bluuebunny/crossref_metadata_2025_split huggingface dataset:
Acoustic Focusing Enhancement In Fresnel Zone Plate Lenses
Authors: Tarrazó-Serrano Daniel , Pérez-López Sergio , Candelas Pilar , Uris Antonio , Rubio Constanza 
Published: May 2019

AbstractThe development of flat acoustic lenses for different applications such as biomedical engineering is a topic of great interest. Flat lenses like Fresnel Zone Plates (FZPs) are capable of focusing energy beams without the need of concave or convex geometries, which are more difficult to manufacture. One of the possible applications of these type of lenses is tumor ablation through High Intensity Focused Ultrasound (HIFU) therapies with real time Magnetic Resonance Imaging (MRI) monitoring. In order to be MRI compatible, the FZP material cannot have electromagnetic interaction. In this work, a Phase-Reversal FZP (PR-FZP) made of Polylactic Acid (PLA) manufactured with a commercial 3D printer is proposed as a better, more efficient and MRI compatible alternative to conventional Soret FZPs. Phase-Reversal lenses, unlike traditional FZPs, take advantage of all the incident energy by adding phase compensation regions instead of pressure blocking regions. The manufactured PR-FZP achieves 21.9 dB of focal gain, which increases the gain compared to a Soret FZP of its same size by a factor of 4.0 dB. Both numerical and experimental results are presented, demonstrating the improved focusing capabilities of these types of lenses.
Atmospheric Circulation Patterns Associated with Extreme United States Floods Identified via Machine Learning
Authors: Schlef Katherine E. , Moradkhani Hamid , Lall Upmanu 
Published: May 2019

AbstractThe massive socioeconomic impacts engendered by extreme floods provides a clear motivation for improved understanding of flood drivers. We use self-organizing maps, a type of artificial neural network, to perform unsupervised clustering of climate reanalysis data to identify synoptic-scale atmospheric circulation patterns associated with extreme floods across the United States. We subsequently assess the flood characteristics (e.g., frequency, spatial domain, event size, and seasonality) specific to each circulation pattern. To supplement this analysis, we have developed an interactive website with detailed information for every flood of record. We identify four primary categories of circulation patterns: tropical moisture exports, tropical cyclones, atmospheric lows or troughs, and melting snow. We find that large flood events are generally caused by tropical moisture exports (tropical cyclones) in the western and central (eastern) United States. We identify regions where extreme floods regularly occur outside the normal flood season (e.g., the Sierra Nevada Mountains due to tropical moisture exports) and regions where multiple extreme flood events can occur within a single year (e.g., the Atlantic seaboard due to tropical cyclones and atmospheric lows or troughs). These results provide the first machine-learning based near-continental scale identification of atmospheric circulation patterns associated with extreme floods with valuable insights for flood risk management.
Assessing local chlamydia screening performance by combining survey and administrative data to account for differences in local population characteristics
Authors: Green Nathan , Sherrard-Smith Ellie , Tanton Clare , Sonnenberg Pam , Mercer Catherine H. , White Peter J. 
Published: May 2019

AbstractReducing health inequalities requires improved understanding of the causes of variation. Local-level variation reflects differences in local population characteristics and health system performance. Identifying low- and high-performing localities allows investigation into these differences. We used Multilevel Regression with Post-stratification (MRP) to synthesise data from multiple sources, using chlamydia testing as our example. We used national probability survey data to identify individual-level characteristics associated with chlamydia testing and combined this with local-level census data to calculate expected levels of testing in each local authority (LA) in England, allowing us to identify LAs where observed chlamydia testing rates were lower or higher than expected, given population characteristics. Taking account of multiple covariates, including age, sex, ethnicity, student and cohabiting status, 5.4% and 3.5% of LAs had testing rates higher than expected for 95% and 99% posterior credible intervals, respectively; 60.9% and 50.8% had rates lower than expected. Residual differences between observed and MRP expected values were smallest for LAs with large proportions of non-white ethnic populations. London boroughs that were markedly different from expected MRP values (≥90% posterior exceedance probability) had actively targeted risk groups. This type of synthesis allows more refined inferences to be made at small-area levels than previously feasible.
Illumina and Nanopore methods for whole genome sequencing of hepatitis B virus (HBV)
Authors: McNaughton Anna L. , Roberts Hannah E. , Bonsall David , de Cesare Mariateresa , Mokaya Jolynne , Lumley Sheila F. , Golubchik Tanya , Piazza Paolo , Martin Jacqueline B. , de Lara Catherine , Brown Anthony , Ansari M. Azim , Bowden Rory , Barnes Eleanor , Matthews Philippa C. 
Published: May 2019

AbstractAdvancing interventions to tackle the huge global burden of hepatitis B virus (HBV) infection depends on improved insights into virus epidemiology, transmission, within-host diversity, drug resistance and pathogenesis, all of which can be advanced through the large-scale generation of full-length virus genome data. Here we describe advances to a protocol that exploits the circular HBV genome structure, using isothermal rolling-circle amplification to enrich HBV DNA, generating concatemeric amplicons containing multiple successive copies of the same genome. We show that this product is suitable for Nanopore sequencing as single reads, as well as for generating short-read Illumina sequences. Nanopore reads can be used to implement a straightforward method for error correction that reduces the per-read error rate, by comparing multiple genome copies combined into a single concatemer and by analysing reads generated from plus and minus strands. With this approach, we can achieve an improved consensus sequencing accuracy of 99.7% and resolve intra-sample sequence variants to form whole-genome haplotypes. Thus while Illumina sequencing may still be the most accurate way to capture within-sample diversity, Nanopore data can contribute to an understanding of linkage between polymorphisms within individual virions. The combination of isothermal amplification and Nanopore sequencing also offers appealing potential to develop point-of-care tests for HBV, and for other viruses.
Safety of low-dose subcutaneous recombinant interleukin-2: systematic review and meta-analysis of randomized controlled trials
Authors: Mahmoudpour Seyed Hamidreza , Jankowski Marius , Valerio Luca , Becker Christian , Espinola-Klein Christine , Konstantinides Stavros , Quitzau Kurt , Barco Stefano 
Published: May 2019

AbstractStandard-dose intravenous recombinant interleukin-2 (rIL-2) is indicated for the treatment of some subtypes of cancer; however, severe adverse events, including venous thromboembolism (VTE), may complicate its administration. Low-dose subcutaneous rIL-2 is being studied for the management of immune-mediated diseases, since it can modulate the immunological response by specifically targeting T regulatory (Treg) cells; importantly, it is supposed to cause fewer or no complications. In this systematic review and meta-analysis of phase II-III randomized controlled trials (RCTs), we investigated the safety of low-dose (<6 Million International Unit [MIU]/day) and ultra-low-dose (≤1 MIU/day) rIL-2 for severe adverse events (grade III-V) with a focus on VTE. Data of 1,321 patients from 24 RCTs were analysed: 661 patients were randomized to the rIL-2 arm (on top of standard of care) and 660 patients to standard of care alone or placebo. Two studies reported higher rates of thrombocytopenia in the low-dose rIL-2 arm. Ultra-low-dose rIL-2 was reported to be well tolerated in 6 studies with a negligible rate of severe adverse events. Symptomatic VTE events were not reported in any of the study arms (absolute risk difference 0% [95%CI −0.1%; +0.1%]). Our results may facilitate the study and introduction in clinical practice of low-dose rIL-2 for potentially new indications.
Ecological feedbacks stabilize a turf-dominated ecosystem at the southern extent of kelp forests in the Northwest Atlantic
Authors: Feehan Colette J. , Grace Sean P. , Narvaez Carla A. 
Published: May 2019

AbstractTemperate marine ecosystems globally are undergoing regime shifts from dominance by habitat-forming kelps to dominance by opportunistic algal turfs. While the environmental drivers of shifts to turf are generally well-documented, the feedback mechanisms that stabilize novel turf-dominated ecosystems remain poorly resolved. Here, we document a decline of kelp Saccharina latissima between 1980 and 2018 at sites at the southernmost extent of kelp forests in the Northwest Atlantic and their replacement by algal turf. We examined the drivers of a shift to turf and feedback mechanisms that stabilize turf reefs. Kelp replacement by turf was linked to a significant multi-decadal increase in sea temperature above an upper thermal threshold for kelp survival. In the turf-dominated ecosystem, 45% of S. latissima were attached to algal turf rather than rocky substrate due to preemption of space. Turf-attached kelp required significantly (2 to 4 times) less force to detach from the substrate, with an attendant pattern of lower survival following 2 major wave events as compared to rock-attached kelp. Turf-attached kelp allocated a significantly greater percentage of their biomass to the anchoring structure (holdfast), with a consequent energetic trade-off of slower growth. The results indicate a shift in community dominance from kelp to turf driven by thermal stress and stabilized by ecological feedbacks of lower survival and slower growth of kelp recruited to turf.
Serum bilirubin level is a strong predictor for disability in activities in daily living (ADL) in Japanese elderly patients with diabetes
Authors: Inoguchi Toyoshi , Fukuhara Saki , Yamato Mayumi , Nakai Michikazu , Etoh Tomoaki , Masakado Mitsunori , Suehiro Satoshi , Umeda Fumio , Yamauchi Teruaki 
Published: May 2019

AbstractElderly patients with diabetes are at increased risk of frailty and disability in activities of daily living (ADL). Recent evidence has shown that oxidative stress is associated with these conditions. In this cross-sectional study, we aimed to assess whether serum level of bilirubin, a strong endogenous antioxidant, can predict ADL disability in elderly patients with diabetes. Forty elderly patients aged 70 years and older with diabetes and ADL disability and 158 elderly patients with diabetes and without ADL disability were continuously recruited. Multivariate logistic regression models showed that serum bilirubin level was a significant predictor for ADL disability. Receiver operating characteristic analysis showed that the area under the curve (AUC) of serum bilirubin level alone for ADL disability was 0.887 (95% CI 0.837–0.936, P < 0.001) and the cut-off value was 0.4 mg/dL (sensitivity = 88.0% and specificity = 65.0%). The predictive ability was further increased by the addition of age (AUC = 0.921) or addition of age, body mass index, red blood cell count, cerebrovascular disease and chronic renal failure (AUC = 0.953). In conclusion, low serum bilirubin level is a strong predictive biomarker for ADL disability in elderly patients with diabetes, and its clinical utility is suggested.
An Improved Grey Wolf Optimizer Based on Differential Evolution and Elimination Mechanism
Authors: Wang Jie-Sheng , Li Shu-Xia 
Published: May 2019

AbstractThe grey wolf optimizer (GWO) is a novel type of swarm intelligence optimization algorithm. An improved grey wolf optimizer (IGWO) with evolution and elimination mechanism was proposed so as to achieve the proper compromise between exploration and exploitation, further accelerate the convergence and increase the optimization accuracy of GWO. The biological evolution and the “survival of the fittest” (SOF) principle of biological updating of nature are added to the basic wolf algorithm. The differential evolution (DE) is adopted as the evolutionary pattern of wolves. The wolf pack is updated according to the SOF principle so as to make the algorithm not fall into the local optimum. That is, after each iteration of the algorithm sort the fitness value that corresponds to each wolf by ascending order, and then eliminate R wolves with worst fitness value, meanwhile randomly generate wolves equal to the number of eliminated wolves. Finally, 12 typical benchmark functions are used to carry out simulation experiments with GWO with differential evolution (DGWO), GWO algorithm with SOF mechanism (SGWO), IGWO, DE algorithm, particle swarm algorithm (PSO), artificial bee colony (ABC) algorithm and cuckoo search (CS) algorithm. Experimental results show that IGWO obtains the better convergence velocity and optimization accuracy.
Identification of a molecular subtyping system associated with the prognosis of Asian hepatocellular carcinoma patients receiving liver resection
Authors: Ma Xiaohua , Gu Jingxian , Wang Kun , Zhang Xing , Bai Juan , Zhang Jingyao , Liu Chang , Qiu Qiang , Qu Kai 
Published: May 2019

AbstractHepatocellular carcinoma (HCC) remains a severe health issue worldwide, especially in Asia. To date, molecular classifications proposed for the overall survival (OS) or recurrence-free survival (RFS) prediction of Asian HCC patients after hepatectomy are quite few and limited in clinical practice. Here, we established a molecular subtyping system for Asian HCC to facilitate prognosis evaluation. Firstly, differentially expressed genes (DEGs) (FDR [false discovery rate] <0.05) between different types of liver cancer and non-tumor tissue were screened. Among the DEGs solely between HCC and non-tumor samples, 185 genes simultaneously significantly associated with the OS and RFS were identified as HCC-characteristic genes. The molecular subtypes were developed based on the expression profiles of the 185 genes in the training dataset (TCGA [The Cancer Genome Atlas] dataset) using non-negative matrix factorization (NMF) clustering method. Patients were then classified into Subtype1 and Subtype2 groups denoting unfavorable and favorable clinical outcome respectively. The robustness and effectiveness of the molecular subtype was confirmed in another independent dataset (GSE14520) by the same clustering approach and Kaplan-Meier analyses. Moreover, functional prediction analysis revealed that the identified molecular signature was involved in chemotaxis, apoptosis and cell development associated pathways. Besides, the molecular signature was closely related to the clinical characteristics including TNM stage, preoperative alpha-fetoprotein (AFP) level and TP53 mutation. Furthermore, integration of the molecular subtype and TNM stage was demonstrated to improve risk stratification. Taken together, our molecular subtyping system exhibited great utility and potential in prognosis prediction and therapeutic decision making of Asian HCC patients.
SLTChemDB: A database of chemical compounds present in Smokeless tobacco products
Authors: Kaur Jasmine , Sharma Arun , Kumar Amit , Bhartiya Deeksha , Sinha Dhirendra Narain , Kumari Suchitra , Gupta Ruchika , Mehrotra Ravi , Singh Harpreet 
Published: May 2019

AbstractSmokeless tobacco (SLT), a cause of potentially preventable diseases, has a diverse chemical composition encompassing toxicants as well as potent carcinogens. Though the chemical profile of SLT products has been analyzed earlier, this information is not available in a comprehensive and easily accessible format. Hence, there is an imperative felt need to develop a one-stop information source providing inclusive information on SLT products. SLTChemDB is the first such database that makes available detailed information on various properties of chemical compounds identified across different brands of SLT products. The primary information for the database was extracted through extensive literature search, which was further curated from popular chemical web servers and databases. At present, SLTChemDB contains comprehensive information on 233 unique chemical compounds and 82 SLT products. The database has been made user-friendly with facility for systematic search and filters. SLTChemDB would provide the initial data on chemical compounds in SLT products to various tobacco testing laboratories. The database also highlights research gaps and thus, would be a guide for researchers interested in chemistry and toxicology of SLT products. With regular update of information in the database, it shall be a valuable evidence base for policymakers to formulate stringent policies for SLT control.
Protective effect of calcitriol on rhabdomyolysis-induced acute kidney injury in rats
Authors: Reis Natany Garcia , Francescato Heloísa Della Coletta , de Almeida Lucas Ferreira , Silva Cleonice Giovanini Alves da , Costa Roberto Silva , Coimbra Terezila Machado 
Published: May 2019

AbstractGlycerol injection in rats can lead to rhabdomyolysis, with the release of the intracellular muscle content to the extracellular compartment and acute kidney injury (AKI). Oxidative stress and the inflammatory processes contribute to the disturbances in renal function and structure observed in this model. This study evaluated the effect of calcitriol administration in AKI induced by rhabdomyolysis and its relationship with oxidative damage and inflammatory process. Male Wistar Hannover rats were treated with calcitriol (6 ng/day) or vehicle (0.9% NaCl) for 7 days and were injected with 50% glycerol or saline 3 days after the beginning of calcitriol or saline administration. Four days after glycerol or saline injection, urine, plasma and renal tissue samples were collected for renal function and structural analysis. The oxidative stress and the inflammatory processes were also evaluated. Glycerol-injected rats presented increased sodium fractional excretion and decreased glomerular filtration rates. These alterations were associated with tubular injury in the renal cortex. These animals also presented increased oxidative damage, apoptosis, inflammation, higher urinary excretion of vitamin D-binding protein and decreased cubilin expression in renal tissue. All these alterations were less intense in calcitriol-treated animals. This effect was associated with decreases in oxidative damage and inflammation.
Endogenous APOBEC3B Overexpression Constitutively Generates DNA Substitutions and Deletions in Myeloma Cells
Authors: Yamazaki Hiroyuki , Shirakawa Kotaro , Matsumoto Tadahiko , Hirabayashi Shigeki , Murakawa Yasuhiro , Kobayashi Masayuki , Sarca Anamaria Daniela , Kazuma Yasuhiro , Matsui Hiroyuki , Maruyama Wataru , Fukuda Hirofumi , Shirakawa Ryutaro , Shindo Keisuke , Ri Masaki , Iida Shinsuke , Takaori-Kondo Akifumi 
Published: May 2019

AbstractApolipoprotein B mRNA-editing enzyme catalytic polypeptide-like (APOBEC) DNA cytosine deaminases have emerged as potential genomic mutators in various cancers. Multiple myeloma accumulates APOBEC signature mutations as it progresses; however, the mechanisms underlying APOBEC signature acquisition and its consequences remain elusive. In this study, we examined the significance and clinical impact of APOBEC3B (A3B) activity in multiple myeloma. Among APOBECs, only highly expressed A3B was associated with poor prognosis in myeloma patients, independent of other known poor prognostic factors. Quantitative PCR revealed that CD138-positive primary myeloma cells and myeloma cell lines exhibited remarkably high A3B expression levels. Interestingly, lentiviral A3B knockdown prevented the generation of deletion and loss-of-function mutations in exogenous DNA, whereas in control cells, these mutations accumulated with time. A3B knockdown also decreased the basal levels of γ-H2AX foci, suggesting that A3B promotes constitutive DNA double-strand breaks in myeloma cells. Importantly, among control shRNA-transduced cells, we observed the generation of clones that harboured diverse mutations in exogenous genes and several endogenous genes frequently mutated in myeloma, including TP53. Taken together, the results suggest that A3B constitutively mutates the tumour genome beyond the protection of the DNA repair system, which may lead to clonal evolution and genomic instability in myeloma.
First observation of electronic trap levels in freestanding GaN crystals extracted from Si substrates by hydride vapour phase epitaxy
Authors: Lee Moonsang , Ahn Chang Wan , Vu Thi Kim Oanh , Lee Hyun Uk , Kim Eun Kyu , Park Sungsoo 
Published: May 2019

AbstractThe electronic deep level states of defects embedded in freestanding GaN crystals exfoliated from Si substrates by hydride vapour phase epitaxy (HVPE) is investigated for the first time, using deep level transient spectroscopy (DLTS). The electron traps are positioned 0.24 eV (E1) and 1.06 eV (E2) below the conduction band edge, respectively. The capture cross sections of E1 and E2 are evaluated to be 1.65 × 10−17 cm2 and 1.76 × 10−14 cm2 and the corresponding trap densities are 1.07 × 1014 cm−3 and 2.19 × 1015 cm−3, respectively. The DLTS signal and concentration of the electronic deep levels are independent of the filling pulse width, and the depth toward the bottom of the sample, evidenced by the fact that they are correlated to noninteracting point defects. Furthermore, Photoluminescence (PL) measurement shows green luminescence, suggesting that unidentified point defects or complex, which affect the optical characterisitics, exhibit. Despite the Si-based materials, the freestanding GaN exhibits deep level characteristics comparable to those of conventional freestanding GaN, suggesting that it is a desirable material for use in the next generation optoelectronic devices with the large-scalibilityand low production costs.
Association between Sleep Duration and Chronic Rhinosinusitis among the Korean General Adult Population: Korea National Health and Nutrition Examination Survey
Authors: Kim Jeong-Whun , Jung Hahn Jin , Choi Hyo Geun , Rhee Chae-Seo , Wee Jee Hye 
Published: May 2019

AbstractAn association between sleep duration and a wide spectrum of diseases has been reported, but little is known about its relationship with chronic rhinosinusitis (CRS). The present study aimed to investigate whether sleep duration was associated with CRS after adjusting for potential confounding factors in Korean adults. We analyzed data from the Korea National Health and Nutrition Examination Survey 2005–2009 and enrolled 24,658 participants aged ≥20 years. Data regarding sociodemographic characteristics, self-reported sleep duration, CRS, and other medical diseases were collected from questionnaires. Multiple logistic regression analyses were used to identify the relationship between sleep duration and CRS. The overall prevalence of CRS was 4.4%. Subjects with sleep duration ≤5 hours showed a highest prevalence for CRS (6.1%), compared to subjects with longer sleep duration (p = 0.02). After adjusting for covariates (age, sex, household income, residency, dwelling type, education, depression, alcohol, allergic rhinitis, chronic otitis media, angina or myocardial infarction, asthma, chronic obstructive pulmonary disease, bronchiectasis, and gastric ulcer), the sleep duration of ≤5 hours was significantly associated with CRS (OR = 1.502; 95% CI = 1.164–1.938). Only in older subgroup (≥50 years old), shorter sleep duration (≤5 hours) showed higher odds for CRS. These results suggested that sleep duration may be negatively associated with CRS in older Korean adults.