bluuebunny/crossref_metadata_2025_split huggingface dataset:
The risk of urinary tract infection in vegetarians and non-vegetarians: a prospective study
Authors: Chen Yen-Chang , Chang Chia-Chen , Chiu Tina H. T. , Lin Ming-Nan , Lin Chin-Lon 
Published: January 2020

AbstractUrinary tract infection (UTI) is caused principally by ascending Escherichia coli infection via an intestine-stool-urethra route. Recent studies found that the strains of E. coli causing UTIs, called extra-intestinal pathogenic E. coli (ExPEC), were distinct from the intestinal pathogenic strains and normal commensal strains. Further analysis found the meat including poultry and pork is the major reservoir for ExPECs. Vegetarians avoid meat and should theoretically have less exposure to ExPEC. However, no study thus far has examined whether vegetarian diets reduce the risk of UTI. Our aim was to examine the association between vegetarian diet and UTI risk in a Taiwanese Buddhist population. We prospectively followed 9724 Buddhists free of UTI from 2005 to 2014. During the 10-year follow-up, 661 incident UTI cases were confirmed. Diet was assessed through a food frequency questionnaire. Cox regression was used to evaluate the prospective association between a vegetarian diet on risk of UTI while adjusting for age, sex, educational level, alcohol-drinking, smoking, hypertension, diabetes mellitus, hyperlipidemia, and disease conditions predisposing to UTIs. Overall, vegetarian diet was associated with 16% lower hazards (hazard ratio [HR]: 0.84, 95% confidence interval [CI]: 0.71–0.99). In subgroup analysis, the protective association between vegetarian diet and UTI is observed mainly in the female (HR: 0.82, 95% CI: 0.69–0.99), never smokers (HR: 0.80, 95% CI: 0.67–0.95), and for uncomplicated UTI (HR: 0.81, 95% CI: 0.68–0.98).
Micronutrients in critically ill patients with severe acute kidney injury – a prospective study
Authors: Ostermann Marlies , Summers Jennifer , Lei Katie , Card David , Harrington Dominic J. , Sherwood Roy , Turner Charles , Dalton Neil , Peacock Janet , Bear Danielle E. 
Published: January 2020

AbstractMalnutrition is common in patients with acute kidney injury (AKI) and the risk of mortality is high, especially if renal replacement therapy is needed. Between April 2013 through April 2014, we recruited critically ill adult patients (≥18 years) with severe AKI in two University hospitals in London, UK, and measured serial plasma concentrations of vitamin B1, B6, B12, C and D, folate, selenium, zinc, copper, iron, carnitine and 22 amino acids for six consecutive days. In patients receiving continuous renal replacement therapy (CRRT), the concentrations of the same nutrients in the effluent were also determined. CRRT patients (n = 31) had lower plasma concentrations of citrulline, glutamic acid and carnitine at 24 hrs after enrolment and significantly lower plasma glutamic acid concentrations (74.4 versus 98.2 μmol/L) at day 6 compared to non-CRRT patients (n = 24). All amino acids, trace elements, vitamin C and folate were detectable in effluent fluid. In >30% of CRRT and non-CRRT patients, the plasma nutrient concentrations of zinc, iron, selenium, vitamin D3, vitamin C, trytophan, taurine, histidine and hydroxyproline were below the reference range throughout the 6-day period. In conclusion, altered micronutrient status is common in patients with severe AKI regardless of treatment with CRRT.
p53 dynamics in single cells are temperature-sensitive
Authors: Jentsch Marcel , Snyder Petra , Sheng Caibin , Cristiano Elena , Loewer Alexander 
Published: January 2020

AbstractCells need to preserve genome integrity despite varying cellular and physical states. p53, the guardian of the genome, plays a crucial role in the cellular response to DNA damage by triggering cell cycle arrest, apoptosis or senescence. Mutations in p53 or alterations in its regulatory network are major driving forces in tumorigenesis. As multiple studies indicate beneficial effects for hyperthermic treatments during radiation- or chemotherapy of human cancers, we aimed to understand how p53 dynamics after genotoxic stress are modulated by changes in temperature across a physiological relevant range. To this end, we employed a combination of time-resolved live-cell microscopy and computational analysis techniques to characterise the p53 response in thousands of individual cells. Our results demonstrate that p53 dynamics upon ionizing radiation are temperature dependent. In the range of 33 °C to 39 °C, pulsatile p53 dynamics are modulated in their frequency. Above 40 °C, which corresponds to mild hyperthermia in a clinical setting, we observed a reversible phase transition towards sustained hyperaccumulation of p53 disrupting its canonical response to DNA double strand breaks. Moreover, we provide evidence that mild hyperthermia alone is sufficient to induce a p53 response in the absence of genotoxic stress. These insights highlight how the p53-mediated DNA damage response is affected by alterations in the physical state of a cell and how this can be exploited by appropriate timing of combination therapies to increase the efficiency of cancer treatments.
Analysis of Plasmodium falciparum Rh2b deletion polymorphism across different transmission areas
Authors: Aniweh Yaw , Suurbaar Jonathan , Morang’a Collins M. , Nyarko Prince B. , Wright Katherine E. , Kusi Kwadwo A. , Ansah Felix , Kyei-Baafour Eric , Quansah Evelyn , Asante Jessica , Thiam Laty G. , Higgins Matthew K. , Awandare Gordon A. 
Published: January 2020

AbstractDespite significant progress in controlling malaria, the disease remains a global health burden. The intricate interactions the parasite Plasmodium falciparum has with its host allows it to grow and multiply in human erythrocytes. The mechanism by which P. falciparum merozoites invade human erythrocytes is complex, involving merozoite proteins as well as erythrocyte surface proteins. Members of the P. falciparum reticulocyte binding-like protein homolog (PfRh) family of proteins play a pivotal role in merozoite invasion and hence are important targets of immune responses. Domains within the PfRh2b protein have been implicated in its ability to stimulate natural protective antibodies in patients. More specifically, a 0.58 kbp deletion, at the C-terminus has been reported in high frequencies in Senegalese and Southeast Asian parasite populations, suggesting a possible role in immune evasion. We analysed 1218 P. falciparum clinical isolates, and the results show that this deletion is present in Ghanaian parasite populations (48.5% of all isolates), with Kintampo (hyper-endemic, 53.2%), followed by Accra (Hypo-endemic, 50.3%), Cape Coast (meso-endemic, 47.9%) and Sogakope (meso-endemic, 43.15%). Further analysis of parasite genomes stored in the MalariaGEN database revealed that the deletion variant was common across transmission areas globally, with an overall frequency of about 27.1%. Interestingly, some parasite isolates possessed mixed PfRh2b deletion and full-length alleles. We further showed that levels of antibodies to the domain of PfRh2 protein were similar to antibody levels of PfRh5, indicating it is less recognized by the immune system.
RETRACTED ARTICLE: Topological analysis of carbon and boron nitride nanotubes
Authors: Yousaf Awais , Alolaiyan Hanan , Nadeem Muhammad , Razaq Abdul 
Published: January 2020

AbstractGraph theoretical concepts are broadly used in several fields to examine and model various applications. In computational chemistry, the characteristics of a molecular compound can be assessed with the help of a numerical value, known as a topological index. Topological indices are extensively used to study the molecular mechanics in QSAR and QSPR modeling. In this study, we have developed the closed formulae to estimate ABC, ABC4, GA, and GA5 topological indices for the graphical structures of boron nitride and carbon nanotube.
Innervation of papillary thyroid cancer and its association with extra-thyroidal invasion
Authors: Rowe Christopher W. , Dill Tony , Griffin Nathan , Jobling Phil , Faulkner Sam , Paul Jonathan W. , King Simon , Smith Roger , Hondermarck Hubert 
Published: January 2020

AbstractNerves are emerging regulators of cancer progression and in several malignancies innervation of the tumour microenvironment is associated with tumour aggressiveness. However, the innervation of thyroid cancer is unclear. Here, we investigated the presence of nerves in thyroid cancers and the potential associations with clinicopathological parameters. Nerves were detected by immunohistochemistry using the pan-neuronal marker PGP9.5 in whole-slide sections of papillary thyroid cancer (PTC) (n = 75), compared to follicular thyroid cancer (FTC) (n = 13), and benign thyroid tissues (n = 26). Nerves were detected in most normal thyroid tissues and thyroid cancers, but nerve density was increased in PTC (12 nerves/cm2 [IQR 7–21]) compared to benign thyroid (6 nerves/cm2 [IQR: 3–10]) (p = 0.001). In contrast, no increase in nerve density was observed in FTC. In multivariate analysis, nerve density correlated positively with extrathyroidal invasion (p < 0.001), and inversely with tumour size (p < 0.001). The majority of nerves were adrenergic, although cholinergic and peptidergic innervation was detected. Perineural invasion was present in 35% of PTC, and was independently associated with extrathyroidal invasion (p = 0.008). This is the first report of infiltration of nerves into the tumour microenvironment of thyroid cancer and its association with tumour aggressiveness. The role of nerves in thyroid cancer pathogenesis should be further investigated.
Deep Learning Models for Histopathological Classification of Gastric and Colonic Epithelial Tumours
Authors: Iizuka Osamu , Kanavati Fahdi , Kato Kei , Rambeau Michael , Arihiro Koji , Tsuneki Masayuki 
Published: January 2020

AbstractHistopathological classification of gastric and colonic epithelial tumours is one of the routine pathological diagnosis tasks for pathologists. Computational pathology techniques based on Artificial intelligence (AI) would be of high benefit in easing the ever increasing workloads on pathologists, especially in regions that have shortages in access to pathological diagnosis services. In this study, we trained convolutional neural networks (CNNs) and recurrent neural networks (RNNs) on biopsy histopathology whole-slide images (WSIs) of stomach and colon. The models were trained to classify WSI into adenocarcinoma, adenoma, and non-neoplastic. We evaluated our models on three independent test sets each, achieving area under the curves (AUCs) up to 0.97 and 0.99 for gastric adenocarcinoma and adenoma, respectively, and 0.96 and 0.99 for colonic adenocarcinoma and adenoma respectively. The results demonstrate the generalisation ability of our models and the high promising potential of deployment in a practical histopathological diagnostic workflow system.
Efficient Luminescence of Sr2Si5N8:Eu2+ nanophosphor and its film applications to LED and Solar cell as a downconverter
Authors: Kang Taewook , Lee Sunghoon , Kim Taehoon , Kim Jongsu 
Published: January 2020

AbstractHere we present the synthesis of the efficient nanophosphor Sr2Si5N8:Eu2+ (D50 = 144 nm) by a simple milling approach, its strong Rayleigh scattering, and its film applications to white LED and silicon solar cell as a downshifting medium. The final nanophosphor product showed the quantum efficiency comparable to the bulk phosphor which is, to our knowledge, the highest record of nitride nanophosphors. Especially the nanophosphor showed the more tail emission at the shorter-wavelength side of the emission spectrum and the faster thermal quenching with the more spectral broadening along with the temperature due to Rayleigh scattering. Also the lowering in the excitation spectrum was observed due to lower absorbance. Finally, the nanophosphor-dispersed polyvinyl alcohol (PVA) film was made, and its applications to white LED and silicon solar cell as a downshifting medium demonstrated that it gave the high color rendering property in white LED in spite of still lower luminous efficiency, and it caused the increase in efficiency of silicon solar cell.
A resonant single frequency molecular detector with high sensitivity and selectivity for gas mixtures
Authors: Branković Zorica , Rostovtsev Yuri 
Published: January 2020

AbstractAir quality control is an important task in prevention of human exposure to toxic and harmful gases and requires reliable gas sensors. During last decades many gas sensing mechanisms, based on different physical or chemical interactions with sensitive materials, have been developed, but the problem of precise analysis of gas mixtures still remains. The problem can be solved by introducing new sensing mechanism based on an adiabatically changing electric field interacting with the rotational structure of the molecules with dipole moments. We have theoretically demonstrated a single low frequency gas detector that can be used for sensing of gas mixtures with high selectivity, accuracy, and sensitivity. The enhancement of the population difference between corresponding molecular levels and reached the theoretical maximum of absorption have been shown.
Evaluation of intraocular gas using magnetic resonance imaging after pars plana vitrectomy with gas tamponade for rhegmatogenous retinal detachment
Authors: Gozawa Makoto , Kanamoto Masayuki , Ishida Shota , Takamura Yoshihiro , Iwasaki Kentaro , Kimura Hirohiko , Inatani Masaru 
Published: January 2020

AbstractWe used magnetic resonance imaging (MRI) to assess how a patient’s posture affects intraocular gas changes and whether the postoperative prone position is required after pars plana vitrectomy (PPV) with gas tamponade for rhegmatogenous retinal detachments (RRDs). Eight patients with RRDs who underwent PPV combined with cataract surgery with gas tamponade were prospectively included. They underwent MRI examination both in the prone and supine positions. We separated the retina into four parts: superior–posterior, superior–anterior, inferior–posterior, and inferior–anterior. We then calculated the gas contact rate as (the length of the retina contacting the gas in each retinal part) divided by (the length of each retinal part) × 100% in both the prone and supine positions. The mean gas contact rate of the superior–anterior part of the retina was significantly higher (P = 0.006) in the supine position than in the prone position. The mean gas contact rate of the inferior–anterior part of the retina was also significantly higher (P = 0.0004) in the supine position than in the prone position. We believe that if all retinal breaks were located anterior to the equator, the supine position may provide better tamponade gas coverage for the breaks than the prone position. Although potential postoperative complications caused by the supine position require careful attention, our result may shorten the duration of postoperative prone position and may decrease the patients’ discomfort after PPV with gas tamponade for RRDs.
pH dependence of the non-cooperative binding of Bi3+ to human apo-metallothionein 1A: kinetics, speciation, and stoichiometry
Authors: Korkola Natalie C , Scarrow Patti M , Stillman Martin J 
Published: January 2020

AbstractBismuth is a well-known therapeutic agent that is used primarily for treatment against peptic ulcers. It has also had success in protecting against nephrotoxicity caused by the anticancer compound cisplatin by inducing the liver and kidney metalloprotein, metallothionein (MT) that then binds to the cisplatin. MT is a small, ubiquitous protein that binds monovalent, divalent, and trivalent metals using its abundant cysteine thiols (20 cysteines in the mammalian protein). It is important in the understanding of both these therapeutic applications to explore in detail the earliest stages of MT binding to bismuth salts. In this paper, we explored the binding of [Bi(cit)]− and [Bi(EDTA)]− to apo-MT 1a as the most basic of binding motifs. It was found that both Bi3+ salts bound in a non-cooperative stepwise manner to terminal cysteinal thiolates at pH 2.6, 5.0, and 7.4. We report that [Bi(EDTA)]− only binds stepwise up to Bi6MT, whereas [Bi(cit)]− forms up to Bi8MT, where the 7th and 8th Bi3+ appear to be adducts. Stepwise speciation analysis provided the 7 binding constants that decreased systematically from K1 to K7 indicating a non-cooperative binding profile. They are reported as log K1 = 27.89, log K2 = 27.78, log K3 = 27.77, log K4 = 27.62, log K5 = 27.32, log K6 = 26.75, and log K7 = 26.12, with log K[Bi(cit)]− determined to be 24.17. Cysteine modifications with benzoquinone and iodoacetamide revealed that when apoMT is fully metallated with Bi3+ there are two free cysteines, meaning 18 cysteines are used in binding the 6 Bi3+. Kinetic studies showed that [Bi(EDTA)]− binds very slowly at pH 2.6 (k = 0.0290 × 106 M−1 s−1) and approximately 2000 times faster at pH 7.4 (k = 66.5 × 106 M−1 s−1). [Bi(cit)]− binding at pH 2.6 was faster than [Bi(EDTA)]− (k = 672 × 106 M−1 s−1) at either pH level. The data strongly support a non-clustered binding motif, emphasizing the non-traditional pathway reported previously for As3+.
Double-stranded RNA and Toll-like receptor activation: a novel mechanism for blood pressure regulation
Authors: Dela Justina Vanessa , Giachini Fernanda R. , Priviero Fernanda , Webb R. Clinton 
Published: January 2020

Abstract
Toll-like receptors (TLRs), such as TLR4 and 9, recognize pathogen-associated molecular pattern (PAMPs) and danger-associated molecular patterns (DAMPs) and are associated with increased blood pressure (BP). TLR3, residing in the endosomal compartment, is activated by viral double-stranded RNA (dsRNA) leading to activation of TIR receptor domain-containing adaptor inducing IFN-β (TRIF) dependent pathway. Besides foreign pathogens, the immune system responds to endogenous markers of cellular damage such as mitochondrial dsRNA (mtdsRNA). New evidence has shown a link between dsRNA and increased BP. Moreover, TLR3 activation during pregnancy was demonstrated to develop preeclampsia-like symptoms in both rats and mice. Hence, we hypothesize that the dsRNA derived from viral nucleic acids or cellular damage (mtdsRNA) will increase the inflammatory state through activation of TLR3, contributing to vascular dysfunction and increased BP. Therefore, inhibition of TLR3 could be a therapeutic target for the treatment of hypertension with potential improvement in vascular reactivity and consequently, a decrease in BP.
Effects of Expiratory Muscle Strength Training on Videofluoroscopic Measures of Swallowing: A Systematic Review
Authors: Mancopes Renata , Smaoui Sana , Steele Catriona M. 
Published: January 2020

PurposeExpiratory muscle strength training (EMST) is increasingly utilized in dysphagia rehabilitation; however, little is known about the effects of this approach on swallowing function or physiology. We conducted a systematic review to appraise and synthesize evidence regarding the effects of EMST on videofluoroscopic measures of swallowing in individuals with medical diagnoses, in which dysphagia is a concern.MethodA literature search was conducted according to Cochrane guidelines. Of 292 nonduplicate articles, 11 were judged to be relevant for review. These underwent detailed review for study quality, risk of bias evaluation, and synthesis of swallowing outcomes.ResultsThe selected articles described EMST in a variety of patient populations using either the EMST150 or the Phillips Threshold positive expiratory pressure device. The typical protocol involved five sets of five breaths through the device (25 breaths/day), 5 days per week for 4 weeks. Exercise loads were set between 50% and 75% depending on the population, and treatment was typically supervised by a clinician weekly. The Penetration–Aspiration Scale was the most commonly reported videofluoroscopic outcome measure. Conclusions differed as to whether or not swallowing improved following a course of EMST. Differences in videofluoroscopy protocols, methods of summarizing participant performance, and statistical approaches across studies meant that meta-analysis of swallowing outcomes could not be completed.ConclusionThis review failed to find clear evidence regarding the effects of EMST on videofluoroscopic measures of swallowing. Heterogeneity in the etiologies and baseline severity of dysphagia across studies and in the methods used to measure swallowing outcomes was a particular barrier to data synthesis.
Particle acceleration in coalescent and squashed magnetic islands
Authors: Xia Q. , Zharkova V. 
Published: January 2020

Aims.Particles are known to have efficient acceleration in reconnecting current sheets with multiple magnetic islands that are formed during a reconnection process. Using the test-particle approach, the recent investigation of particle dynamics in 3D magnetic islands, or current sheets with multiple X- and O-null points revealed that the particle energy gains are higher in squashed magnetic islands than in coalescent ones. However, this approach did not factor in the ambient plasma feedback to the presence of accelerated particles, which affects their distributions within the acceleration region.Methods.In the current paper, we use the particle-in-cell (PIC) approach to investigate further particle acceleration in 3D Harris-type reconnecting current sheets with coalescent (merging) and squashed (contracting) magnetic islands with different magnetic field topologies, ambient densities ranging between 108 − 1012m−3, proton-to-electron mass ratios, and island aspect ratios.Results.In current sheets with single or multiple X-nullpoints, accelerated particles of opposite charges are separated and ejected into the opposite semiplanes from the current sheet midplane, generating a strong polarisation electric field across a current sheet. Particles of the same charge form two populations: transit and bounced particles, each with very different energy and asymmetric pitch-angle distributions, which can be distinguished from observations. In some cases, the difference in energy gains by transit and bounced particles leads to turbulence generated by Buneman instability. In magnetic island topology, the different reconnection electric fields in squashed and coalescent islands impose different particle drift motions. This makes particle acceleration more efficient in squashed magnetic islands than in coalescent ones. The spectral indices of electron energy spectra are ∼ − 4.2 for coalescent and ∼ − 4.0 for squashed islands, which are lower than reported from the test-particle approach. The particles accelerated in magnetic islands are found trapped in the midplane of squashed islands, and shifted as clouds towards the X-nullpoints in coalescent ones.Conclusions.In reconnecting current sheets with multiple X- and O-nullpoints, particles are found accelerated on a much shorter spatial scale and gaining higher energies than near a single X-nullpoint. The distinct density and pitch-angle distributions of particles with high and low energy detected with the PIC approach can help to distinguish the observational features of accelerated particles.