bluuebunny/crossref_metadata_2025_split huggingface dataset:
A novel gene signature based on endoplasmic reticulum stress for overall survival prediction for patients with hepatocellular carcinoma
Authors: Du Xuezhi , He Yingjie , Dong Penggang , Wei Yaying , Huang Hao , Yao Hao , Sun Jinjin 
Published: July 2022

Abstract
Background
Hepatocellular carcinoma (HCC) remains one of the most common human cancers, the death cases induced by HCC are increasing these years. Endoplasmic reticulum stress (ERS) occurs when misfolded proteins can't be disposed properly. It’s reported that ERS plays a crucial role in the pathogenesis of human malignant tumors.
Results
In our study, we established an ERS-related gene signature to predict the overall survival (OS) of HCC patients. The TCGA-LIHC cohort was used as train set while the ICGC-LIRI-JP cohort was used as validation set. A 9-genes ERS-related signature was constructed and the Riskscore was calculated according to it. The results of receiver operating characteristic curve (ROC) showed that the area under the curve (AUC) were 0.784 at 1 year, 0.780 at 2 years, 0.793 at 3 years in train set, this index in validation set were 0.694 at 1 year, 0.622 at 2 years, 0.613 at 3 years respectively. The cases in train set were grouped into high-risk group and low risk group based on the median value of Riskscore. The analysis of immune status revealed an immunosuppressive microenvironment in the high-risk group. The analysis of tumor mutation burden (TMB) and copy number variants (CNV) analysis revealed that the high-risk group patients had a higher genomic mutation frequency in low-risk group had a better prognosis than the high-risk group patients. In Univariate Cox regression analysis, the hazard ratio of Riskscore to the OS was 2.718 (95% CI: 2.173–3.399). In Multivariate Cox regression analysis, the hazard ratio of Riskscore was 2.422 (95% CI:1.805–3.25). At last, we established a nomogram according to the Riskscore and Eastern Cooperative Oncology Group (ECOG) performance status. The AUCs of the nomogram were 0.851 at 1 year, 0.860 at 2 years, 0.866 at 3 years.
Conclusion
In our study, a novel ERS-related gene signature was constructed to forecast the overall survival of HCC patients. This study maybe provide a new understanding of the tumorigenesis and new therapeutic targets for HCC.
A Conjoint Study and Segmentation on the Preferred Online Learning Attributes of Senior High School Learners amidst COVID-19 Pandemic
Authors: Cano Junar S. 
Published: July 2022

Abstract
The educational systems were disrupted due to the COVID-19 pandemic that has resulted in the sudden shift in the instructional implementation from face-to-face to fully online distance learning. This study examined the socio-demographic characteristics and access to technological resources, and explored senior high school learners' preferred online learning attributes and their segmentation. The study employed a descriptive and exploratory research design. Using Cochran's formula, the study determined 300 respondents who were identified through a random sampling technique. The statistical treatments utilized were frequency count, percentage, conjoint, and cluster analysis. The data were gathered through an online-administered survey instrument. Results revealed that multiple-choice and multiple-type exams, synchronous delivery type with slides, individual tasks, and learning materials with visual aids were the most valued online learning attributes by the learners. Further analysis revealed that learners could be classified into two groups based on their preferences. This study provides insights for academic institutions in redesigning their online learning systems.
Towards Adversariality in Depth Estimation Based on Local Equilibrium Disparity Consensus and Ego-motion
Authors: MEKHZOUM Hamza , BOURJA Omar , ABDELALI Hamd AIT , DERROUZ Hatim 
Published: July 2022

Abstract
We ask whether Adversariality in left-right stereo images can learn to estimate an optimal depth map through a consensus-based loss function and ego-motion. We describe the workflow as merging supervised learning (AS) and unsupervised learning (U) models. The supervised learning model optimizes a depth estimation network with prior knowledge of ground-truth depth maps. Inspired by the recent works on adversarial neural networks, we formulate the supervised model as an adversarial learning task. Thus we generate two depth maps from left-right stereo images, respectively. Based on their learning behavior–that is, the loss function, we take the then optimal depth map. On the contrary, the unsupervised learning module has no knowledge of the ground-truth depth yet optimizes the depth estimation network using 3D geometry. Our framework is trained and benchmarked on the KITTI driving dataset.
Silver nanoparticles enhance oxidative stress, inflammation, and apoptosis in liver and kidney tissues: Potential protective role of thymoquinone
Authors: Salama Basma , Alzahrani Khalid J. , Alghamdi Khalid S. , Al-Amer Osama , Hassan Khalid E. , Elhefny Mohamed A. , Albarakati Alaa , Alharthi Fahad , Althagafi Hussam A. , Sberi Hassan Al , Amin Hatem K. , Lokman Maha S. , Alsharif Khalaf F. , Albrakati Ashraf , Moneim Ahmed E. Abdel , Kassab Rami B. , Fathalla Ayah S. 
Published: July 2022

Abstract
Silver nanoparticles (AgNPs) are the most common nanomaterials in consumer products. Therefore, it ‎has been crucial to control AgNPs toxicological effects to improve their safety and increase the outcome of their applications. This work investigated the possible protective effect of thymoquinone (TQ) against ‎AgNPs-induced hepatic and renal cytotoxicity in rats. Serum markers of liver and kidney functions as ‎well as liver and kidney oxidative stress status, pro-inflammatory cytokines, apoptosis markers, and ‎histopathology were assessed. TQ reversed AgNPs-induced elevation in serum liver and kidney function markers, including aspartate transaminase, alanine transaminase, urea, and ‎creatinine. Moreover, TQ co-administration with AgNPs alleviates hepatic and renal oxidative insults ‎by decreasing MDA and NO levels with a significant increase in the activity of ‎antioxidant enzymes (superoxide dismutase, catalase, and glutathione recycling enzymes peroxidase ‎and reductase) compared to AgNPs-treated rats. Besides, TQ upregulated hepatic and renal Nrf2 gene ‎expression in AgNPs intoxicated rats. Furthermore, TQ co-administration decreased the hepatic and ‎renal pro-inflammatory mediators represented by, IL-1β, TNF-α, TGF-β, and NF-κB levels. Besides, TQ co-‎administration decreased apoptotic protein (Bax) levels and increased the anti-apoptotic protein (Bcl-2) levels. These findings were confirmed by the histopathological examination of hepatic and renal ‎tissues. Our data affirmed the protective effect of TQ against AgNPs cytotoxicity and proposed a ‎possible mechanism of TQ antioxidant, anti-inflammatory, and anti-apoptotic effects. Consequently, we ‎could conclude that using TQ might control AgNPs toxicological effects, improve their safety, and increase ‎the outcome of their applications.
Convergence in perceptions of ecosystem services supports green infrastructure decision-making in a semi-arid city
Authors: Mosleh Leila , Neghaban-Azar Masoud , Pavao-Zuckerman Mitchell 
Published: July 2022

Abstract
Effective management of cities using ecosystem services from green infrastructure (GI) requires explicit consideration of the linkages between provision of services and ecosystem service demands (i.e., governance priorities). Identification of stakeholder knowledge and objectives in GI decision-making contexts with respect to ecosystem services may improve urban planning; yet this information is rarely explicit in local contexts and cases. We address this gap by surveying environmental stakeholders and practitioners to investigate how perceptions of ecosystem services influence GI practice in Tucson, AZ. Results indicate that the semi-arid environment and urban design led to prioritizations that focus on water sustainability and urban heat mitigation. We found strong agreement in environmental perceptions between different management sectors. We observed matches (as well as mismatches) between the ecosystem service priorities and important environmental issues. Ecosystem services prioritization revealed a unique classification of ecosystem services that reflects stakeholder priorities. Our findings suggest the study of ecosystem services supply and demand can inform local urban management. These findings from a semi-arid city further suggest that understanding stakeholder knowledge, perceptions, and priorities should be important for cities in other regions where GI is being implemented as an environmental solution to provide ecosystem services.
Integrating Virtual Simulation with Course Curriculum to Improve Patient Advocacy through Speaking Up
Authors: Violato Efrem , Witschen Brian , Watson Jordan 
Published: July 2022

Abstract
Purpose Healthcare teams consist of interdisciplinary groups of health professionals that tend to be hierarchically structured. Often it is necessary to challenge authority through speaking up, however, within hierarchies’ individuals tend to demonstrate obedience to authority. Speaking up is an essential skill for preventing patient harm that must be developed. Virtual Simulation integrated with curriculum using Kolb’s Learning Cycle is a promising avenue for improving interprofessional collaboration. Methods An experimental design was used to determine if a gamified VS along with instruction on patient-advocacy would increase the rate of speaking up in Respiratory Therapy students (n=34) during in-person simulation delivered one month after the classroom instruction. The in-person simulation required students to challenge a senior anesthesiologist to prevent patient harm. Effects of personality and individual differences were also examined. Results The VS resulted in speaking up at a higher rate than in the control condition (p=0.04) and used CUS more often (p<0.001). No individual differences or personality measures were predictive of speaking up. Conclusion The findings from the present study support the integration of VS with course curriculum on patient-advocacy, showing improved performance during in-person simulation one month after course delivery. Longitudinal investigation is necessary to determine if the improved performance is indicative of increased likelihood of speaking up in the future.
Treatment of Waste Mwfs by Coagulation and Membrane Filtration
Authors: Köker Berk , Cebeci Meltem Sarioglu 
Published: July 2022

Abstract
The aim of this study is to treat of waste metalworking fluids (MWFs) originating from the metalworking industry. In the first stage, microfiltration (MF) and chemical coagulation, in which ferric chloride (FeCl2·4H2O) is used as a coagulant, were tried in the treatment of wastewater. It has been observed that ferric chloride has a negative effect on the subsequent treatment stages and the removal efficiency is lower than the microfiltration membranes. removal efficiency of MF membrane (TM10) were found to be 67.2% for COD, 93.2% for SS, 99.3% for turbidity, 98.6% for oil/grease while coagulation with ferric chloride were found to be 24.9% for COD, 66.8% for SS, 50.2% for turbidity, 91.9% for oil/grease. TM10 MF membrane was obtained as best result for pretreatment.The wastewater from the first stage was fed to three different ultrafiltration membranes of 1-10 kDa MWCO. The GE membrane provided the best removal, but not much different from the GH membrane. However, the GH membrane provided higher flux.The total removals after NF were found to be 96.2% for COD, 99.9% for SS, total oil/grease removal and 70.7% for EC. This ensures that the treated wastewater can be reused as process water.
Antihypertensive treatment reduces intra-aneurysmal blood flow in hypertensive patients with intracranial aneurysms
Authors: Peng Fei , Fu Mingzhu , Chen Xuge , Niu Hao , Feng Xin , Xia Jiaxiang , He Xiaoxin , Xu Boya , Li Rui , Liu Aihua 
Published: July 2022

Abstract
Background and PurposeThe effect of the antihypertensive treatment on hemodynamics in intracranial aneurysms (IAs) are unclear. We used four-dimensional flow magnetic resonance imaging to investigate changes in IA hemodynamics after short-term nifedipine treatment (10 mg).MethodsThis prospective observational cohort study recruited patients with IAs and hypertension between December 2018 and December 2021. Patients would underwent the first MRI at baseline and a second MRI after nifedipine treatment. Changes of IA hemodynamics [blood flow velocity (VIA) and volume (FlowIA), time-averaged wall shear stress (aWSS)] would be evaluated. Paired sample t test and Cohen’s d were used to evaluate hemodynamic changes and the significance.ResultsFifty-five patients with 58 unruptured IAs and a mean reduction of systolic blood pressure (BP) value of 20.35 (range, 7-40 mmHg) were included. After oral nifedipine treatment, VIA, FlowIA, and aWSS decreased significantly (P< 0.001, Cohen’s d= 0.71; P< 0.001, Cohen’s d= 0.58; P< 0.001, Cohen’s d= 0.56; respectively), The changes of intra-aneurysmal blood flow were insignificant associated with the level of BP reduction.ConclusionsAfter nifedipine medication, intra-aneurysmal blood flow decreased, which was independent of the level of BP reduction. Potential mechanisms underlying intra-aneurysmal hemodynamic changes need further clarified to define the level of BP control.Clinical Trial Registration-URL: https://www.chictr.org.cn. Unique identifier: ChiCTR1800019985.
Bojungikki-Tang enhances the effect of PD-1 blockade in a murine model of lung carcinoma
Authors: Chun Jaemoo , Kang Han Na , Yi Jin-Mu , Hong Se Hyang , Park Sang-Min , Jeong Mi-Kyung 
Published: July 2022

Abstract
Although immunotherapy is effective against non-small cell lung cancer (NSCLC), only a limited number of patients benefit from it clinically. Resistance to immunotherapeutic agents hinders effective treatment. Of late, the usefulness of herbal medicines in combination with immunotherapy is being investigated. Bojungikki-Tang (BJIKT) is a widely used traditional herbal medicine, but its antitumor effect with immunotherapy in NSCLC are unclear. Thus, in this study, we investigated the combined effects of BJIKT and anti-PD-1 antibody in a KLN205-DBA/2 syngeneic lung cancer model. Immunohistochemistry and flow cytometry analyses were performed to analyze the changes in immune cells in the tumor microenvironment. BJIKT plus anti-PD-1 antibody significantly inhibited tumor growth unlike the respective monotherapies. The combination treatment increased the population of CD8 + cytotoxic T cells and decreased the number of Ki67 + cells in the tumor tissues compared to that observed with monotherapy. The combination treatment decreased the proportion of myeloid-derived suppressor cells, but increased the proportion of M2-like macrophages, compared to that observed with monotherapy. Cytokine analysis showed that the combination treatment increased the levels of T helper type 1-related cytokines, including IFN-γ and TNF-α. Network pharmacology analysis revealed that BJIKT might regulate immune functions related to NSCLC progression. These findings indicate that combination treatment with BJIKT and anti-PD-1 antibody effectively suppresses tumor growth by regulating immune function, and may be an alternative therapeutic option for the treatment of NSCLC.
Massive sequential spatial transcriptional RNA sequencing by capturing mouse spinal cord tissue sections
Authors: Wu Huachuan , Li Jianfeng , Li Xianlong , Gao Manman , Tian Wei , Chen Dafu , Zhou Zhiyu , Liu Shaoyu 
Published: July 2022

Abstract
Objectives: To prepare for the analysis of spatio-temporal heterogeneity in the pathological process of spinal cord injury, by capturing sections of mouse spinal cord tissue, RNA sequencing was performed for massive sequential spatial transcriptional.Background: With the innovation of sequencing technology, probing the gene expression of an individual cell enables the identification of cell characteristics, type and state. Single-cell RNA sequencing (scRNA-seq) systematically identifies cell populations in tissues, but characterization of their spatial architectures remains challenging. Spatial transcriptomics assays gene expression at the RNA level, while preserving the valuable spatial context of data.Methods: T9-T11 thoracic spinal cord tissue sections were captured from mice suffering spinal cord injury for downstream massive sequential spatial transcriptional RNA sequencing by utilizing Poly-A capture and unique spatial barcodes to achieve unbiased gene expression at high spatial resolution.Results: Different sample libraries in four capture regions were constructed, and a total of 16 spatio-temporal heterogeneous spinal cord injury samples after data separation were successfully captured.Conclusions: The 10x Genomics Visium platform enables to obtain frozen sections from fresh or frozen stored spinal cord samples to study spatial-temporal characteristics of cells clustering, investigates heterogeneity and signaling pathways within spinal cords, which helps to augment ongoing neuroscience and spatial transcriptomics research.
Assessment of Streamflow in Ungauged Basin by Using Physical similarity approach
Authors:   Siddik Ahmed Barbhuiya1, Raghuvanshi Akash Singh , Tiwari H L 
Published: July 2022

Abstract

Estimating runoff in an ungauged basin is important for explaining hydrological phenomena and managing water resources within the basin. Regionalization methods are considered most common approaches for estimating the runoff in an ungauged basin. Among them physical similarity method is one, but very few studies have considered the climatic attribute for catchment classification and for determining the donor catchments under physical similarity method. In the present study, based on physical similarity of catchments 3 groups were categorized. A total of 10 catchments were used in the present study. K-mean Clustering algorithm was used to classify the catchments into 3 groups within each categorized group. Donor catchments were evaluated for each group within each categorized group based on the performance of GR4J hydrological model. KGE, R & Pbias were used as the statistical measure to evaluate the model performance as well as to select the donor catchment. Model parameters evaluated from donor catchment were transferred to target catchment for streamflow assessment & model performance evaluation. Results showed that the GR4J model performed reasonably well for the catchments having lower mean elevation and large area. Among 3 categorized groups, PA group performed reasonably well. This may be due to inclusion of both the physical and climate attributes for catchment classification.
Aren't aluminum and iron resorbed from old leaves?
Authors: Hu Nan , Mao Qinggong , Sun Xibin , Xu Qianhao , Li Meimei , Chen Hao 
Published: July 2022

Abstract
Purpose
Leaf resorption is an important mechanism for plant nutrient conservation, but not all elements are resorbed by plants. It is believed that aluminum (Al) and iron (Fe) are accumulated in old leaves rather than be resorbed due to their toxic effects, but this view never be systematically evaluated.
Methods
Here, a data synthesis was conducted to explore the patterns and controls on leaf resorption efficiency of Al and Fe, based on 34 published studies with 272 data points.
Results
The resorption efficiency of Al was positive in conifer plants (11.3%), but was negative in deciduous and evergreen plants (-94.2% and − 111.2%, respectively). The resorption efficiency of Fe was positive in nitrogen-fixing plants (39.2%), but was negative in non-nitrogen-fixing plants (-37.0%). Lower soil pH favored the leaf Al resorption, but limited the leaf Fe resorption. Higher precipitation inhibited the leaf Fe resorption.
Conclusions
In contrast to the general belief, our study highlights that Al and Fe can be resorbed from old leaves, depending mainly on plant species and soil environment. This knowledge is an important supplement for understanding leaf nutrient resorption process, and is helpful for modeling global biogeochemical cycle.
Normative Data of the Korean Version of the MNREAD Acuity Chart
Authors: Kim Ungsoo Samuel , Kim Keun Soo , Kim Yoon Shin 
Published: July 2022

Abstract
Background: To develop the normative data of the Korean version of the MNREAD acuity chart.Methods: A Korean version was prepared based on the MNREAD acuity chart developed by Gordon Legge of the University of Minnesota, USA. A linguist selected the representative 80 sentences composed of 9 words at the level of the 2nd and 3rd grades of elementary school. Reading abilities were measured for 20-35 years old with normal visual acuity (corrected visual acuity of 1.0 or better) for 80 sentences. Among 80 sentences, 38 items with a similar speed were prepared for the right and left eyes of the Korean version according to the format of the MNREAD acuity chart. Reading speed (word per minute, wpm) for healthy participants, the reading acuity (the smallest detectable font size), and the critical print size (the smallest font size without reduction of reading speed) were analyzed.Results: The average age of the experimental group was 28.3 ± 2.6 years (male: female 4=16). The average reading speed for 38 sentences was 3.66 ± 0.69 seconds, and there was no difference in the average reading speed between sentences (p=0.836). The reading speed was 146.2 wpm for the right eye and 142.5 wpm for the left eye in logMAR 1.0 size, and 97.7 wpm and 99.7 wpm in logMAR 0.0 size. Reading acuity was measured as logMAR 0.0 or better in 80% of cases. All subjects showed a critical print size of 0.2 or better logMAR.Conclusion: Using the Korean version of the MNREAD acuity chart, the reading ability including reading acuity, reading speed and critical print size, can be measured. It is thought that it will be a useful tool to measure reading ability even for those who speak Korean as their native language.
STK4 antisense RNA 1-p53 affects osteosarcoma
Authors:   Jingyu Hou1,   Weitao Yao1,   Guoqing Liu1,   Fangxing Wu1,   Qiang Yan1,   Liangyu Guo1,   Chuchu Wang2
Published: July 2022

Abstract
Background
LncRNA STK4 antisense RNA 1(STK4-AS1) has been identified as a potential biomarker associated with multiple cancers. We proposed that STK4-AS1 plays a role in the proliferation of osteosarcoma by regulating the cell cycle.
Methods
We compared the expression of STK4-AS1, p53, and p21 in osteosarcoma vs normal samples in clinical tissues and cell lines. We determined the effect of overexpression and knockdown of STK4-AS1 in p53 expressing osteosarcoma cells U2OS, p53 muted osteosarcoma cells MG63, and osteoblast cells hFOB on p53 and p21 expression and the cell viability. For U2OS and MG63, the cell cycle was analyzed and the expression of cyclin proteins was determined. We overexpressed p53 or p21 in STK4-AS1 overexpressed cells to explore the association of STK4-AS1 and p53 in U2OS.
Results
The STK4-AS1 expression was higher and p53 and p21 expression were lower in osteosarcoma tissue and cells than in their non-cancer counterparts. The expression of STK4-AS1 was negatively correlated with the expression of p53 or p21. Knockdown of STK4-AS1 in U2OS decreased the cell viability, increased cells in the G0/G1 phase, decreased cells in the S and G2/M phase, decreased expression of cyclin A and B, increased p53 and p21, and had no effect on cyclin D and cyclin E, while overexpression of STK4-AS1 did the opposes. Overexpression of p53 or p21 recovered some changes caused by STK4-AS1 overexpression in U2OS. MG63 expressed no p53 and the expression of p21, cyclin A, and cyclin B, cell viability, and cell cycle were not affected by altered STK4-AS1 levels. In hFOB cells, the expression of p53 and p21 was decreased and the cell viability was increased when STK4-AS1 was overexpressed, but they were not affected when STK4-AS1 was knocked down.
Conclusion
LncRNA STK4-AS1 promoted the cell cycle of osteosarcoma cells by inhibiting p53 expression.