bluuebunny/crossref_metadata_2025_split huggingface dataset:
Waterbody loss due to urban expansion of large Chinese cities in last three decades
Authors: Xiao Wu , Chen Wenqi , Yue Wenze , Mu Jingxuan , Xu Jianpeng 
Published: October 2022

AbstractUrban waterbodies are one of the most pertinent issues involved in multiple aspects of Sustainable Development Goals (SDGs). However, waterbodies in large Chinese cities are highly vulnerable to urban-land expansion, which is mostly due to economic development, population growth, and rural–urban migration. In this work, we selected 159 Chinese cities of over one million in population to investigate the encroachment on waterbodies due to rapid urbanization from 1990 to 2018. Overall, 20.6% of natural waterbody area was lost during this period to urban expansion, and this fraction varied from city to city which was related to waterbody abundance. With the acceleration of urbanization, waterbody occupation is becoming more serious (P < 0.01). However, in all cities, this encroachment has eased since 2010, which justifies the effective implementation of national-scale policies to conserve urban waterbodies. Meanwhile, gains have occurred during urbanization, in addition to the loss of waterbodies. Especially, cities lacking waterbody placed a greater emphasis on ecological factors, whose urban waterbody areas showed an increasing trend. In the future, ecological resources, including waterbody, should be considered in urban planning to provide reasonable protection to waterbodies in the quest for urban sustainability.
Role of the E3 ubiquitin-ligase Hakai in intestinal inflammation and cancer bowel disease
Authors: Roca-Lema Daniel , Quiroga Macarena , Khare Vineeta , Díaz-Díaz Andrea , Barreiro-Alonso Aida , Rodríguez-Alonso Andrea , Concha Ángel , Romay Gabriela , Cerdán M. Esperanza , Gasche Christoph , Figueroa Angélica 
Published: October 2022

AbstractThe E3 ubiquitin-ligases are important for cellular protein homeostasis and their deregulation is implicated in cancer. The E3 ubiquitin-ligase Hakai is involved in tumour progression and metastasis, through the regulation of the tumour suppressor E-cadherin. Hakai is overexpressed in colon cancer, however, the implication in colitis-associated cancer is unknown. Here, we investigated the potential role of Hakai in intestinal inflammation and cancer bowel disease. Several mouse models of colitis and associated cancer were used to analyse Hakai expression by immunohistochemistry. We also analysed Hakai expression in patients with inflamed colon biopsies from ulcerative colitis and Crohn's disease. By Hakai interactome analysis, it was identified Fatty Acid Synthase (FASN) as a novel Hakai-interacting protein. Moreover, we show that Hakai induces FASN ubiquitination and degradation via lysosome, thus regulating FASN-mediated lipid accumulation. An inverse expression of FASN and Hakai was detected in inflammatory AOM/DSS mouse model. In conclusion, Hakai regulates FASN ubiquitination and degradation, resulting in the regulation of FASN-mediated lipid accumulation, which is associated to the development of inflammatory bowel disease. The interaction between Hakai and FASN may be an important mechanism for the homeostasis of intestinal barrier function and in the pathogenesis of this disease.
Mitochondrial biogenesis, telomere length and cellular senescence in Parkinson’s disease and Lewy body dementia
Authors: Asghar Muhammad , Odeh Amani , Fattahi Ahmad Jouni , Henriksson Alexandra Edwards , Miglar Aurelie , Khosousi Shervin , Svenningsson Per 
Published: October 2022

AbstractProgressive age is the single major risk factor for neurodegenerative diseases. Cellular aging markers during Parkinson’s disease (PD) have been implicated in previous studies, however the majority of studies have investigated the association of individual cellular aging hallmarks with PD but not jointly. Here, we have studied the association of PD with three aging hallmarks (telomere attrition, mitochondrial dysfunction, and cellular senescence) in blood and the brain tissue. Our results show that PD patients had 20% lower mitochondrial DNA copies but 26% longer telomeres in blood compared to controls. Moreover, telomere length in blood was positively correlated with medication (Levodopa Equivalent Daily Dose, LEDD) and disease duration. Similar results were found in brain tissue, where patients with Parkinson’s disease (PD), Parkinson’s disease dementia (PDD) and Dementia with Lewy Bodies (DLB) showed (46–95%) depleted mtDNA copies, but (7–9%) longer telomeres compared to controls. In addition, patients had lower mitochondrial biogenesis (PGC-1α and PGC-1β) and higher load of a cellular senescence marker in postmortem prefrontal cortex tissue, with DLB showing the highest effect among the patient groups. Our results suggest that mitochondrial dysfunction (copy number and biogenesis) in blood might be a valuable marker to assess the risk of PD. However, further studies with larger sample size are needed to evaluate these findings.
Study of a new method for the instant preparation of ice particles in ice abrasive air jet
Authors: Li Zhiping , Zhu Ying , Liu Yong , Cao Chenxu , Wu Jiaojiao , Huang Fei 
Published: October 2022

AbstractThe ice abrasive air jet is a clean surface treatment technology, which currently has limitations such as high energy consumption, uncontrollable particle size and hardness. Realizing the instant preparation and utilization of ice particles are crucial for solving the energy consumption problem. This paper based on the icing principle of heterogeneous nucleation, proposed a new method of ice making, the heat transfer mechanism of low temperature droplets was studied, and the method was proved to be feasible. Using the FLUENT solidification and melting model combined with the VOF model to calculate the freezing process of droplets, the effects of droplet particle size, initial temperature, and wall temperature on the freezing time were analyzed, and the calculation equation of the freezing time was determined, which was corrected by the icing test results. The results showed that the outside of the droplet freezes first, the liquid–solid boundary is parabolic, and the parabolic concavity increases with time and droplet size. In the freezing process, the larger the droplet size, the longer the droplet phase transition time; the higher the droplet initial temperature, the longer it took to reach the phase transition; the higher the wall temperature, the longer the ice formation time.
Establishment of a novel mouse model of adenomyosis suitable for longitudinal and quantitative analysis and perinatal outcome studies
Authors: Elsherbini Mohammed , Koga Kaori , Hiraoka Takehiro , Kumasawa Keiichi , Maki Eiko , Satake Erina , Taguchi Ayumi , Makabe Tomoko , Takeuchi Arisa , Izumi Gentaro , Takamura Masashi , Harada Miyuki , Hirata Tetsuya , Hirota Yasushi , Wada-Hiraike Osamu , Osuga Yutaka 
Published: October 2022

AbstractThe purpose of this study was to establish a novel mouse model of adenomyosis suitable for longitudinal and quantitative analyses and perinatal outcome studies. Using a 30 G needle, the entire uterine wall of one horn was mechanically punctured at a frequency of 100 times/1 cm (adenomyosis horn). The other horn was left unpunctured (control horn). Balb/c mice were sacrificed on day 14 (D14) or day 65 (D65) (n = 3 each). The uterus was fixed, paraffin-embedded, sliced, and stained. Lesions were detected and counted, and their volumes were measured. Cell proliferation and fibrosis were assessed by Ki67 and Masson’s Trichrome staining, respectively. Blood vessels were detected using CD31 immunostaining. Some of the mice (n = 4), were mated and the date of delivery, litter size, number of implantations, and number and volume of postpartum lesions were measured. The number of lesions per horn did not differ between D14 and D65. The volume of the entire lesion was significantly greater on D65 than on D14 (p < 0.0001). The volume of the epithelial part of the lesion was significantly greater in D65 (p < 0.0001). The volume of the stromal part of the lesion was also greater on D65 (p < 0.0001). The percentage of Ki67 positive cells in the epithelial part of the lesion was significantly higher on D14 (p < 0.05). In contrast, the percentage of Ki67-positive cells in the stromal part was significantly higher on D65 (p < 0.01). Vascular density in the lesions was higher in on D65 (p < 0.05). The percentage of fibrotic area was significantly higher on D65 (p < 0.01). The date of delivery was slightly earlier than that reported for healthy mice of the same strain. The litter size was smaller than that reported in previous research. The number of implantation sites did not differ between the control and the adenomyosis horn. The number and volume of lesions did not differ between the non-pregnant and postpartum groups. This model can be applied to evaluate the pathogenesis of adenomyosis, validate the efficacy of therapeutic agents, and evaluate the effect of adenomyosis on pregnancy and vice versa.
A mouse model of hepatic encephalopathy: bile duct ligation induces brain ammonia overload, glial cell activation and neuroinflammation
Authors: Claeys Wouter , Van Hoecke Lien , Geerts Anja , Van Vlierberghe Hans , Lefere Sander , Van Imschoot Griet , Van Wonterghem Elien , Ghesquière Bart , Vandenbroucke Roosmarijn E. , Van Steenkiste Christophe 
Published: October 2022

AbstractHepatic encephalopathy (HE) is a common complication of chronic liver disease, characterized by an altered mental state and hyperammonemia. Insight into the brain pathophysiology of HE is limited due to a paucity of well-characterized HE models beyond the rat bile duct ligation (BDL) model. Here, we assess the presence of HE characteristics in the mouse BDL model. We show that BDL in C57Bl/6j mice induces motor dysfunction, progressive liver fibrosis, liver function failure and hyperammonemia, all hallmarks of HE. Swiss mice however fail to replicate the same phenotype, underscoring the importance of careful strain selection. Next, in-depth characterisation of metabolic disturbances in the cerebrospinal fluid of BDL mice shows glutamine accumulation and transient decreases in taurine and choline, indicative of brain ammonia overload. Moreover, mouse BDL induces glial cell dysfunction, namely microglial morphological changes with neuroinflammation and astrocyte reactivity with blood–brain barrier (BBB) disruption. Finally, we identify putative novel mechanisms involved in central HE pathophysiology, like bile acid accumulation and tryptophan–kynurenine pathway alterations. Our study provides the first comprehensive evaluation of a mouse model of HE in chronic liver disease. Additionally, this study further underscores the importance of neuroinflammation in the central effects of chronic liver disease.
Comparative effectiveness of neutralising monoclonal antibodies in high risk COVID-19 patients: a Bayesian network meta-analysis
Authors: McConnell David , Harte Marie , Walsh Cathal , Murphy Desmond , Nichol Alistair , Barry Michael , Adams Roisin 
Published: October 2022

AbstractThe purpose of this work was to review and synthesise the evidence on the comparative effectiveness of neutralising monoclonal antibody (nMAB) therapies in individuals exposed to or infected with SARS-CoV-2 and at high risk of developing severe COVID-19. Outcomes of interest were mortality, healthcare utilisation, and safety. A rapid systematic review was undertaken to identify and synthesise relevant RCT evidence using a Bayesian Network Meta-Analysis. Relative treatment effects for individual nMABs (compared with placebo and one another) were estimated. Pooled effects for the nMAB class compared with placebo were estimated. Relative effects were combined with baseline natural history models to predict the expected risk reductions per 1000 patients treated. Eight articles investigating four nMABs (bamlanivimab, bamlanivimab/etesevimab, casirivimab/imdevimab, sotrovimab) were identified. All four therapies were associated with a statistically significant reduction in hospitalisation (70–80% reduction in relative risk; absolute reduction of 35–40 hospitalisations per 1000 patients). For mortality, ICU admission, and invasive ventilation, the risk was lower for all nMABs compared with placebo with moderate to high uncertainty due to small event numbers. Rates of serious AEs and infusion reactions were comparable between nMABs and placebo. Pairwise comparisons between nMABs were typically uncertain, with broadly comparable efficacy. In conclusion, nMABs are effective at reducing hospitalisation among infected individuals at high-risk of severe COVID-19, and are likely to reduce mortality, ICU admission, and invasive ventilation rates; the effect on these latter outcomes is more uncertain. Widespread vaccination and the emergence of nMAB-resistant variants make the generalisability of these results to current patient populations difficult.
Vibrational characteristics of aluminum–phosphate compounds by an experimental and theoretical approach
Authors: Goj Pawel , Handke Bartosz , Stoch Pawel 
Published: October 2022

AbstractAluminum phosphates are materials with relatively wide potential applications in many industries. The vibrational features of selected compounds were established on Raman and infrared spectroscopy. The experimentally determined spectra are compared to those calculated by ab initio methods. This gives a unique possibility of a proper assignment of the experimental spectral features to specific modes of vibration. In the results, it was evidenced that the spectra are characterized by two specific intense bands in the mid- and high-frequency range due to the P–O–P and P–O bonds in [PO4] tetrahedron vibrations. The position of the high-frequency band is related to the number of bridging oxygen atoms connecting [PO4] tetrahedrons in the unit cell. Additionally, the differences in the spectra were evidenced as a result of different polymorphic forms of the selected compounds. Therefore, the results may be useful in determining the phase composition of polyphase materials or structural features of aluminum–phosphate glasses and glass–ceramic materials.
The LRP1/CD91 ligands, tissue-type plasminogen activator, α2-macroglobulin, and soluble cellular prion protein have distinct co-receptor requirements for activation of cell-signaling
Authors: Mantuano Elisabetta , Azmoon Pardis , Banki Michael A. , Gunner Cory B. , Gonias Steven L. 
Published: October 2022

AbstractLDL Receptor-related Protein-1 (LRP1/CD91) binds diverse ligands, many of which activate cell-signaling. Herein, we compared three LRP1 ligands that inhibit inflammatory responses triggered by lipopolysaccharide (LPS), including: enzymatically-inactive tissue-type plasminogen activator (EI-tPA); activated α2-macroglobulin (α2M); and S-PrP, a soluble derivative of nonpathogenic cellular prion protein (PrPC). In bone marrow-derived macrophages, the N-methyl-D-aspartate receptor was essential for all three LRP1 ligands to activate cell-signaling and inhibit LPS-induced cytokine expression. Intact lipid rafts also were essential. Only α2M absolutely required LRP1. LRP1 decreased the EI-tPA concentration required to activate cell-signaling and antagonize LPS but was not essential, mimicking its role as a S-PrP co-receptor. Membrane-anchored PrPC also functioned as a co-receptor for EI-tPA and α2M, decreasing the ligand concentration required for cell-signaling and LPS antagonism; however, when the concentration of EI-tPA or α2M was sufficiently increased, cell-signaling and LPS antagonism occurred independently of PrPC. S-PrP is the only LRP1 ligand in this group that activated cell-signaling independently of membrane-anchored PrPC. EI-tPA, α2M, and S-PrP inhibited LPS-induced LRP1 shedding from macrophages, a process that converts LRP1 into a pro-inflammatory product. Differences in the co-receptors required for anti-inflammatory activity may explain why LRP1 ligands vary in ability to target macrophages in different differentiation states.
Deep learning-based classification for lung opacities in chest x-ray radiographs through batch control and sensitivity regulation
Authors: Chang I-Yun , Huang Teng-Yi 
Published: October 2022

AbstractIn this study, we implemented a system to classify lung opacities from frontal chest x-ray radiographs. We also proposed a training method to address the class imbalance problem presented in the dataset. We participated in the Radiological Society of America (RSNA) 2018 Pneumonia Detection Challenge and used the datasets provided by the RSNA for further research. Using convolutional neural networks, we implemented a training procedure termed batch control to manipulate the data distribution of positive and negative cases in each training batch. The batch control method regulated and stabilized the performance of the deep-learning models, allowing the adaptive sensitivity of the network models to meet the specific application. The convolutional neural network is practical for classifying lung opacities on chest x-ray radiographs. The batch control method is advantageous for sensitivity regulation and optimization for class-unbalanced datasets.
Entropy generation minimization of higher-order endothermic/exothermic chemical reaction with activation energy on MHD mixed convective flow over a stretching surface
Authors: Sharma B. K. , Gandhi Rishu , Mishra Nidhish K , Al-Mdallal Qasem M. 
Published: October 2022

AbstractThe present investigation aims to analyze higher-order endothermic/exothermic chemical reactions with activation energy by considering thermophoresis and Brownian motion effects on MHD mixed convective flow across a vertical stretching surface. The influence of velocity slip, thermal slip, and concentration slip along with an inclined external magnetic field is also considered. The governing coupled non-linear partial differential equations are transformed into ordinary differential equations using similarity transformation. The resulting system of non-linear ODEs is solved by the Newton Raphson shooting technique using the RK-4 algorithm. The impact of various physical parameters discovered in the problem viz. endothermic/exothermic reaction variable, thermophoresis parameter, activation energy parameter, Brownian motion parameter, chemical reaction parameter have been analyzed on velocity profile, temperature profile, and concentration profile. The effects of these parameters on skin-friction coefficient, Nusselt number, and Sherwood number are displayed in tabular form as well as surface plots. The impact of various physical parameters that appeared in the entropy generation is shown using surface and contour plots. The numerical findings are in good agreement with the previously published results. It is observed that an increment in thermophoresis and Brownian motion parameters results in a declination of entropy profiles, whereas an increment in Bejan number profiles is observed. A small region near the surface exhibits an inclination in concentration profiles with an increase in the order of the chemical reaction. In contrast, the opposite effect is analyzed near the boundary layer. Also, the contour and surface plots are displayed to portray real-world applications in industrial and technical processes and the physical depiction of flow characteristics that arise in the current study.
Trainable joint bilateral filters for enhanced prediction stability in low-dose CT
Authors: Wagner Fabian , Thies Mareike , Denzinger Felix , Gu Mingxuan , Patwari Mayank , Ploner Stefan , Maul Noah , Pfaff Laura , Huang Yixing , Maier Andreas 
Published: October 2022

AbstractLow-dose computed tomography (CT) denoising algorithms aim to enable reduced patient dose in routine CT acquisitions while maintaining high image quality. Recently, deep learning (DL)-based methods were introduced, outperforming conventional denoising algorithms on this task due to their high model capacity. However, for the transition of DL-based denoising to clinical practice, these data-driven approaches must generalize robustly beyond the seen training data. We, therefore, propose a hybrid denoising approach consisting of a set of trainable joint bilateral filters (JBFs) combined with a convolutional DL-based denoising network to predict the guidance image. Our proposed denoising pipeline combines the high model capacity enabled by DL-based feature extraction with the reliability of the conventional JBF. The pipeline’s ability to generalize is demonstrated by training on abdomen CT scans without metal implants and testing on abdomen scans with metal implants as well as on head CT data. When embedding RED-CNN/QAE, two well-established DL-based denoisers in our pipeline, the denoising performance is improved by 10%/82% (RMSE) and 3%/81% (PSNR) in regions containing metal and by 6%/78% (RMSE) and 2%/4% (PSNR) on head CT data, compared to the respective vanilla model. Concluding, the proposed trainable JBFs limit the error bound of deep neural networks to facilitate the applicability of DL-based denoisers in low-dose CT pipelines.
Impaired muscle strength is associated with ultrastructure damage in myositis
Authors: Aguilar-Vazquez Andrea , Chavarria-Avila Efrain , Salazar-Paramo Mario , Armendariz-Borunda Juan , Toriz-González Guillermo , Rodríguez-Baeza Marcela , Sandoval-Rodriguez Ana , Villanueva-Pérez Arisbeth , Godínez-Rubí Marisol , Medina-Preciado Jose-David , Lundberg Ingrid , Lozano-Torres Yesenia , Gomez-Rios Cynthia-Alejandra , Pizano-Martinez Oscar , Martinez-Garcia Erika-Aurora , Martin-Marquez Beatriz-Teresita , Duran-Barragan Sergio , Palacios-Zárate Brenda-Lucia , Llamas-Garcia Arcelia , Gómez-Limón Livier , Vazquez-Del Mercado Monica 
Published: October 2022

AbstractThe muscle fiber ultrastructure in Idiopathic Inflammatory Myopathies (IIM) has been scarcely explored, especially in Inclusion Body Myositis. The aim of this study was to implement the Scanning Electron Microscopy (SEM) in a small cohort of IIM patients, together with the characterization of immunological profile for a better understanding of the pathophysiology. For immunological profile characterization, we identified the presence of autoantibodies (Ro-52, OJ, EJ, PL7, PL12, SRP, Jo-1, PMScl75, PMScl100, Ku, SAE1, NXP2, MDA5, TIF1γ, Mi-2α, Mi-2β) and quantified cytokines (IL-1β, IFN-α2, IFN-γ, TNF-α, IL-6, IL-10, IL-12p70, IL-17A, IL-18, IL-23, IL-33) and chemokines (CCL2, CXCL8). The histological analysis was made by hematoxylin–eosin staining while the muscle fiber ultrastructure was characterized by SEM. We observed changes in the morphology and structure of the muscle fiber according to muscle strength and muscle enzymes. We were able to find and describe muscle fiber ultrastructure with marked irregularities, porosities, disruption in the linearity and integrity of the fascicle, more evident in patients with increased serum levels of muscle enzymes and diminished muscle strength. Despite the scarce reports about the use of SEM as a tool in all clinical phenotypes of IIM, our work provides an excellent opportunity to discuss and reframe the clinical usefulness of SEM in the diagnostic approach of IIM.