bluuebunny/crossref_metadata_2025_split huggingface dataset:
The circadian clock gene, BMAL1, promotes radiosensitization in nasopharyngeal carcinoma by inhibiting the epithelial-to-mesenchymal transition via the TGF-β1/Smads/Snail1 axis
Authors: Li Yuxin , Zhou Yu , Zhao Chaofen , Liu Lina , He Qianyong , Shang Kai , Xu Xinyu , Luo Xunyan , Zhou Dingan , Jin Feng 
Published: November 2023

Abstract

Acquired radio-resistance is thought to be one of the main causes of recurrent metastasis after failure of nasopharyngeal carcinoma (NPC) radiotherapy, which may be related to X-ray-induced epithelial–mesenchymal transition (EMT) activation. The circadian clock gene, BMAL1, has been shown to correlate with the sensitivity of NPCs to radiotherapy, but the specific mechanism has not been reported. NPC cells were irradiated by conventional fractionation to generate radiotherapy-resistant cells. NPC cells with BMAL1 gene stabilization/overexpression and interference were obtained by lentiviral transfection. Western blotting, colony formation analysis, cell counting kit-8 assays, wound-healing tests, Transwell assays, flow cytometry, the EDU method, nuclear plasma separation experiments, HE staining, immunohistochemical staining and TUNEL staining were performed to explore the influence and molecular mechanism of the circadian clock gene, BMAL1, on NPC-acquired radio-resistance and EMT through in vitro and in vivo experiments. The results indicated that there was a gradual downregulation of BMAL1 gene protein expression during the routine dose induction of radio-resistance in NPC cells. EMT activation was present in the radiation-resistant cell line 5-8FR, and was accompanied by the significant enhancement of proliferation, migration and invasion. The BMAL1 gene significantly increased the radiosensitivity of the radiation-resistant cell line 5-8FR and reversed the acquired radio-resistance of NPCs, which was accomplished by inhibiting the TGF-β1/Smads/Snail1 axis-mediated EMT.
EIF4A3 induced CircCHD7 promote osteosarcoma progression by sponge miR-608 and regulated FZD4/MMP2 expression through Wnt/β-catenin pathway
Authors: Yao Teng , Jun Gao , Zhang Deguang , Feng Zhenhua , Xu Yining , Zhang Zhenlei , Qiao Di , Wang Jiying , Shen Shuying , Ma Jianjun 
Published: November 2023

Abstract
Background
Osteosarcoma is a malignant tumor that tends to occur in adolescents. In recent years, surgical treatment has reduced mortality rates in patients with osteosarcoma. However, many patients still die of osteosarcoma, and further studies are needed to elucidate the complicated pathogenesis of this disease.
Methods
The function of circCHD7 was detected by transwell, clone formation, Cell Counting Kit 8, and apoptosis assays after knockdown of circCHD7 in 143B and HOS cells. Bioinformatics analysis was used to identify binding between miR-608 and circCHD7, and the results were further validated using luciferase, pull-down, and RNA immunoprecipitation assays. Bioinformatics and quantitative real-time polymerase chain reaction were used to identify downstream target genes of miR-608. The expression and effects of circCHD7 inhibitor were evaluated in stable sh-circCHD7 143B cell lines and a subcutaneous tumor model.
Results
CircCHD7, regulated by eIF4A3, was found to promote tumor proliferation and migration. Knockdown of circCHD7 and overexpression of miR-608 enhanced apoptosis and inhibited migration ability in osteosarcoma cells. The inhibitory effects of circCDH7 knockdown in 143B and HOS cells could be rescued by miR-608 inhibitor. Bioinformatics and western blotting results showed that miR-608 could regulate the expression of downstream matrix metalloproteinase 2 (MMP2) and Frizzled-4 (FZD4) and further modulate the Wnt/β-catenin pathway, thereby exerting inhibitory effects on osteosarcoma.
Conclusion
In this study, we discovered a new circRNA, circCHD7, that was regulated by eIF4A3 and modulated tumor growth through the miR-608/FZD4/MMP2 pathway. These findings provide insights into the potential application of circRNAs in the treatment of osteosarcoma.
Genetic determinants of Selenium availability, Selenium-response and risk of Polycystic Ovary Syndrome
Authors: Sharma Priya , Khetarpal Preeti 
Published: November 2023

Abstract
Selenium is a trace element and its deficiency has been associated with the risk of PCOS, a multifactorial syndrome that affects a large number of women worldwide. Several databases and literature were searched to find out genetic variants of the genes involved in selenium uptake, metabolism and regulation which may be significantly associated with risk of PCOS through Se related pathways. Genes whish require selenium for their biological actions to perform were also shortlisted. A total of eighteen significantly associated genes were identified which were shortlisted among forty-four variants that could play potential role in the PCOS risk among the study population. The genetic variant distribution data was available in-house and was obtained through GWAS study of the North India population. In silico tools were applied to understand the functional impact of these variants. Three variants namely LDLR(rs2228671), TNF (rs1041981), and SAA2 (rs2468844) are strongly associated with PCOS risk and have a functional impact on encoded protein. Certain variants of Se uptake genes such as DIO1, GPX2, TXNRD1, DIO2 GPX3 genes significantly increase or decrease risk of PCOS development. Se transporter gene SELENOP polymorphism rs9686343 with C allele significantly increased PCOS risk. Other potential genes that require selenium for their biological actions are involved in the inflammatory, antioxidant response, and energy homeostasis signaling pathways. Thus genetic variants of the population may affect the Se availability or Se deficiency may modulate the effect of Se-associated genes due to genetic polymorphism. This information may be helpful in dosage adjustment of Se supplementation for a population in order to have maximum benefits.
Risk of Erectile Dysfunction after Primary Obsessive-Compulsive Disorder: A Nationwide Population-Based Study
Authors: Shi Ming der , Chung Mei Hua , Ma Mi Chia , Chao Jian-Kang 
Published: November 2023

Abstract

Objective: Erectile dysfunction (ED) in patients with OCD (obsessive-compulsive disorder) has been investigated in very few limited studies. This study aimed to investigate the association between OCD and subsequent ED.
Methods: In this population-based retrospective cohort study, we used Taiwan’s National Health Insurance Research Database to analyze patients who were newly diagnosed with OCD between 2000 and 2016, We included 21,656 patients with OCD aged over 18 years old, with a 1:1 ratio by age and index year matched with patients in a non-OCD comparison group, for the risk of ED. Cox proportional hazards analysis was used to estimate the association between OCD and subsequent psychogenic ED. Results :After a 7-year follow-up, the incidence rate of psychogenic ED was higher in the OCD patients when compared with the non-OCD control group (3.39 vs.1.49 per 100,000 per person-year). Patients with OCD had a higher risk of developing psychogenic ED than the non-OCD cohort after the adjustment of the confounding factors (adjusted HR = 4.05, 95% confidence interval (CI) [2.06, 7.99], p < .001). This is the first study using a comprehensive nationwide database to analyze the association between psychogenic ED and OCD in Taiwan. After adjusting for the confounding factors, patients with OCD have a significantly higher risk of developing psychogenic ED.
Conclusions: Patients with OCD should be encouraged to take sexual history as part of their routine clinical assessment and appropriate preventive mental measures to maintain mental and sexual health.
A closer Look to the Factors Affecting the Switching Transient Times of Optocouplers
Authors: Hassan Warda H.A. , Kamh Sanaa A. , Soliman Fouad A. S. , El-Basit Wafaa Abd 
Published: November 2023

Abstract

The significant parameters for high-speed optoelectronic switch were the transient times. In the time domain, there is a time elapsed in the order of microseconds between applying a current pulse and seeing an output. So, the present work aimed to give a closer look on the factors affecting the transient times of the optocoupler switching action, namely; delay (td)-, rise (tr)-, in addition to storage (ts)- and fall (tf)-times. The switching transient times of the optocoupler (type 4N25) were investigated and plotted under the influence of different operating conditions such as: load resistance (RL), forward LED drive current (IF), bias collector voltage (VCC), emitter-base resistance (RBE) and temperature. Experimental results showed that, the value of the turn-on time (Ton=td+tr) was decreased with increasing the following; IF and RBE, while it increased with increasing VCC and temperature as well, while it unaffected by increasing RL. On the other hand, the turn-off time value (Toff=ts+tf) was shown to be decreased with increasing VCC and RBE while its value increased with increasing the following; RL, IF and temperature.
Proteomics-based Model for Predicting the Risk of Brain Metastasis in Patients with Resected Lung Adenocarcinoma carrying the EGFR Mutation
Authors: Deng Qiuhua , Wang Fengnan , Song Lei , Chen Liangyu , Huang Ying , Guo Zhihua , Yang Haihong 
Published: November 2023

Abstract
Purpose
By establishing a predictive model based on protein biomarkers, it is used to identify the high-risk population of The epidermal growth factor receptor(EGFR) mutated lung cancer patients who may experience brain metastasis after surgery, thereby reducing or delaying the occurrence of brain metastasis.
Methods
We conducted a retrospective study of BMs in the postoperative recurrent LUAD with EGFR mutation in the First Affiliated Hospital of Guangzhou Medical University. Tissue proteomic analysis was applied in the primary tumors of the resected LUAD in this study using liquid chromatography-mass spectrometry (LC-MS/MS). To identify potential markers to predict LUAD-BM, comparative analyses were processed on different groups to evaluate proteins associated with high-risk of BMs.
Results
A combination of three potential marker proteins were found to well distinguish distal metastasis (DM) and local recurrence (LR) of postoperative LUAD with EGFR mutation. GO analysis of significant changed proteins between BM and non-BM (NBM) indicates that lipid metabolism and cell cycle related pathways were involved in BMs of LUAD. And the enriched pathways correlated with BMs were found quite different in the comparison groups of postoperative adjuvant therapy, tyrosine kinase inhibitor (TKI) and chemotherapy groups. Finally, we developed a random forest algorithm model with eight proteins (RRS1, CPT1A, DNM1, SRCAP, MLYCD, PCID2, IMPAD1 and FILIP1), which showed excellent predictive value (AUC: 0.9401) of BM in patients with LUAD harboring EGFR mutation.
Conclusions
A predictive model, based on protein markers, was developed to precisely predict postoperative BM in operable LUAD carrying EGFR mutation.
A Reduced Proteomic Signature in Critically Ill Covid-19 Patients Determined With Plasma Antibody Micro-array and Machine Learning
Authors: Patel Maitray A. , Daley Mark , Nynatten Logan R. , Slessarev Marat , Cepinskas Gediminas , Fraser Douglas D. 
Published: November 2023

Abstract

Background: COVID-19 is a complex, multi-system disease with varying severity and symptoms. Identifying changes in critically ill COVID-19 patients’ proteomes enables a better understanding of markers associated with susceptibility, symptoms, and treatment. We performed plasma antibody microarray and machine learning analyses to identify novel biomarkers of COVID-19.
Methods: A case-control study comparing the concentration of 2000 plasma proteins in age- and sex-matched COVID-19 inpatients, non-COVID-19 sepsis controls, and healthy control subjects. Machine learning was used to identify a unique proteome signature in COVID-19 patients. Protein expression was correlated with clinically relevant variables and analyzed for temporal changes over hospitalization days 1, 3, 7, and 10. Expert-curated protein expression information was analyzed with Natural language processing (NLP) to determine organ- and cell-specific expression.
Results: Machine learning identified a 28-protein model that accurately differentiated COVID-19 patients from the other cohorts (balanced accuracy=0.95, AUC=1.00, F1=0.93), as well as an optimal nine-protein model (PF4V1, NUCB1, CrkL, SerpinD1, Fen1, GATA-4, ProSAAS, PARK7, and NET1) that maintained high classification ability (balanced accuracy=0.92, AUC=0.98, F1=0.93). Specific proteins correlated with hemoglobin, coagulation factors, hypertension, and high-flow nasal cannula intervention (P<0.01). Time-course analysis of the 28 leading proteins demonstrated no significant temporal changes within the COVID-19 cohort. NLP analysis identified multi-system expression of the key proteins, with the digestive and nervous systems being the leading systems.
Conclusions: The plasma proteome of critically ill COVID-19 patients was distinguishable from that of non-COVID-19 sepsis controls and healthy control subjects. The leading 28 proteins and their subset of 9 proteins yielded accurate classification models and are expressed in multiple organ systems. The identified COVID-19 proteomic signature helps elucidate COVID-19 pathophysiology and may guide future COVID-19 treatment development.
Vibrio Species and Cyanobacteria: Understanding their Association in Local Shrimp Farm using Canonical Correspondence Analysis (CCA)
Authors: Baki Dayang Najwa Binti Awg , Nillian Elexson , Lesen Dalene , Tung Teng Sing 
Published: November 2023

Abstract
In aquatic environments, Vibrio and cyanobacteria establish varying relationships influenced by environmental factors. To investigate their association, this study spanned 5 months at a local shrimp farm, covering the shrimp larvae stocking cycle until harvesting. A total of 32 samples were collected from Pond A (n = 6), Pond B (n = 6), effluent (n = 10), and influent (n = 10). Vibrio species and cyanobacteria density were observed, and canonical correspondence analysis (CCA) assessed their correlation. CCA revealed a minor correlation (p = 0.847, 0.255, 0.288, and 0.304) between Vibrio and cyanobacteria in Pond A, Pond B, effluent, and influent water, respectively. Notably, Vibrio showed a stronger correlation with pH (6.14–7.64), while cyanobacteria correlated with pH, salinity (17.4–24 ppt), and temperature (30.8–31.5 ℃), with salinity as the most influential factor. This suggests factors beyond cyanobacteria influence Vibrio survival. Future research could explore species-specific relationships, regional dynamics, and multidimensional landscapes to better understand Vibrio-cyanobacteria connections. Managing water parameters may prove more efficient in controlling vibriosis in shrimp farms than targeting cyanobacterial populations.
The Survival Effect of Neoadjuvant Therapy and Neoadjuvant Plus Adjuvant Therapy on Different AJCC 8th TNM Stages: A Propensity Score Matching Analysis Based on SEER Database
Authors: Hu Hao , Xu Yang , Zhang Qiang , Gao Yuan , Wu Zhenyu 
Published: November 2023

Abstract
Background: Currently, adjuvant therapy (AT) is the standard treatment for resectable pancreatic ductal adenocarcinoma (PDAC), and so is neoadjuvant therapy (NAT) for borderline resectable and locally advanced stages. However, it remains unclear whether AT improves survival after NAT and radical resection in all TNM stages.
Methods: The studied population was comprised of patients diagnosed with PDAC who underwent radical surgery, and was drawn from the Surveillance, Epidemiology, and End Results (SEER) database, spanning from 2010 to 2019. we employed Pearson’s chi-square test, univariate and multivariate Cox regression analysis, Kaplan-Meier (K-M) analysis, Log-rank test, and emphasis on propensity score matching (PSM) analysis.
Results: 13,868 PDAC patients were finally enlisted. After PSM, significant differences in survival were identified between AT and neoadjuvant therapy in combination with adjuvant therapy (NATAT) (p=0.023) as well as between NAT and NATAT (p<0.001). Upon stratified by AJCC 8th TNM stage, the survival advantage associated with AT was exclusively observed in stage III and stage IV, barring the subgroup T4N0M0. We also discovered that patients with potentially resectable diseases in stage III (T1-3N2M0) might have better survival upon receiving NATAT than AT alone, and some patients with NATAT in stage IV exhibited comparable survival to their counterparts without metastasis.
Conclusion: In this retrospective cohort study, we demonstrated that patients harboring tumors in late TNM stages might benefit from supplementary AT in terms of survival, the NAT may be beneficial for resectable PDAC with more than 3 lymph nodes metastasis, and certain patients with M1 disease might still benefit from comprehensive systemic therapy and radical resection.
Bootstrap methods for bias correcting probability distribution parameters characterizing extreme snow accumulations
Authors: Pomeyie Kenneth , Bean Brennan 
Published: November 2023

Abstract
Accurately quantifying the threat of collapse due to the weight of settled snow on the roof of a structure is crucial for ensuring structural safety. This quantification relies upon direct measurements of the snow water equivalent (SWE) of settled snow, though most weather stations in the United States only measure snow depth. The absence of direct load measurements necessitates the use of modeled estimates of SWE, which often results in the underestimation of the scale/variance ($\sigma$) parameter of the distribution of annual maximum SWE. This paper introduces a novel bias correction method that employs a bootstrap technique with regression-based models to calibrate the variance parameter of the distribution. The efficacy of this approach is demonstrated on real and simulated datasets. The findings reveal varied levels of success, with the efficacy of the proposed approach being inherently dependent on the quality of the selected regression-based model. These findings demonstrate that integrating our approach with a suitable regression-based model is able to produce unbiased or nearly unbiased annual maximum SWE distribution parameters in the absence of direct SWE measurements.
Prevalence and Associated factors of common mental disorders among pregnant women in Northwest, Ethiopia: a cross- sectional study
Authors: Kurbi Helina Abebe , Abebe Solomon Mekonnen , Mengistu Netsanet Worku , Ayele Tadesse Awoke , Toni Alemayehu Teklu 
Published: November 2023

Abstract

Maternal mental health is a neglected but major global public health challenge, making a substantial contribution to maternal and infant morbidity and mortality. The purpose of this study was to assess the prevalence of common mental disorders and their determinants among pregnant women in the Northwest of Ethiopia. Data were collected from 872 pregnant women residing at the Dabat Demographic and Surveillance Site via an interviewer-administered, standardized questionnaire using an online data kit (ODK) during June–August 2022. A multivariate logistic regression analysis was conducted, and the odds ratio and 95% confidence interval were calculated. Common mental disorders among pregnant women were found to be 13.1% (95% CI: 10.9–15.6). Factors significantly associated with antenatal common mental disorders were marital status (being married, AOR = 2.01 95% CI: 110–3.69), residence (rural, AOR = 2.94 95% CI: 1.72–5.04), family history of common mental disorders (yes, AOR = 4.66 95% CI: 2.09–10.70), unplanned pregnancy (yes, AOR = 1.70 95% CI: 1.02–2.81), and intimate partner violence (yes, AOR = 2.43 95% CI: 1.59–3.73). Common mental disorders are common among pregnant women in the study area, and designing high-quality evidence and interventions that would address the aforementioned factors is vital for the mothers as well as the growth and development of the children.
Reliable detection of genetic alterations in cyst fluid DNA for the diagnosis of brain tumors
Authors: On Jotaro , Natsumeda Manabu , Takahashi Haruhiko , Koyama Akihide , Shibuma Satoshi , Watanabe Jun , Saito Shoji , Kanemaru Yu , Tsukamoto Yoshihiro , Okada Masayasu , Ogura Ryosuke , Eda Takeyoshi , Tada Mari , Shimizu Hiroshi , Adachi Jun-ichi , Mishima Kazuhiko , Nishikawa Ryo , Kakita Akiyoshi , Oishi Makoto 
Published: November 2023

Abstract
Purpose Liquid biopsy of cyst fluid in brain tumors has not been extensively studied to date. The present study was performed to see whether diagnostic genetic alterations found in brain tumor tissue DNA could also be detected in cell-free DNA (cfDNA) of cyst fluid in cystic brain tumors.Methods Cyst fluid was obtained from 17 patients undergoing surgery for a cystic brain tumor with confirmed genetic alterations in tumor DNA. Pathological diagnoses based on WHO 2021 classification and diagnostic alterations in the tumor DNA, such as IDH1 R132H and TERT promoter mutation for oligodendrogliomas, were detected by Sanger sequencing. The same alterations were analyzed by both droplet digital PCR (ddPCR) and Sanger sequencing in cyst fluid cfDNA.Results Twenty genetic alterations were found in 17 tumor samples. All (100%) alterations were detected in cyst fluid cfDNA by ddPCR. Sixteen of the 20 (80%) alterations were also detected by Sanger sequencing of cyst fluid cfDNA. Variant allele frequency (VAF) in cyst fluid cfDNA was comparable to that of tumor DNA (R = 0.67, Pearson’s correlation).Conclusion Cell-free DNA obtained from cyst fluid in cystic brain tumors is a reliable alternative to tumor DNA when diagnosing brain tumors.
WITHDRAWN: Ultrafast Picosecond Laser Spectroscopy and ICP-OES Assisted Calibration-free of Toxic Metal Concentrations in Contaminated Agricultural Soils
Authors: El-Saeed Mohamed , Tawfik Walid , Khalil Ahmed A. I. , Mubarak Manal , Fikry Mohamed 
Published: November 2023

Abstract

Excess fertilizer and chemical use have contaminated soil with harmful heavy metals near the Abu-Zaabal facility in Egypt. This study pioneers an approach using picosecond laser-induced plasma spectroscopy (Ps-LIPS) and inductively coupled plasma optical emission spectrometry (ICP-OES) to quantify toxic metal levels without calibration constraints. A 100 mJ Nd: YAG laser with 170 picosecond pulses has been employed for the Ps-LIPS. Systematic soil sampling at six sites near the facility enabled Ps-LIPS to formulate unrestricted calibration-free curves for lead, cadmium, cobalt, zinc, iron, and nickel. Applying the Boltzmann distribution and plot methods anchored to calcium spectral lines determined plasma electron density and temperature under local thermodynamic equilibrium. Models were validated against ICP-OES, affirming Ps-LIPS with under 8% average relative error. Results revealed notable concentration variations contingent on the metal, sampling site, and orientation to the facility. This pioneering Ps-LIPS study demonstrates precise quantification of toxic metals in soils without prior calibration. It provides a pragmatic tool for contamination assessment, representing a seminal advance in environmental analytical methodology.