bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dynamic Nuclear Polarization-Enabled Quantum Sensing for Investigating Peptide Configurations
Authors: Alnajar Nour , Equbal Asif 
Published: July 2023

Abstract
Introducing persistent free radicals into biochemical systems, a mechanism referred to as Site-Directed Spin Labeling (SDSL), is a biophysical research feat established by Wayne Hubbell. Integrating Double Electron-Electron Resonance (DEER) within SDSL enabled intermolecular distance measurements in the long range (nanometers) that was otherwise unfeasible using Nuclear Magnetic Resonance (NMR) techniques. DEER is commonly used in structural analysis of peptides and polymers to probe distance between electron spin-labels (ree), typically within the range of, 2.0 - 8.0 nanometers. However, this technique is typically limited to low magnetic fields, such as X-Band (0.35 T) or Q-Band ( 1.0 T) due to the instrumental constraints. The low magnetic field restricts both the structural resolution and the ability to probe shorter distance. We propose a novel approach to address the limitations of distance measurement in SDSL peptides or polymers. This approach utilizes Dynamic Nuclear Polarization (DNP) to investigate the distances between them. DNP is a nuclear spin hyperpolarization technique that has revolutionized solid-state NMR by enhancing its sensitivity. It works by transferring high electron spin polarization to coupled nuclear spins under microwave irradiation. The efficiency of Cross Effect DNP (CE DNP) transfer is determined by the magnitude of the dipole-dipole coupling between two electron spins. By exploiting the distance dependence between two electron spins, we can sense the configurations of SDSL peptides. One significant advantage of DNP-enabled quantum sensing is that the method can be applied at higher magnetic fields and under magic-angle spinning conditions using existing instrumentation. The approach enables the observation of shorter distances that are challenging to probe using DEER at low magnetic fields. Overall, our proposed method opens up new possibilities for structural analysis and distance measurements in the study of peptides and polymers, combining with ingenious SDSL technique introduced by the esteemed scientist, Professor Wayne Hubbell
Solar-Fuel cell based Islanded DC-Microgrid with hybrid Energy Storage Devices
Authors: Gupta S. K. , Laledia Saurabh Singh 
Published: July 2023

Abstract
The paper discusses a hybrid renewable energy system feeding a variable load in islanded DC-microgrid. The energy management system has been designed to feed load without the need for a load prediction algorithm. The proposed hybrid system consists of two renewable power sources i.e. Solar Photovoltaic, and Fuel cell, and hybrid energy storage devices in the form of a Li-ion battery, Supercapacitor, and an Electrolyzer-hydrogen tank. The system has been modeled on MATLAB Simulink using the library components. The simulation results have been verified by logical analysis. The final steady state DC bus voltage has been controlled within 5 % of the reference value upon the solar variation of 50 % and load variation of 50 % of the rated value.. . .
Investigation on the anisotropic mechanical response of layered shales
Authors: Gao Min , Gong Bin , Liang Zhengzhao , Jia Shanpo , Zou Jiuqun 
Published: July 2023

Abstract
Layered shales exist widely in nature and are often encountered during infrastructure construction. However, the mechanical response of layered shales is significantly affected by the existence of beddings, resulting in the obvious anisotropy characteristics regarding deformation, strength, and failure mode. To clarify the underlying mechanisms of shale anisotropy that control the safety of engineering projects, the numerical simulation and theoretical analysis were conducted. The results show that with the growth of confining pressure, the compressive resistance of shales gradually increases, the shear fractures govern the instability, and the anisotropy index decreases. Furthermore, several strength criteria for layered rock masses were summarized, and the modified Jaeger strength criterion was proposed by introducing the anisotropic parameter Rcθ. It can effectively reflect the failure modes and strength features of layered shales under triaxial conditions with the higher accuracy. Besides, the variation of cohesion and internal friction angle of layered shale samples was comprehensively analysed under the triaxial conditions. Clearly, as the inclination angle of bedding planes rises, the cohesion of layered shales first decreases, but then increases under triaxial compression, showing the ‘U’-shaped changing trend. Additionally, the internal friction angle of layered shales grows up gradually with the inclination of bedding planes increasing.
Metabolome and transcriptome association analysis reveals the link between pigmentation and nutrition utilization in the juveniles of sea cucumber Holothuria leucospilota
Authors: Huang Jiasheng , E Zixuan , Pan Wenjie , Li Zhi , Lin Tiehao , Ren Chunhua , Luo Peng , Ma Bo , Liu Yang , Wu Xugan , Hu Chaoqun , Jiang Xiao , Chen Ting 
Published: July 2023

Abstract
The sea cucumber Holothuria leucospilota is an economically and ecologically important tropical species. Following development into juveniles, H. leucospilota undergoes a color change from white to black, involving a pigmentation process for over a period of several months. In this study, a combination of liquid chromatography-tandem mass spectrometry (LC-MS/MS) and Next-Generation sequencing (NGS) were employed to investigate the changes in metabolomic and transcriptomic profiles during pigmentation in H. leucospilota juveniles. The metabolomic analysis identified a total of 341 metabolites, of which 52 were found to be differentially regulated (P < 0.05 and VIP > 1), with 27 being upregulated in white individuals and 25 in black individuals. Additionally, 632 differentially expressed genes (DEGs) were identified, with 380 genes upregulated in white samples and 252 genes upregulated in black samples. Interestingly, the melanin content and tyrosinase transcript levels did not display significant differences between the two groups. Metabolomic data suggested the involvement of the linoleic acid metabolic pathway in pigmentation. Transcriptomic analysis, coupled with realtime PCR validation, revealed a decrease in the transcript levels of digestive enzymes like α-amylase, maltase-glucoamylase and trehalase after the juveniles changed to black. Furthermore, the mRNA expressions of major yolk proteins showed a decline, indicating a shift in the accumulation of protein nutrient sources. Overall, our findings suggest that the pigmentation process in H. leucospilota may deviate from the classical melanin pathway and instead be associated with changes in nutritional status and utilization. This study provides valuable insights into the regulatory mechanisms of pigmentation in marine organisms.
Performance of a Multidisciplinary Robotic Surgery Program at a University Hospital (2012-2022)
Authors: Miguel Sanchez-Encinas , Juan Rey-Biel , David Alias , Rosario Noguero-Meseguer , Jose Granell , Ignacio Muguruza , Antonio Herrero , Luis Ayala Jose , Raquel Barba 
Published: July 2023

Abstract
INTRODUCTION: Robotic-assisted surgery has become widely adopted for its ability to expand the indications for minimally invasive procedures. This technology aims to improve precision, accuracy, and outcomes while reducing complications, blood loss, and recovery time. Successful implementation of a robotic surgery program requires careful initial design and a focus on maintenance and expansion to maximize its benefits. MATERIALS AND METHODS: This article presents a comprehensive study conducted at a University Hospital on the robotic surgery program from December 2012 to December 2022. Data from hospital databases, including patient demographics, surgical department, surgical time, operating room occupancy, and primary diagnosis, were analyzed. The analysis covered various time periods (surgical sessions, weeks, months, and years) to assess the program's evolution over time. RESULTS: Over the 10-year period, a total of 1,847 robotic-assisted interventions were performed across five surgical services. Urology accounted for 57% of the cases, general surgery 17%, gynecology 16%, otorhinolaryngology 6%, and thoracic surgery 4%. The most frequently performed procedures included robotic prostatectomies (643 cases), hysterectomies (261 cases), and colposacropexies (210 cases). The weekly volume of interventions showed a notable increase, rising from 2 cases per week in 2013 to 14 cases in 2022. Moreover, the average surgical duration per intervention exhibited a progressive decrease from 275 minutes in 2013 to 184 minutes in 2022. CONCLUSIONS: This study highlights the potential of a well-managed robotic surgery program as a viable alternative to conventional surgical approaches. Effective coordination and resource utilization contribute to the program's efficiency. The findings underscore the successful integration of robotic-assisted surgery in diverse surgical specialties.
Asymptotic behavior of Timoshenko beams with delayed viscoelasticity acting on the shear force
Authors: Ramos A. J. A. , Nonato C. A. , Raposo C. A. , Freitas M. M. , Araújo M. L. 
Published: July 2023

Abstract
In this work, we use the theory of semigroups to study the well-posedness and the asymptotic behavior of the Timoshenko beam system with delayed viscoelastic damping acting only on the shear force. This system is different from all others related to time delay terms. We use the Lumer-Phillips Theorem to prove the well-posedness of the problem and then use the contrapositive of the Gearhart-Prüss-Huang Theorem to prove the lack of exponential decay independent of any relationship between the velocities. Finally, we use the Borichev-Tomilov Theorem for optimal rate polynomial decay.
Mathematics Subject Classification (2010). Primary 35A01; Secondary 35A02, 35B35.
Meta-Analysis of the Causality of Deformations in Marine Fish Larvae Culture
Authors: Saygı Hülya Eminçe , Fırat Muammer Kürşat , Hekimoğlu Müge Aliye , Saka Şahin , Suzer Cüneyt , Özden Osman , Tekoğul Hatice , Güleç Fatih , Çoban Deniz 
Published: July 2023

Abstract
The development of deformities in farmed fish is largely the result of abiotic, biotic, and xenobiotic factors, information deficiencies in optimizing nutrition, and the genetic background to which the fish are exposed in their early life stages. In general, skeletal anomalies are considered to have significant adverse effects on animal welfare, biological performance of farmed fish, product quality and production costs. In the data obtained by the meta-analysis method, the presence of negative effects on the formal structures of fish was found, regardless of the region, duration, stage, factor, stock density, and method used to detect deformation. In this regard, in the studies considered within the deformation region/type, 46% of deformities were found in the spine, 37% in the head, and 16% in the total skeleton. In turn, the results of the meta-analysis showed that the percentages of the apparent value were 35.82% in the spine, 33.12% in the skeleton, and 31.06% in the head. The deformation rate had an overall negative effect on the functional characteristics of the fish, regardless of the variables considered. In addition, all statistically significant individual response variables had a negative effect size. In the future, advanced statistical tools such as Bayesian meta-analysis, network meta-analysis, and meta-regression analysis can be used to explore more complex data structures. The rapid development of artificial intelligence techniques will increase the efficiency of data collection and the robustness of results for meta-analysis studies in aquaculture and other fields.
Nonsymmetric Interior Penalty Galerkin Method For Black-Scholes PDEs Modelling European Options
Authors: Kumar Sachin , Sriniva Natesan 
Published: July 2023

Abstract
This article proposes an efficient numerical method to solve the Black-Scholes PDE governing European options. The numerical method consists of the backward Euler scheme for the time derivative and the non-symmetric interior penalty Galerkin method for the spatial derivatives. Optimal order error estimates are acquired in the discrete energy norm and $L^2$- norm. In order to determine the effectiveness of the proposed method, numerical examples for pricing European put and call options are carried out.
Mathematics Subject Classification (2020) 35Q91 . 65M06 . 65M60
In silico design and study of some bioisosteric analogues of an anti Sars-Cov-2 antiviral, the Molnupiravir
Authors: ghedira donia , Harran Abderrazek Aziz El , Sneni Houyem 
Published: July 2023

Abstract
Background: Molnupiravir is a direct-acting oral antiviral drug that has shown promising results in reducing and suppressing viral infections with COVID-19. However, there is a need for the development of more effective analogues that can better interact with the target RNA polymerase.
Results and discussion: The in silico study revealed that two fluorinated analogues showed improved binding affinity compared to Molnupiravir, as they have the lowest score and an RMSD ≤ 2 Å. The druglikeness of our molecules was predicted using the website ADME-SWISS: http://www.swissadme.ch/, based on Lipinski's Rule of Five. All derivatives comply with Lipinski's rule, with 0 violations.
Conclusion: Overall, our study provides a basis for the design and synthesis of more effective antiviral drugs.
Factors associating with help-seeking by women facing Intimate Partner Violence in India: insights from National Family Health Survey-5
Authors: Ghoshal Rakhi , Patil Priti , Sinha Isha , Gadgil Anita , Nathani Priyansh , Jain Nethra , Ramasubramani Premkumar , Roy Nobhojit 
Published: July 2023

Abstract

Background: Women experiencing intimate partner violence (IPV) do not find help-seeking an easy process, especially since much of IPV is normalized. Recognizing the violence, making a decision to seek help and selecting a source of help constitute a three-staged process for help-seeking. Each of these stages is layered by one or multiple barriers at the individual, relationship, household, or community levels. This study aims to identify factors across these levels that associate with help-seeking by women facing IPV in India. It also explores any association between the type of IPV faced (physical, sexual or both) and the source of help (formal and informal).Methods: We analysed data from the 5th round of the National Family Health Survey (India) (2019-21). From a sample size of 72,320 women aged 18–49 years, we categorised variables at individual, relationship-household and community levels, and used STATA 14.2 software for reporting prevalence ratios with confidence intervals. Significant variables were identified based on p-values. Poisson Regression was performed to determine the factors associated with the help-seeking behaviour.Results: We found that 14.2% of women who faced IPV sought any help. Husband’s consumption of alcohol and witnessing parental IPV associated with increased odds of help-seeking. A significant proportion of 11% women sought formal help. Help-seeking from the police was higher by women facing only sexual IPV than by women facing only physical IPV. Among all women who sought help, an overwhelming 96% preferred to approach the natal family.Conclusion: In the 5th round of the NFHS, 14% women who faced IPV sought help. Husband’s alcohol consumption and witnessing parental IPV increased the chances for help-seeking. Among formal help providers, the police were the most accessed source, and especially for sexual IPV. This underlines the likely positive consequences of the several awareness and capacity building trainings of the police that the state has prioritized since the previous survey. We reconfirm the need to continue these capacity building investments of formal help providers by the state.
Theta Frequency Electromagnetic Stimulation Enhances Functional Recovery after Stroke
Authors: Okabe Naohiko , Hovanesyan Mary , Azarapetian Srbui , Dai Weiye , Weisinger Batsheva , Parabucki Ana , Balter Shira Reznik , Shohami Esther , Segal Yaron , Carmichael S. Thomas 
Published: July 2023

Abstract
Extremely low-frequency, low-intensity electromagnetic field (ELF-EMF) therapy is a non-invasive brain stimulation method that can modulate neuroprotection and neuroplasticity. ELF-EMF was recently shown to enhance recovery in human stroke in a small pilot clinical trial (NCT04039178). ELF-EMFs encompass a wide range of frequencies, typically ranging from 1 to 100 Hz, and their effects can vary depending on the specific frequency employed. However, whether and to what extent the effectiveness of ELF-EMFs depends on the frequency remains unclear. In the present study, we aimed to assess the efficacy of different frequency-intensity protocols of ELF-EMF in promoting functional recovery in a mouse cortical stroke model with treatment initiated four days after the stroke, employing a series of motor behavior tests. Our findings demonstrate that a theta-frequency ELF-EMF (5 Hz) effectively enhances functional recovery in a reach-to-grasp task, whereas neither gamma-frequency (40 Hz) nor combination frequency (5-16-40 Hz) ELF-EMFs induce a significant effect. Importantly, our histological analysis reveals that none of the ELF-EMF protocols employed in our study affect infarct volume, inflammatory or glial activation, suggesting that the observed beneficial effects may be mediated through non-neuroprotective mechanisms. Our data indicate that ELF-EMFs have an influence on functional recovery after stroke, and this effect is contingent upon the specific frequency used. These findings underscore the critical importance of optimizing the protocol parameters to maximize the beneficial effects of ELF-EMF. Further research is warranted to elucidate the underlying mechanisms and refine the protocol parameters for optimal therapeutic outcomes in stroke rehabilitation.
Hotspots of amphibians in Iran; effectiveness of current protected area and priorities for conservation planning
Authors: Ghaffari Hanyeh , Safaei-Mahroo Barbod , Niamir Aidin 
Published: July 2023

Abstract

To identify the national hotspots for amphibians based on their richness and rarity and assess the effectiveness of the current protected areas for their conservation, we curated 1700 species occurrence points for 22 amphibians, including 16 species of Anura and 6 species of Caudata. We used these occurrence points along with bioclimatic, anthropogenic, and geographical variables to model the distribution of species. We then calculated richness and rarity maps of amphibians and identified the hotspots based on the top 10% of areas with the highest richness and rarity values. Finally, we overlaid the protected areas to evaluate the current coverage of hotspots and identify future conservation priorities. Although approximately 12% of the country is currently protected, our findings indicate that the current network of protected areas is considerably ineffective for the conservation of amphibians; over 90% of hotspots for amphibians lie outside the current national protected area network. The most important hotspots are located in the Caspian Hyrcanian Mixed Forest, the western margin of the North Zagros, and the Central Zagros Mountains Forest-Steppe ecoregions of the country. Among different types of protected areas that overlap with amphibian hotspots, protected areas, and wildlife refuges, respectively, ranked the highest in terms of quantity and size, while national parks ranked the lowest. In this study, we provided a baseline of top candidate areas for expanding protected areas where habitats can be managed to protect amphibians in Iran. To further improve the coverage of protected areas, we suggested priorities in Zagros Mountains Forest-Steppe hotspots.
Analysis of IL-1β, TGF- Β, Il-5, ACE and PTPN22 Gene Polymorphisms and GEN Expression Levels in Turkish Chlidren with IgA Vasculitis
Authors: Taşkın Raziye Burcu , Aydın İlyas , Aytaç Gülçin , Imamoglu Süleyman , Tunçay Secil Conkar , Bulut İpek Kaplan , Karaca Neslihan Edeer , Aksu Güzide , Berdeli Afig , Kutukculer Necil 
Published: July 2023

Abstract
Objective; Immunoglobulin-A vasculitis (IgAV) is an inflammatory vascular disease that affects small blood vessels. This study was performed with the aim of identifying an association between PTPN22+788G>A (rs33996649), TGF-β-509C>T (rs18004069), IL-1β-511C>T (rs16944), IL-5-746C/T (rs2069812), ACE I/D (rs4646994) gene polymorphisms and susceptibility to IgAV.
Method; A total of 53 IgAV patients and 50 healthy controls were enrolled. PTPN22, TGF-β-, IL-1β gene polymorphisms, ACE gene I/D polymorphism and mRNA expression levels were analyzed by the PCR-RFLP method, allele specific PCR and real-time PCR with TaqMan kits, respectively.
Results; PTPN22, TGF-β, IL-1β, IL-5, ACE variants showed no genotype or allele differences between IgAV patients and controls. Increased levels of IL-1β and TGF-β mRNA expressions were observed in IgAV patients. In addition, patients with IL-1β AG genotype showed signicantly increased amounts of arthritis than non-AG (AA+GG) patients (p=0.004). Likewise, age at disease onset was found to be significantly differed in IgAV patients according to the presence of TT genotype of TGF-β (p=0.047).
Conclusion; Polymorphisms in PTPN22, TGF-β-5, IL-1β and ACE genes are unlikely to confer susceptibility to IgAV and also this is the first study to report a lack of association between IL-5-746C/T and a susceptibility to IgAV. However, the presence of the AG genotype of IL-1β is associated with a susceptibility to IgAV-related arthritis. This is also the first study to report a significant increase in serum mRNA levels of IL-1βand TGF-β in IgAV patients supporting a susceptibility to IgAV in childhood.
Quantifying Aquifer Contamination Risk from Casing Rupture using Backpropagation Neural Network: A Comprehensive Assessment
Authors: Liu Yuyi , Yang Diansen , Bian Hanbing 
Published: July 2023

Abstract
Casing failure in hydraulic fracturing can lead to the leakage of fracturing fluid into the aquifer, resulting in groundwater contamination. To prevent such contamination, a universal assessment model is necessary to understand fracturing fluid transport in the subsurface. However, the complexity of the formation, parameter uncertainty, and computational challenges pose obstacles to risk assessment. In this study, we address these challenges by considering the uncertainty of hydrological parameters and the heterogeneity of the formation in the development of a new conceptual model. Numerical simulations and sensitivity analysis were performed to investigate the key factors influencing groundwater contamination. Additionally, a backpropagation neural network (BPNN) was developed as an alternative approach. Monte Carlo simulations using Latin Hypercube sampling were conducted to obtain probability distributions. Our results demonstrated strong correlations in the BPNN model, with correlation coefficients (R2) of 0.9973 and 0.9617, and low Root Mean Square Errors (RMSE) of 5.45×10− 2 mg and 3.607 days. In a ten-year risk assessment, the probability of contaminant flux in the aquifer being less than 0.651 mg was 100%, indicating a low risk, and the average time for fracturing fluid to reach the aquifer was 1,500 days. These findings provide valuable insights into the potential environmental impact of fracturing fluid contaminants and can inform the development of regulations and best practices for fracturing operations.