syedzayyan/paper_mill_benchmark huggingface dataset:
Fluoride Exposure Suppresses Proliferation and Enhances Endoplasmic Reticulum Stress and Apoptosis Pathways in Hepatocytes by Downregulating Sirtuin-1

To explore the function and mechanism of sirt‐1 in fluorine‐induced liver injury.Method .Fluorosis rats were first established.The fluorine content, pathological structure, collagen fibers, and fibrosis in liver tissues were tested through the fluoride ion selective electrode method, h&amp;e, masson, and sirius red staining; alanine aminotransferase (alt), aspartate aminotransferase (ast), interleukin 18 (il‐18), and tumor necrosis factor‐ α (tnf‐ α ) levels in rat serum were also analyzed using elisa kits.Then, the fluorosis cell model was built, which was also alleviated with na f, sirt‐1 si rnas, or endoplasmic reticulum stress (ers) alleviator (4‐pba).Cck‐8 also assessed cell proliferation; rt‐q pcr or western blots detect sirtuin‐1 (sirt‐1), protein kinase r‐ (pkr‐) like endoplasmic reticulum kinase (perk), and endoplasmic reticulum stress (ers) and apoptosis‐related protein levels in liver tissue.Results .Our results uncovered that fluorine exposure could aggravate the pathological damage and fibrosis of rat liver tissues and increase indicators related to liver injury.And fluoride exposure also could downregulate sirt‐1 and upregulate ers‐related proteins (perk, 78‐k d glucose‐regulated protein (grp‐78), and activating transcription factor 6 (atf6)) and apoptosis‐related protein (caspase‐3 and c/ebp‐homologous protein (chop)) in rat liver tissues.Besides, we proved that fluoride exposure could suppress proliferation and enhances ers and apoptotic pathways in aml12 cells by downregulating sirt‐1.Moreover, we revealed that ers alleviator (4‐pba) could induce proliferation and prevent ers and apoptosis in fluorine‐exposed aml12 cells.Conclusions .We suggested that fluorine exposure can induce hepatocyte ers and apoptosis through downregulation of sirt‐1.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Female Colon Cancer Metastasis Pattern and Prognosis: A SEER-Based Study

The purpose of this study was to compare the metastatic pattern and prognosis of female colon cancer (fcc) to that of male colon cancer (mcc) to ascertain the independent factors impacting the prognosis of patients with fcc.The data of the present study population were retrieved from the surveillance, epidemiology, and end results (seer) database.Descriptive analysis, the kaplan‐meier method, and the cox regression were used to evaluated fcc characteristics and factors associated with prognosis.There were 56,442 patients diagnosed with fcc, of whom 8,817 had distant metastases.Compared to patients with nonmetastatic fcc, a greater proportion of metastatic fcc patients was less than 60 years of age, black race, and grade iii‐iv.The primary sites were mainly located on the left side and have more possibility to receive chemotherapy and radiotherapy.Compared to metastatic mcc, a higher proportion of metastatic fcc patients ranged over 60 years of age, black race, treated without chemotherapy, and insurance, while the primary site was located on the right side.Liver and lung were the two most common sites of solitary metastases in cc, and among patients with solitary metastases in cc, patients who had lung metastases had a better prognosis than those who developed other types of metastasizes.Patients with fcc with metastases of the liver had a worse prognosis than their mcc counterparts.Cox multivariate regression analysis showed that the risk ratio was higher in metastatic fcc patients compared to those without metastases.We report the survival comparison of metastatic fcc with nonmetastatic fcc through the seer database.Our results suggest that it has unique clinicopathological features and differs from metastatic mcc.Furthermore, patients with liver metastatic fcc have a worse prognosis than those with mcc.Emphasis on screening for colon cancer in women and additional clinical care should be paid for, especially for patients with fcc with metastatic liver cancer.

Journal: BioMed Research International (2022)
Publication types: Research Article;
EZH2 Regulates ANXA6 Expression via H3K27me3 and Is Involved in Angiotensin II-Induced Vascular Smooth Muscle Cell Senescence

S.Abdominal aortic aneurysm (aaa) has a high risk of rupture of the aorta and is one of the leading causes of death in older adults.This study is aimed at confirming the influence and mechanism of the abnormally expressed anxa6 gene in aaa.Methods.Clinical samples were collected for proteome sequencing to screen for differentially expressed proteins.An ang ii-induced vascular smooth muscle cell (vsmc) aging model as well as an aaa animal model was used.Using rt-q pcr to detect the m rna levels of ezh2, anxa6, ik-6, and il-8 in cells and tissues were assessed.Western blotting and immunohistochemistry staining were used apply for the expression of associated proteins in cells and tissues.Sa-β-gal staining, flow cytometry, and dhe staining were used to detect senescent cells and the level of ros.The cell cycle was assessed by flow cytometry.Arterial pathology was observed by he staining.The aging of vsmcs in arterial tissue was assessed by coimmunofluorescence for α-sma and p53.Results.There were 24 differentially expressed proteins in the aaa clinical samples, including 10 upregulated protein and 14 downregulated protein, and the differential expression of anxa6 was associated with vascular disease.Our study found that anxa6 was highly expressed and ezh2 was lowly expressed in an ang ii-induced vsmc aging model.Knockdown of anxa6 or overexpression of ezh2 inhibited ang ii-induced ros, inhibited cell senescence, decreased ang ii evoked g1 arrest, and increased cells in g2 phase, while overexpression of anxa6 played the opposite role.Overexpression of ezh2 inhibited anxa6 expression by increasing h3k27me3 modification at the anxa6 promoter.Simultaneous overexpression of ezh2 and the protective effect of ezh2 on cell senescence were partially reversed by anxa6.Similarly, anxa6 was highly expressed and ezh2 was lowly expressed in an ang ii-induced aaa animal model.Knockdown of anxa6 and overexpression of ezh2 alleviated ang ii-induced vsmc senescence and inhibited aaa progression, while simultaneous overexpression of ezh2 and anxa6 partially reversed the protective effect of ezh2 on aaa.Conclusion.Ezh2 regulates the anxa6 promoter h3k27me3 modification, inhibits anxa6 expression, alleviates ang ii-induced vsmc senescence, and inhibits aaa progression.

Journal: Oxidative Medicine and Cellular Longevity (2022)
Publication types: Research Article;
Expression Profile of Inflammation Response Genes and Potential Regulatory Mechanisms in Dilated Cardiomyopathy

The inflammatory response is important in dilated cardiomyopathy (dcm).However, the expression of inflammatory response genes (irgs) and regulatory mechanisms in dcm has not been well characterized.Methods.We analyzed 27,665 cells of single-cell rna sequencing dataset of four dcm samples and two healthy controls (hc).Irgs among differentially expressed genes (degs) of active cell clusters were screened from the molecular signatures database (msig db).The bulk sequencing dataset of 166 dcm patients and 166 hc was analyzed to explore the common irgs.The biological functions of the irgs were analyzed according to gene ontology (go) and kyoto encyclopedia of genes and genomes (kegg) analyses.Irg-related transcription factors (tfs) were determined using the trrust database.The protein–protein interaction (ppi) network was constructed using the string database.Then, we established the noncoding rna (nc rna) regulatory network based on the star base database.Finally, the potential drugs that target irgs were explored using the drug gene interaction database (dgidb).Results.The proportions of dendritic cells (dcs), b cells, nk cells, and t cells were increased in dcm patients, whereas monocytes were decreased.Dcs expressed more irgs in dcm.The go and kegg analyses indicated that the functional characteristics of active cells mainly focused on the immune response.Thirty-nine irgs were commonly expressed among active cell cluster degs, bulk rna degs, and inflammatory response-related genes.Ets1 plays an important role in regulation of irg expression.The competing endogenous rna regulatory network showed the relationship between nc rna and irgs.Sankey diagram showed that arachidonate 5-lipoxygenase (alox5) played a major role in regulation between tfs and potential drugs.Conclusion.Dcs infiltrate into the myocardium and contribute to the immune response in dcm.The transcription factor ets1 plays an important role in regulation of irgs.Moreover, alox5 may be a potential therapeutic target for dcm.

Journal: Oxidative Medicine and Cellular Longevity (2022)
Publication types: Research Article;
Exposure to Ambient Air Pollutant PM10 in the Second Trimester of Pregnancy Is Associated with Preterm Birth: A Birth-Based Health Information Cohort Study

S .We evaluated the effects of exposure to high concentrations of particulate matter (pm) 10 on preterm birth (ptb) and identified a critical concentration of pm 10 that could lead to ptb via a birth‐based health information cohort study.Methods .We conducted a birth‐based cohort study consisting of nonanomalous singleton births at 22‐42 weeks.Ptb was defined as babies born alive before 37 weeks of pregnancy.Pregnancy period exposure averages were estimated for pm 10 based on the china national environmental monitoring centre (cnemc).Pregnant women who lived within 50 km of the monitor station were recruited into this study.Logistic regression analyses were performed to determine the association between ptb and exposure to pm 10 at different pregnancy periods with adjustment for confounding factors.Results .The relative frequency of ptb was 8.7% in the study cohort of 5,291 singleton live births.A total of 1137 women had a high level of pm 10 exposure (≥60 μ g/m 3 ) in the second trimester of pregnancy.The average concentrations of pm 10 in the first, second, and third trimesters of pregnancy and throughout pregnancy were 53.8 μ g/m 3 , 54.2 μ g/m 3 , 55.6 μ g/m 3 , and 54.3 μ g/m 3 , respectively.The generalized additive model (gam) analysis showed that there was a nonlinear correlation between pm 10 and ptb in the second trimester of pregnancy ( p &lt; 0.001).The adjusted odds ratio between ptb and low concentration pm 10 exposure (pm 10 &lt; 60 μ g/m 3 ) in the second trimester of pregnancy was 1.01 (95% ci 0.95‐1.05).However, high pm 10 exposure (pm 10 ≥ 60 μ g/m 3 ) in the second trimester of pregnancy had an increased ptb risk even after adjustment for coexisting risk factors with an adjusted odds ratio of 1.78 (95% ci 1.69‐1.87), and the incidence of ptb increased with an increase in pm 10 exposure.Conclusions .Our research discovered that exposure to high levels of pm 10 increases the risk of ptb and the second trimester is the most vulnerable gestational period to ambient air pollution exposure.Pm 10 concentrations more than 60 μ g/m 3 are detrimental to pregnant women in their second trimester.This study has implications for health informatics‐oriented healthcare decision support systems.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Exosomal miR-27b-3p Derived from Hypoxic Cardiac Microvascular Endothelial Cells Alleviates Rat Myocardial Ischemia/Reperfusion Injury through Inhibiting Oxidative Stress-Induced Pyroptosis via Foxo1/GSDMD Signaling

Exosomes derived from cardiac microvascular endothelial cells (cmecs) under hypoxia can mediate cardiac repair functions and alleviate pyroptosis and oxidative stress during ischemia-reperfusion (i/r) injury.This study is aimed at investigating the effect and mechanism of mi r-27b-3p underlying hypoxic cmecs-derived exosomes against i/r injury.Methods.Cmecs were isolated from the left ventricle of sprague-dawley rats, followed by culturing under hypoxic conditions or pretreatment with the mi r-27b-3p inhibitor.Cmecs-derived exosomes were added into h9c2 cells before hypoxia/reoxygenation (h/r) or injected into the rat heart before i/r injury.An in vivo i/r injury model was established by ligating and releasing the left anterior descending coronary artery.Expression of pyroptosis-related factors was detected using western blot, and heart infarcted size was determined by the 2,3,5-triphenyl-2h-tetrazpinolium chloride staining method.Dual-luciferase reporter assays were performed to analyze the interactions of nmi r-27b-3p-forkhead box o1 (foxo1) and gasdermin d- (gsdmd-) foxo1.Chromatin-immunoprecipitation (ch ip) assays were performed to validate the interactions between forkhead box o1 (foxo1) and gasdermin d (gsdmd) and foxo1-mediated histone acetylation of gsdmd.Results.Cmecs were successfully identified from left ventricle of sprague-dawley rats.The expressions of foxo1 and pyroptosis-related proteins (gsdmd, nlpr3, cleaved caspase 1, il-1β, and il-18) were upregulated in the rat heart after i/r injury.Treatment of cmec-derived exosomes, especially that under hypoxic conditions, significantly reduced pyroptosis in the rat heart.Mi r-27b-3p was significantly upregulated in cmec-derived exosomes under hypoxic conditions, and mi r-27b-3p inhibition in exosomes alleviated its cytoprotection and inhibited oxidative stress in h9c2 cells.Treatment with foxo1 overexpression plasmids aggravated in vitro h/r and in vivo i/r injury by upregulating pyroptosis-related proteins.Further experiments validated that mi r-27b-3p negatively targeted foxo1, which bound to the promoter region of gsdmd.Conclusions.These results demonstrated a great therapeutic efficacy of mi r-27b-3p overexpression in hypoxic cmec-derived exosomes in preventing the development of myocardial damage post i/r injury through inhibiting foxo1/gsdmd signaling-induced oxidative stress and pyroptosis.

Journal: Oxidative Medicine and Cellular Longevity (2022)
Publication types: Research Article;
Evaluation Value of Serum miR-4299 and miR-16-5p in Risk Stratification of Sepsis-Induced Acute Kidney Injury

This study was designed to determine the evaluation value of serum mi r‐4299 and mi r‐16‐5p in risk stratification of sepsis‐induced acute kidney injury (si‐aki).Methods.A total of 115 sepsis patients were enrolled and assigned to the si‐aki group ( n = 64) or the sepsis‐non‐aki group ( n = 51) based on the occurrence of aki, and 72 healthy individuals were enrolled.Fasting venous blood was sampled from every patient before admission, before therapy, and after therapy, followed by quantification of mi r‐4299 and mi r‐16‐5p by fluorescence quantitative pcr.Receiver operating characteristic (roc) curves were drawn to evaluate the value of serum mi r‐16‐5p and mi r‐4299 expression in predicting si‐aki, and pearson’s correlation analysis was performed to explore the associations of the two with scr, cys‐c, and kim‐1.Results.Cases with sepsis, especially si‐aki, presented significantly downregulated serum mi r‐4299 and mi r‐16‐5p.After therapy, the expression in them increased.The area under curve (auc) of serum mi r‐4299 and mi r‐16‐5p in the prediction value for early diagnosis of si‐aki was 0.895 (95% ci: 0.839‐0.951, cutoff value: 0.780) and 0.838 (95% ci: 0.767‐0.909, cutoff value: 0.775), respectively, and the auc of them in the prediction value for clinical efficacy on the disease were 0.733 (95% ci: 0.645‐0.820, cutoff value: 1.115) and 0.776 (95% ci: 0.698‐0.855, cutoff value: 1.125), respectively.Serum mi r‐16‐5p and m ir‐4299 were negatively correlated with scr, cys‐c, and kim‐1, separately.Conclusion.Both mi r‐16‐5p and m ir‐4299 are promising factors for early diagnosis of si‐aki and dynamic evaluation of the efficacy on it.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Evaluation of Neutrophil-Lymphocyte Ratio and Platelet-Lymphocyte Ratio on Predicting Responsiveness to Neoadjuvant Chemoradiotherapy in Locally Advanced Rectal Cancer Patients

Neutrophil‐lymphocyte ratio (nlr) and platelet‐lymphocyte ratio (plr) have been proposed as prognostic biomarkers in multiple cancers.However, the implications of nlr and plr in the responsiveness to neoadjuvant chemoradiotherapy (n crt) remain to be clarified in locally advanced rectal cancer (larc) patients.This retrospective study investigated the prognostic value of nlr and plr in n crt responsiveness of larc patients.Methods .A total number of 86 patients diagnosed with larc and treated with n crt and total mesorectal excision were retrospectively followed from 2013 to 2016.Receiver operating characteristic (roc) curve was used to determine the cutoff values of nlr and plr, and the patients were divided into nlr elevation and nlr decrease groups, or plr elevation and plr decrease groups.The correlation between nlr and plr changes, and clinicopathological factors were analyzed.The relationship between nlr and plr changes and the curative responsiveness towards n crt were further evaluated.Results .Nlr and plr changes after n crt were significantly correlated with the distance of tumors to the anus and bmi (body mass index) ( p &lt; 0.05).The clinical remission rate of patients with nlr reduction was 72.09% (31/43), which was significantly higher than that in patients with nlr increment (22/43, 51.16%).There was no significant difference in the clinic remission rate between the patients with plr reduction and those with plr increment ( p &gt; 0.05).However, the pathological responsiveness rate was significantly higher in patients with plr reduction (21/43, 48.84%) when compared to the ones with plr increment (9/43, 20.9%) ( p = 0.036).Conclusion .Our data indicate that in larc patients with n crt, the reduction of nlr and the reduction of plr could serves as predictors for the clinic remission rate and pathological responsiveness rate, respectively.The combination of nlr and plr changes may be employed as a simple and effective prognostic parameter to predict the treatment outcome of n crt in larc.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Evaluation of M&A Risk Based on Adaptive Immune Genetic Algorithm

In order to improve the convergence and accuracy of m&amp;a risk assessment method, an m&amp;a risk assessment method based on adaptive immune genetic algorithm is proposed.The risk of m&amp;a is divided into m&amp;a preparation stage, m&amp;a implementation stage, and m&amp;a integration stage.The event tree analysis method is used to clarify the inducement of m&amp;a risk events.We optimize the traditional genetic algorithm, design adaptive immune genetic algorithm to ensure the convergence of risk assessment algorithm, select the risk assessment indicators of enterprise m&amp;a, determine the weight of the assessment indicators, and construct the quantitative model of enterprise m&amp;a risk assessment.The experimental results show that the proposed risk assessment method takes less time, has higher accuracy, and has less probability of enterprise data imbalance.

Journal: Security and Communication Networks (2022)
Publication types: Research Article;
Evaluation of Cholesterol Thickness of Blood Vessels Using Photoacoustic Technology

One of the primary indicators of plaque vulnerability is the lipid composition of atherosclerotic plaques.Therefore, the medical industry requires a method to evaluate necrotic nuclei in atherosclerosis imaging with sensitivity.In this regard, photoacoustic imaging is a plaque detection method that provides chemical information on lipids and cholesterol thickness in the arterial walls of the patient.This aspect aims to increase the low‐frequency axial resolution by developing a new photoacoustic‐based system.A photoacoustic system has been developed to detect the cholesterol thickness of the blood vessels to observe the progression of plaque in the heart’s blood vessels.The application of the coherent photoacoustic discontinuous correlation tomography technique, which is based on a novel signal processing, significantly increased the cholesterol oleate’s sensitivity to plaque necrosis.By enhancing the quality of thickness detection, the system for measuring the thickness of cholesterol in blood vessels has been reduced to approximately 23 microns.The results show that the phase spectrum peaked at 100 hz at 58.66 degrees, and at 400 hz, the phase spectrum was 46.37 degrees.The minimum amplitude is 1.95 at 100 hz and 17.67 at 400 hz.In conclusion, it can be stated that photoacoustic imaging as a method based on new technologies is of great importance in medical research, which is based on the use of nonionizing radiation to perform diagnostic processes and measure different types of body tissues.

Journal: BioMed Research International (2023)
Publication types: Research Article;
Enhanced Watershed Segmentation Algorithm-Based Modified ResNet50 Model for Brain Tumor Detection

This work delivers a novel technique to detect brain tumor with the help of enhanced watershed modeling integrated with a modified res net50 architecture.It also involves stochastic approaches to help in developing enhanced watershed modeling.Cancer diseases, primarily the brain tumor, have been exponentially raised which has alarmed researchers from academia and industry.Nowadays, researchers need to attain a more effective, accurate, and trustworthy brain tumor tissue detection and classification approach.Different from traditional machine learning methods that are just targeting to enhance classification efficiency, this work highlights the process to extract several deep features to diagnose brain tumor effectively.This paper explains the modeling of a novel technique by integrating the modified res net50 with the enhanced watershed segmentation (ews) algorithm for brain tumor classification and deep feature extraction.The proposed model uses the res net50 model with a modified layer architecture including five convolutional layers and three fully connected layers.The proposed method can retain the optimal computational efficiency with high‐dimensional deep features.This work obtains a comprised feature set by retrieving the diverse deep features from the res net50 deep learning model and feeds them as input to the classifier.The good performing capability of the proposed model is achieved by using hybrid features of res net50.The brain tumor tissue images were extracted by the suggested hybrid deep feature‐based modified res net50 model and the ews‐based modified res net50 model with a high classification accuracy of 92% and 90%, respectively.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Fundus-Vascular Responses to Color Deviation Caused by Non-Oxidative Blue Filtering

S.Short-wavelength blue light damaged retina by the oxidative stress in the retinal pigment epithelial (rpe) cells.Filtering blue light from screen could reduce blue hazard, whereas it inevitably altered color-gamut coverage and color-deviation level.Although abnormal fundus-vascular density (fvd) sometimes indicated fundus disease, few researchers noticed its responses to the variation of color-gamut coverage and color-deviation level.Methods.In this study, we performed cellular experiments and analyzed the rpe cell viabilities (cvs) in spectrums with different blue (455-475 nm) ratios to describe the corresponding oxidative-stress levels.Further, we investigated the effects of color-gamut and deviation on fvd variations during the screen-watching task using human factor experiments with 30 participants (university students, including 17 males and 13 females, 21 to 30 years old).Results.Rpe cvs were similar in different spectrums, implying that non-oxidative blue filtering hardly contributed to cv improvement.Color-deviation level seems to induce more significant effects on the visual function compared to color-gamut coverage, and mtf and fvd presents similar variation trends during the visual task.Conclusion.Oxidative-free blue filtering contributed little to decrease retinal oxidative stress yet caused color-deviation increase, which caused significant fvd reduction.

Journal: Oxidative Medicine and Cellular Longevity (2022)
Publication types: Research Article;