bluuebunny/crossref_metadata_2025_split huggingface dataset:
Leveraging state-of-the-art engines for large-scale data analysis in High Energy Physics
Authors: Padulano Vincenzo Eduardo , Kabadzhov Ivan Donchev , Saavedra Enric Tejedor , Guiraud Enrico , Alonso-Jordá Pedro 
Published: September 2022

Abstract
The Large Hadron Collider (LHC) at CERN has generated a vast amount of information from physics events, reaching peaks of TB of data per day which are then sent to large storage facilities. Traditionally, data processing workflows in the High Energy Physics (HEP) field have leveraged grid computing resources. In this context, users have been responsible for manually parallelising the analysis, sending tasks to computing nodes and aggregating the partial results. Analysis environments in this field have had a common building block in the ROOT software framework. This is the de facto standard tool for storing, processing and visualising HEP data. ROOT offers a modern analysis tool called RDataFrame, which can parallelise computations from a single machine to a distributed cluster while hiding most of the scheduling and result aggregation complexity from users. This is currently done by leveraging Apache Spark as the distributed execution engine, but other alternatives are being explored by HEP research groups. Notably, Dask has rapidly gained popularity thanks to its ability to interface with batch queuing systems, widespread in HEP grid computing facilities. Furthermore, future upgrades of the LHC are expected to bring a dramatic increase in data volumes. This paper presents a novel implementation of the Dask backend for the distributed RDataFrame tool in order to address the aforementioned future trends. The scalability of the tool with both the new backend and the already available Spark backend is demonstrated for the first time on more than two thousand cores, testing a real HEP analysis.
How Managers of Kenyan-based Agribusiness Firms Perceive Matching Funds for Innovation Financing
Authors: Amukoa Susan Akinyi , Ecuru Julius , Lagat Job Kibiwot 
Published: September 2022

Abstract
Agribusiness innovation is vital for economic growth and diversification, and funds to support it are a major point of debate among innovation scholars and policy makers. Most investors or donors require agribusiness firms to provide matching funds contribution either in kind or cash to the innovation projects they finance. An explorative study of 12 Kenyan based agribusiness firms providing matching funds contributions revealed that managers of the firms perceive matching funds for financing their innovation to be a good thing because it shows their commitment to the project, promotes ownership, and contributes to longer term utilization of project results. This notwithstanding, the study further showed that majority of the agribusiness firms did not have policies to inform their decisions on matching funds contribution. Managers considered future business opportunity the project would create, and if the project was well aligned with the firm’s core business. The study established that matching funds contributions can be improved if firms properly quantify in-kind matching funds, and by strengthening enforcement of matching funds requirement. The paper provides preliminary empirical evidence of feasibility of implementing a matching funds scheme for agribusiness innovation financing in Kenya.
Key words: agribusiness, financing, firms, innovation, matching funds, Kenya.
Selecting the Best Location of Water Quality Sensors in Water Distribution Networks by Considering the Importance of Nodes and Contaminations using NSGA-III (Case Study: Zahedan Water Distribution Network, Iran)
Authors: harif Siroos , Azizyan Gholamreza , Darmian Mohsen Dehghani , Givehchi Mohammad 
Published: September 2022

Abstract
Water quality sensors are one of the most effective ways to minimize the catastrophic consequences of pollution in water distribution networks (WDNs). The main challenge is arranging sensors properly in the network. In this study, the NSGA-III algorithm is developed to improve the optimal locations of sensors by balancing four conflicting objectives. 1. Detection likelihood, 2. Expected detection time, 3. Detection redundancy, and 4. The affected nodes before detection. The proposed procedure is based on chlorine concentration variation between defined upper and lower limits. The upper and lower bounds of chlorine concentration were determined utilizing the Monte Carlo simulator. To deal with the problem of a large size matrix of possible contaminants a heuristic method was utilized for selecting a representative collection of contaminations with the same characteristics and effects. Importance coefficients were introduced to avoid the same importance of contamination events and network nodes. The proposed simulation-optimization approach was tested on the benchmark and real water networks, then the optimal Pareto fronts were computed for each of the two sets of conflicting objectives. Moreover, the sensitivity analysis related to the number of sensors installed in the networks was conducted for the results obtained from different objective functions. According to the sensitivity analysis, the Pareto fronts became more efficient when the number of sensors increased. Also increasing the number of sensors to more than 10 and 15 in the benchmark and real systems, respectively, will provide little additional detection likelihood.
Dexmedetomidine alleviates anxiety-like behavior in mice following peripheral nerve injury by reducing the hyperactivity of glutamatergic neurons in the anterior cingulate cortex
Authors: Gao Wei , Long Dan-dan , Pan Ting-ting , Hu Rui , Chen Dan-yang , Mao Yu , Chai Xiao-qing , Jin Yan , Zhang Zhi , Wang Di 
Published: September 2022

Abstract
Background: Treatment of chronic pain is challenged by concurrent anxiety symptoms. Dexmedetomidine is known to produce sedation, analgesia, and anxiolysis. However, the neural mechanism of dexmedetomidine-elicited anxiolysis remains elusive. Here, we aimed to test the hypothesis that the anterior cingulate cortex might be involved in dexmedetomidine-induced anxiolysis in pain.
Methods: A common peroneal nerve ligation mouse model was used to test the dexmedetomidine-induced analgesia and anxiolysis by assessing mechanical allodynia, open-field, light-dark transition, and acoustic startle reflex tests. In vivo calcium signal fiber photometry and ex vivowhole-cell patch-clamp recordings were used to measure the excitability of glutamatergic neurons in anterior cingulate cortex. Modulation of glutamatergic neurons was performed by chemogenetic inhibition or activation via viral injection.
Results: Compared with vehicle, dexmedetomidine (4 µg/kg) alleviated mechanical allodynia (P < 0.001) and anxiety-like behaviors (P < 0.001). The glutamatergic neurons’ excitability after dexmedetomidine administration was lower than that of the vehicle group (P = 0.001). Anxiety-like behaviors were rescued by inhibiting glutamatergic neurons in the model mice. Nociception-related anxiety-like behavior was induced by activation of glutamatergic neurons, which was rescued by dexmedetomidine.
Conclusions: The reduction in glutamatergic neuronal activity in anterior cingulate cortex may be involved in dexmedetomidine-elicited anxiolysis in chronic pain.
Optimizing variant-specific therapeutic SARS-CoV-2 decoys using deep-learning-guided molecular dynamic simulations.
Authors: Koechl Katharina , Schopper Tobias , Durmaz Vedat , Parigger Lena , Singh Amit , Krassnigg Andreas , Cespugli Marco , Wu Wei , Yang Xiaoli , Zhang Yanchong , Wang Welson Wen-Shang , Selluski Crystal , Tiehan Tiehan , Xin Xin , Bai Caihong , Lin Leon , Hu Yuxiang , Xie Zhiwei , Zhang Zaihui , Yan Jun , Zatloukal Kurt , Gruber Karl , Steinkellner Georg , Gruber Christian 
Published: September 2022

Abstract
Treatment of COVID-19 with a soluble version of ACE2 that binds to SARS-CoV-2 virions before they enter host cells is a promising approach, but it needs to be optimized and adapted to emerging viral variants. The computational workflow presented here consists of molecular dynamics simulations for RBD-ACE2 binding affinity assessments of ACE2 or RBD variants and a novel convolutional neural network architecture working on pairs of voxelized force-fields for efficient search-space reduction. We identified hACE2-Fc K31W along with multi-mutation variants as high-affinity candidates, which we also validated in vitro with virus neutralization assays. We evaluated binding affinities of these ACE2 variants with the RBDs of Omicron BA.3, Omicron BA.4/BA.5, and Omicron BA.2.75 in silico. In addition, candidates produced in Nicotiana benthamiana, an expression organism for potential large-scale production, showed a 4.6-fold reduction in half-maximal inhibitory concentration (IC50) compared with the same variant produced in CHO cells and an almost six-fold IC50 reduction compared with wild-type hACE2-Fc.
A cell-free expression system using a novel bacteriophage RNA polymerase for metagenome screening
Authors: Han Yuchen , Kinfu Birhanu , Blombach Fabian , Cackett Gwenny , Zhang Hongli , Pérez-García Pablo , Krohn Ines , Salomon Jesper , Besirlioglu Volkan , Mirzaeigarakani Tayebeh , Schwaneberg Ulrich , Chow Jennifer , Werner Finn , Streit Wolfgang 
Published: September 2022

Abstract
The mining of genomes from non-cultivated microorganisms using metagenomics is a powerful tool to discover novel proteins and other valuable biomolecules. However, function-based metagenome searches are often limited by the time-consuming expression of the active proteins in various heterologous host systems. We here report the initial characterization of novel single-subunit bacteriophage RNA polymerase, RNAP_E, identified from a metagenome data set obtained from an elephant dung microbiome. RNAP_E and its promoter sequence are distantly related to T7 RNA polymerase. Using RNAP_E and a translation-competent Escherichia coli extract, we have developed an efficient medium throughput pipeline and protocol allowing the expression of metagenome-derived genes and the production of proteins in cell-free system is sufficient for the initial testing of the predicted activities. Here, we have successfully identified and verified 12 enzymes acting on bis(2-hydroxyethyl) terephthalate (BHET) in a completely clone-free approach and proposed an in vitro high-throughput metagenomic screening method with RNAP_E.
The Effectiveness of Liu Zi Jue Exercise for Chronic Obstructive Pulmonary Disease (COPD): Systematic Review and Meta-analysis of Randomized Controlled Trials
Authors: Fan Mohan , Vernooij Robin W.M. , Fu Zhanju , Shao Baoyi , Li Jiaqi , Yang Huaxi , Wang Eryu , Qiu Linjing , Wang Lei , Lao Lixing , Liu Jianping , Zhang Ying 
Published: September 2022

Abstract
Background
Liuzijue (LZJ), one of the traditional Chinese exercises, may influence the patients’ quality of life and pulmonary function, hence it might have beneficial effects in the treatment of chronic obstructive pulmonary disease (COPD). But evidence is still needed to evaluate LZJ’s effectiveness and potential subgroup differences. Therefore, a systematic review of relevant randomized controlled trials (RCTs) was performed to evaluate the effectiveness of LZJ on patient-important outcomes.
Methods
We systematically searched the Cochrane Library, Web of Science, PubMed, and Chinese databases since their inception until December 31,2021. Rigorous screening, risk of bias assessment, and data extraction have been performed in duplicate by two reviewers. A random effect model, with pre-specified subgroup analyses on type of comparisons were performed. Then we used a five-criteria list to assess the credibility of significant subgroup effects (P < 0.10). A GRADE evidence profile was established to assess the certainty of evidence.
Results
We included 22 eligible randomized controlled trials with 1304 patients. Compared with usual care, the standardized mean difference (SMD) on quality of life in the LZJ group is -0.67 (95%CI: [-0.96, -0.37], P < 0.0001). We found a statistical significance on FEV1% (MD = 5.75, 95%CI: [2.14,9.35], P = 0.002), FEV1 (MD = 0.26, 95%CI: [0.08,0.44], P = 0.004), and 6 minutes-walking distance(m)(MD = 38.04, 95%CI: [24.78,51.29], P < 0.00001). However, no differences were found for FVC (MD=-0.07, 95%CI: [-0.24,0.09], P = 0.38) and FEV1/FVC (MD = 6.51,95%CI: [-0.54,13.56], P = 0.07). The certainty of the evidence was low to very low because of the risk of bias, inconsistency, or indirectness.
Conclusion
Regularly exercising LZJ might be beneficial to the recovery of COPD based on evidence of low to very low certainty. Rigorously designed RCTs addressing patient-important outcomes with longer follow-up are still required.
Trial registration:
PROSPERO Registration number: CRD42021249739.
Effect of topical fluoride applications on residual monomer release from resin-based restorative materials
Authors: Delikan Ebru , Ertürk-Avunduk Ayşe Tuğba , Karataş Özcan , Saçmacı Şerife 
Published: September 2022

Abstract
Background: It is unclear to effects of the topical fluorides applications that the release of monomer ingredients from resin-based dental materials by immersion in the various extraction solutions. The aim of this study was to determine the effect of topical fluorides (APF and NaF) on the elution of residual monomers (Bis-GMA, TEGDMA, UDMA, and HEMA) from resin-based materials.
Methods: A total of 90 bulk-fill composite, nanohybrid universal composite, and compomer specimens were prepared. The specimens were randomly divided into three groups according to fluoride application procedures. Each specimens were kept in a 75% ethanol solution and residual monomers released from materials were analyzed with an High-Performance Liquid Chromatography (HPLC) after 10 min, 1 h, 24 h and 30 d. The groups were compared using Mann Whitney U and Kruscall Wallis tests, and related measurements were analyzed with Friedman and Wilcoxon signed-rank tests.
Results: Fluoride applications resulted in a reduction in the amount of residual monomer release generally. The amount of monomer release after topical APF application was similar to the release in the control group and was lower than the release in the NaF group.
Conclusions: Fluoride applications do not increase monomer release from resin-based restorative materials. However, compomers should be preferred by clinicans due to their less monomer release than other restorative materials. The release of monomers from any of the resin-based materials did not approach toxic levels at the applied time intervals.
Modulation instability, localized wave solutions of the modified Gerdjikov–Ivanov equation with anomalous dispersion
Authors: Guan Xue , Wang Haotian , Liu Wenjun , Liu Xiaoyan 
Published: September 2022

Abstract
Solving new integrable systems and exploring their physical applications have been a hot topic. This paper gives the modulation instability in the continuous wave background of the new modified Gerdjikov–Ivanov equation with anomalous dispersion. Based on the extend Lax pair, the localized wave solutions of the new model are obtained via generalized Darboux transformation method, various types solutions including breather, rogue waves, interaction solutions are presented and their dynamic properties are analyzed. The results obtained have certain application value for nonlinear optics and long-distance transmission.
Realization and current-driven dynamics of fractional hopfion and its ensembles in a helimagnet
Authors: Yu Xiuzhen , Liu Yizhou , Iakoubovskii Kostatian , Nakajima Kiyomi , Kanazawa Naoya , Nagaosa Naoto , Tokura Yoshinori 
Published: September 2022

Abstract
The three-dimensional (3D) topological spin textures – hopfions – were predicted in the helimagnetic systems but have not been experimentally confirmed thus far. This study utilized external magnetic field and electric current to realize 3D topological spin textures including fractional hopfions with nonzero topological index in the skyrmion-hosting helimagnet FeGe. Microsecond current pulses and in-plane magnetic field were employed to control the dynamics of the expansion and contraction of the bundle composed of skyrmion and fractional hopfion as well as the current-driven Hall motion of the bundle. The present results demonstrate how to manipulate and control 3D topological objects such as hopfion and its bound state in helimagnetic systems.
WeWalk: Walking with a buddy after stroke. A pilot study evaluating feasibility and acceptability of a person-centred dyadic behaviour change intervention using qualitative methods
Authors: Morris Jacqui , Irvine Linda , Tooman Tricia , Dombrowski Stephan , McCormack Brendan , Wijck Frederike Van , Lawrence Maggie 
Published: September 2022

Abstract
Background
Evidence for benefits of physical activity (PA) after stroke is unequivocal. However, many people with stroke are inactive, spending >80% of waking hours sedentary even when they have physical capacity for activity, indicating barriers to physical activity participation that are not physical. WeWalk is a 12-week person-centred dyadic behaviour change intervention to support people with stroke (PWS) to increase physical activity by walking outdoors with support from a walking buddy. This pilot study examined feasibility of recruiting dyads and explored their perceptions of acceptability and experiences using WeWalk to identify required refinements before progression to a clinical trial.
Methods
Design: A single-arm observational pilot study with qualitative evaluation. Intervention: WeWalk involved facilitated face-to-face and telephone sessions, supported by intervention handbooks, in which dyads agreed walking goals and plans, monitored progress and developed strategies for maintaining walking. Evaluation: Descriptive data on recruitment and retention was collected. Interview data were collected through semi-structured interviews and analysed using thematic analysis, guided by a theoretical framework of acceptability
Results
We recruited 21 dyads comprising community-dwelling PWS and their walking buddies. Ten dyads fully completed WeWalk before government-imposed COVID-19 lockdown. Despite lockdown, 18 dyads completed exit interviews. We identified three themes: acceptability evolves with experience, mutuality, and person-centred adaptability. As dyads recognised how WeWalk components supported walking, perceptions of acceptability grew. Effort receded as goals and enjoyment of walking together were realised. The dyadic structure provided accountability, and participants’ confidence developed as they experienced physical and psychological benefits of walking. WeWalk worked best when dyads exhibited relational connectivity and mutuality in setting and achieving goals. Adapting intervention components to individual circumstances and values supported dyads in participation and achieving meaningful goals.
Conclusion
Recruiting dyads was feasible and most engaged with WeWalk. Participants viewed the dyadic structure and intervention components as acceptable for promoting outdoor walking and valued the personally-tailored nature of WeWalk. ISCTRN number
Performance Analysis of Radio Prediction Tools for the Determination of Diffraction Losses and Under-Coverage in some Mountainous Topologies of Northern Nigeria.
Authors: Udoeno Etukakpan A. , Mopta Samuel E. , Oduobuk Enobong J. , Ekpa Imoh D. , Ojuyenum Emmanuel C. , Asiya Asiya E. 
Published: September 2022

Abstract
Signal under-coverage due to diffraction losses, is fundamentally considered to be responsible for the hues and cries of communities residing behind mountainous topologies in Taraba and Niger State. Performance analyses of these radio tools are rudimentary for technical radio dimensioning and optimization. The epicenter of this study is to predict the depth of diffraction losses and under-coverage in mountainous areas of the study. To achieve this, an Open Source Geographical Resources Analysis Support System (GRASS) and other conventional diffraction models were employed. The result indicated that the transmitted radio signals were received via the mechanism of diffraction, as the mountain was found to obstruct the signal line-of-sight (LOS) and the ensuing effective ellipsoids of the Fresnel Zones in the analysis. Consequently, it was apparent that there was deep under-coverage in all the radio cells of the study location, as illustrated in the maps created with ArcGIS. The depth of under-coverage in Taraba State was relatively more severe than Niger State. Empirically, the skip distances of the shadow zone cast by the mountains for both States were 35.8km and 29.92km respectively. However, for ease of prediction in analogous topology and to cater to the discrepancies of the conventional models of diffraction used in this work, linear regression models were fitted to predict the measure of received signal strength (RSS) level and diffraction losses. In evaluating the validity of these models, it was realized that the measured and the calculated values were incongruent.
Ascertaining structural dynamics for a conformational plasticity in lncRNA-HSP90 interactions
Authors: Thomas Laveena X , P Archa , Nair Bipin , Suravajhala Prashanth , Suravajhala Renuka 
Published: September 2022

Abstract
Heat Shock Protein 90 (HSP90) and long non-coding RNAs
(LncRNAs) are found to be upregulated in human cancer cells and
play a significant role in cancer progression and aggression. The
lncRNAs have the capability to interact with coding regions of
genes, RNA and proteins as well as regulate their functions. Here,
we sought to study the lncRNAs in HSP90 gene interactions with
HSP90 protein to identify the structural dynamics of HSP90.
Furthermore, we attempted to find the potential phytochemicals
targeted to HSP90 protein as potential anticancer drugs. It was
observed that theaflavin, epigallocatechin gallate, procyanidin,
rutin and myricetin are potential anticancer drugs. These
phytochemicals can be validated by in vitro studies in the
future.
A Secure Cloud Framework for Big Data Analytics Using a Hybrid Encryption Method
Authors: Salman Zainab , Alomary Alauddin , Hammad Mustafa 
Published: September 2022

Abstract
This paper proposes a hybrid encryption system that is based on Elliptical Curve Cryptography (ECC) and Fully Homomorphic Encryption (FHE). FHE can be used as powerful public-key encryption that allows any user to do computations on encrypted data. To develop a data analytics technique in a distributed environment, a data clustering approach is used to divide big data into several subsets. In this method, many virtual nodes process big data simultaneously and in parallel. Three datasets are used to evaluate the proposed framework. The results show that in the distributed model the execution time is decreased up to 48% using more processors working on data. Additionally, the generated results are compared with a centralized model to evaluate the efficiency and performance of the proposed framework. Experiments show that the developed framework can improve the performance of big data analytics while making sure that data is protected and secured.