syedzayyan/paper_mill_benchmark huggingface dataset:
Expression of MiR-608 in Nonsmall Cell Lung Cancer and Molecular Mechanism of Apoptosis and Migration of A549 Cells

This work is aimed at exploring the effect of micro rna (mi r)‐608 on the function of nonsmall cell lung cancer (nsclc) a549 cells and related mechanisms.Methods .Blood samples of 106 nsclc patients (experimental group) as well as 124 normal people (control group) were selected for relevant investigation.Polymerase chain reaction (pcr) as well as dna sequencing was used to determine the genotyping of the mi r‐608 rs4919510 polymorphism.Mi r‐608 expression in cells was detected by real‐time pcr technology.Western blotting was used to detect changes in protein levels.Nsclc tissues as well as adjacent tissues were explored in 33 patients undergoing surgery.Results .Mi r‐608 rs4919510 does not influence the incidence of nsclc patients.In addition, mi r‐608 expression was downregulated in the tumor tissue of nsclc patients, while the transcription factor activating enhancer‐binding protein 4 (tfap4) expression was upregulated.Mi r‐608 promotes dox‐ (doxorubicin‐) induced apoptosis by negatively regulating tfap4 expression in nsclc tissue.Tfap4 can significantly inhibit the migration of a549 cells.Conclusion .The findings in this investigation can contribute to the effective treatment of nsclc patients.Also, the investigation can provide some theoretical support for the application of new targets for nsclc treatment.

Journal: BioMed Research International (2020)
Publication types: Research Article;
Expression of Long Nonencoding Ribonucleic Acid SNHG20 in Colon Cancer Tissue in Its Influences on Chemotherapeutic Sensitivity of Colon Cancer Cells

Noncoding rna (nc rna) is a kind of rna that plays a key role in a variety of biological processes, illnesses, and tumours despite the fact that it cannot be translated into proteins.The ht29 colon cancer cell line was utilized to create a 5‐fu drug‐resistant cell strain (control group), a lentivirus snhg20 carrier (oe‐snhg20 group), and an snhg20 sh rna carrier (snhg20 sh rna carrier group) (se‐snhg20 group).To determine the expression of cell snhg20, a real‐time quantitative reverse transcription‐polymerase chain reaction (rt‐q pcr) was utilized, and cholecystokinin‐octapeptide (cck‐8) was used to detect the difference in 5‐fu inhibitory concentration 50.The goal of the study was to see how variations in long nonencoding ribonucleic acid (lnc rna) snhg20 expression affect colon cancer cell 5‐fluorouracil (5‐fu) chemotherapeutic sensitivity by collecting colon cancer and normal para cancer tissues and analysing the differences in snhg20 expression.The ability of cell cladogenesis was tested using platform cladogenesis.Cell apoptosis was detected using flow cytometry.Western blots revealed the presence of protein phosphatidylinositol kinase (pi3k), protein kinase b (akt), caspase‐3, e‐cadherin, and matrix metalloproteinase 9 (mmp‐9) enzymes.The findings revealed that snhg20 expression was considerably upregulated ( p &lt; 0.05) in colon cancer tissue and 5‐fu drug‐resistant colon cancer cells.Cell 5‐fu ic50, cell cladogenesis, cell survival rate, and mmp‐9, p‐pi3k, and p‐akt expression were all significantly improved.Cell apoptosis and expressions of e‐cadherin and caspase‐3, on the other hand, were considerably decreased ( p &lt; 0.05).Cell 5‐fu ic50, cell cladogenesis, cell survival rate, and the expressions of mmp‐9, p‐pi3k, and p‐akt were all significantly lower in the se‐snhg20 group, although cell apoptosis and the expressions of e‐cadherin and caspase‐3 were significantly higher ( p &lt; 0.05).The results revealed that lnc rna snhg20 could inhibit the chemotherapeutic sensitivity of colon cancer cells to 5‐fu by regulating pi3k/akt pathways.The inhibition of lnc rna snhg20 expression could promote the apoptosis and proliferation of 5‐fu‐resistant colon cancer cells.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Expression Levels and Clinical Significance of Serum miR-497, CEA, CA24-2, and HBsAg in Patients with Colorectal Cancer

The objective of the current study was to look at the levels of blood micro ribonucleic acid‐ (mi r‐) 497, carcinoembryonic antigen (cea), carbohydrate antigen (ca) 24‐2, and hepatitis b surface antigen (hbs ag) in patients with colorectal cancer (crc), as well as the clinical importance of these markers in crc patients.The serum levels of mi r‐497, cea, ca24‐2, and hbs ag were compared between 60 patients with crc (observation group) and another 60 patients with colorectal polyps (control group).The 4 indicators in patients with lymph node metastasis and liver metastasis were compared.The diagnostic effects of 4 detection methods and the combined detection were analyzed, and the influence of 4 indicators on the 5‐year cumulative survival rate of patients was discussed.The results showed that the serum levels of mi r‐497 and hbs ag were lower, and the levels of cea and ca24‐2 were higher in the observation group ( p &lt; 0.05).The combined detection had the best diagnostic effect, and cea alone had the best prediction effect.The serum level of mi r‐497 was significantly lower in patients with lymphatic metastasis, with the significantly higher levels of cea and ca24‐2 ( p &lt; 0.05).The hbs ag level of patients with liver metastases was greatly lower than that of patients without liver metastases ( p &lt; 0.05).The 5‐year cumulative survival rate of patients with high levels of cea and ca24‐2 was significantly lower than that of patients with low level of cea.The 5‐year cumulative survival rate was lower in patients with low level of hbs ag, but the difference was small.The 5‐year cumulative survival rate of patients with elevated serum mi r‐497 was observably lower.In conclusion, combined detection could diagnose crc more accurately.Serum mi r‐497, cea, and ca24‐2 were important in the diagnosis of lymph node metastasis of crc.Hbs ag did a better job of predicting liver metastases in crc patients.High level of cea significantly reduced the cumulative survival rate of crc patients and could predict the long‐term survival rate of patients.Serum levels of mi r‐497, cea, ca24‐2, and hbs ag played a positive role in the diagnosis and evaluation of crc and could identify lymph node and liver metastases, having a high clinical guidance value.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Expression and Clinical Significance of miR-146a and Tumor Necrosis Factor Receptor-Associated Factor 6 (TRAF6) in Myasthenia Gravis Patient Serum

To investigate the expression and clinical significance of mi r‐146a and tumor necrosis factor receptor‐associated factor 6 (traf6) in myasthenia gravis (mg) patient serum.Methods .The serum of 52 patients with mg and 60 healthy individuals was collected in our hospital.The expression of mi r‐146a and traf6 in serum was measured by real‐time pcr (rt‐pcr).Comparison among serum mi r‐146a and traf6 m rna group clinical characteristics and assorted expressions was done with the correlation among the two groups evaluated.Logistics regression was used to analyze the effect of mi r‐146a and traf6 m rna on mg development with the roc curve applied for an investigation into the diagnostic role of mi r‐146a and traf6 m rna expression in mg development.Results .Mi r‐146a and traf6 m rna were significantly increased in the patients with mg compared with the healthy controls.Significant differences were identified in respiratory muscle endurance, muscle weakness level, vital capacity, and maximal voluntary ventilation between the two groups.Additionally, correlation analysis has discovered a positive correlation between mi r‐146a and traf m rna expression in patients with mg.Mi r‐146a and traf6 m rna are independent mg occurrence factors exhibited by multivariate analysis while areas under roc curve (aucs) of mi r‐146a and traf6 m rna in mg diagnosis were established by roc curve analysis with results being 0.782 and 0.703, correspondingly.Conclusion .Mi r‐146a and traf6 m rna are highly expressed in mg patients and can affect mg occurrence.Mi r‐146a is a suitable candidate marker for diagnosing mg.

Journal: BioMed Research International (2021)
Publication types: Research Article;
Experimental Study on the Correlation between miRNA-373 and HIF-1α, MMP-9, and VEGF in the Development of HIE

Introduction .Microribonucleic acids (mi rnas) have short (approximately 18 to 25) nucleotides and are evolutionarily conserved and endogenously expressed rnas belonging to a family of noncoding rna molecules.Mi rna‐373 regulates cell proliferation, migration, apoptosis, invasion, and repairing damaged dna after hypoxia stress.Neonatal hypoxic–ischemic encephalopathy (hie) refers to perinatal asphyxia caused by partial or complete hypoxia, reduced or suspended cerebral blood flow, and fetal or neonatal brain damage.We aim to investigate the relationship between mi rna‐373 and hif‐1 α , between mi rna‐373 mmp‐9, and between mi rna‐373 vegf in the occurrence and development of hie.Methods .Human (children) samples were divided into four groups ( n = 15 in each group) according to hie severity.The patient group was divided into middle, moderate, and severe hie groups.The control group included healthy children or children with nonneurological diseases.The expressions of mi rna‐373, hif‐1 α , mmp‐9, and vegf were assayed in the serum samples.Results .Our study showed a strong relationship between mi rna‐373 and hif‐1 α , between mi rna‐373 and mmp‐9, and between mi rna‐373 and vegf.The expression levels of mi rna‐373, hif‐1 α , mmp‐9, and vegf in the hie groups were much higher than those of the control group.Conclusion .The increased change in mi rna‐373 expression has a certain diagnostic significance on neonatal hie.In the occurrence and development of hie, mi rna‐373 is positively correlated with hif‐1 α , mmp‐9, and vegf.

Journal: BioMed Research International (2021)
Publication types: Research Article;
Exosome: Function and Application in Inflammatory Bone Diseases

In the skeletal system, inflammation is closely associated with many skeletal disorders, including periprosthetic osteolysis (bone loss around orthopedic implants), osteoporosis, and rheumatoid arthritis.These diseases, referred to as inflammatory bone diseases, are caused by various oxidative stress factors in the body, resulting in long‐term chronic inflammatory processes and eventually causing disturbances in bone metabolism, increased osteoclast activity, and decreased osteoblast activity, thereby leading to osteolysis.Inflammatory bone diseases caused by nonbacterial factors include inflammation‐ and bone resorption‐related processes.A growing number of studies show that exosomes play an essential role in developing and progressing inflammatory bone diseases.Mechanistically, exosomes are involved in the onset and progression of inflammatory bone disease and promote inflammatory osteolysis, but specific types of exosomes are also involved in inhibiting this process.Exosomal regulation of the nf‐ κ b signaling pathway affects macrophage polarization and regulates inflammatory responses.The inflammatory response further causes alterations in cytokine and exosome secretion.These signals regulate osteoclast differentiation through the receptor activator of the nuclear factor‐kappa b ligand pathway and affect osteoblast activity through the wnt pathway and the transcription factor runx2, thereby influencing bone metabolism.Overall, enhanced bone resorption dominates the overall mechanism, and over time, this imbalance leads to chronic osteolysis.Understanding the role of exosomes may provide new perspectives on their influence on bone metabolism in inflammatory bone diseases.At the same time, exosomes have a promising future in diagnosing and treating inflammatory bone disease due to their unique properties.

Journal: Oxidative Medicine and Cellular Longevity (2021)
Publication types: Review Article;
Evaluation of the Anticancer Potential of Morus nigra and Ocimum basilicum Mixture against Different Cancer Cell Lines: An In Vitro Evaluation

Morus nigra (m) and ocimum basilicum (o) mixture (mo2) extract was extracted using hexane (mo2h), chloroform (mo2c), ethyl acetate (mo2e), and methanol (mo2m) in a soxhlet apparatus.The cytotoxicity was evaluated using mtt (3‐[4,5‐dimethylthiazol‐2‐yl]‐2,5 diphenyl tetrazolium bromide) assay.The ic 50 values of the mo2c‐treated cancer cells were 11.31 μ g/m l (mda‐mb‐231), 15.45 μ g/m l (mcf‐7), 18.9 μ g/m l (hep g2), 26.33 μ g/m l (huh‐7), 30.17 μ g/m l (lo vo), and 36.76 μ g/m l (hct116).Mo2c‐treated cells showed cellular and nuclear morphological alterations like chromatin condensation and formation of apoptotic bodies as observed using light and fluorescent microscopy.The antioxidant and anti‐inflammatory properties were investigated in vitro using 2,2′‐diphenyl‐1‐picrylhydrazyl (dpph) and egg albumin denaturation assays.It was evident that the mo2m extract exhibited the highest antioxidant activity (18.13%), followed by the mo2e extract (12.25%), mo2c extract (9.380%), and mo2h extract (6.31%).The highest inhibition percentage of albumin denaturation was observed in mo2h (28.54%), followed by mo2m (4.32%) at 0.2 and 0.1 mg/m l concentrations, respectively.The compounds identified using gas chromatography‐mass spectrometry (gc‐ms) analysis for mo2c extract were α ‐trans‐bergamotene, germacrene d, selin‐4,7(11)‐diene, 2 tridecen‐1‐ol, and 2‐decen‐1‐ol.The present study reveals that mo2c has promising anticancer activity and may serve as a potent polyherbal extract in cancer treatment.

Journal: BioMed Research International (2023)
Publication types: Research Article;
FHAAPS: Efficient Anonymous Authentication with Privacy Preservation Scheme for Farm-to-Home Communication

With the advancement in information and communication technology (ict), secure farm-to-home communication has become an emerging concept.Food is the most basic essential commodity for the survival of human beings which is produced by farmers.However, because of the presence of intermediaries, farmers/producers do not make a sufficient profit and also the consumers have to pay more money to buy food items from these mediators.As a result, in this work, we proposed an efficient farm-to-home anonymous authentication privacy-preserving scheme in which the storehouse will buy goods from farmers and sell them to the consumers at the base rate.Moreover, in our scheme, an unprofitable trusted delivery agent assists in the transfer of food commodities between end users and storehouses to provide maximum profit for the farmers and consumers.Further, essential security parameters are provided to the end users and it provides conditional privacy to the delivery agent; i.e., if any mishap occurs, then the malicious delivery agent’s privacy is revoked to avoid further damage to the system.The performance analysis section shows that our scheme supports the transfer of food commodities with minimum computational and communication costs.

Journal: Security and Communication Networks (2023)
Publication types: Research Article;
Genomic and Therapeutic Analyses of Staphylococcus aureus Isolated from Cattle Reproductive Tract

Staphylococcus aureus is emerging as a ubiquitous multidrug‐resistant pathogen circulating among animals, humans, and their environment.The current study focused on molecular epidemiology and evidence‐based treatment against s.Aureus from bovine endometritis.For this study, n = 304 cattle were screened for endometritis using ultrasonography while presenting case history, and clinical signs were also considered.S.Aureus was isolated from endometritis‐positive uterine samples which were further put to molecular identification, phylogenetic analysis, susceptibility to antibiotics, and testing of novel drug combinations in both in vitro and field trials.The findings of the study revealed 78.20% of bovine endometritis samples positive for s.Aureus , while nuc gene‐based genotyping of s.Aureus thermal nuclease (sa‐1, sa‐2, and sa‐3) showed close relatedness with s.Aureus thermal nuclease of bos taurus .Drug combinations showed 5.00 to 188.88% rise in zones of inhibitions (zoi) for drugs used in combination compared to the drugs used alone.Gentamicin in combination with amoxicillin and enrofloxacin with metronidazol showed synergistic interactions in an in vitro trial.Co‐amoxiclav with gentamicin, gentamicin with enrofloxacin, and metronidazole with enrofloxacin showed 100%, 80%, and 60% efficacy in treating clinical cases in field trials, respectively.As a result, the study came to the conclusion the higher prevalence of endometritis‐based s.Aureus , genetic host shifts, narrow options for single drugs, and need for novel drug combinations to treat clinical cases.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Gut Microbiota Profiles in Dairy Cattle from Highland and Coastal Regions Using Shotgun Metagenomic Approach

There is significant difference in milk production of highland and coastal regions in indonesia of which the latter is critically low.The recent studies indicate a possibility of improving the milk yield and quality by manipulating the gut microbiota, for which profiling and abundance of gut microbiota in these divergent regions need to be addressed.The present study was the first of its kind to explore the dairy cattle gut microbiota diversity, abundance, and functional annotation of the two divergent indonesian regions, the highland and coastal regions, by shotgun metagenomic approach.Unfavorable environmental conditions such as type of forage grass in coastal regions and high temperature remain a limiting factor; however, the improvement through manipulating the gut microbiota was not considered until recently to improve the quality and quantity of coastal region dairy cattle.The application of recent advance technologies can help achieve this goal on sustainable basis.The results show bacteroidetes in higher abundance in coastal region (fpp) than in highland (salatiga) while firmicutes were higher in salatiga.Furthermore, a collective physiology of the community was found by annotating the sequences against kegg, egg nog, and cazy databases.To identify the role in pathways, an m path analysis was performed to have insight into the microbiota community in different metabolic pathways.The identified targets can be used as prebiotic and/or probiotic to improve the average milk yield of coastal region dairy cattle by manipulating the dairy feed with desired microbes.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Investigating the Lung Adenocarcinoma Stem Cell Biomarker Expressions Using Machine Learning Approaches

The objective of the study is to look at the activation of stem cell‐related markers in lung adenocarcinoma.Utilizing an unsupervised machine learning approach centered on the m rna expression of pluripotent stem cells as well as its subsequent developed progeny, the m rna stemness index of further around 500 luad patients from the cancer genome atlas dataset was generated.In luads, m rnasi had first been investigated using differential variations, survivability analyses, medical phases, and sexuality.A computational approach is used for identifying cell clusters utilizing fuzzy clustering.There at transcriptional as well as protein stages, the interactions between the genetic markers were investigated.The functionality and processes of the important genes were annotated using expression values.The degree of gene expression related to the clinical symptoms and the likelihood of surviving have also been confirmed.In cancer patients, the m rnasi genes were highly elevated.In particular, the m rnasi score rises with advanced trials and varies markedly by sexuality.Within several years, reduced m rnasi categories will have superior overall survivability in large luads.Individuals with chronic luad had greater m rnasi and had reduced average survivability.The important genes and the distinguished categories have been chosen based on their m rnasi connections.Some of the major genes related to cell proliferating gene ontology concepts were found enriched out from the cell cycle kyoto encyclopedia of genes and genomes (kegg) process.Specific genes were found to be linked to csc features.Their activation grew in lockstep with the progression of luad’s pathology, so these markers appeared amplified in pan‐cancers.These important markers were discovered to have substantial connections as a group, suggesting that they could be exploited as drug applications in the therapy of luad by suppressing stemness traits.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Handgrip Strength-Related Factors Affecting Health Outcomes in Young Adults: Association with Cardiorespiratory Fitness

S .Handgrip strength (hs) is a risk factor of all‐cause mortality and cardiovascular diseases.However, the influencing factors and mechanisms contributing to this correlation remain unclear.Therefore, we aimed to explore factors related to hs and investigated the mechanism underlying its risk predictive value.Methods .This was a prospective, cross‐sectional study.One hundred forty‐five participants were recruited from december 2019 to november 2020.Hs was measured using a hydraulic hand dynamometer and adjusted for body mass index (hs bmi ) and body surface area (hs bsa ).Body composition was assessed via bioimpedance spectroscopy.Physical fitness was measured using a cardiopulmonary exercise test system.Univariate, multiple linear regression analyses and receiver operator characteristic curve (roc) were conducted to evaluate the associations between various participant characteristics and hs.Results .The average participant age was 21.68 ± 2.61 years (42.8% were male).We found positive correlations between hs bmi /hs bsa and vo 2max , ve max , load max , and met max in both sexes ( p &lt; 0.05).Lean‐tissue, protein, total water, and inorganic salt percentages were positively correlated, and fat percentage was negatively correlated with hs bmi in men and with hs bmi and hs bsa in women ( p &lt; 0.05).Multiple regression revealed that vo 2max was independently associated with hs bsa in both sexes ( β = 0.215, 0.173; 95 % confidence interval [ci] = 0.032 − 0.398, 0.026‐0.321; p = 0.022, 0.022, respectively) and independently associated with hs bmi in women ( β = 0.016, 95 % ci = 0.004 − 0.029, p = 0.011).Roc analysis showed that hs bmi and hs bsa can moderately identify normal vo 2max in men (area under curve [auc] = 0.754, 0.769; p = 0.002, 0.001, respectively) and marginally identify normal vo 2max in women (auc = 0.643, 0.635; p = 0.029, 0.042, respectively).Conclusions .Bmi‐ and bsa‐adjusted hs could serve as indicators of physical health, and hs bsa may moderately reflect cardiorespiratory fitness levels in healthy young adults, particularly in males.Clinical trials registry site and number: china clinical trial center ( chi ctr1900028228 ).

Journal: BioMed Research International (2021)
Publication types: Research Article;