bluuebunny/crossref_metadata_2025_split huggingface dataset:
Porcine model of airway epithelial cells: similarities and divergences with humans
Authors: Genna Vincenzo Giuseppe , Adamo Davide , Galaverni Giulia , Lepore Fabio , Boraldi Federica , Quaglino Daniela , Lococo Filippo , Pellegrini Graziella 
Published: August 2023

Abstract
Animal models are currently used in several fields of biomedical research as useful alternatives to human-based studies. However, the obtained results do not always effectively translate into clinical applications, due to interspecies anatomical and physiological differences. Detailed comparability studies are therefore required to verify whether the selected animal species could be a representative model for the disease or for cellular process under investigation. This has proven to be fundamental to obtaining reliable data from preclinical studies. Among the different species, swine is deemed an excellent animal model in many fields of biological research, and they have been largely used in respiratory medicine, considering the high homology between human and swine airways. In the context of in vitro studies, the validation of porcine airway epithelial cells as an alternative to human epithelial cells is crucial. In this paper, porcine and human tracheal and bronchial epithelial cells are compared in terms of in vivo tissue architecture and in vitro cell behaviour under standard and airlifted conditions, analyzing the regenerative, proliferative and differentiative potentials of these cells. We report multiple analogies between the two species, validating the employment of porcine airway epithelial cells for most in vitro preclinical studies, although with some limitations due to species-related divergences.
Appraisal of biological remediation options for the recovery of a mixed contaminated soil from a gravel pit
Authors: Hidalgo June , Artetxe Unai , Becerril José M. , Gómez-Sagasti María T. , Epelde Lur , Vilela Juan , CRESPO CARLOS GARBISU 
Published: August 2023

Abstract
The biological remediation of mixed contaminated soils is exceedingly challenging as it often requires actions to minimize metal-induced risks while degrading organic contaminants. In this study, we assessed the effectiveness of three biological remediation options (rhizoremediation, biostimulation, mycoremediation), applied together or separately, for the recovery of a mixed contaminated soil from a gravel pit. We evaluated the effectiveness of these remediation strategies in terms of both reduction in soil contamination levels and recovery of soil health. The combination of biostimulation (by the application of composted sewage sludge) and rhizoremediation with Medicago sativa plants resulted in the highest recovery of soil health. The application of the composted sewage sludge led to the highest reduction in anthracene and polychlorinated biphenyls concentrations. Still, the studied biological remediation options did not manage to decrease soil contamination levels below some of the limits set by the regional legislation. By contrasts, they enhanced soil health, as reflected by the values of soil microbial indicators, pointing out to the fact that they can stimulate soil functioning in a relatively short period of time, long before the concentration of soil contaminants is significantly reduced.
Weighted correlation gene networks and gene set enrichment analysis revealed new potential genetic etiologies associated with cryptorchidism
Authors: Huang Wenlin , Liu Jinge , Liu Ziwei , Xu Yong 
Published: August 2023

Abstract
Cryptorchidism, a severe congenital malformation, is characterized by an unclear pathogenesis. The objective of this study was to utilize bioinformatic methods to identify potential biomarkers associated with the development of cryptorchidism. Microarray data from the GEO dataset were obtained, and differential expression analysis using the limma package in R software identified 1539 genes that were differentially expressed between the cryptorchidism group and the control group. The Weighted Gene Co-expression Network Analysis (WGCNA) algorithm was then utilized to identify a module highly correlated with the cryptorchidism phenotype. A protein interaction network was constructed to investigate the interaction among genes within this module. Subsequently, important hub genes were identified, and single-gene Gene Set Enrichment Analysis (ssGSEA) using the clusterProfiler package in R software was performed to determine genes significantly correlated with the hub genes. The hub genes identified included CDGH1, CS and G6PD, HSPA5, KEAP1, NEDD8, POLR2J, JUN, SOD2, and TXN. Furthermore, the differentially expressed genes were found to be enriched in processes such as mitochondrial translational elongation, mitochondrial translational termination, and translational termination. In conclusion, bioinformatic methods were employed to identify potential biomarkers associated with the pathogenesis of cryptorchidism. However, it is important to acknowledge that these findings reflect correlational rather than causal differences in gene expression, considering the utilization of tissue samples containing various tissue types. Further investigation is needed to establish specific causal relationships.
Accelerated sea level rise and Phragmites australis expansion alter tidal marsh water table dynamics
Authors: Courtney Sofi , Montalto Franco , Watson Elizabeth Burke 
Published: August 2023

Abstract
Groundwater hydrology plays an important role in coastal marsh biogeochemical function, in part because groundwater dynamics drive the zonation of macrophyte community distribution. Changes that occur over time, such as sea level rise and shifts in habitat structure are likely altering groundwater dynamics and eco-hydrological zonation. We examined tidal flooding and marsh water table dynamics in 1999 and 2019 and mapped shifts in plant distributions over time, at Piermont Marsh, a brackish tidal marsh located along the Hudson River Estuary near New York City. We found evidence that the marsh surface was flooded more frequently in 2019 than 1999, and that tides were propagating further into the marsh in 2019, although marsh surface elevation gains were largely matching that of sea level rise. The changes in groundwater hydrology that we observed are likely due to the high tide raising at a rate that is greater than that of mean sea level, as well as potential increases in soil porosity, hydraulic conductivity, and evapotranspiration from Phragmites australis expansion. These results suggest that the interactive effects of climate change and shifts in plant community composition are impacting the tidal marsh water table at Piermont Marsh. These effects may exacerbate or mitigate impacts of climate change on tidal marsh vegetation. Considering these results, we recommend that habitat models consider tidal range expansion and groundwater hydrology as metrics when predicting the impact of sea level rise on marsh resilience.
Does digital literacy reduce the risk of returning to poverty? Evidence from China
Authors: zhou di , qiu wenyan , zha fangjing , zhang xiaoru 
Published: August 2023

Abstract
China's use of digital technology for poverty alleviation has yielded substantial results. In establishing and improving long-term mechanisms for poverty eradication governance, changing capabilities is the key and ultimate goal in alleviating the problem of poverty. In the context of the widespread adoption of digital technology and rapid development of the digital economy, the lack of digital literacy is a significant obstacle that hinders rural residents from reaping the benefits of the digital economy. However, few studies explore the specific impact of improving digital literacy on poverty alleviation governance. Based on data from the China Family Panel Studies from 2018, this paper explores the impact of digital literacy on the risk of impoverished households returning to poverty, and examines the underlying mechanism. The study finds that digital literacy can reduce the risk of impoverished households returning to poverty in China by promoting family entrepreneurship, improving entrepreneurial performance, and expanding entrepreneurial scale. Further analysis shows that this effect varies among households with different regional and capital endowments, and that digital business literacy has the most significant effect in terms of alleviating the risk of returning to poverty. This study has significant implications for understanding and improving the governance mechanism of sustainable poverty alleviation through digital literacy.
JEL codes: D13, I25, I32, O15, O33
Characterisation of Pythium capillosum– A new pathogen of Xiphinema pachtaicum (Nematoda: Longidoridae)
Authors: Milašin Ranka , Voruna Mihajlo , Matic Slavica , Njezic Branimir , Artimová Renata , Medo Juraj , Delic Duska 
Published: August 2023

Abstract

Isolation on culture media followed with macroscopic, microscopic, molecular and phylogenetic analyses and pathogenicity test allowed us to identified Pythium capilosum found to be capable of destroying certain dagger nematode through endozoic parasitism from ingested oomycete zoospores. Although endoparasitism of free-living nematodes is found to be common among Oomycetes in nature, this is the first finding of such occurrence in Bosnia and Herzegovina soils. The obtained results could give rise to initiate a study for the new biological approach for nematode control promoting environmentally safe and sustainable control measures.
Analysis of the correlation between RBFOX1 gene copy number variation, mRNA and protein expression, and colorectal cancer
Authors: Li Jian , Xu Jian , Niu Min , Wan Songlin , Wang Youheng , Liu Yi , Ding Zhao , Qian Qun , Li Daojiang , Li Guangchun 
Published: August 2023

Abstract
Background: Copy number variation is a significant characteristic of colorectal cancer progression. RBFOX1 is the gene with the highest frequency of copy number loss in colorectal cancer, but current research related to it and colorectal cancer is relatively scarce.
Methods: Data from TCGA and other sources were used to analyze the copy number variation and mRNA expression levels of RBFOX1, as well as their correlation with clinical pathological data. Immunohistochemistry and immunofluorescence experiments were used to analyze the expression of RBFOX1 protein in colorectal cancer cells and tissues.
Results: RBFOX1 has a high frequency (22.4%) of copy number loss and diverse copy number variations in colorectal cancer tissues. High-level RBFOX1 deletion is prone to occur in the right-sided colon and tissues with high microsatellite instability. The copy number variation of RBFOX1 and mRNA expression are not correlated. In tumor tissues, RBFOX1 mRNA shows a characteristic of reduced expression, which is significantly related to BRAF mutation (P=4.7e-05, P=0.03). Low expression of RBFOX1 is prone to occur in the right-sided colon and tissues with high microsatellite instability. The protein encoded by RBFOX1 is expressed in normal intestinal tissues, but shows a characteristic of absence in some colorectal cancer tissues.
Conclusion: In the right-sided colon and tissues with high microsatellite instability, RBFOX1 shows copy number loss and low mRNA expression. This characteristic is closely related to BRAF gene mutation, and the protein of RBFOX1 is absent in some colorectal cancer tissues.
Multimodal imaging and photothermal/chemodynamic therapy of cervical cancer using GSH-responsive nanoparticles
Authors: Shao runrun , qiao xiaofang , Cao Linlin , man jianliang , guo lingyun , li lanlan , liu wen , li lihong , wang bin , guo lixia , ma sufang , zhang boye , wang haojiang , Yan Lili 
Published: August 2023

Abstract
The development of nanoparticles capable of inducing reactive oxygen species(ROS) formation has become an important strategy for cancer therapy. Simultaneously, the preparation of multifunctional nanoparticles that respond to the tumor microenvironment is crucial for the diagnosis and treatment of tumors. In this study, we designed a MoS2 core coated with MnO2, which possessed a good photothermal effect and could produce Fenton-like Mn2+ in response to highly expressed glutathione (GSH) in the tumor microenvironment, thereby generating a chemodynamic therapy (CDT). The nanoparticles were further modified with mPEG-NH2 to improve their biocompatibility, resulting in the formation of MoS2@MnO2-PEG. These nanoparticles were shown to possess significant MRI and CT imaging capabilities, making them useful in tumor diagnosis. In vitro and in vivo experiments demonstrated the anti-tumor ability of MoS2@MnO2-PEG, with a significant killing effect on tumor cells under combined treatment. These nanoparticles hold great potential for CDT/PTT combined antitumor therapy and could be further explored in biomedical research.
Detecting Concept Drift in Just-In-Time Software Defect Prediction Using Model Interpretation
Authors: Chitsazian Zeynab , Kashi Saeed Sedighian 
Published: August 2023

Abstract
Context: Previous studies have indicated that the stability of Just-In-Time Software Defect Prediction (JIT-SDP) models can change over time due to various factors, including modifications in code, environment, and other variables. This phenomenon is commonly referred to as Concept Drift (CD), which can lead to a decline in model performance over time. As a result, it is essential to monitor the model performance and data distribution over time to identify any fluctuations. Objective: We aim to identify CD points on unlabeled input data in order to address performance instability issues in evolving software and investigate the compatibility of these proposed methods with methods based on labeled input data. To accomplish this, we considered the chronological order of the input commits generated by developers over time. In this study, we propose several methods that monitor the distance between model interpretation vectors and values of their individual features over time to identify significant distances for detecting CD points. We compared these methods with various baseline methods. Method: In this study, we utilized a publicly available dataset that has been developed over the long-term and comprises 20 open-source projects. Given the real-world scenarios, we also considered verification latency. Our initial idea involved identifying CD points on within-project by discovering significant distances between consecutive vectors of interpretation of incremental and non-incremental models. Results: We compared the performance of the proposed CD Detection (CDD) methods to various baseline methods that utilized incremental Naïve Bayes classification. These baseline methods are based on monitoring the error rate of various performance measures. We evaluated the proposed approaches using well-known measures of CDD methods such as accuracy, missed detection rate, mean time to detection, mean time between false alarms, and meantime ratio. Our evaluation was conducted using the Friedman statistical test. Conclusions: According to the results obtained, it appears that method based on the average interpretation vector does not accurately recognize CD. Additionally, methods that rely on incremental classifiers have the lowest accuracy. On the other hand, methods based on non-incremental learning that utilized interpretation with positive effect size demonstrate the highest accuracy. By employing strategies that utilized the interpretation values of each feature, we were able to derive features that have the most positive effect in identifying CD.
Clinicopathological characteristics of four major histological types of high-grade parotid carcinoma
Authors: Kawata Ryo , Kinoshita Ichita , Jinnin Tsuyoshi , Higashino Masaaki , Terada Tetsuya , Kurisu Yoshitaka , Hirose Yoshinobu , Tochizawa Takeshi 
Published: August 2023

Abstract
Objective High-grade parotid carcinoma generally has a poor prognosis, and the histological type is mucoepidermoid carcinoma (MEC), salivary duct carcinoma (SDC), carcinoma ex pleomorphic adenoma (CEPA), or adenoid cystic carcinoma (AdCC) in the majority of cases.
Methods During the 23-year period from September 1999 to December 2022, 250 patients with parotid carcinoma underwent initial treatment and had the histopathological type of their carcinoma. Retrospective study evaluated 111 MEC, SDC, CEPA, or AdCC cases among 134 patients with high-grade parotid carcinoma. We examined pathological and clinical features and prognosis, evaluated factors associated with recurrence, and performed immunohistological examinations.
Results Pathological and clinical features and factors associated with recurrence were different for each histological type. The 10-year disease-free survival rates were as follows: MEC, 34.9%; SDC, 22.6%; CEPA, 47.1%; and AdCC, 56.3%. Human epidermal growth factor receptor type-2 and androgen receptor were positive in 48% and 56% of patients with SDC, respectively, 38% and 25% of those with CEPA.
Conclusion Each histological type has its own pathological and clinical features, recurrence types, and tumor activities, suggesting that differentiating between high-grade parotid carcinomas according to histological type will improve diagnosis, and thus prognosis.
Serum Neurofilament Light Chain in COVID-19 and the Influence of Renal Function
Authors: Körtvelyessy Péter , Diekämper Elena , Ruprecht Klemens , Endres Matthias , Stubbemann Paula , Kurth Florian , Graw Jan , Menk Mario , Kuhle Jens , Wohlrab Felix 
Published: August 2023

Abstract
COVID-19 is associated with various neurological symptoms. Serum neurofilament light chain (sNfL) is a robust marker for neuroaxonal injury. Recent studies have shown that elevated levels of sNfL are associated with unfavourable outcome in COVID-19 patients. However, neuroaxonal injury is rare in COVID-19, and renal dysfunction as well as hypoxia, both of which are known in severe COVID-19, can also increase sNfL levels. Thus, the meaning and mechanisms of sNfL elevation in COVID-19 patients remain unclear. We evaluated sNfL levels in 48 patients with COVID-19 (mean age = 63 years) and correlated them to clinical outcome, the form of oxygen therapy, and creatinine. Levels of sNfL were age-adjusted and compared with normal values and z-scores. COVID-19 patients treated with nasal cannula had normal sNfL levels (mean sNfL = 19.6 pg/ml) as well as patients with high flow treatment (mean sNfL = 40.8 pg/ml). Serum-NfL levels were statistically significantly higher in COVID-19 patients treated with mechanical ventilation on intensive care unit (ICU) (mean sNfL = 195.7 pg/ml, p < 0.01). There was a strong correlation between sNfL elevation and unfavourable outcome in COVID-19 patients (p < 0.01). However, serum creatinine levels correlated directly and similarly with sNfL elevation and with unfavourable outcome in COVID-19 patients (p < 0.01). Additionally, multivariate analysis for serum creatinine and sNfL showed that both variables are jointly associated with clinical outcomes. Our results identify renal dysfunction as an important possible confounder for sNfL elevation in COVID-19. Thus, serum creatinine and renal dysfunction should be strongly considered in studies evaluating sNfL as a biomarker in COVID-19.
Cultural Awareness of Photovoltaic Technologies in Mosque Communities in Rural Java
Authors: Mutaqi Ahmad Saifudin , Suparwoko Suparwoko , Adinandra Sisdarmanto , Qamar Fadhil Ahmad 
Published: August 2023

Abstract
The international community recognizes the role of culture in sustainable development, which is included in the 2030 Agenda and formulated in the SDGs goals since 2015. Cultural awareness in rural communities in Indonesia is well developed, as evidenced by their daily experiences, but not necessarily towards “renewable energy culture”. A culture-aware society is characterized by a cooperative attitude and openness to cultural and technological developments. This study aimed to determine the “effectiveness of working in partnership” of the An-Nur Mosque community in Berbah village on Java island through the use of photovoltaic (PV) technology on the roofs of mosque buildings. The two theoretical frameworks guiding this research are culture-aware theory, which emphasizes the ability to collaborate, and renewable energy theory, to be implemented in PV technology. The main research objective is mapping and quantifying effective partnership models in mosque communities that have installed PV technologies. We first determined the amount of PV energy produced in the community and then linked it to the degree of cultural awareness using a descriptive qualitative method with a deductive approach in the context of partnership collaboration. The cooperative attitude of the community was assessed based on providing 1) resources; 2) knowledge and expertise; 3) time and economy; 4) communication; and 5) problem-solving skills. The study results indicate that the PV installation's success depends on the partnerships between mosque communities and an external technical advisor as measured by the degree of available community resources and the level of assistance and communication during the PV installation.
Long-Term Outcomes of Anti-VEGF Therapy with and without Posterior Scleral Reinforcement on Myopic Maculopathy in mCNV Eyes
Authors: Kang Meng-Tian , Wang Ningli , Xu Wenjun , Yusufu Mayinuer , Liu Wu , Tian Jiaxin , Qi Yue 
Published: August 2023

Abstract
Background
Anti-vascular endothelial growth factor (anti-VEGF) therapy is used for myopic choroidal neovascularization (mCNV). Patchy chorioretinal atrophy (pCRA) enlargement has been reported in mCNV cases associated with vision loss. Our aim was to compare the long-term effectiveness of anti-VEGF therapy alone versus anti-VEGF followed by posterior scleral reinforcement (PSR) in controlling myopic maculopathy in mCNV eyes.
Methods
We performed a retrospective review of the medical records of 95 high myopia patients (refractive error ≥ 6.00 diopters, axial length ≥ 26.0 mm) with mCNV. Patients were treated with anti-VEGF alone (group A) or anti-VEGF followed by PSR (group B). The following data were collected: refractive error, best corrected visual acuity (BCVA), ophthalmic fundus examination, ocular coherence tomography and ocular biometry at 12 and 24 months pre- and postoperatively. The primary outcomes were changes in pCRA and BCVA.
Results
In 26 eyes of 24 patients, the mean pCRA size significantly increased from baseline (0.88 ± 1.69 mm2) to 12 months (1.57 ± 2.32 mm2, t = 3.249, P = 0.003) and 24 months (2.17 ± 2.79 mm2, t = 3.965, P = 0.001) postoperatively. The increase in perilesional pCRA in group B was 98.2% and 94.2% smaller than that in group A at 12 and 24 months (Beta 0.57 [95% CI 0.01, 191 1.13], P = 0.048). In group B, 7 eyes (58.3%) gained more than 2 lines of BCVA compared with only 4 eyes (28.6%) in group A at 24 months.
Conclusion
Anti-VEGF therapy followed by PSR achieved better outcomes than anti-VEGF therapy alone in controlling the development of myopic maculopathy in mCNV and may constitute a better treatment option by securing a better long-term VA outcome.