bluuebunny/crossref_metadata_2025_split huggingface dataset:
Synchronization analyze of k-uniform hyper-networks
Authors: Du Juan , Ma Xiujuan , Ma Fuxiang , Yu Wenqian 
Published: March 2024

AbstractHyper-networks tend to perform better in representing multivariate relationships among nodes. Yet, due to the complexity of the hyper-network structure, research in synchronization dynamics is rarely involved. In this paper, a Kuramoto model more suitable for k-uniform hyper-networks is proposed. And the generalized Laplacian matrix expression of the k-uniform hyper-network is present. We use the eigenvalue ratio of the generalized Laplacian matrix to quantify synchronization. And we studied the effects of some important structure parameters on the synchronization of three types of k-uniform hyper-networks. And obtained different relationships between synchronization and these parameters. The results show the synchronization of the k-uniform hyper-networks is related to both structure and parameters. And as the size of the nodes increases, the synchronization ability gradually increases for ER random hyper-network, while that gradually decreases for NW small-world hyper-network and BA scale-free hyper-network. As the uniformity increases, the synchronization ability of all three types of uniform hyper-networks increases. In addition, when the structure and node size are fixed, the synchronization ability increases with the increase of the hyper-clustering coefficient in BA scale-free hyper-network and ER random hyper-network, while it decreases with the increase of the hyper-clustering coefficient in NW small-world hyper-network.
Characterization of yeast mutant strains for starter culture in Arabica coffee fermentation
Authors: Meeampun Yaowapa , Panyachanakul Titiporn , Samosorn Siritron , Dolsophon Kulvadee , Jiamjariyatam Rossaporn , Lorliam Wanlapa , Arnthong Jantima , Suwannarangsee Surisa , Tantayotai Prapakorn , Krajangsang Sukhumaporn 
Published: March 2024

AbstractArabica coffee is the most popular and best-selling type of coffee. During coffee fermentation, microorganisms are essential for the production of metabolites and volatile compounds that affect coffee flavor quality. This work aimed to study the mutation, selection, and characterization of the Wickerhamomyces anomalus strain YWP1-3 as a starter culture to enhance the flavor quality of Arabica coffee. The results revealed that six mutants could produce relatively high levels of the pectinase enzyme on pectin agar media and exhibited high activity levels, ranging from 332.35 to 415.88 U/ml in mucilage broth. Strains UV22-2, UV22-3, UV41-1 and UV32-1 displayed higher levels of amylase activity than did the wild type. The UV22-2 and UV22-3 mutants exhibited the highest pectin degradation indices of 49.22% and 45.97%, respectively, and displayed significantly enhanced growth rates in nitrogen yeast base media supplemented with various sugars; thus, these mutants were evaluated for their ability to serve as a starter for fermentation of Arabica coffee. The cupping scores of coffees derived from UV22-2 and UV22-3 were 83.5 ± 1.5 and 82.0 ± 2.14, respectively. The volatile compounds in the roasted coffee fermented by UV22-2 were analyzed by GC‒MS, which revealed higher levels of furfuryl alcohol and furfuryl acetate than did the other samples. These findings suggested that UV22-2 could be an influential starter culture for Arabica coffee fermentation.
A temporal analysis of the consequences of the drought regime on the water footprint of agriculture in the Guadalupe Valley, Mexico
Authors: Novoa Vanessa , Rojas Carolina , Rojas Octavio , Ahumada-Rudolph Ramón , Moreno-Santoyo Rebeca 
Published: March 2024

AbstractChanges in water availability have a substantial impact on the sustainability and maintenance of agriculture, with water footprint (WF) being a robust methodology to assess these transformations. The Guadalupe Valley is one of the places with the highest agricultural production in Mexico. Despite its semi-arid climatic conditions, it provides high-quality crops that are well-positioned in the world. The historical trend of rainfall and temperatures between 1987 and 2017 was analyzed to identify climatic patterns in the territory. Through the calculations of the water footprint of Grapevine and Olive crops, the sensitivity of the crops to recurrent water deficit and their adaptation in their yields to drought episodes was identified. The reduction in precipitation and occurrence of extreme temperatures have contributed significantly towards augmenting crop evapotranspiration and, consequently, intensifying crop irrigation demands. As a result, there has been an apparent increase in the consumption of WFagricultural since 2007. Thus, the period of highest WFagricultural consumption was 2014 (Extremely dry), as opposed to 2011 (Very wet). In particular, the lowest WFgreen consumptions were observed in extremely dry years, that is, > 20% of the WFagricultural intensifying drought events. Therefore, these periods were compensated with higher uses of WFblue and WFgray, which are inversely correlated with precipitation, where vine crops consume 73% more WFagricultural compared to olive plantations, showing greater interannual variability. These results contribute to analyzing the temporal evolution of water consumption for agriculture, providing a basis for rational water use strategies.
Investigating the spatiotemporal associations between meteorological conditions and air pollution in the federal state Baden-Württemberg (Germany)
Authors: Hoffmann Leona , Gilardi Lorenza , Schmitz Marie-Therese , Erbertseder Thilo , Bittner Michael , Wüst Sabine , Schmid Matthias , Rittweger Jörn 
Published: March 2024

AbstractWhen analyzing health data in relation to environmental stressors, it is crucial to identify which variables to include in the statistical model to exclude dependencies among the variables. Four meteorological parameters: temperature, ultraviolet radiation, precipitation, and vapor pressure and four outdoor air pollution parameters: ozone ($$\text{O}_3$$

O
3

), nitrogen dioxide ($$\text{NO}_2$$

NO
2

), particulate matter ($$PM_{2.5}$$

P

M

2.5

, $$PM_{10}$$

P

M
10

) were studied on a daily basis for Baden-Württemberg (Germany). This federal state covers urban and rural compartments including mountainous and river areas. A temporal and spatial analysis of the internal relationships was performed among the variables using (a) cross-correlations, both on the grand ensemble of data as well as within subsets, and (b) the Local Indications of Spatial Association (LISA) method. Meteorological and air pollution variables were strongly correlated within and among themselves in time and space. We found a strong interaction between nitrogen dioxide and ozone, with correlation coefficients varying over time. The coefficients ranged from negative correlations in January (−0.84), April (−0.47), and October (−0.54) to a positive correlation in July (0.45). The cross-correlation plot showed a noticeable change in the correlation direction for $$\text{O}_3$$

O
3

and $$\text{NO}_2$$

NO
2

. Spatially, $$\text{NO}_2$$

NO
2

, $$PM_{2.5}$$

P

M

2.5

, and $$PM_{10}$$

P

M
10

concentrations were significantly higher in urban than rural regions. For $$\text{O}_3$$

O
3

, this effect was reversed. A LISA analysis confirmed distinct hot and cold spots of environmental stressors. This work examined and quantified the spatio-temporal relationship between air pollution and meteorological conditions and recommended which variables to prioritize for future health impact analyses. The results found are in line with the underlying physico-chemical atmospheric processes. It also identified postal code areas with dominant environmental stressors for further studies.
Initial response and 12-month outcomes after commencing dexamethasone or vascular endothelial growth factor inhibitors for retinal vein occlusion in the FRB registry
Authors: Garay-Aramburu Gonzaga , Hunt Adrian , Arruabarrena Carolina , Mehta Hemal , Invernizzi Alessandro , Gabrielle Pierre-Henry , Guillaumie Tremeur , Wolff Benjamin , Gillies Mark C. , Zarranz-Ventura Javier 
Published: March 2024

AbstractTo compare baseline characteristics, initial response and 12-month efficacy and safety outcomes in eyes with branch and central retinal vein occlusion (BRVO and CRVO) treated with dexamethasone implants (DEX) or anti-vascular endothelial growth factor (anti-VEGF) we performed a multi-centre, retrospective and observational study using Fight Retinal Blindness! Registry. Of 725 eligible eyes, 10% received DEX initially with very frequent adjunctive anti-VEGF (BRVO-DEX 49%, CRVO-DEX 60%). The primary outcome of mean adjusted change in VA at 12 months with DEX and anti-VEGF initiated groups were not statistically significantly different (BRVO: DEX + 6.7, anti-VEGF + 10.6 letters; CRVO: DEX + 2.8, anti-VEGF + 6.8 letters). DEX initiated eyes had fewer injections and visits than anti-VEGF initiated eyes. The BRVO-DEX eyes had greater initial mean changes in VA and central subfield thickness (CST) and achieved inactivity sooner than BRVO-anti-VEGF eyes. The mean CST after the first three months was above 350 μm in all but the BRVO-anti-VEGF group, suggesting undertreatment. In routine care DEX is uncommonly used when available as initial treatment of BRVO and CRVO requiring supplemental anti-VEGF within the first year. The 12-month outcomes were similar, but DEX initiated eyes had fewer injections and visits but more episodes of raised IOP Vs those starting anti-VEGF.
Autophagy as a new player in the regulation of clock neurons physiology of Drosophila melanogaster
Authors: Szypulski Kornel , Tyszka Aleksandra , Pyza Elzbieta , Damulewicz Milena 
Published: March 2024

AbstractAxonal terminals of the small ventral lateral neurons (sLNvs), the circadian clock neurons of Drosophila, show daily changes in their arborization complexity, with many branches in the morning and their shrinkage during the night. This complex phenomenon is precisely regulated by several mechanisms. In the present study we describe that one of them is autophagy, a self-degradative process, also involved in changes of cell membrane size and shape. Our results showed that autophagosome formation and processing in PDF-expressing neurons (both sLNv and lLNv) are rhythmic and they have different patterns in the cell bodies and terminals. These rhythmic changes in the autophagy activity seem to be important for neuronal plasticity. We found that autophagosome cargos are different during the day and night, and more proteins involved in membrane remodeling are present in autophagosomes in the morning. In addition, we described for the first time that Atg8-positive vesicles are also present outside the sLNv terminals, which suggests that secretory autophagy might be involved in regulating the clock signaling network. Our data indicate that rhythmic autophagy in clock neurons affect the pacemaker function, through remodeling of terminal membrane and secretion of specific proteins from sLNvs.
Targeting the NTSR2/TrkB oncogenic pathway in chronic lymphocytic leukemia
Authors: Ikhlef Léa , Yassine May , Chandouri Boutaîna , Rivière Léa , Naves Thomas , Dmytruk Natalya , Gachard Nathalie , Jauberteau Marie-Odile , Gallet Paul-François 
Published: March 2024

AbstractCurrent therapies that target the B-cell receptor pathway or the inhibition of anti-apoptotic proteins do not prevent the progressive forms of chronic lymphocytic leukemia (CLL), have low long-term efficacy and are subject to therapeutic resistance. Deciphering the mechanisms of leukemic cell survival and searching for new specific targets therefore remain major challenges to improve the management of this disease. It was evidenced that NTSR2 (neurotensin receptor 2), through the recruitment of TRKB (tropomyosin related kinase B), induces survival pathways in leukemic B cells. We have investigated the therapeutic potential of this protein complex as a new target. The binding domain of NTSR2 and TRKB was identified and a peptide targeting the latter was designed. The peptide binds TRKB and efficiently decreases the interaction of the two proteins. It is also effectively internalized by CLL-B cells in which it notably affects Src family kinase signaling and anti-apoptotic proteins levels. It demonstrated a cytotoxic effect both in vitro on the MEC-1 cell line and ex vivo on a cohort of 30 CLL patients. Altogether, these results underline the therapeutic potential of the NTSR2/TRKB protein complex as a target in CLL and open new perspectives for the development of targeted therapies.
A comprehensive analysis and experimental validation of TK1 in uterine corpus endometrial carcinoma
Authors: Sun Yiqing , Zhang Kaiwen , Wang Tianqi , Zhao Shuangshuang , Gao Chao , Xue Fengxia , Wang Yingmei 
Published: March 2024

AbstractUterine corpus endometrial carcinoma (UCEC) is becoming a main malignant cancer that threaten to women's health. Thymidine kinase 1 (TK1) is considering to be associated with tumorigenesis and development. Nevertheless, the function of TK1 in UCEC is still unclear. Herein, we analyzed the TK1 expression level in pan-cancer and found that TK1 was upregulated in a variety of cancers including UCEC. Patients of UCEC with high expression of TK1 were related to poor outcome. TK1 was also related to clinical stage, histologic grade and lymph node metastasis. Abnormal expression of TK1 in UCEC was related to promoter methylation while gene mutation was not frequent. TK1 and its associated genes appeared to be prominent in cell cycle and DNA replication, according to GO and KEGG analysis. Analysis of immune infiltration revealed a negative correlation between TK1 and CD8 + T cells, macrophages, and dendritic cells. In vitro experiments, TK1 knockdown resulted in the inhibition of proliferation, migration, invasion and EMT in UCEC cell lines.
Cobalt sulfide flower-like derived from metal organic frameworks on nickel foam as an electrode for fabrication of asymmetric supercapacitors
Authors: Nasiri Farzaneh , Fotouhi Lida , Shahrokhian Saeed , Zirak Mohammad 
Published: March 2024

AbstractMetal–organic frameworks, as a kind of advanced nanoporous materials with metal centers and organic linkers, have been applied as promising electrode materials in energy storage devices. In this study, we are successfully prepared cobalt sulfide nanosheets (CoS) derived from the metal–organic framework on nickel foam (NF). The prepared electrodes are characterized by scanning electron microscopy, transmission electron microscopy, X-ray diffraction, X-ray photoelectron spectroscopy, energy-dispersive X-ray spectroscopy, Brunauer–Emmett–Teller and Barrett-Joyner-Halenda and electrochemical methods like voltammetry, galvanostatic charge–discharge curve and electrochemical impedance spectroscopy. The CoS/NF electrode demonstrates a high specific capacity of 377.5 mA h g−1 (1359 C g−1) at the current density of 2 A g−1, considerable rate performance and excellent durability (89.4% after 4000 cycles). A hybrid supercapacitor is assembled using CoS/NF as the positive electrode and activated carbon as the negative electrode, it shows a high energy density of 57.4 W h kg−1 at a power density of 405.2 W kg−1. The electrochemical results suggest that the CoS nanosheet arrays would possess excellent potential for applications in energy storage devices.
Conclusiveness, readability and textual characteristics of plain language summaries from medical and non-medical organizations: a cross-sectional study
Authors: Bralić Nensi , Mijatović Antonija , Marušić Ana , Buljan Ivan 
Published: March 2024

AbstractThis cross-sectional study compared plain language summaries (PLSs) from medical and non-medical organizations regarding conclusiveness, readability and textual characteristics. All Cochrane (medical PLSs, n = 8638) and Campbell Collaboration and International Initiative for Impact Evaluation (non-medical PLSs, n = 163) PLSs of latest versions of systematic reviews published until 10 November 2022 were analysed. PLSs were classified into three conclusiveness categories (conclusive, inconclusive and unclear) using a machine learning tool for medical PLSs and by two experts for non-medical PLSs. A higher proportion of non-medical PLSs were conclusive (17.79% vs 8.40%, P < 0.0001), they had higher readability (median number of years of education needed to read the text with ease 15.23 (interquartile range (IQR) 14.35 to 15.96) vs 15.51 (IQR 14.31 to 16.77), P = 0.010), used more words (median 603 (IQR 539.50 to 658.50) vs 345 (IQR 202 to 476), P < 0.001). Language analysis showed that medical PLSs scored higher for disgust and fear, and non-medical PLSs scored higher for positive emotions. The reason for the observed differences between medical and non-medical fields may be attributed to the differences in publication methodologies or disciplinary differences. This approach to analysing PLSs is crucial for enhancing the overall quality of PLSs and knowledge translation to the general public.
The association between platelet-related parameters and nonalcoholic fatty liver disease in a metabolically healthy nonobese population
Authors: Choe Eun Kyung , Kang Hae Yeon 
Published: March 2024

AbstractNonalcoholic fatty liver disease (NAFLD) is the most common chronic liver disease characterized by subclinical inflammation and is related to obesity and metabolic syndrome (MS), but it is also frequently observed in nonobese populations. We aimed to evaluate the relationship between the white blood cell count-to-mean platelet volume ratio (WBC/MPV), platelet-to-lymphocyte count ratio (PLR) and lymphocyte-monocyte ratio (LMR) in association with NAFLD, considering the presence of obesity and MS. Additionally, we aimed to investigate whether these parameters exhibited similar correlations in metabolic dysfunction-associated steatotic liver disease (MASLD) as observed in NAFLD. This cross-sectional study included subjects who underwent a comprehensive health evaluation, including blood tests and abdominal ultrasonography. Subgroup analyses were conducted based on obesity and MS. Out of a total 5929 subjects (3271 males, mean age 49.7 ± 10.6 years), 2253 (38.0%) had NAFLD. WBC/MPV was significantly higher, and PLR was significantly lower in subjects with NAFLD. In the analysis restricted to the nonobese (BMI < 25 kg/m2) population without MS, both WBC/MPV and PLR were independently associated with NAFLD: WBC/MPV (adjusted OR 3.366; 95% CI 2.238–5.066) and PLR (adjusted OR 0.997; 95% CI 0.996–0.999). When assessing the risk of NAFLD based on the WBC/MPV and PLR quartiles, the adjusted OR and 95% CI for the lowest quartile compared to the highest were 2.055 (95% CI 1.626–2.602) for WBC/MPV and 0.660 (95% CI 0.523–0.832) for PLR in the nonobese, metabolically healthy group. The levels of WBC/MPV and PLR were independently associated with NAFLD. Furthermore, in MASLD, an association with WBC/MPV, PLR and LMR was identified, similar to the results observed in NAFLD, even after adjusting for confounding variables. In conclusion, the present study demonstrated a significant association between NAFLD and platelet-related parameters, especially in nonobese, metabolically healthy subjects.
Mapping the seamless hourly surface visibility in China: a real-time retrieval framework using a machine-learning-based stacked ensemble model
Authors: Zhang Xutao , Gui Ke , Zeng Zhaoliang , Fei Ye , Li Lei , Zheng Yu , Peng Yue , Liu Yurun , Shang Nanxuan , Zhao Hengheng , Yao Wenrui , Wang Hong , Wang Zhili , Wang Yaqiang , Che Huizheng , Zhang Xiaoye 
Published: March 2024

AbstractSurface visibility (SV), a key indicator of atmospheric transparency, is used widely in the fields of environmental monitoring, transportation, and aviation. However, the sparse distribution and limited number of SV monitoring sites make it difficult to fulfill the urgent need for spatiotemporally seamless fine-scale monitoring. Here, we developed the operational real-time SV retrieval (RT-SVR) framework for China that incorporates information from multiple data sources, including Chinese Land Data Assimilation System meteorological data, in situ observations, and other ancillary data. Seamless hourly SV data with 6.25-km spatial resolution are available in real time via the operational RT-SVR model, which was built using a two-layer stacked ensemble approach that combines multiple machine learning algorithms and a deep learning module. Sample-based cross-validation of the RT-SVR model on approximately 41.3 million data pairs revealed strong robustness and high accuracy, with a Pearson correlation coefficient (R) value of 0.95 and a root mean square error (RMSE) of 3.17 km. An additional hindcast-validation experiment, performed with continuous observations obtained over one year (approximately 20.8 million data pairs), demonstrated the powerful generalization capabilities of the RT-SVR model, albeit with slight degradation in performance (R = 0.85, RMSE = 5.28 km). The seamless hourly SV data with real-time update capability enable tracking of the generation, development, and dissipation of various low-SV events (e.g., fog, haze, and dust storms) in China. The developed framework might also prove useful for quantitative retrieval of aerosol-related parameters (e.g., PM2.5, PM10, and aerosol optical depth).
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities
Authors: Bateman Nicholas W. , Abulez Tamara , Soltis Anthony R. , McPherson Andrew , Choi Seongmin , Garsed Dale W. , Pandey Ahwan , Tian Chunqiao , Hood Brian L. , Conrads Kelly A. , Teng Pang-ning , Oliver Julie , Gist Glenn , Mitchell Dave , Litzi Tracy J. , Tarney Christopher M. , Crothers Barbara A. , Mhawech-Fauceglia Paulette , Dalgard Clifton L. , Wilkerson Matthew D. , Pierobon Mariaelena , Petricoin Emanuel F. , Yan Chunhua , Meerzaman Daoud , Bodelon Clara , Wentzensen Nicolas , Lee Jerry S. H. ,   The APOLLO Research Network, Makohon-Moore Sasha C. , Barakat Waleed , Zhang Xijun , Hunt Allison , Ao Wei , Lytle-Gabbin Stacey L. , Casablanca Yovanni , Hamilton Chad A. , Newell Miranda , Wells Justin , Sukumar Gauthaman , Bacikova Dagmar , Freyman John , Cohn David E. , Berchuck Andrew , Havrilesky Laura , Duska Linda , Odunsi Adekunle , Sood Anil , Brenton James , Sala Evis , Annunziata Christina , Dorigo Oliver , Nelson Brad , Cochrane Dawn R. , Moore Kathleen , Baldelli Elisa , Chen Qing-rong , Hu Ying , Fereday Sian , Traficante Nadia , DeFazio Anna , Goode Ellen L. , Huntsman David G. , Shah Sohrab , Shriver Craig D. , Phippen Neil T. , Darcy Kathleen M. , Bowtell David D. L. , Conrads Thomas P. , Maxwell G. Larry 
Published: March 2024

AbstractWe performed a deep proteogenomic analysis of bulk tumor and laser microdissection enriched tumor cell populations from high-grade serous ovarian cancer (HGSOC) tissue specimens spanning a broad spectrum of purity. We identified patients with longer progression-free survival had increased immune-related signatures and validated proteins correlating with tumor-infiltrating lymphocytes in 65 tumors from an independent cohort of HGSOC patients, as well as with overall survival in an additional 126 HGSOC patient cohort. We identified that homologous recombination deficient (HRD) tumors are enriched in pathways associated with metabolism and oxidative phosphorylation that we validated in independent patient cohorts. We further identified that polycomb complex protein BMI-1 is elevated in HR proficient (HRP) tumors, that elevated BMI-1 correlates with poor overall survival in HRP but not HRD HGSOC patients, and that HRP HGSOC cells are uniquely sensitive to BMI-1 inhibition.