syedzayyan/paper_mill_benchmark huggingface dataset:
Bioinformatics Analysis Identified Key Molecular Changes in Bladder Cancer Development and Recurrence.

And objectives: bladder cancer (bc) is a complex tumor associated with high recurrence and mortality.To discover key molecular changes in bc, we analyzed next-generation sequencing data of bc and surrounding tissue samples from clinical specimens.methods.Gene expression profiling datasets of bladder cancer were analyzed online.The database for annotation, visualization, and integrated discovery (david, was used to perform gene ontology (go) functional and kegg pathway enrichment analyses.Molecular complex detection (mcode) in cytoscape software (cytoscape_v3.6.1) was applied to identify hub genes.Protein expression and survival data were downloaded from onco lnc ( gene expression data were obtained from the oncomine website ( we identified 4211 differentially expressed genes (degs) by analysis of surrounding tissue vs.Cancer tissue (sc analysis) and 410 degs by analysis of cancer tissue vs.Recurrent tissue cluster (cr analysis).Go function analysis revealed enrichment of degs in genes related to the cytoplasm and nucleoplasm for both clusters, and kegg pathway analysis showed enrichment of degs in the pi3k-akt signaling pathway.We defined the 20 genes with the highest degree of connectivity as the hub genes.Cox regression revealed ccnb1, espl1, cenpm, blm, and aspm were related to overall survival.The expression levels of ccnb1, espl1, cenpm, blm, and aspm were 4.795-, 5.028-, 8.691-, 2.083-, and 3.725-fold higher in bc than the levels in normal tissues, respectively.conclusions.The results suggested that the functions of ccnb1, espl1, cenpm, blm, and aspm may contribute to bc development and the functions of ccnb1, espl1, cenpm, and blm may also contribute to bc recurrence.

Journal: BioMed research international (2019)
Publication types: Journal Article
Safety assessment of the process Poly Recycling, based on the EREMA Basic technology, used to recycle post-consumer PET into food contact materials.

The efsa panel on food contact materials, enzymes and processing aids (cep) assessed the safety of the recycling process poly recycling (eu register number recyc267), which uses the erema basic technology.The input material is hot ■■■■■ washed and dried poly(ethylene terephthalate) (pet) flakes originating from collected post-consumer pet containers, including no more than 5% pet from non-food consumer applications.The flakes are heated in a ■■■■■ reactor ■■■■■ before being extruded.Having examined the challenge test provided, the panel concluded that the ■■■■■ ■■■■■ (step ■■■■■, for which a challenge test was provided) is critical in determining the decontamination efficiency of the process.The operating parameters to control the performance of this step are temperature, pressure and residence time.It was demonstrated that this recycling process is able to ensure a level of migration of potential unknown contaminants into food below the conservatively modelled migration of 0.1 μg/kg food, derived from the exposure scenario for infants when such recycled pet is used at up to 100%.Therefore, the panel concluded that the recycled pet obtained from this process is not of safety concern when used at up to 100% for the manufacture of materials and articles for contact with all types of foodstuffs, including drinking water, for long-term storage at room temperature.Articles made of this recycled pet are not intended to be used in microwave or conventional ovens and such uses are not covered by this evaluation.

Journal: EFSA journal. European Food Safety Authority (2022)
Publication types: Journal Article
Rough Surface Characterization Parameter Set and Redundant Parameter Set for Surface Modeling and Performance Research.

Among the 26 roughness parameters described in iso 25178 standard, the parameters used to characterize surface performance in characterization parameter set (cps) lack scientificity and unity, resulting in application confusion.The current cpscomes from empirical selection or small sample experiments, thus featuring low generality.A new method for constructing cpsin rough surfaces is proposed to solve the above issues.Based on a data mining method, statistical theory, and roughness parameters definitions, the 26 roughness parameters are divided into cpsand redundant parameter sets (rps) with the help of reconstructed surfaces and machining experiments, and the mapping relationships between cpsand rpsare established.The research shows that rpsaccounts for 50%, and cps, of great significance for surface performance, and has the ability to fully cover surface topography information.The birth of cpsprovides an accurate parameter set for the subsequent study of different surface performance, and it provides more effective parameters for evaluating the workpiece surface performance from the same batch.

Journal: Materials (Basel, Switzerland) (2022)
Publication types: Journal Article
Central nervous system monoamine metabolite response to alcohol exposure is associated with future alcohol intake in a nonhuman primate model (Macaca mulatta).

It is widely held that the central monoamine neurotransmitters modulate alcohol intake.Few studies, however, directly assess the relationship between baseline and alcohol-induced monoamine turnover, as well as the change from baseline, as predictors of alcohol intake.Using a nonhuman primate model, this study investigates baseline, alcohol-induced and alcohol-induced change in monoamine activity and their relationship with alcohol intake.Alcohol-naïve, adolescent rhesus macaques (macaca mulatta, n = 114) were administered a standardized intravenous bolus of alcohol solution (16.8%, v/v) on two occasions, approximately 1 month apart.One month prior to and 1 h following each alcohol infusion, cisternal cerebrospinal fluid (csf) was obtained and assayed for monoamine metabolite concentrations.Approximately 6-7 months later, subjects were allowed unfettered access to an aspartame-sweetened alcohol solution (8.4%, v/v) for 1 h/day, 5 days/week, over 5-7 weeks.Results showed strong positive correlations between baseline and post-infusion csf monoamine metabolite concentrations, indicating a trait-like response.Low baseline and post-infusion serotonin and dopamine metabolite concentrations and a smaller change in serotonin and dopamine metabolites from one infusion to the next were associated with higher alcohol intake.Low baseline and post-infusion norepinephrine metabolite concentrations predicted high alcohol intake, but unlike the other monoamines, a greater change in norepinephrine metabolite concentrations from one infusion to the next was associated with higher alcohol intake.These findings suggest that individual differences in naturally occurring and alcohol-induced monoamine activity, as well as the change between exposures, are important modulators of initial alcohol consumption and may play a role in the risk for excessive alcohol intake.

Journal: Addiction biology (2022)
Publication types: Journal Article;Research Support, N.I.H., Extramural;Research Support, Non-U.S. Gov't
Perioperative Oral β-Hydroxy-β-Methylbutyrate Supplementation Ameliorates Sarcopenia in Rats Undergoing Major Hepatectomy.

Β-hydroxy-β-methylbutyrate (hmb), a metabolite of leucine, is known to increase muscle mass and strength.However, the effect of perioperative hmb supplementation in liver surgery is unclear.Moreover, the impact of hmb on the skeletal muscle fiber type also remains unclear.We investigated the impact of hmb on the body composition and skeletal muscle fiber type in sarcopenic rats undergoing major hepatectomy.Nine-week-old male f344/nslc rats were maintained in hindlimb suspension (hls) and were forcedly supplemented with hmb calcium salt (hmb-ca, 0.58 g/kg×2 times) or distilled water in addition to free feeding.After 2 wk of hls, the rats underwent 70% hepatectomy and were sacrificed 3 d after surgery.Body composition factors and the proportion of slow-twitch fibers in hindlimb muscles were evaluated.Hmb maintained the body composition and hindlimb force and acted against their deterioration in sarcopenic rats, exerting a particular effect on lean mass weight, which was significant.In the histological study, hmb significantly increased the proportion of slow-twitch fibers in the soleus (p=0.044) and plantaris (p=0.001) of sarcopenic rats.Hmb ameliorated deterioration of the body composition and increased the proportion of slow-twitch fibers in sarcopenic rats undergoing major hepatectomy.

Journal: Journal of nutritional science and vitaminology (2022)
Publication types: Journal Article
Effectiveness of shared decision-making intervention in patients with lumbar degenerative diseases: A randomized controlled trial.

To evaluate the efficacy of shared decision-making (sdm) intervention among patients with lumbar degenerative diseases (ldds) in terms of decision self-efficacy, control preferences, sdm process, decision satisfaction, and conflict.Methods a total of 130 outpatients with ldds recruited from orthopedic or rehabilitation clinics were randomly assigned to the sdm intervention (n = 67) or comparison (n = 63) groups.Patients in the intervention group received decision aids (das) with decision coaching and those in controlled group received standard educational materials from a health educator.The primary outcome was decision self-efficacy, and secondary outcomes were control preference, sdm process, conflict, and satisfaction.Results the sdm intervention significantly improved decision self-efficacy (mean difference [md] = 7.1, 95% confidence interval [ci]: 1.7-12.5, partial η2= 0.05) and reduced conflict (md = -7.0, 95% ci: -12.2 to -1.9, partial η2= 0.06), especially in patients without family involvement, compared with the health education group.However, no significant between-group differences were observed in other outcomes.Conclusion sdm intervention improved sdm self-efficacy and reduced conflict in patients with ldds.Practice implications clinicians can integrate das and decision coaching in sdm conversations.Sdm intervention seems to engage patients in decision-making, especially those without family involvement.

Journal: Patient education and counseling (2021)
Publication types: Journal Article;Randomized Controlled Trial;Research Support, Non-U.S. Gov't
In Situ Growth of Silver Nanoparticles on Chitosan Matrix for the Synthesis of Hybrid Electrospun Fibers: Analysis of Microstructural and Mechanical Properties.

A viable alternative for the next generation of wound dressings is the preparation of electrospun fibers from biodegradable polymers in combination with inorganic nanoparticles.A poly(vinyl alcohol)-chitosan-silver nanoparticles (pva-cts-ag nps) system has been developed for antimicrobial and wound healing applications.Here, the preparation of pva-cts-ag electrospun fibers using a two-step process is reported in order to analyze changes in the microstructural, mechanical, and antibacterial properties and confirm their potential application in the biomedical field.The ag nanoparticles were well-dispersed into the chitosan matrix and their cubic structure after the electrospinning process was also retained.The ag nps displayed an average diameter of ~33 nm into the cts matrix, while the size increased up to 213 nm in the pva-cts-ag(nps) fibers.It was observed that strong chemical interactions exist between organic (cts) and inorganic phases through nitrogenous groups and the oxygen of the glycosidic bonds.A defect-free morphology was obtained in the pva-cts-ag nps final fibers with an important enhancement of the mechanical properties as well as of the antibacterial activity compared with pure pva-cts electrospun fibers.The results of antibacterial activity against e.Coliand s.Aureusconfirmed that pva-cts-ag(nps) fibers can be potentially used as a material for biomedical applications.

Journal: Polymers (2022)
Publication types: Journal Article
The CH···HC interaction in biphenyl is a delocalized, molecular-wide and entirely non-classical interaction: Results from FALDI analysis.

In this study we aim to determine the origin of the electron density describing a ch···hc interaction in planar and twisted conformers of biphenyl.In order to achieve this, the fragment, atomic, localized, delocalized, intra- and inter-atomic (faldi) decomposition scheme was utilized to decompose the density in the inter-nuclear region between the ortho-hydrogens in both conformers.Importantly, the structural integrity, hence also topological properties, were fully preserved as no 'artificial' partitioning of molecules was implemented.Faldi-based qualitative and quantitative analysis revealed that the majority of electron density arises from two, non-classical and non-local effects: strong overlap of ortho ch σ-bonds, and long-range electron delocalization between the phenyl rings and ortho carbons and hydrogens.These effects resulted in a delocalized electron channel, that is, a density bridge or a bond path in a qtaim terminology, linking the h-atoms in the planar conformer.The same effects and phenomena are present in both conformers of biphenyl.We show that the ch···hc interaction is a molecular-wide event due to large and long-range electron delocalization, and caution against approaches that investigate ch···hc interactions without fully taking into account the remainder of the molecule.

Journal: Journal of computational chemistry (2021)
Publication types: Journal Article
Factors associated with remission at 5-year follow-up in recent-onset axial spondyloarthritis: results from the DESIR cohort.

The factors contributing to long-term remission in axial sp a (ax sp a) are unclear.We aimed to characterize individuals with ax sp a at the 5-year follow-up to identify baseline factors associated with remission.Methods we included all patients from the desir cohort (with recent-onset ax sp a) with an available ankylosing spondylitis disease activity score-crp (asdas-crp) at 5-year follow-up.Patients in remission (asdas-crp < 1.3) were compared with those with active disease by demographic, clinical, biological and imaging characteristics.A logistic model stratified on tnf inhibitor (tnfi) exposure was used.Results overall, 111/449 patients (25%) were in remission after 5 years.Among those never exposed to tnfi, 31% (77/247) were in remission compared with 17% (34/202) of those exposed to tnfi.Patients in remission after 5 years were more likely to be male, hla-b27+, have a lower bmi, and a higher education level.Baseline factors associated with 5-year remission in patients never exposed to tnfi included lower basdai [adjusted odds ratio (ora) 0.9, 95% ci: 0.8, 0.9) and history of peripheral arthritis (ora 2.1, 95% ci: 1.2, 5.3).In those exposed to tnfi, remission was associated with higher education level (ora 2.9, 95% ci: 1.6, 5.1), lower enthesitis index (ora 0.8, 95% ci: 0.7, 0.9), lower basdai (ora 0.9, 95% ci: 0.9, 0.9) and lower bmi (ora 0.8, 95% ci: 0.7, 0.9).Conclusion this study highlights the difficulty in achieving 5-year remission in those with recent-onset ax sp a, especially for the more active cases, despite the use of tnfi.Socio-economic factors and bmi are implicated in the outcome at 5 years.

Journal: Rheumatology (Oxford, England) (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Seasonal Activity, Spatial Distribution, and Physiological Limits of Subterranean Termites (ReticulitermesSpecies) in an East Texas Forest.

One of the major goals of ecology is to understand how co-habiting species partition limited resources.In the eastern u.s., at least three species of reticulitermessubterranean termites often occur in sympatry; however, little is known about how these species divide food resources.In this study, we characterized the foraging activity of reticulitermes flavipes(kollar),r.Hageni banks, and r.Virginicus(banks) across seasons to assess the impact of environmental conditions on resource partitioning.A field site consisting of two grids of wooden monitors was sampled monthly for 28 months.Foraging activity in all three species was correlated with the interaction of temperature and moisture.This correlation was influenced by temperature and moisture approximately equally in r.Flavipes, whereas temperature contributed more to the correlation in r.Hageni, and moisture contributed more in r.Virginicus.These differences caused each species to preferentially forage during specific environmental conditions:r.Flavipescontinued foraging after high moisture events,r.Hageniincreased foraging under higher soil moisture, and r.Virginicusincreased foraging under lower soil temperatures.We attempted to explain these patterns by the species' physiological limits; however, we found no differences in upper lethal limit, desiccation, or submersion limits across species.These results add to the overall understanding of resource partitioning by emphasizing the ability of multiple species to utilize the same resource under different environmental conditions and raise questions regarding the physiological and/or behavioral mechanisms involved.

Journal: Insects (2021)
Publication types: Journal Article
Study on Simulation and Experiment of Cu, C-Doped Ag/Ni Contact Materials.

Ag/ni contact material with greenery and good performance is a cadmium-free silver-based contact material that has been vigorously developed in recent years.However, ag/ni contact material has poor welding resistance.Based on the first principles of density functional theory, the interface model of cu, c-doped ag/ni was established.The work of separation and interfacial energy of interface models showed that doping can improve the interfacial bonding strength and interfacial stability, with c-doped ag/ni having the strongest stability and interfacial bonding strength.It can be seen from the population and density of state that covalent bonds exist between ag and ni atoms of the ag/ni phase interface at the electronic structure level.Finally, the doped ag/ni contact material was prepared by the powder metallurgy method.Through the arc energy and welding force in the electrical contact experiment, it was obtained that the welding resistance of c-doped ag/ni was better than cu-doped ag/ni contact material, which verified the correctness of the simulation results.Overall, the present study provides a theoretical method for the screening of doping elements to improve the performance of ag/ni contact material.

Journal: Materials (Basel, Switzerland) (2022)
Publication types: Journal Article
FCRL1 Regulates B Cell Receptor-Induced ERK Activation through GRB2.

Regulation of bcr signaling has important consequences for generating effective ab responses to pathogens and preventing production of autoreactive b cells during development.Currently defined functions of fc receptor-like (fcrl) 1 include positive regulation of bcr-induced calcium flux, proliferation, and ab production; however, the mechanistic basis of fcrl1 signaling and its contributions to b cell development remain undefined.Molecular characterization of fcrl1 signaling shows phosphotyrosine-dependent associations with grb2, grap, ship-1, and sos1, all of which can profoundly influence mapk signaling.In contrast with previous characterizations of fcrl1 as a strictly activating receptor, we discover a role for fcrl1 in suppressing erk activation under homeostatic and bcr-stimulated conditions in a grb2-dependent manner.Our analysis of b cells in fcrl1-/-mice shows that erk suppression by fcrl1 is associated with a restriction in the number of cells surviving splenic maturation in vivo.The capacity of fcrl1 to modulate erk activation presents a potential for fcrl1 to be a regulator of peripheral b cell tolerance, homeostasis, and activation.

Journal: Journal of immunology (Baltimore, Md. : 1950) (2021)
Publication types: Journal Article;Research Support, N.I.H., Extramural;Research Support, Non-U.S. Gov't;Research Support, U.S. Gov't, Non-P.H.S.
5-hydroxymethyl-2-furaldehyde purified from Japanese pear (Pyrus pyrifoliaNakai cv. Nijisseiki) juice concentrate inhibits melanogenesis in B16 mouse melanoma cells.

Pear juice concentrate prepared by boiling japanese pear (pyrus pyrifolia nakai cv.Nijisseiki) juice can significantly inhibit the activity of tyrosinase, a key enzyme in melanin synthesis in human skin.Using the ethanol extract of pear juice concentrate, we homogeneously purified an active compound that was identified as 5-hydroxymethyl-2-furaldehyde (5-hmf) through1h- and13c-nmr and mass spectroscopy.We observed that 5-hmf inhibited the monophenolase and diphenolase activities of mushroom tyrosinase as a mixed-type inhibitor (kivalues of 3.81 and 3.70 mmol/l, respectively).In b16 mouse melanoma cells, treatment with 170 μmol/l of 5-hmf significantly reduced α-melanocyte-stimulated melanin synthesis by suppressing the cyclic adenosine monophosphate-dependent signaling pathway involved in melanogenesis.The results of our study indicated that 5-hmf can be potentially used as a skin-lightening agent in the cosmetic industry.abbreviations:ac: adenylate cyclase; creb: c amp response element-binding protein; dh fame: s-(-)-10,11-dihydroxyfarnesoic acid methyl ester; dmem: dulbecco's modified eagle medium; l-dopa: 3-(3,4-dihydroxyphenyl)- l-alanine; gapdh: glyceraldehyde-3-phosphate dehydrogenase; hepes: 4-(2-hydroxyethyl)-1-piperazine ethane sulfonic acid; 5-hmf: 5-hydroxymethyl-2-furaldehyde; mitf: microphthalmia-associated transcription factor; α-msh: α-melanocyte-stimulating hormone; pka: protein kinase a; pvdf: polyvinylidene difluoride; sds: sodium dodecyl sulfate; trp1: tyrosinase-related protein 1; trp2: tyrosinase-related protein 2.

Journal: Bioscience, biotechnology, and biochemistry (2020)
Publication types: Journal Article
Predictors and Motivation of Preceptors' Interest in Precepting of Pharmacy Interns-Do We Have a Useful Questionnaire?

To determine the potential value of an adapted questionnaire to discover the predictors of preceptors' higher interest in precepting pharmacy interns and to evaluate preceptors' motivational factors and incentives for teaching as well as their professional satisfaction.Method a link to the survey study of adapted questionnaire (jsamppp) was e-mailed to all pharmacists registered with the pharmaceutical chamber of the republic of srpska.Pharmacists' demographic and work experience characteristics, their attitudes related to motivation for precepting, value of incentives for precepting, job satisfaction, and influence of interns on pharmacists' professional practice were obtained.Results half of the preceptors who reported feeling satisfied with their professional life also showed interest in teaching.In addition, teaching pharmacy students positively contributed to the overall job satisfaction of the preceptors.Pharmacy preceptors were found to be most motivated by intrinsic factors.The most valued incentives reported were those related to continuing education.Conclusions the adapted questionnaire has potential value and it revealed the following predictors of preceptors' higher interest in precepting: enjoyment of teaching, satisfaction with professional life, satisfaction as a pharmacy preceptor, and interns' influence on preceptors.These identified predictors can be emphasized to improve pharmacy students' internship experiences, thereby reinforcing the pharmacy profession.

Journal: The Journal of continuing education in the health professions (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't