bluuebunny/crossref_metadata_2025_split huggingface dataset:
Towards large scale DRP simulations: generation of large super-resolution images and extraction of large pore network models
Authors: Regaieg Mohamed , Varloteaux Clément , Faisal Titly Farhana , ElAbid Zakaria 
Published: September 2022

Abstract
Digital Rock Physics (DRP) provides a fast way to compute rock properties and carry-out related sensitivity analysis to complement laboratory measurements. In DRP, the first step is to obtain micro-CT images of a rock, this is then followed by segmenting the images to distinguish the rock from the pore space, and finally flow simulations are performed to compute advanced rock properties such as relative permeability and capillary pressure.
During image acquisition, a compromise is often made between the speed of the image acquisition, the size of the scanned volume and the resolution obtained: increasing the resolution decreases the field of view, in turn limiting the quantity of information obtained from the image and thus making DRP simulations less representative. Furthermore, the geometry of a real rock is not always well characterized, notably due to the lack of image resolution which in turn introduces uncertainty in the pore/throat geometry and consequently introduces errors in rock property computations
Recent advances in deep learning methods have led to major advances in computer vision techniques, and notably in the field of super-resolution imaging. In this work, we present such a strategy to digitally increase the resolution of 3D micro-CT using a deep learning approach called Enhanced Super-Resolution Generative Adversarial Network (ESRGAN). This allows us to have well resolved images with large field of view. Large super-resolved images were produced for resolution improvement factors of x4 and x8 in each direction. The super-resolved images were more realistic visually and produced better single and multiphase flow simulations results.
In order to enable the simulations of very large images generated by ESRGAN we describe a stitching strategy that we have developed in order to enable the extraction of pore networks on such large images and present several validation cases of this method. This approach enables the extraction of pore networks from large images (3184*3280*12928 voxels image) that are needed to achieve large scale DRP simulations.
Large Pore Network simulations coupled with innovative wettability anchoring experiment to predict relative permeability of a mixed-wet rock
Authors: Regaieg Mohamed , Nono Franck , Faisal Titly Farhana , Rivenq Richard 
Published: September 2022

Abstract
Since the pioneering work of Oren et al. 1998several attempts have been made to predict relative permeability curves with Digital Rock Physics (DRP) technique. However, the problem has proved more complex than what researchers have expected, and these attempts failed. One of the main issues was the high number of uncertain parameters especially for the wettability input and this gets worst in mixed-wet scenario as the number of parameters is higher than in water-wet and oil-wet cases. In fact, Sorbie and Skauge 2012 stated that wettability assignment is the most complex and least validated stage in DRP simulation workflow. Similarly, Bondino et al. 2013concluded that “genuine prediction” of multi-phase flow properties will remain not credible until important progress is achieved in the area of wettability characterization at the pore scale.
In this work, we propose a pragmatic approach to tackle these problems. First, we parallelize our pore network simulator in order to achieve large scale PNM simulations. Then, we develop an innovative and fast anchoring experiment imaged by micro-CT scanner, that helps to determine several wettability parameters needed for the DRP simulation (including the fraction of oil-wet/water-wet pores, any spatial or radius correlation of oil wet pores…). This experiment also provides an estimation of macroscopic parameters that help to anchor our pore scale simulations and further reduce the uncertainty. In addition to help reducing the uncertainty of the simulation, this experiment provides a fast estimation of the wettability of the system. Images representing large volumes with low resolution are, first, improved with Enhanced Super Resolution Generative Adversarial Networks (ESRGAN) to obtain a large image with high resolution. Then, a pore network is extracted, and TotalEnergies parallel pore network simulator is used for multiphase flow simulations considering the constraints from the anchoring experiment to reduce the uncertainty. Finally, we compare our simulations against high quality SCAL experiment performed in-house and we assess the predictive power of our DRP workflow.
Forsythiaside A Ameliorates Sepsis-induced Acute Kidney Injury via Anti-inflammation and Antiapoptotic Effects by Regulating Endoplasmic Reticulum Stress
Authors: Chen Yi , Wei Wei , Fu Jingnan , Zhang Teng , Zhao Jie , Ma Tao 
Published: September 2022

Abstract
Ethnopharmacological relevance
Sepsis is a systemic inflammatory response syndrome caused by infection in the body, and accompanying acute kidney injury (AKI) is a common complication of sepsis and is associated with increased mortality and morbidity. Forsythiae Fructus, the dried fruit of Forsythia suspensa (Thunb.) Vahl, is a commonly used traditional Chinese medicine.
Aims of the study: This study aimed to elucidate the protective effect of Forsythiaside A (FTA) on sepsis-induced AKI by downregulating inflammatory and apoptotic responses, and to further explore its underlying mechanism.
Methods: Septic AKI was induced by intraperitoneal injection of LPS (10 mg/kg) using male C57BL/6 mice and pretreated with FTA or control saline. First, we assessed the degree of renal injury by creatinine, blood urea nitrogen measurement, and HE staining of renal tissue; secondly, the inflammation and apoptosis were measured by TUNEL immunofluorescence, qPCR, and ELISA; finally, the mechanism was explored by computer molecular docking and Western blot.
Results: Our data showed that FTA markedly attenuated kidney pathological injuries, alleviated the elevation of serum BUN and Creatinine, suggesting the renal protective effect of FTA. Notably, FTA significantly inhibited the renal expression of proinflammatory cytokine IL-1β, IL-6, and TNF-α both at protein and mRNA levels and attenuated cell apoptosis in kidney, as measured by caspase-3 immunoblot and TUNEL assay, indicating its anti-Inflammation and antiapoptotic properties. Mechanistically, administration of LPS resulted in robust endoplasmic reticulum (ER) stress responses in kidney, evidenced by glucose-regulated protein 78(GRP78) upregulation, protein kinase RNA–like endoplasmic reticulum kinase (PERK) activation, eukaryotic initiation factor 2 alpha (elF2α) phosphorylation and C/EBP homologous protein (CHOP) overexpression, which could be significant blocked by FTA pretreatment. Dynamic simulation and molecular docking were performed to provide further insight.
Conclusions: Collectively, our data suggest that FTA ameliorates sepsis-induced acute kidney injury via its anti-Inflammation and antiapoptotic properties by regulating PERK signaling dependent ER stress responses.
Farmers’ Adaptation to Extreme Weather: Evidence from Rural China
Authors: Mao Hui , Zhang Xiaoheng , Fu Yong 
Published: September 2022

Abstract
Climate change is a huge challenge for agricultural production. Climate-adaptive technology is an effective measure for farmers to adapt to climate change and improve their ability to cope with natural disasters. The low adoption rate of climate-adaptive technology has become an important factor restricting the sustainable development of China’s agriculture. Extreme weather may affect farmers' decisions to adopt climate-adaptive technology. This paper uses the survey data of 622 apple growers in Shaanxi Province to study the impact of extreme weather on farmers’ climate-adaptive technology adoption behavior and its mechanism. The results show that extreme weather has a significant positive effect on farmers’ adoption of climate-adaptive technology. This result still holds after robustness checks such as changing the measurement methods of key variables. In terms of the mechanism, one is that extreme weather can improve farmers’ risk perception and promote their adoption of climate-adaptive technology; the other is that extreme weather can promote farmers’ participation in credit, which in turn promotes their adoption of climate-adaptive technology. Heterogeneity analysis shows that compared with areas without policy incentives, extreme weather has a greater effect on farmers’ climate-adaptive technology adoption behavior in areas with policy incentives. Overall, the results suggest that promoting farmers’ adoption of climate-adaptive technology and understanding how well farmers respond to climate shocks can inform policy design and help reduce risks to agricultural production from extreme weather.
Utilisation of Exome Sequencing for Muscular Disorders in Thai Paediatric Patients: Diagnostic Yield and Mutational Spectrum
Authors: Summa Sarinya , Ittiwut Chupong , Kulsirichawaroj Pimchanok , Paprad Tanitnun , Likasitwattanakul Surachai , Sanmaneechai Oranee , Boonsimma Ponghatai , Suphapeetiporn Kanya , Shotelersuk Vorasuk 
Published: September 2022

Abstract
Muscular dystrophies and congenital myopathies are heterogeneous groups of inherited muscular disorders. An accurate diagnosis is challenging due to their complex clinical presentations and genetic heterogeneity. This study aimed to determine the utilization of whole exome sequencing (ES) for Thai paediatric patients with muscular disorders. Of 176 paediatric patients suspected of genetic/inherited myopathies, 133 patients received a molecular diagnosis after performing conventional investigations, single gene testing, and gene panels. The remaining 43 patients from 42 families could be classified into three groups: Group 1, MLPA-negative Duchenne muscular dystrophy (DMD) with 9 patients (9/43; 21%), Group 2, other muscular dystrophies (MD) with 18 patients (18/43; 42%) and Group 3, congenital myopathies (CM) with 16 patients (16/43; 37%). All underwent whole exome sequencing which could identify pathogenic variants in 8/9 (89%), 14/18 (78%), and 8/16 (50%), for each Group, respectively. Overall, the diagnostic yield of ES was 70% (30/43) and 36 pathogenic/likely pathogenic variants in 14 genes were identified. 18 variants have never been previously reported. Molecular diagnoses provided by ES changed management in 22/30 (73%) of the patients. Our study demonstrates the clinical utility and implications of ES in inherited myopathies.
Stressed Atoms and Their Recover. Charge Density Redistribution With Pressure in a Zeolite Framework
Authors: Stachowicz Marcin , Gajda Roman , Huć Agnieszka , Parafiniuk Jan , Makal Anna , Sutuła Szymon , Fertey Pierre , Woźniak Krzysztof 
Published: September 2022

Abstract
As a result of external stress applied to crystals, ions relax, in addition to shortening the bond lengths, by changing their shape and volume. Modern mineralogy is founded on spherical ions/atoms, i.e. the close packing of spheres, ionic/atomic radii, and Pauling and Goldschmidt rules. More advanced, quantum crystallography has led to detailed quantitative studies of electron density in minerals. Here we innovatively apply it to high pressure studies up to 4.2 GPa of the mineral hsianghualite. With external stress, electron density redistributes inside ions and among them. For most ions, atomic volumes decrease; however, for silicon atomic volume increases. With growing pressure, we observed the higher contraction of cations in bonding directions, but a slighter expansion towards nonbonding directions. It is possible to trace the spatial redistribution of the electron density in ions even at the level of hundredths parts of an electron per cubic angstrom. This opens a new perspective to experimentally characterise mineral processes in the Earth’s mantle. The use of diamond anvil cells with quantum crystallography offer more than interatomic distances and elastic properties of minerals. Interactions, energetic features, a branch so far reserved only to the first principle DFT calculations at ultra-high pressures, become available experimentally.
Plastic Nanoparticles Cause Proteome Stress and Aggregation by Compromising Cellular Protein Homeostasis ex vivo and in vivo.
Authors: Jing Biao , Wan Wang , Hu Bo , Jin Wenhan , Zhang Zhenduo , Peng Congcong , Wang Mengdie , Dong Xuepeng , Gao Zhenming , Liu Yu 
Published: September 2022

Abstract
Decomposition of plastic materials into minuscule particles and their long-term uptake pose increasing concerns on environmental sustainability and biosafety. Besides common cell viability and cytotoxicity evaluations, how plastic nanoparticles interfere with different stress response pathways and affect cellular fitness has been less explored. Here, we provided the first piece of evidence to demonstrate plastic nanoparticles potentially can deteriorate proteome stability, compromise cellular protein homeostasis, and consequently cause global proteome misfolding and aggregation. Polystyrene (PS) nanoparticles of different sizes and surface charges were exploited as model plastic materials. In cell lysate and human blood plasma, naked PS nanoparticles with hydrophobic surface deteriorated proteome thermodynamic stability and exaggerated its aggregation propensity. While no cell viability ablation was observed in cells treated with PS nanoparticles up to 200 μg·mL-1, global proteome aggregation and stress was detected by a selective proteome aggregation sensor. Further proteomics analysis revealed how protein homeostasis network was remodeled by positively charged PS nanoparticles via differential expression of key proteins to counteract proteome stress. In mice model, size-dependent liver accumulation of positively charged PS nanoparticles induced hepatocellular proteome aggregation and compromised protein homeostasis network capacity that were invisible to standard ALT/AST liver function assay and histology. Meanwhile, long-term liver accumulation of plastic nanoparticles deteriorated liver metabolism and saturated liver detoxification capacity of overdosed acetaminophen. This work highlighted the impact of nanoplastics on cellular proteome integrity and cellular fitness that are invisible to current biochemical assays and clinical tests.
Prevailing emotions in women’s suggestions on how to improve the quality of care around the time of childbirth during the COVID-19 pandemic
Authors: Geremia Sara , Valente Emanuelle Pessa , Mariani Ilaria , Lazzerini Marzia 
Published: September 2022

Abstract
Background
Recent evidence showed major gaps in the quality of maternal and newborn care (QMNC) even across high-income countries of the WHO European Region. Collecting women’s views and emotions is crucial for quality of care improvement actions and requires innovative strategies and methods to enable quick and effective data analyses.
Aims
This study from the IMAgiNE EURO dataset aimed at identifying prevailing emotions in suggestions provided by women, after hospital birth in Italy during the COVID-19 pandemic.
Methods
Data were collected from mothers who gave birth in Italy, using a validated online anonymous questionnaire. This guided women across 40 WHO Standard-based Quality Measures and gathered women’s views via a final open-ended question. We explored answers provided in Italian between March 2020 and March 2022, using sentiment analysis, a text mining technique. It allows for identifying how single emotive words in the text shape the overall emotional content. Based on sentiment analysis, we developed word clouds illustrating graphically the emotional content of the 100 most frequent emotive words.
Results
Responses from 2,143 women were analysed. The dataset included a total of 79,204 words. The prevailing emotion in the text was trust (3,384 words) followed by anticipation (2,053 words), fear (1,409 words) and sadness (1,291 words). Many of most common words were verbs concerning actions, such as: “allow” (n = 201), “support” (n = 170), “assist” (n = 161), and “improve” (n = 144).
Conclusions
Sentiment analysis was useful in providing a set of preliminary findings on women’s emotions related to the quality of maternal and newborn care. It may be used to improve the documentation of service users’ emotions and attitudes toward quality of care, providing information useful for researchers and health-care providers. This approach may be considered a valuable and time-saving opportunity for the extraction of important information from large datasets of free-text patient feedback data.
Comparison of the effectiveness of spinal stabilization exercises and chiropractic spinal manipulation in healthy individuals: randomized controlled trial
Authors: Arslan Mesut , YILMAZ FİGEN 
Published: September 2022

Abstract
Background

The aim of this study was to investigate the effects of spinal stabilization exercises, chiropractic spinal manipulation and their combination on endurance, muscle strength, joint position sense, and balance in healthy individuals.

Methods

Eighty healthy people aged 18–45 years were included in the study. Participants in the study were randomly divided into 4 groups. Group 1 underwent 6 sessions of chiropractic manipulation. Instrument-assisted chiropractik manipulation was used. Group 2 underwent 18 sessions of stabilization exercises. Group 3 received both stabilization exercises and chiropractic manipulation. Group 4 was followed as the control group. Participants were evaluated with prone plank, side plank, Sorenson test, quadriceps muscle strength, knee joint position sense, and Y balance test before, after and 1 month after the application.

Results

After the application, significant improvements were observed in the prone and side plank parameters in Group 3 compared to Group 1 and Group 4, while a significant improvement was observed in the Sorenson parameter compared to Group 1 and Group 2. In addition, significant increases were found in quadriceps muscle strength in Group 1, Group 2 and Group 3 compared to Group 4.

Conclusion

Spinal stabilization exercise program applied together with chiropractic manipulation in healthy individuals may be more effective in improving muscular endurance and balance compared to other training programs. All training programs are effective in improving quadriceps muscle strength, but do not have the same effect on knee joint position sense.

Trial registration:

The study was also registered on ClinicalTrial.gov (Registration number: NCT04830098).
miR-499a-5P confers oncogenic roles in breast cancer by targeting SOX6
Authors: Wei Yanghui , Huang Qingnan , Chen Yong , Zeng Kai , Yang Weiqin , Chen Juan , Chen Jiawei 
Published: September 2022

Abstract
Breast cancer is the most frequent malignancy in females worldwide, causing more than 680,000 deaths in 2020. Dysregulated microRNAs have been linked etiologically with breast cancer, controlling a wide range of cellular pathways. Dual luciferase reporter assay was used to confirm the link between miR-499a-5p and SOX6. Studies including proliferation, migration and invasion assay were carried out to investigated functional roles. Animal model was introduced for in vivo investigation. We found high expression level of miR-499a-5p in breast cancer tissues which associated with worse survival. Overexpression of miR-499a-5p played oncogenic role by promoting cell growth and invasiveness in breast cancer cells. SOX6 was identified as the potential target of miR-499a-5p by silico prediction, which was confirmed by dual luciferase reporter assay. Further study confirmed a tumor suppressive role of SOX6 in breast cancer. Subcutaneous administration of breast cancer cells with ectopic miR-499a-5p expression led to larger tumor volume in mice. Taken together, for the first time, we identified a direct link between miR-499a-5p and its down-stream target SOX6, revealing their functionality, which would provide novel insight into the mechanism of breast cancer. Our finding indicating a promising diagnostic and therapeutic op-tion towards this malignant disease.
Comparative Evaluation of Prevention of Demineralization of Artificial Enamel Caries Treated with 5% Sodium Fluoride Varnish, Fluoride Varnish Containing CPP-ACP and 38% SDF in Primary Teeth: An in Vitro Study
Authors: Wassel Mariem , Allam Gehan , Mashhour Al Shaimaa 
Published: September 2022

Abstract
Background
This study aimed to compare the effect of a 5% sodium Fluoride (NaF) varnish (Clinpro TM white varnish), Fluoride varnish containing casein phosphopeptide-amorphous calcium phosphate (CPP-ACP) (MI varnish), and 38% Silver diamine fluoride (SDF) in preventing demineralization of treated white spot lesions (WSLs) in enamel of primary teeth.
Methods
Forty-eight primary molars with WSLs were allocated into four groups. Group 1 received 5% NaF, group 2 received MI varnish, group 3 received SDF, and group 4 control (no treatment). After pH cycling, the mineral content of specimens was evaluated by Energy dispersive x-ray spectrometer (EDX) and the lesions depth was assessed via a polarized light microscope (PLM). One-way ANOVA followed by Tukey’s post hoc test was used. The significance level was set at p ≤ 0.05.
Results
Statistically significant differences in lesion depth and mineral content were observed among all groups (p < 0.001). The highest value in lesion depth was found in the control group (576.69 ± 42.66), followed by SDF (293.32 ± 46.82), then Clinpro™ white varnish (285.43 ± 44.70), while the lowest value was found in MI varnish (226.23 ± 44.25). Meanwhile, MI varnish showed the significantly highest mean calcium ion content, and Ca/P, followed by Clinpro ™, SDF, and the control group.
Conclusions
MI varnish containing CPP-ACP performed better than Clinpro TM white varnish, and SDF in preventing demineralization of early enamel carious lesions in primary teeth.
The responses of prokaryotic communities to the algal blooms from the Pearl River estuary
Authors: Lin Ziya , Liu Zhaojia , Lei Zhenyuan , Xie Wei 
Published: September 2022

Abstract
Algal blooms are severe ecological disasters in the marine environment, affecting the biogeochemical cycles substantially. It is critical to explore how the prokaryotic community responds to the dynamics of algal blooms in the marine environment. The shifts in prokaryotic communities during the algal blooms have been extensively investigated, while the interactions and assembly mechanisms of prokaryotic communities are still incompletely understood. We conducted nutrient addition cultivations for the brackish water from the Pearl River estuary to simulate the algal bloom process and monitored the prokaryotic community compositions over forty days. Results showed evident differences between blooming and after-bloom stages of prokaryotic communities in diversity and taxonomic compositions. Bacillus, Gimesiaceae, and Fibrobacteraceae were dominant before the cultivation. Mesoflavibacter, Rhodobacteraceae, and Acinetobacter were accumulated in the blooming stage. Acinetobacter, Comamonadaceae, and Gimesia were enriched in the after-blooming stage, while Mesoflavibacter, Rhodobacteraceae, and Acinetobacter were active during the whole blooming period. Co-occurrence networks analysis showed that prokaryotic interactions were predominantly driven by positive relationships that impacted the algal blooming fates. Rhodobacteraceae, Flavobacteriaceae, Winogradskyella, and Pseudomonas are the keystone groups of the prokaryotic communities in the blooming stage network, while Marinobacter, Thalassobaculum, Actinobacteria, Flavobacterium, and Rhodobacteraceae are the keystone groups of the after-bloom stage network. Functional prediction by FAPROTAX showed that dissimilatory nitrate reduction increased in the after-bloom stage. Our study revealed the dynamic of the prokaryotic communities and the characteristics of their co-occurrent profiles, which shed light on revealing the potential functions of prokaryotic behaviors during estuarine algal blooming events.