bluuebunny/crossref_metadata_2025_split huggingface dataset:
Functional characterization of miR-708 microRNA in telomerase positive and negative human cancer cells
Authors: Kaul Zeenia , Cheung Caroline T. Y. , Bhargava Priyanshu , Sari Anissa Notifa , Yu Yue , Huifu He , Bid Hemant , Henson Jeremy D. , Groden Joanna , Reddel Roger R. , Kaul Sunil C. , Wadhwa Renu 
Published: August 2021

AbstractActivation of a telomere length maintenance mechanism (TMM), including telomerase and alternative lengthening of telomeres (ALT), is essential for replicative immortality of tumor cells, although its regulatory mechanisms are incompletely understood. We conducted a microRNA (miRNA) microarray analysis on isogenic telomerase positive (TEP) and ALT cancer cell lines. Amongst nine miRNAs that showed difference in their expression in TEP and ALT cancer cells in array analysis, miR-708 was selected for further analysis since it was consistently highly expressed in a large panel of ALT cells. miR-708 in TEP and ALT cancer cells was not correlated with C-circle levels, an established feature of ALT cells. Its overexpression induced suppression of cell migration, invasion, and angiogenesis in both TEP and ALT cells, although cell proliferation was inhibited only in TEP cells suggesting that ALT cells may have acquired the ability to escape inhibition of cell proliferation by sustained miR-708 overexpression. Further, cell proliferation regulation in TEP cells by miR708 appears to be through the CARF-p53 pathway. We demonstrate here that miR-708 (i) is the first miRNA shown to be differentially regulated in TEP and ALT cancer cells, (ii) possesses tumor suppressor function, and (iii) deregulates CARF and p21WAF1-mediated signaling to limit proliferation in TEP cells.
Stress responses in high-fidelity simulation among anesthesiology students
Authors: Stecz Patryk , Makara-Studzińska Marta , Białka Szymon , Misiołek Hanna 
Published: August 2021

AbstractSimulation sessions can produce high-fidelity emergency situations that facilitate the learning process. These sessions may also generate a complex stress response in the learners. This prospective observational study assessed psychological, physiological, immunological, and humoral levels of stress during high-fidelity simulation training. Fifty-six undergraduate medicine students who took part in a medical simulation session were assigned team roles (physician, nurse or assistant). Subsequently, each participant was assessed before the scenario (T0), after the procedure (T1), and two hours later (T2). Psychological stress and anxiety were measured at T0 and T1, using the State-Trait Anxiety Inventory (STAI) and Dundee Stress State Questionnaire (DSSQ). Cortisol, testosterone, secretory immunoglobulin class A (sIgA), alpha-amylase, and oxygen saturation level were measured at T0, T1, and T2, as was the physiological response indicated by heart rate (HR) and blood pressure (BP). It was found that the onset of task performance was related to increased anticipatory worry and higher oxygen saturation. The participants reported decreased worry, followed by increased emotional distress after the simulation training (T1). Participants trait anxiety predicted the intensity of worry, distress and task engagement. In contrast, no clear relationships were found between trait anxiety and biological stress markers. Testosterone levels were growing significantly in each phase of measurement, while physiological responses (BP, HR) increased at T1 and declined at T2. The levels of stress markers varied depending on the assigned roles; however, the trajectories of responses were similar among all team members. No evidence for prolonged cortisol response (T1, T2) was found based on psychological stress at the onset of simulation (T0). Regression analysis followed by receiver operating characteristics analyses showed uncertain evidence that initial state anxiety and worry predicted the levels of sIgA. Medical students are relatively resilient in terms of stress responses to medical simulation. The observed stress patterns and interrelationships between its psychological, physiological, hormonal, and immunological markers are discussed in accordance with theoretical concepts, previous research work, and further recommendations.
Single cell organization and cell cycle characterization of DNA stained multicellular tumor spheroids
Authors: Olofsson Karl , Carannante Valentina , Takai Madoka , Önfelt Björn , Wiklund Martin 
Published: August 2021

AbstractMulticellular tumor spheroids (MCTSs) can serve as in vitro models for solid tumors and have become widely used in basic cancer research and drug screening applications. The major challenges when studying MCTSs by optical microscopy are imaging and analysis due to light scattering within the 3-dimensional structure. Herein, we used an ultrasound-based MCTS culture platform, where A498 renal carcinoma MCTSs were cultured, DAPI stained, optically cleared and imaged, to connect nuclear segmentation to biological information at the single cell level. We show that DNA-content analysis can be used to classify the cell cycle state as a function of position within the MCTSs. We also used nuclear volumetric characterization to show that cells were more densely organized and perpendicularly aligned to the MCTS radius in MCTSs cultured for 96 h compared to 24 h. The method presented herein can in principle be used with any stochiometric DNA staining protocol and nuclear segmentation strategy. Since it is based on a single counter stain a large part of the fluorescence spectrum is free for other probes, allowing measurements that correlate cell cycle state and nuclear organization with e.g., protein expression or drug distribution within MCTSs.
Association of proteinuria and incident atrial fibrillation in patients with diabetes mellitus: a population-based senior cohort study
Authors: Kim Juntae , Yang Pil-Sung , Park Byoung-Eun , Kang Tae Soo , Lim Seong-Hoon , Cho Sungsoo , Lee Su-Yeon , Lee Myung-Yong , Lip Gregory Y. H. , Kim Dongmin , Joung Boyoung 
Published: August 2021

AbstractDiabetes mellitus (DM) is considered an independent risk factor for atrial fibrillation (AF). The excess risk in relation to the presence of proteinuria has not been well elucidated. Our aim was to determine the association between the incidence of AF and proteinuria in diabetic population. A total of 240,499 individuals aged ≥ 60 years from the Korea National Health Insurance Service-Senior cohort from 2004 to 2014 were included. 4.2% of individuals with DM and 3.7% of controls were diagnosed with AF during a median follow-up period of 7.2 years. Amongst controls (participants without proteinuria and DM), DM only, proteinuria only, and DM with proteinuria groups, the crude incidences of AF were 0.58, 0.70, 0.96, 1.24 per 100 person-years respectively. Compared with controls, the weighted risk of AF was increased by 11% (hazard ratio = 1.11, 95% confidence interval = 1.02–1.20, P = .001), 48% (hazard ratio = 1.48, 95% confidence interval = 1.30–1.69, P < .001), and 66% (hazard ratio = 1.66, 95% confidence interval = 1.26–2.18, P < .001) in the DM only, proteinuria only, and DM with proteinuria groups, respectively (P for trend < .001). Degree of proteinuria in diabetic patients was associated with a significantly higher rate of incident AF in dose dependent manner. Thus, assessing proteinuria by a simple urine dipstick test could provide a useful adjunct to risk assessment for AF in elderly population with DM.
The multimorbidity of hypertension and osteoarthritis and relation with sleep quality and hyperlipemia/hyperglycemia in China’s rural population
Authors: Ran Li , Chen Qi , Zhang Jingyi , Tu Xinlong , Tan Xiaodong , Zhang Yuting 
Published: August 2021

AbstractHypertension (HTN) and osteoarthritis (OA) are frequent in middle-aged and elderly people, and the co-occurrence of these two diseases is common. However, the pathogenesis of the multimorbidity of both diseases and the relation with sleep quality, hyperlipemia, and hyperglycemia is unclear. We conducted a cross-sectional study to make sense of the multimorbidity of HTN and OA and the relation with sleep quality, hyperlipemia, and hyperglycemia. The relation between sleep quality and OA and its joint effect with hyperlipemia or hyperglycemia was evaluated with logistic regression models. The additive interaction was assessed with the relative excess risk due to interaction (REEI), the attributable proportion (AP), and the synergy index (S). According to this research in a remote rural area, approximately 34.2% of HTN patients are accompanied with OA and 49.1% are suffering poor sleep. Both hyperlipemia/hyperglycemia and sleep quality were related to OA prevalence with crude ORs of 1.43 (95% CI 1.014–2.029) and 1.89 (95% CI 1.411–2.519, P < 0.001) respectively. An observed additive effect was found greater than the sum of the effects of sleep quality and hyperlipemia/hyperglycemia posed on OA prevalence alone. This additive interaction was observed in females (OR = 3.19, 95% CI 1.945–5.237) as well as males ≥ 65 years old (OR = 2.78, 95% CI 1.693–4.557), with RERI, AP, and S significant. Therefore, poor sleep and hyperlipemia/hyperglycemia are associated with OA, and further studies on the additive interaction among females and males ≥ 65 are warranted.
Microendoscopic calcium imaging of the primary visual cortex of behaving macaques
Authors: Oguchi Mineki , Jiasen Jiang , Yoshioka Toshihide W. , Tanaka Yasuhiro R. , Inoue Kenichi , Takada Masahiko , Kikusui Takefumi , Nomoto Kensaku , Sakagami Masamichi 
Published: August 2021

AbstractIn vivo calcium imaging with genetically encoded indicators has recently been applied to macaque brains to monitor neural activities from a large population of cells simultaneously. Microendoscopic calcium imaging combined with implantable gradient index lenses captures neural activities from deep brain areas with a compact and convenient setup; however, this has been limited to rodents and marmosets. Here, we developed miniature fluorescent microscopy to image neural activities from the primary visual cortex of behaving macaques. We found tens of clear fluorescent signals from three of the six brain hemispheres. A subset of these neurons showed clear retinotopy and orientation tuning. Moreover, we successfully decoded the stimulus orientation and tracked the cells across days. These results indicate that microendoscopic calcium imaging is feasible and reasonable for investigating neural circuits in the macaque brain by monitoring fluorescent signals from a large number of neurons.
Hazard assessment of oil spills along the main shipping lane in the Red Sea
Authors: Mittal H. V. R. , Langodan Sabique , Zhan Peng , Li Shihan , Knio Omar , Hoteit Ibrahim 
Published: August 2021

AbstractThis study investigates the risk from oil spills along the main shipping lane in the Red Sea based upon oil spill model trajectories forced by the outputs of validated high resolution regional met-ocean data. Following the intra-annual variations in the met-ocean conditions, the results are presented by classifying the basin into three regions: northern, central and southern Red Sea. The maximum distance traveled by the slick is presented for 1, 2, 5, 10, 14 and 20 days after the commencement of a spill. Different measures of hazard assessment in terms of the concentration of beached oil alongside the corresponding probability maps are also analyzed. The volume fractions of beached, dispersed and evaporated oil, 20 days after the commencement of a spill are quantified. The Red Sea general circulation is characterized by rich mesoscale eddies, which appear to be the most prevailing dynamics in oil transport in the basin. Two case events are analyzed to closely examine the effects of the mesoscale circulations on the fate of spilled oil. The results of this study provide a comprehensive assessment of oil spill hazards in the Red Sea, stemming its main shipping lane and identifies the areas at high risk that require timely mitigation strategies.
Effects of dietary forage to concentrate ratio on nutrient digestibility, ruminal fermentation and rumen bacterial composition in Angus cows
Authors: Chen Hao , Wang Chunjie , Huasai Simujide , Chen Aorigele 
Published: August 2021

AbstractThis study evaluated effects of dietary forage to concentrate ratio (F:C) on the body weight, digestibility, ruminal fermentation and rumen bacterial composition in Angus cows. Three diets with different F:C (LCD: 65:35, MCD:50:50, and HCD: 35:65) were fed to ninety Angus cows (3.2 ± 0.18 years old, 387.2 ± 22.6 kg). The average daily gain (ADG) and ammonia nitrogen concentration increased (P = 0.039 and P = 0.026, respectively), whereas the acetate to propionate ratio (P = 0.027) and the neutral detergent fiber (NDF) digestibility decreased with increasing concentrate level. The acetate concentration and ruminal pH (P = 0.033 and P = 0.029, respectively) decreased by feeding HCD diet. Serum amyloid A (SAA), C-reactive protein (CRP), haptoglobin (Hp) and lipopolysaccharide binding protein (LBP) increased under the HCD. The relative abundances of Bacteroidetes, Fibrobacterota, Prevotella and Prevotellaceae UCG-003 decreased, whereas the relative abundances of Ruminococcaceae NK4A214 group, Saccharofermentans and Spirochaetota increased with increasing dietary concentrate level. Our study provides a better understanding of rumen fermentation parameters and microbiota under a wide range of dietary F:C ratios, supporting the potential dietary manipulation of microbes, which could enhance feed digestibility associated with cow rearing.
Chi-squared test for planetary orbits after the impact of a single flyby and multiple stellar flybys
Authors: Jiménez-Torres Juan J. 
Published: August 2021

Aims. In this work, I present the cumulative effects of passing stars on planetary disks and I explore the orbital modification of their components as a consequence of multiple stellar encounters. I analyze the effects of masses of the passing stars and look for differences between the effects of four encounters with low masses of 0.1 M⊙, as well as a single 0.4 M⊙ stellar encounter on a 100 a.u. planetary disk.
Methods. I applied the chi-squared (χ2) test to estimate the correlation between the resulting parameters of orbits after single and multiple impacts. I found that the χ2 value is equal to 0.666 and the probability index is equal to 0.955.
Results. This first approach suggests that three or four low-mass multiple encounters can produce comparable orbits of planets as produced by a single massive encounter.
The Challenges of Open Source Software Alternatives
Authors: Chionis-Koufakos Aristofanis , Dimou Maria , Kolodziejski Michal 
Published: August 2021

Developing an Open Source Software application is a challenge. Mainly because there are commercial alternatives that have an army of expert developers behind them, experienced supporters and wellestablished business processes in their development and promotion. Nevertheless, web-based applications, that securely handle the users’ personal data are an area of freedom and ease of use, features that make such applications very attractive. The “ease-of-use” part is very hard to achieve, for the developers and the end-users. Dependencies change often in OSS packages, so the fear that something breaks is always around the corner.
If the application looks attractive, additional user requirements fall like rain. This poses a problem of continuity, maintenance and operational quality of the packages. In this paper and presentation we shall share our experience in building such a tool, using https://cern.ch/slides, as a showcase and a learning exercise. We shall describe what was available, what was missing, how it was put together, how much effort it took, and what was achieved.
The GridKa tape storage: latest improvements and current production setup
Authors: Musheghyan Haykuhi , Ambroj Pérez Samuel , Petzold Andreas , Ressmann Doris , Sundermann Jan Erik 
Published: August 2021

Tape storage remains the most cost-effective system for safe long-term storage of petabytes of data and reliably accessing it on demand. It has long been widely used by Tier-1 centers in WLCG. GridKa uses tape storage systems for LHC and non-LHC HEP experiments. The performance requirements on the tape storage systems are increasing every year, creating an increasing number of challenges in providing a scalable and reliable system. Therefore, providing high-performance, scalable and reliable tape storage systems is a top priority for Tier-1 centers in WLCG.
At GridKa, various performance tests were recently done to investigate the existence of bottlenecks in the tape storage setup. As a result, several bottlenecks were identified and resolved, leading to a significant improvement in the overall tape storage performance. These results were achieved in a test environment and introduction of these achievements in to the production environment required a great effort, among many other things, a new software had to be developed to interact with the tape management software.
This contribution provides detailed information on the latest improvements and changes on the GridKa tape storage setup.
Deploying a new realtime XRootD-v5 based monitoring framework for GridPP
Authors: Currie Robert , Yuan Wenlong 
Published: August 2021

To optimise the performance of distributed compute, smaller lightweight storage caches are needed which integrate with existing grid computing workflows. A good solution to provide lightweight storage caches is to use an XRootD-proxy cache. To support distributed lightweight XRootD proxy services across GridPP we have developed a centralised monitoring framework. With the v5 release of XRootD it is possible to build a monitoring framework which collects distributed caching metadata broadcast from multiple sites. To provide the best support for these distributed caches we have built a centralised monitoring service for XRootD storage instances within GridPP. This monitoring solution is built upon experiences presented by CMS in setting up a similar service as part of their AAA system. This new framework is designed to provide remote monitoring of the behaviour, performance, and reliability of distributed XRootD services across the UK. Effort has been made to simplify ease of deployment by remote site administrators.
The result of this work is an interactive dashboard system which enables administrators to access real-time metrics on the performance of their lightweight storage systems. This monitoring framework is intended to supplement existing functionality and availability testing metrics by providing detailed information and logging from a site perspective.
ATLAS in-file metadata and multi-threaded processing
Authors: Berghaus Frank , Krasznahorkay Attila , Martin Tim , Novak Tadej , Nowak Marcin , Schaffer A.C. , Tsulaia Vakho , van Gemmeren Peter 
Published: August 2021

Processing and scientific analysis of the data taken by the ATLAS experiment requires reliable information describing the event data recorded by the detector or generated in software. ATLAS event processing applications store such descriptive metadata information in the output data files along with the event information.
To better leverage the available computing resources during LHC Run3 the ATLAS experiment has migrated its data processing and analysis software to a multi-threaded framework: AthenaMT. Therefore in-file metadata must support concurrent event processing, especially around input file boundaries. The in-file metadata handling software was originally designed for serial event processing. It grew into a rather complex system over the many years of ATLAS operation. To migrate this system to the multi-threaded environment it was necessary to adopt several pragmatic solutions, mainly because of the shortage of available person-power to work on this project in early phases of the AthenaMT development.
In order to simplify the migration, first the redundant parts of the code were cleaned up wherever possible. Next the infrastructure was improved by removing reliance on constructs that are problematic during multi-threaded processing. Finally, the remaining software infrastructure was redesigned for thread safety.
Physics Validation of Novel Convolutional 2D Architectures for Speeding Up High Energy Physics Simulations
Authors: Rehm Florian , Vallecorsa Sofia , Borras Kerstin , Krücker Dirk 
Published: August 2021

The precise simulation of particle transport through detectors remains a key element for the successful interpretation of high energy physics results. However, Monte Carlo based simulation is extremely demanding in terms of computing resources. This challenge motivates investigations of faster, alternative approaches for replacing the standard Monte Carlo technique.We apply Generative Adversarial Networks (GANs), a deep learning technique, to replace the calorimeter detector simulations and speeding up the simulation time by orders of magnitude. We follow a previous approach which used three-dimensional convolutional neural networks and develop new two-dimensional convolutional networks to solve the same 3D image generation problem faster. Additionally, we increased the number of parameters and the neural networks representational power, obtaining a higher accuracy. We compare our best convolutional 2D neural network architecture and evaluate it versus the previous 3D architecture and Geant4 data. Our results demonstrate a high physics accuracy and further consolidate the use of GANs for fast detector simulations.
Sakrumfrakturen – Epidemiologie und Diagnostik
Authors: Palm Hans-Georg , Perl Mario , Keil Holger 
Published: August 2021

ZusammenfassungBei Sakrumfrakturen finden sich zwei Häufigkeitsgipfel: Einerseits das hochenergetische Trauma des jungen Erwachsenen, zumeist mit Begleitverletzungen verbunden, andererseits geriatrische Frakturen mit niederenergetischem oder nicht erinnerlichem Trauma. Hieraus ergibt sich auch die Anwendung unterschiedlicher Klassifikationen.Hochenergetische Verletzungen werden zumeist im Rahmen einer CT Polytraumaspirale abgeklärt. Fragilitätsfrakturen, die aufgrund demographischer Entwicklungen zunehmen, birgen hingegen diagnostische Herausforderungen. Das Spektrum eingesetzter Diagnostika reicht hier von konventioneller Röntgendiagnostik bis zu Ödem-sensitiven Nachweisverfahren wie Kernspintomographie und Dual-Energy-Computer-Tomographie, wobei ein konsentierter Standard bislang nicht etabliert ist.
Intravaginales Thermometer: Untersuchung zur Verlässlichkeit als Geburtsmelder
Authors: Ganz Sebastian 
Published: August 2021

Choukeir AI, Kovács L, Kézér LF et al. Evaluation of a commercial intravaginal thermometer to predict calving in a Hungerian Holstein-Friesian dairy farm. Repr Dom Sci 2020; 55: 1535–1540
Technische Hilfsmittel zur Geburtsüberwachung in Milchviehbetrieben können die Arbeitsabläufe und Arbeitsbedingungen erleichtern, v. a. in kleineren Betrieben mit wenig Personal. Die Anforderungen hierfür sind eine möglichst präzise Meldung über den Zeitpunkt der Kalbung und wenig Fehlalarme. Der peripartale Temperaturabfall kann dazu dienen, den Zeitpunkt der Kalbung einzugrenzen. Die Studie untersuchte den Nutzen eines intravaginalen Thermometers zur Voraussage des Kalbetermins.