bluuebunny/crossref_metadata_2025_split huggingface dataset:
Assessing the effect of urbanization on regional-scale surface water-groundwater interaction and nitrate transport
Authors: Yifru Bisrat Ayalew , Chung Il-Moon , Kim Min-Gyu , Chang Sun Woo 
Published: July 2022

AbstractIdentifying regional-scale surface water-groundwater interactions (SGI) is vital for predicting anthropogenic effects on surface water bodies and underlying aquifers. However, large-scale water and nutrient flux studies rely on surface water or groundwater-focused models. This study aims to model the effect of urbanization, which is usually accompanied by high groundwater abstraction and surface water pollution, particularly in the developing world, on a regional-scale SGI and nitrate loading. In the study area, the urban expansion increased by over 3% in the last decade. The integrated SWAT-MODFLOW model, Soil and Water Assessment Tool (SWAT) and Modular Finite-Difference Groundwater Flow (MODFLOW) coupling code, was used to assess SGI. By coupling SWAT-MODFLOW with Reactive Transport in 3-Dimensions, the nutrient loading to the river from point and non-point sources was also modeled. Basin average annual results show that groundwater discharge declined with increasing groundwater abstraction and increased with Land use/Land cover (LULC) changes. Groundwater recharge decreased significantly in the Belge season (February to May), and the river seepage and groundwater discharge decreased correspondingly. High spatiotemporal changes in SGI and nitrate loading were found under the combined LULC and groundwater abstraction scenarios. The water yield decreased by 15%. In a large part of the region, the nitrate loading increased by 17–250%. Seasonally controlled groundwater abstraction and water quality monitoring are essential in this region.
Establishment and characterization of human pluripotent stem cells-derived brain organoids to model cerebellar diseases
Authors: Brás João , Henriques Daniel , Moreira Ricardo , Santana Magda M. , Silva-Pedrosa Rita , Adão Diana , Braz Sandra , Álvaro Ana Rita , de Almeida Luís Pereira , Mendonça Liliana S. 
Published: July 2022

AbstractThe establishment of robust human brain organoids to model cerebellar diseases is essential to study new therapeutic strategies for cerebellum-associated disorders. Machado-Joseph disease (MJD) is a cerebellar hereditary neurodegenerative disease, without therapeutic options able to prevent the disease progression. In the present work, control and MJD induced-pluripotent stem cells were used to establish human brain organoids. These organoids were characterized regarding brain development, cell type composition, and MJD-associated neuropathology markers, to evaluate their value for cerebellar diseases modeling. Our data indicate that the organoids recapitulated, to some extent, aspects of brain development, such as astroglia emerging after neurons and the presence of ventricular-like zones surrounded by glia and neurons that are found only in primate brains. Moreover, the brain organoids presented markers of neural progenitors proliferation, neuronal differentiation, inhibitory and excitatory synapses, and firing neurons. The established brain organoids also exhibited markers of cerebellar neurons progenitors and mature cerebellar neurons. Finally, MJD brain organoids showed higher ventricular-like zone numbers, an indication of lower maturation, and an increased number of ataxin-3-positive aggregates, compared with control organoids. Altogether, our data indicate that the established organoids recapitulate important characteristics of human brain development and exhibit cerebellar features, constituting a resourceful tool for testing therapeutic approaches for cerebellar diseases.
Thermal fluid fields reconstruction for nanofluids convection based on physics-informed deep learning
Authors: Li Yunzhu , Liu Tianyuan , Xie Yonghui 
Published: July 2022

AbstractBased on physics-informed deep learning method, the deep learning model is proposed for thermal fluid fields reconstruction. This method applied fully-connected layers to establish the mapping function from design variables and space coordinates to physical fields of interest, and then the performance characteristics Nusselt number Nu and Fanning friction factor f can be calculated from the reconstructed fields. Compared with reconstruction model based on convolutional neural network, the improved model shows no constrains on mesh generation and it improves the physical interpretability by introducing conservation laws in loss functions. To validate this method, the forced convection of the water-Al2O3 nanofluids is utilized to construct training dataset. As shown in this paper, this deep neural network can reconstruct the physical fields and consequently the performance characteristics accurately. In the comparisons with other classical machine learning methods, our reconstruction model is superior for predicting performance characteristics. In addition to the effect of training size on prediction power, the extrapolation performance (an important but rarely investigated issue) for important design parameters are also explored on unseen testing datasets.
Heliotropium ramosissimum metabolic profiling, in silico and in vitro evaluation with potent selective cytotoxicity against colorectal carcinoma
Authors: Fayed Marwa A. A. , Abouelela Mohamed E. , Refaey Mohamed S. 
Published: July 2022

AbstractHeliotropium is a genus of the Boraginaceae family. Its members are used in many traditional and folklore medicines to treat several ailments. Despite this widespread usage, only a few evidence-based scientific studies investigated and identified its phytoconstituents. Herein, we documented the chemical profile of the Heliotropium ramosissimum methanolic extract using gas chromatography-mass spectrometry (GC–MS) and liquid chromatography-tandem mass spectrometry (LC–ESI–MS/MS) and assessed its antioxidant and cytotoxic effects. The methanolic extract exhibited high phenolic content (179.74 ± 0.58 µg/mL) and high flavonoid content (53.18 ± 0.60 µg/mL). The GC–MS analysis of the lipoidal matter allowed us to identify 41 compounds with high percentages of 1,2-benzenedicarboxylic acid, bis(2-methoxyethyl) ester (23.91%), and 6,10,14-trimethylpentadecan-2-one (18.74%). Thirty-two phytomolecules were tentatively identified from the methanolic extract of H. ramosissimum using LC–MS/MS. These compounds belonged to several phytochemical classes such as phenolic acids, alkaloids, coumarins, and flavonoids. Furthermore, we assessed the antioxidant activity of the methanolic extract by DPPH assay and oxygen radical absorbance capacity assay, which yielded IC50 values of 414.30 µg/mL and 170.03 ± 44.40 µM TE/equivalent, respectively. We also assessed the cytotoxicity of the methanolic extract on seven different cell lines; Colo-205, A-375, HeLa, HepG-2, H-460, and OEC showed that it selectively killed cancer cells with particularly potent cytotoxicity against Colo-205 without affecting normal cells. Further studies revealed that the extract induced apoptosis and/or necrosis on Colo-205 cell line at an IC50 of 18.60 µg/mL. Finally, we conducted molecular docking on the LC–ESI–MS/MS-identified compounds against colon cancer antigen 10 to find potentially cytotoxic compounds. Binding score energy analysis showed that isochlorogenic acid and orientin had the highest affinity for the colon cancer antigen 10 protein, with binding scores of (− 13.2001) and (− 13.5655) kcal/mol, respectively. These findings suggest that Heliotropium ramosissimum contains potent therapeutic candidates for colorectal cancer treatment.
Prediction performance and fairness heterogeneity in cardiovascular risk models
Authors: Kartoun Uri , Khurshid Shaan , Kwon Bum Chul , Patel Aniruddh P. , Batra Puneet , Philippakis Anthony , Khera Amit V. , Ellinor Patrick T. , Lubitz Steven A. , Ng Kenney 
Published: July 2022

AbstractPrediction models are commonly used to estimate risk for cardiovascular diseases, to inform diagnosis and management. However, performance may vary substantially across relevant subgroups of the population. Here we investigated heterogeneity of accuracy and fairness metrics across a variety of subgroups for risk prediction of two common diseases: atrial fibrillation (AF) and atherosclerotic cardiovascular disease (ASCVD). We calculated the Cohorts for Heart and Aging in Genomic Epidemiology Atrial Fibrillation (CHARGE-AF) score for AF and the Pooled Cohort Equations (PCE) score for ASCVD in three large datasets: Explorys Life Sciences Dataset (Explorys, n = 21,809,334), Mass General Brigham (MGB, n = 520,868), and the UK Biobank (UKBB, n = 502,521). Our results demonstrate important performance heterogeneity across subpopulations defined by age, sex, and presence of preexisting disease, with fairly consistent patterns across both scores. For example, using CHARGE-AF, discrimination declined with increasing age, with a concordance index of 0.72 [95% CI 0.72–0.73] for the youngest (45–54 years) subgroup to 0.57 [0.56–0.58] for the oldest (85–90 years) subgroup in Explorys. Even though sex is not included in CHARGE-AF, the statistical parity difference (i.e., likelihood of being classified as high risk) was considerable between males and females within the 65–74 years subgroup with a value of − 0.33 [95% CI − 0.33 to − 0.33]. We also observed weak discrimination (i.e., < 0.7) and suboptimal calibration (i.e., calibration slope outside of 0.7–1.3) in large subsets of the population; for example, all individuals aged 75 years or older in Explorys (17.4%). Our findings highlight the need to characterize and quantify the behavior of clinical risk models within specific subpopulations so they can be used appropriately to facilitate more accurate, consistent, and equitable assessment of disease risk.
T1 values and extracellular volume fraction in asymptomatic subjects: variations in left ventricular segments and correlation with cardiovascular risk factors
Authors: Kim Moon Young , Cho Soo Jin , Kim Hae Jin , Kim Sung Mok , Lee Sang-Chol , Paek MunYoung , Choe Yeon Hyeon 
Published: July 2022

AbstractTo evaluate variations in pre-contrast (preT1) and post-contrast (postT1) myocardial T1 values and extracellular volume fraction (ECV) according to left ventricular (LV) segments and to find correlations between them and cardiovascular risk factors. The 233 asymptomatic subjects (210 men, 23 women; aged 54.1 ± 6.0 years) underwent cardiac magnetic resonance imaging with preT1 and postT1 mapping on a 1.5-T scanner. T1 values and ECVs were evaluated according to LV segments, age, sex, and estimated glomerular filtration rate (eGFR). Based on the presence of hypertension (HTN) and diabetes mellitus (DM), subjects were subdivided into the control, HTN, DM, and HTN and DM (HTN-DM) groups. T1 values and ECV showed significant differences between septal and lateral segments at the mid-ventricular and basal levels (p ≤ 0.003). In subgroup analysis, the HTN-DM group showed a significantly higher ECV (0.260 ± 0.023) than the control (0.240 ± 0.021, p = 0.011) and HTN (0.241 ± 0.024, p = 0.041) groups. Overall postT1 and ECV of the LV had significant correlation with eGFR (r = 0.19, p = 0.038 for postT1; r =  − 0.23, p = 0.011 for ECV). Septal segments show higher preT1 and ECV but lower postT1 than lateral segments at the mid-ventricular and basal levels. ECV is significantly affected by HTN, DM, and eGFR, even in asymptomatic subjects.
Clinical features and incidence of visual improvement following systemic antibiotic treatment in patients with syphilitic uveitis
Authors: Sittivarakul Wantanee , Aramrungroj Sukrita , Seepongphun Usanee 
Published: July 2022

AbstractTo describe the clinical features, longitudinal pattern, and incidence rate of improvement of visual acuity (VA) following antibiotic therapy in patients with syphilitic uveitis. A total of 36 patients were included in this retrospective study from 2009 to 2020. The longitudinal patterns of mean VA values during follow-up were analyzed using a linear mixed model. Most patients were men with HIV coinfection (81%) and presented with panuveitis (49%). The mean VA at baseline improved from 0.97 to 0.39 logMAR at 6 months and remained stable thereafter. The cumulative incidence of VA ≥ 20/25 achieved by 2 years was 70%. Receiving antibiotic therapy within four weeks of the onset of ocular symptoms (adjusted hazard ratio [aHR] 3.4, P = 0.012), absence of HIV coinfection (aHR 8.2, P < 0.001), absence of neurosyphilis (aHR 6.5, P = 0.037), better presenting VA (aHR 5.0, P = 0.003), and intermediate uveitis as opposed to panuveitis (aHR 11.5, P = 0.013) were predictive of achieving VA ≥ 20/25. Men with HIV coinfection represented the majority of our patients. Visual outcomes, in response to antibiotics, were favorable. Delayed treatment, poor presenting VA, presence of HIV coinfection, and concomitant neurosyphilis decreased the likelihood of VA restoration.
A new chronology for tsunami deposits prior to the 1700 CE Cascadia earthquake from Vancouver Island, Canada
Authors: Tanigawa Koichiro , Sawai Yuki , Bobrowsky Peter , Huntley David , Goff James , Shinozaki Tetsuya , Ito Kazumi 
Published: July 2022

AbstractCoastal deposits at Tofino, Ucluelet, and Port Alberni in Vancouver Island along the Cascadia subduction zone were re-examined to improve the earthquake history of the southwest coast of Canada. We found sand sheets interbedded within peat and mud, suggesting deposition by strong flows in a low-energy environment. Based on limiting maximum and minimum ages derived from plant macrofossils, the age of one of the sand sheets below the tsunami deposits of the great Cascadia earthquake in 1700 CE was estimated to be 1330–1430 CE. Onshore paleoseismic evidence has been documented in Vancouver Island, northern Washington, and northern Oregon during this period. However, the newly constrained age is between those of coseismic subsidence Y and W events in southern Washington, which have been recognized as the 1700 CE and the penultimate Cascadia earthquakes, respectively. Moreover, the new age partly overlaps with the age of offshore paleoseismic evidence for T2, interpreted to have originated from the penultimate Cascadia earthquake, based on offshore turbidite records. The new chronology prior to the 1700 CE Cascadia tsunami deposit from Vancouver Island contributes to a better understand of the timing of the penultimate Cascadia earthquake.
Reduced gluteofemoral (subcutaneous) fat mass in young Japanese women with family history of type 2 diabetes: an exploratory analysis
Authors: Honda Mari , Tsuboi Ayaka , Minato-Inokawa Satomi , Takeuchi Mika , Kurata Miki , Wu Bin , Kazumi Tsutomu , Fukuo Keisuke 
Published: July 2022

AbstractLimited expandability of subcutaneous adipose tissue may be characteristics of first-degree relatives of type 2 diabetes. We tested the hypothesis that family history of type 2 diabetes (FHD) may be associated with reduced peripheral fat mass. Body composition and metabolic variables were compared between 18 and 111 Japanese female collegiate athletes, and between 55 and 148 nonathletes with positive (FHD +) and negative FHD (FHD-), respectively. We had multivariate logistic regression analyses for FHD + as dependent variable in a total population.BMI averaged < 21 kg/m2 and did not differ between FHD + and FHD- nonathletes. Despite comparable BMI, body fat percentage and serum leptin were lower in FHD + nonathletes. This was due to lower arm and gluteofemoral fat percentage (both p = 0.02) whereas the difference in trunk fat percentage was not significant (p = 0.08). These differences were not found between two groups of athletes. FHD + women had lower HDL cholesterol despite lower BMI in a total population. Fasting insulin, serum adiponectin and high-sensitivity C-reactive protein did not differ between FHD + and FHD- athletes or nonathletes. Multivariate logistic regression analyses revealed independent associations of FHD + with BMI (odds ratio, 0.869; 95% confidential interval, 0.768–0.984; p = 0.02) and HDL cholesterol (odds ratio, 0.977; 95% confidential interval, 0.957–0.997, p = 0.02). In conclusion, FHD may be associated with reduced subcutaneous fat mass in young Japanese women, suggesting impaired adipose tissue expandability.
Limited generalizability of single deep neural network for surgical instrument segmentation in different surgical environments
Authors: Kitaguchi Daichi , Fujino Toru , Takeshita Nobuyoshi , Hasegawa Hiro , Mori Kensaku , Ito Masaaki 
Published: July 2022

AbstractClarifying the generalizability of deep-learning-based surgical-instrument segmentation networks in diverse surgical environments is important in recognizing the challenges of overfitting in surgical-device development. This study comprehensively evaluated deep neural network generalizability for surgical instrument segmentation using 5238 images randomly extracted from 128 intraoperative videos. The video dataset contained 112 laparoscopic colorectal resection, 5 laparoscopic distal gastrectomy, 5 laparoscopic cholecystectomy, and 6 laparoscopic partial hepatectomy cases. Deep-learning-based surgical-instrument segmentation was performed for test sets with (1) the same conditions as the training set; (2) the same recognition target surgical instrument and surgery type but different laparoscopic recording systems; (3) the same laparoscopic recording system and surgery type but slightly different recognition target laparoscopic surgical forceps; (4) the same laparoscopic recording system and recognition target surgical instrument but different surgery types. The mean average precision and mean intersection over union for test sets 1, 2, 3, and 4 were 0.941 and 0.887, 0.866 and 0.671, 0.772 and 0.676, and 0.588 and 0.395, respectively. Therefore, the recognition accuracy decreased even under slightly different conditions. The results of this study reveal the limited generalizability of deep neural networks in the field of surgical artificial intelligence and caution against deep-learning-based biased datasets and models.Trial Registration Number: 2020-315, date of registration: October 5, 2020.
Impact of systemic dexamethasone administration on oral mucositis induced by anthracycline-containing regimens in breast cancer treatment
Authors: Saito Yoshitaka , Takekuma Yoh , Takeshita Takashi , Oshino Tomohiro , Sugawara Mitsuru 
Published: July 2022

AbstractOral mucositis (OM) is one of the most common complications associated with chemotherapy. Here, we evaluated whether systemic dexamethasone (DEX) dosage in prophylactic antiemetics affected the incidence of OM in anthracycline-containing regimens. Patients receiving anthracycline-containing regimens for breast cancer were divided into high- and low-DEX dose groups and retrospectively evaluated. The incidence of all-grade OM in the first cycle in the high- and low-dose groups was 27.3% and 53.5%, respectively, and was significantly lowered by increasing the DEX dose (P < 0.01); thus, the study met its primary endpoint. The result in all treatment cycles was also significant (P = 0.02). In contrast, the incidence of dysgeusia was similar between the high- and low-dose groups in the first and all cycles (13.6% and 16.3% in the first cycle [P = 0.79] and 27.3% and 34.9% in all cycles [P = 0.42], respectively). Multivariate analysis revealed that low DEX dosage was an independent risk factor for all-grade OM development. In conclusion, our study suggests that DEX attenuates OM in anthracycline-containing regimens for breast cancer treatment in a dose-dependent manner. Further evaluation of OM prophylaxis, including DEX administration, is required for better control.
mTOR contributes to endothelium-dependent vasorelaxation by promoting eNOS expression and preventing eNOS uncoupling
Authors: Wang Yiying , Li Qiannan , Zhang Zhiyang , Peng Kai , Zhang Dai-Min , Yang Qianlu , Passerini Anthony G. , Simon Scott I. , Sun ChongXiu 
Published: July 2022

AbstractClinically used inhibitors of mammalian target of rapamycin (mTOR) negatively impacts endothelial-dependent vasodilatation (EDD) through unidentified mechanisms. Here we show that either the endothelium-specific deletion of Mtor to inhibit both mTOR complexes, or depletion of Raptor or Rictor to disrupt mTORC1 or mTORC2, causes impaired EDD, accompanied by reduced NO in the serum of mice. Consistently, inhibition of mTOR decreases NO production by human and mouse EC. Specifically, inhibition of mTORC1 suppresses eNOS gene expression, due to impairment in p70S6K-mediated posttranscriptional regulation of the transcription factor KLF2 expression. In contrast to mTORC1 inhibition, a positive-feedback between MAPK (p38 and JNK) activation and Nox2 upregulation contributes to the excessive generation of reactive oxygen species (ROS), which causes eNOS uncoupling and decreased NO bioavailability in mTORC2-inhibited EC. Adeno-associated virus-mediated EC-specific overexpression of KLF2 or suppression of Nox2 restores EDD function in endothelial mTORC1- or mTORC2-inhibited mice.
Dengue virus co-opts innate type 2 pathways to escape early control of viral replication
Authors: Fonseka Chathuranga L. , Hardman Clare S. , Woo Jeongmin. , Singh Randeep , Nahler Janina , Yang Jiahe , Chen Yi-Ling , Kamaladasa Achala , Silva Tehani , Salimi Maryam , Gray Nicki , Dong Tao , Malavige Gathsaurie N. , Ogg Graham S. 
Published: July 2022

AbstractMast cell products and high levels of type 2 cytokines are associated with severe dengue disease. Group 2 innate lymphoid cells (ILC2) are type-2 cytokine-producing cells that are activated by epithelial cytokines and mast cell-derived lipid mediators. Through ex vivo RNAseq analysis, we observed that ILC2 are activated during acute dengue viral infection, and show an impaired type I-IFN signature in severe disease. We observed that circulating ILC2 are permissive for dengue virus infection in vivo and in vitro, particularly when activated through prostaglandin D2(PGD2). ILC2 underwent productive dengue virus infection, which was inhibited through CRTH2 antagonism. Furthermore, exogenous IFN-β induced expression of type I-IFN responsive anti-viral genes by ILC2. PGD2downregulated type I-IFN responsive gene and protein expression; and urinary prostaglandin D2metabolite levels were elevated in severe dengue. Moreover, supernatants from activated ILC2 enhanced monocyte infection in a GM-CSF and mannan-dependent manner. Our results indicate that dengue virus co-opts an innate type 2 environment to escape early type I-IFN control and facilitate viral dissemination. PGD2downregulates type I-IFN induced anti-viral responses in ILC2. CRTH2 antagonism may be a therapeutic strategy for dengue-associated disease.