bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prognostic and immunological role of MRC1: A pan-cancer analysis
Authors: Huang Heyuan , Zhang Jingwei , Huang Changhao , Ding Xiang 
Published: April 2022

Abstract
MRC1 is an endocytic lectin receptor primarily expressed in macrophages, dendritic cells and some endothelial cells. It acts as phagocytic receptor for bacteria, fungi and other pathogens. Until now, the role of MRC1 in cancer remains unclear. We performed a pan-cancer analysis to investigate the potential value of MRC1 in cancer immunotherapy. MRC1 expression in normal tissues, cancer cell lines, and tumor tissue compared with their para-cancerous tissues displayed heterogeneity among different cancers. By analyzing the correlation between prognostic value and expression of MRC1 in multiple cancer types, we found that MRC1 levels significantly affected prognosis in the seven cancer types. High MRC1 expression was associated with poorer prognosis in six types of cancers and improved prognosis of GBM, KICH, LAML, LUSC, THCA, and THYM. Then we compared these results with immune-related indicators including immune infiltrative cells, immune scores, and immune checkpoint molecules. MRC1 expression significantly correlated with the 6 immune infiltrates in most cancer types. Similarly, MRC1 was also positively correlated with Stromal score, Immune score, and ESTIMATE score. These results indicate that MRC1 affects prognosis through immune related pathways. For immune related molecules, MRC1 was both significantly associated with stimulatory and inhibitory checkpoint molecules, which suggest that the role of MRC1 in immune system differs from cancer types. To explore whether MRC1 has a predictive value in the efficacy of immune checkpoint inhibitors (ICIs) treatment, we analyzing the relationship between current predictors and MRC1 in multiple cancer types. MRC1 expression was positively correlated with tumor mutation burden (TMB) and DNA mismatch repair (MMR) genes in most of cancer types but negatively associated with a small proportion of cancer types. However, MRC1 expression was negatively correlated with tumor neoantigen burden (TNB) and microsatellite instability (MSI) in most of cancer types. The relationship between MRC1 and the four DNA methyltransferases was significant in multiple cancers types, but also with a cancer type-specific pattern. In conclusion, our study finds that MRC1 expression correlates with a variety of tumors and its prognostic value in multiple cancer types. In addition, the expression of MRC1 has a potential predictive value for the efficacy of ICIs. Nevertheless, in practical application, it needs to be adjusted according to different cancer types.
Foliar H 2 O 2 concertation-based stress modelling in plants: Implications for riparian vegetation management
Authors: Asaeda Takashi , Rahman Mizanur , Vamsi-Krishna Lekkala , Schoelynck Jonas , Rashid Md Harun 
Published: April 2022

Abstract
Riparian vegetation is frequently exposed to abiotic stress generating reactive oxygen species (ROS) caused by strong differences in the hydrological conditions of the river. The current study examined the colonization by riparian vegetation communities across the elevation gradient of riparian zones, through quantification of environmental stress using foliar hydrogen peroxide (H2O2) concentration selecting tree species, such as Salix spp., Robinia pseudoacacia, Ailanthus altissima, Juglans mandshurica, and representative of herb species were Phragmites australis, Phragmites japonica, Miscanthus sacchariflorus. Leaf tissues and soil samples were collected for the analysis of H2O2 concentration, total nitrogen (TN), total phosphorus (TP), and moisture content. The H2O2 concentration of tree species other than Salix spp. increased with higher soil moisture contents, while that of Salix spp. decreased with increasing soil moisture. H2O2 concentration of herb spp. always decreased with soil moisture. The comparison with the observed colonization elevation in the field indicates healthy colonies up to species-specific elevations where H2O2 concentrations stayed below 40mmol/gFW. These relationships and soil moisture distributions for gravelly and sandy channels, the H2O2 concentration relates to an elevation above the channel. Hence present study suggests that foliar H2O2 concentration can be a useful benchmark for distribution and colonization potential of riparian vegetation.
Isolation, and Characterization, of Lactic Acid Bacteria for Potential Use as Feed Additives for Ruminant Animals
Authors: Zayed Mona S. , El-Fattah Dalia A. Abd , Abbad Rateb Nabil , El-Bordeny N. E. 
Published: April 2022

Abstract
Probiotics refer to the living microorganisms that exhibit a beneficial effect on the health of animals through the intestinal microbial balance. The most extensively used probiotics are Lactobacillus spp. This study aims to identify and characterize the probiotic properties of Lactobacillus strains isolated from the gastrointestinal tract of ruminants as a local Egyptian strain. Bacterial strains were isolated purified and characterized based on morphological and biochemical characteristics such as gram staining, catalase test, and motility test. 12 isolates were rod-shaped, gram-positive, catalase-negative, non-motile, and non-spore formers. These isolates were identified using 16S rRNA gene partial sequencing method. Most of the strains exhibited a decrease in the growth by increasing the concentration of the bile salt, NaCl, increasing the temperature over 37 oC and moving toward neutrality and alkalinity in the media. Strain A11(Lactobacillus farraginis MD_A11) revealed the lowest decrease percentage in the microbial growth to different bile salt concentrations being 5.96, 6.61, 6.85, 7.40, 7.53, and 7.64% respectively), NaCl% concentrations being 1.403, 5.627, 6.487, 7.368, 7.397, 7.411, 7.421, 7.282, and 13.760% respectively, to raise the temperature over 37 oC being 4.19 & 3.945% and different pH levels as it revealed the lowest decrease percentage in the growth when compared to control. As well it recorded the lowest medium pH after the third day being 4.2 with tithable acidity of 0.32%.
Effects of nutritional status on peripheral immune cells in patients with non-small cell lung cancer
Authors: He Fang , Yang Dongliang , Zha Xiankui , Wang Ping , Xuan Liang 
Published: April 2022

Abstract
Background: The nutritional status affects gene expression in peripheral T lymphocytes; nevertheless, the link between nutritional status and immunity of cancer patients is unclear. The aim of the research was to evaluate the connection with nutritional parameters and the frequencies of T cells subsets on peripheral blood in non-small cell lung cancer (NSCLC) patients. Methods: We enrolled 170 NSCLC patients and 53 healthy volunteers who were age- and gender-matched. The frequencies of circulating CD3+, CD4+, CD8+, naïve CD4+, memory CD4+, naïve CD8+, memory CD8+, and regulatory T lymphocytes were assessed by the way of flow cytometry. Nutritional parameters including albumin, globulin, albumin-to-globulin ratio (AGR), total protein (TP), pre-albumin (PA), body mass index (BMI), and prognostic nutritional index (PNI), were also evaluated.Results: Low globulin levels and high AGR were associated with high frequencies of naïve CD8+ T lymphocytes (P = 0.039 and P = 0.018). Obese (BMI ≥ 25) Compare with the non-obese (BMI < 25) patients, the percentages of CD8+ T lymphocytes in NSCLC patients had decreased (P = 0.026). Between in other nutritional parameters and the frequency of circulating lymphocyte subsets had no significant correlation.Conclusions: Our findings show that nutritional status should influence the frequencies of peripheral T cell subsets in NSCLC patients.
Assessment of Genetic Diversity and Population Structure in Local Alfalfa Genotypes Using iPBS Molecular Markers
Authors: EREN Barış , KESKIN Bilal , DEMIREL Fatih , DEMIREL Serap , TÜRKOĞLU Aras , YILMAZ Abdurrahim , HALILOĞLU Kamil 
Published: April 2022

Abstract
iPBS retrotransposon markers, in other words, inter-primer binding site markers based on retrotransposon, have been useful for the determination of genetic diversity in several plants. The study was evaluated by using 10 iPBS molecular markers the level of genetic diversity and genetic structure of alfalfa genotypes. A total of 280 alleles in 50 alfalfa genotypes (48 local genotypes and 2 commercial varieties) were obtained by 267 polymorphic markers with an average of 28 per locus, ranging from 9 to 41 alleles. The rate of polymorphism of the markers ranged from 86.36–100% with an average of 93.71%. The average number of polymorphic bands per marker was detected as 26.7. The mean PIC value and Dice's similarity were calculated between 0.14 and 0.50 respectively. The Results of UPGMA analysis, principal component analysis (PCA), and STRUCTURE demonstrated that the 50 alfalfa genotypes could be classified into 4 subpopulations, namely the Q1, Q2, Q3, and Q4. The Nei’s genetic distance ranged from 0.0121 to 0.0359. iPBS markers and alfalfa genotypes used in this study may be used in studies of alfalfa breeding and germplasm conservation.
Factors affecting accidental poisoning among children in Bangladesh– Lessons learned from a tertiary level hospital, Dhaka
Authors: Ahmed Ahsan , Siam Md. Hasanul Banna , Shojon Mohammad , Hasan Md. Mahdi , Raheem Enayetur , Hossain Mohammad Sorowar 
Published: April 2022

Abstract
IntroductionAccidental poisoning is a leading cause of unintentional injuries among children in developing countries. The overall aspect of this unintentional poisoning is poorly understood in Bangladesh. The objectives of this study were 1) to explore the socio-demographic factors and circumstantial context of accidental poisoning and 2) the prevalence of the type of substances causing it.MethodsA prospective cross-sectional study was conducted between April 2019 and February 2020 at a tertiary level hospital of the capital city Dhaka in Bangladesh. Children under 10 years of age admitted to the hospital with accidental poisoning were enrolled in this study. Parents of hospitalized children were interviewed face-to-face using a structured questionnaire. Descriptive statistics were used for data analysis. ResultsA total of 223 children were recruited in this study. Children between 2 to 5 years (60%), male (61%), and children with agile or aggressive behaviour (65.5%) were among the prevalent victims. Most cases (65%) occurred in a nuclear family setting. Most mothers (85%) of these children were non-working, and most incidents took place in parents’ homes (~82%). Nearly 70% of the poisoning incidents took place in parents' presence, and over half of these occurred in the bedroom. Kerosene was the prevalent cause (33%) of accidental poisoning while insecticide/pesticide ranked second (26.5%) followed by medicines (17%) and household chemicals (12). In one-third (31.4%) cases, poisoning chemicals were stored in soft-drinks bottles, while two-thirds (67.3%) were kept in containers other than original ones. Although over 80% of parents knew that chemicals could be harmful to the children if they were ingested, most of them did not take safety measures. ConclusionIn this present study, we found that preschool-aged children were more victims of accidental poisoning, primarily by ingesting kerosene. A majority of the incidents occurred in the bedroom while parents were present at home. Our study findings would serve as a baseline for designing future intervention studies and policies.
Altered mean apparent propagator-based microstructure and the corresponding functional connectivity of the parahippocampus and thalamus in Crohn’s disease
Authors: Qiu Yage , Li Qingshang , Wu Dongmei , Zhang Yiming , Cheng Jiahui , Cao Zhijun , Zhou Yan 
Published: April 2022

Abstract
The purpose of this study was to investigate the abnormalities of brain microstructure and the corresponding functional connectivity (FC) using mean apparent propagator (MAP)-MRI diffusion model and resting-state functional MRI (rs-fMRI), and their associations with the disease condition in patients with Crohn’s disease (CD). Twenty-two patients with CD and twenty-two age-, gender-, and education-matched healthy controls (HCs) were enrolled in this study. Diffusion-weighted imaging and rs-fMRI data were performed for all subjects. The condition and duration of the disease were evaluated for each patient. The MAP parameters were extracted and compared between groups. Pearson’s correlation analysis was conducted to explore the relationship between disease characteristics and significantly abnormal MAP parameters in CD group. The regions in which MAP parameters showed significant correlation were selected as regions of interest (ROIs) for ROI-based FC analysis. There were significant differences of MAP parameters between CD patients and HCs in many brain regions, including the parahippocampus and thalamus. Moreover, CD patients exhibited decreased FC between the ipsilateral and contralateral parahippocampal gyrus and thalamus. The results of this study provide preliminary evidence that brain structural abnormalities in the parahippocampus and thalamus and aberrant functional connectivity between them may contribute to the disease condition in CD patients, which may become neural biomarkers indicating the disease activity of CD in the future.
Linkage of proteasomal impairment and autophagy activation by C9orf72 poly-GA aggregate formation
Authors: Pu Mei , Tai Yusi , Yuan Luyang , Zhang Yu , Guo Huijie , Hao Zongbing , Chen Jing , Qi Xinming , Wang Guanghui , Tao Zhouteng , Ren Jin 
Published: April 2022

Abstract
Background
Poly-GA, a dipeptide repeat protein unconventionally translated from GGGGCC repeat expansions in C9orf72, is abundant in C9orf72-related amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). Although the poly-GA aggregates have been identified in C9orf72-ALS/FTD neurons, the effects on UPS and autophagy, and their exact molecular mechanisms have not been fully elucidated.
Methods
We generated poly-GA mice,and treated poly-GA mice for 90 days by intraperitoneal injection rapamycin (4 mg/kg) every 2 days until behavioral analysis. GFAP (an astrogliosis marker), Iba1 (a microgliosis marker), GFP, p62, p-p62 (S349), p-p62 (S403) and LC3 proteins expression were quantified in brain tissues by immunohistochemistry, immunofluorescence, immunoblotting. These results were validated in vitro by protein mass spectrometry, co-immunoprecipitation and immunofluorescence.
Results
Herein, our in vivo experiments show that ploy-GA mice expressing 150 repeats but not 30 repeats GA exhibit significant aggregates in cells, behavioral deficits, and activate autophagy in the brain, in vitro results demonstrate that aggregated poly-GA induces proteasomal stress through directly binding proteasome subunit PSMD2 to recruit proteasome and impair its function, subsequently activates phosphorylation and ubiquitination of p62 to recruit autophagosome, ultimately leading to compensatory autophagy activation. While rapamycin treatment significantly improves the degenerative symptoms of mice expressing 150 repeats poly-GA, relieves neuronal injury and reduces neuroinflammation and aggregates in the brain.
Conclusion
In summary, we clarify for the first time the relationship of poly-GA between proteasome and autophagy: poly-GA aggregates recruit autophagosomes only when it forms complex with the proteasome and causes proteasomal stress. Our study provides support for further promoting the comprehension about the pathogenesis of C9orf72 and may bring a hint for the therapy.
A prognostic model based on oxidative stress related genes in patient with colon cancer
Authors: Wang Ya-jie , Xu Hao , Pan Yi-sheng 
Published: April 2022

Abstract
Purpose
To establish a novel oxidative stress related prognostic model for colon cancer.
Materials and Methods
First, oxidative stress related genes differentially expressed in tumor and normal tissues were identified. Then, LASSO COX analysis was used to establish the optimal prognostic profile based on the TCGA-COAD dataset, and patients were divided into two subgroups based on the expression profile of oxidative stress-related DEGs. Its reliability was verified by Kaplan-Meier curve and ROC analysis. We then verify the model in the GSE39582 test group. We performed correlation analysis, protein interaction (PPI) and copy number change (CNA) analysis of tumor-infiltrating immune cells. Finally, enrichment analysis was performed in GO, KEGG and GSEA to explore the possible mechanism.
Results
A total of 87 OS-related DEGs were identified in the TCGA cohort. Thirteen overall survival-related DEGs were used to construct the prognostic model. Patients in the high-risk group exhibited poorer OS compared to those in the low-risk group. Combined with the other clinical and pathological features, the risk score was found to be an independent prognostic factor of CC patients. The above results are verified in the external dataset GSE39582. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses indicated that the varied prognostic performance between high- and low-risk groups may be related to be related to reactive oxygen species pathway and p53 signaling pathway.
Conclusion
We successfully constructed a novel oxidative stress-related model for the prediction of prognosis in patients with CC. The 13-gene model was associated with OS and it could provide the basis for immunotherapy and predicting prognosis and help clinicians make decisions for individualized treatment.
Pediatric Celiac disease and Selective IgA Deficiency: Unexpected Sequence of Events
Authors: Andersen Maria Christine Ernst , Sander Stine Dydensborg , Madsen Gunvor , Lillevang Søren T. , Murray Joseph , Husby Steffen 
Published: April 2022

Abstract
Purpose Selective IgA deficiency (IgAD) is the most common primary immunodeficiency and may be associated with autoimmune diseases such as celiac disease (CeD). Although IgAD is thought to precede CeD and autoimmunity, the association between the two conditions has not been clarified. Methods Routine techniques were used to measure serum IgA and TG2-IgA and for immunohistochemistry. Results We report two childhood cases of IgA deficiency that evolved after the diagnosis of CeD and the start of a gluten-free diet. Histology showed persistence of IgA in the intestinal mucosa. Conclusion Both children with CeD showed IgA deficiency that developed after the initiation of a gluten-free diet. This supports IgA deficiency as being an autoimmune process that develops gradually and occurs due to specific defects in immunoregulation.
Associations between low-dose aspirin and bone mineral density in older adults
Authors: Liu Hongzhan , Shi Qiaojing , Tang Xianzhe , tian Yun , Xiao Xungang 
Published: April 2022

Abstract
Background: The utilization rate of low-dose aspirin in the elderly is increasing, and osteoporosis in the elderly is getting more and more attention. Aspirin has been shown in numerous studies to affect bone metabolism. However, there is no clear link between low-dose aspirin use and bone mineral density (BMD). This study examined differences in bone mineral density between low-dose aspirin users and non-aspirin users in adults aged 50-80 years.Methods: We conducted a cross-sectional study of 4987 participants aged 50–80 years who participated in the National Health and Nutrition Examination Survey (NHANES) 2017-March 2020. We performed multivariable logistic regression models to evaluate the associations between low-dose aspirin use and femoral neck BMD.Results: A total of 1143 adults were included in this study. Higher femoral neck BMD was observed in the low-dose aspirin use group compared with the non-aspirin use group (β=0.023, 95%CI 0.007-0.039). On subgroup analyses stratified by gender, this positive association existed in both gender after adjusting for confounders (males: β=0.020, 95%CI: -0.001-0.042; females: β=0.025, 95%CI: 0.001-0.050 P for interaction = 0.739). On subgroup analyses stratified by age, this positive association existed in three different age groups after adjusting for confounders (50-60 years: β=0.034, 95%CI: 0.004-0.065; 60-70 years: β=0.016, 95%CI: -0.011-0.043; 70-80 years: β=0.026, 95%CI: -0.003-0.055 P for interaction = 0.633).Conclusion: These findings from a human study looking into the correlation between low-dose aspirin use and femoral neck BMD suggest that taking regular low-dose aspirin may be associated with a higher femoral neck BMD. The effect of low-dose aspirin on femoral neck bone mineral density was not significant across age groups and genders.
Comparison of mini endoscopic combined intrarenal surgery and multitract percutaneous nephrolithotomy specifically for kidney staghorn stones: A single-center experience
Authors: Lee Kau-Han , Chen Zhi-Hao , Tseng Wen-Hsin , Su Chia-Cheng , Hsieh Kun-Lin , Lim Chye-Yang , Huang Steven K. 
Published: April 2022

Abstract
BackgroundStaghorn stones require surgical treatment to prevent serious complications such as kidney failure, infection, and septic shock. Percutaneous nephrolithotomy for staghorn stones requires creation of multiple tracts for different calyces, a technique called multitract percutaneous nephrolithotomy (multitract PCNL). However, creation of multiple tracts causes greater renal parenchymal injury and blood loss. Endoscopic combined intrarenal surgery (ECIRS) was developed to overcome these limitations of multitract PCNL. One-stage ECIRS entails combined use of antegrade nephroscope and retrograde flexible ureteroscope to clear the staghorn stone. We aimed to compare the perioperative outcomes of mini ECIRS and multitract PCNL in the management of staghorn stones.MethodsThis was a retrospective single-center study of patients with staghorn stones who underwent ECIRS (n = 17) or multitract PCNL (n = 17) between January 2018 and September 2021.ResultsThere was a significant between-group difference with respect to Guy’s stone score. Stone size, stone burden[ECIRS group: 21.41 cm3; multitract PCNL group: 20.88 cm3 (P = 0.94)], and degree of hydronephrosis were comparable in the two groups. Mean operative time was not significantly different between the groups [ECIRS group: 140 min; multitract PCNL group: 183 min (P = 0.63)]. There was no significant between-group difference with respect to one-step stone-free rate or final stone-free rate. ECIRS was associated with significantly lesser postoperative pain. Hemoglobin loss, postoperative blood transfusion rate, complications, and length of hospital stay were comparable in the two groups.ConclusionBoth mini ECIRS and multitract PCNL were effective and safe for the management of renal staghorn stones with comparable operation time and stone-free rate, and complications. ECIRS was associated with less severe postoperative pain.
Predicting Lung Cancer Survivability: a Machine Learning Ensemble Method on Seer Data
Authors: Venkatesh Surrajkumar Prabhu , Raamesh Lilly 
Published: April 2022

Abstract
Ensemble methods are powerful techniques used in machine learning to improve the prediction accuracy of classifier learning systems. In this study, different ensemble learning methods for lung cancer survival prediction were evaluated on the Surveillance, Epidemiology and End Results (SEER) dataset. Data were preprocessed in several steps before applying classification models. The popular ensemble methods Bagging, Adaboost and three classification algorithms, K-Nearest Neighbours, Decision Tree and Neural Networks as base classifiers were evaluated for lung cancer survival prediction. The results empirically showed that ensemble methods are able to evaluate the performance of their base classifiers and they are appropriate methods for analysis of cancer survival.