated depending on whether or not an alternative fiber network has been deployed; access obligations on fiber networks and its interplay with wholesale copper prices; and, finally, a mandatory switch-off of the legacy copper network-to foster the transition to the higher quality fiber networks. Trading-off the different static and dynamic goals, the paper provides guidelines and suggestions for policy makers' decision

High-Frequency Spin Waves in YBa2Cu3O6.15

Pulsed neutron spectroscopy is used to make absolute measurements of the dynamic magnetic susceptibility of insulating YBa2Cu3O6.15. Acoustic and optical modes, derived from in- and out-of-phase oscillation of spins in adjacent CuO2 planes, dominate the spectra and are observed up to 250 meV. The optical modes appear first at 74 meV. Linear-spin-wave theory gives an excellent description of the data and yields intra- and inter-layer exchange constants of J_parallel =125 meV and J_perp = 11 meV respectively and a spin-wave intensity renormalization Z_chi = 0.4.Comment: postscript, 11 pages, 4 figures, Fig.2 fixe

Yb2_{2}Pt2_{2}Pb: Magnetic frustration in the Shastry-Sutherland lattice

We have synthesized single crystals of Yb$_{2}$Pt$_{2}$Pb, which crystallize in the layered U$_{2}$Pt$_{2}$Sn-type structure, where planes of Yb ions lie on a triangular network. We report here the first results of magnetization, specific heat, and electrical resistivity experiments. The lattice constants and high temperature magnetic susceptibility indicate that the Yb ions are trivalent, while Schottky peaks in the specific heat show that the ground state is a well isolated doublet. Significant magnetic anisotropy is observed, with the ratio of susceptibilities perpendicular and parallel to the magnetic planes differing by as much as a factor of 30 at the lowest temperatures. Antiferromagnetic order occurs at a N\'eel temperature $T_{\rm N}$=2.07 K, a transition temperature which is more than an order of magnitude smaller than the mean field interactions reflected by the in-plane Weiss temperature. Further evidence for short ranged magnetic fluctuations is found in the magnetic susceptibility and electrical resistivity, which have broad peaks above $T_{\rm N}$, and in the slow development of the magnetic entropy at $T_{\rm N}$. Our experiments indicate that Yb$_{2}$Pt$_{2}$Pb is a quasi-two dimensional and localized moment system, where strong magnetic frustration may arise from the geometry of the underlying Shastry-Sutherland lattice.Comment: 8 pages, 8 figure

Protein domain-based prediction of drug/compound–target interactions and experimental validation on LIM kinases

Predictive approaches such as virtual screening have been used in drug discovery with the objective of reducing developmental time and costs. Current machine learning and network-based approaches have issues related to generalization, usability, or model interpretability, especially due to the complexity of target proteins’ structure/function, and bias in system training datasets. Here, we propose a new method “DRUIDom” (DRUg Interacting Domain prediction) to identify bio-interactions between drug candidate compounds and targets by utilizing the domain modularity of proteins, to overcome problems associated with current approaches. DRUIDom is composed of two methodological steps. First, ligands/compounds are statistically mapped to structural domains of their target proteins, with the aim of identifying their interactions. As such, other proteins containing the same mapped domain or domain pair become new candidate targets for the corresponding compounds. Next, a million-scale dataset of small molecule compounds, including those mapped to domains in the previous step, are clustered based on their molecular similarities, and their domain associations are propagated to other compounds within the same clusters. Experimentally verified bioactivity data points, obtained from public databases, are meticulously filtered to construct datasets of active/interacting and inactive/non-interacting drug/compound–target pairs (~2.9M data points), and used as training data for calculating parameters of compound–domain mappings, which led to 27,032 high-confidence associations between 250 domains and 8,165 compounds, and a finalized output of ~5 million new compound–protein interactions. DRUIDom is experimentally validated by syntheses and bioactivity analyses of compounds predicted to target LIM-kinase proteins, which play critical roles in the regulation of cell motility, cell cycle progression, and differentiation through actin filament dynamics. We showed that LIMK-inhibitor-2 and its derivatives significantly block the cancer cell migration through inhibition of LIMK phosphorylation and the downstream protein cofilin. One of the derivative compounds (LIMKi-2d) was identified as a promising candidate due to its action on resistant Mahlavu liver cancer cells. The results demonstrated that DRUIDom can be exploited to identify drug candidate compounds for intended targets and to predict new target proteins based on the defined compound–domain relationships. Datasets, results, and the source code of DRUIDom are fully-available at: https://github.com/cansyl/DRUIDom