syedzayyan/paper_mill_benchmark huggingface dataset:
Simultaneous Estimation of Gender Male and Atrial Fibrillation as Risk Factors for Adverse Outcomes Following Transcatheter Aortic Valve Implantation.

Accurate outcome prediction following transcatheter aortic valve implantation (tavi) has gained further importance along with expanding its indication to patients with a lower surgical risk.Although previous studies have evaluated the prognostic impacts of gender and atrial fibrillation (af) in tavi patients, these two factors have rarely been addressed simultaneously.This retrospective observational study based on a multicenter tavi registry involved 1088 patients who underwent tavi between may, 2010 and february, 2020 at 3 hospitals in japan.Participants were divided into 4 groups by gender and pre-existing af, such as female af(-) (n= 559), male af(-) (n= 266), female af(+) (n= 187) and male af(+) (n= 76).Primary and secondary endpoints were death due to any and cardiovascular cause, and the composite of all-cause death and heart failure hospitalization, respectively.The median follow-up period was 538 days.Cumulative incidences of primary and secondary endpoints were lower in the female af(-) group compared to the other 3 groups.Adjusted multivariate cox proportional hazard analyses showed an independent association of either or both of male gender and af with adverse outcomes, when compared to the group with none of these (hazard ratios and 95% confidence intervals vs.Female af(-) (reference) for all-cause death of male af(-): 2.7, 1.6-4.6,p< 0.001, female af(+): 3.5, 2.1-6.0,p< 0.001, and male af(+): 3.9, 1.9-7.8,p< 0.001), while there was no evidence of their synergistic prognostic impact.Male gender and being complicated by af independently, but not synergistically, predicted poor long-term outcomes in patients undergoing tavi.

Journal: Journal of clinical medicine (2020)
Publication types: Journal Article
Rhenium(I) derivatives of aminoquinoline and imidazolopiperidine-based ligands: Synthesis, in vitro and in silico biological evaluation against Plasmodium falciparum.

A small library of aminoquinoline and imidazolopiperidine (imp)-based ligands, containing the 1,2,3-triazole moiety, and their corresponding tricarbonyl rhenium complexes were synthesised and their inhibitory activities evaluated against the chloroquine-sensitive (cqs) and multidrug-resistant (mdr) strains (nf54 and k1, respectively) of p.Falciparum.The quinoline-based compounds (l1, l2, re l1, and re l2) were at least six-fold more potent than their imp-based counterparts (l3, l4, re l3, and re l4) against both strains of p.Falciparum, with the most promising compound (l1) displaying activity comparable to chloroquine diphosphate (cqdp) in the mdr strain.Additionally, all of the synthesised compounds have resistance indices less than cqdp.To gain insight into a possible mechanism of action, in silico hemozoin docking simulations were performed.These studies proposed that the tested compounds may act via hemozoin inhibition, as the new aminoquinoline-derivatives, with the exception of complex re l2 (binding affinity: -12.62 kcal/mol), showed higher binding affinities than the reference drug chloroquine (cq, -13.56 kcal/mol).Furthermore, the ligands exhibited superior binding affinity relative to their corresponding re(i) complexes, which is reflected in their antiplasmodial activity.

Journal: Journal of inorganic biochemistry (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Viability of Lactobacillus rhamnosus GG microencapsulated in alginate/chitosan hydrogel particles during storage and simulated gastrointestinal digestion: role of chitosan molecular weight.

Sodium alginate hydrogel particles coated with cationic biopolymers have been shown to be one of the promising means for probiotic encapsulation and protection.In this study, we aimed to systematically explore the effect of molecular weight of chitosan coating on the functional performance of sodium alginate hydrogel particles for improving the viability of lactobacillus rhamnosus gg (lgg).We first electrostatically deposited three different molecular weights of chitosan coatings, i.e., chitosan oligosaccharide (cos), low molecular weight chitosan (lmw-chitosan) and medium molecular weight chitosan (mmw-chitosan) on sodium alginate hydrogel particles.Both sem and ftir results indicated that chitosan was successfully deposited onto the surface of the hydrogel particles.We then evaluated the effect of chitosan mw on the viability of lgg encapsulated in the hydrogels during long-term storage and simulated gastrointestinal digestion.Among them, the hydrogel particles coated with cos prevented the viability loss of llg during long-term storage at different temperatures (4, 25 and 37 °c).However, we did not find any improvement in the viability of the encapsulated lgg by all three chitosan coatings during simulated digestion.

Journal: Soft matter (2020)
Publication types: Journal Article
Geriatric nutritional risk index as a prognostic factor in patients with recurrent pancreatic cancer.

The aim of this study is to investigate the prognostic significance of geriatric nutritional risk index (gnri) at the time of recurrence in patients with recurrent pancreatic cancer, and the relationship between gnri and skeletal muscle mass for survival outcomes after recurrence.This study enrolled 77 patients who developed postoperative recurrence.The skeletal muscle mass index (smi) was used in this study.The patients were divided into a high-gnri group (n = 36) and a low-gnri group (n = 41) for the gnri, and were divided into a high-smi group (n = 38) and a low-smi group (n = 39) for smi.The 2-year post-recurrence overall survival of patients in the high-gnri group was significantly longer than that of patients in the low-gnri group (p = 0.001).No significant difference for the 2-year post-recurrence os curves between the high-smi group and the low-smi group was observed (p = 0.125).Upon stratifying the patients with high gnri or low gnri according to smi, there was no significant difference in the 2-year post-recurrence os curves between the patients with both high gnri and high smi and the patients with high gnri and low smi (p = 0.399).Similarly, there was no significant difference in the 2-year post-recurrence os curves between the patients with low gnri and high smi and the patients with both low gnri and low smi (p = 0.256).Multivariate analysis revealed that the gnri at the time of recurrence was an independent prognostic risk factor in patients with recurrent pancreatic cancer (p = 0.019).The gnri at the time of recurrence is useful for predicting the prognosis in patients with recurrence pancreatic cancer.Skeletal muscle mass at the time of recurrence is not contributed to predict post-recurrence survival of patients with recurrent pancreatic cancer.

Journal: PloS one (2022)
Publication types: Journal Article
Ethynylation of Formaldehyde over Binary Cu-Based Catalysts: Study on Synergistic Effect between Cu+Species and Acid/Base Sites.

Most studies on the cu-based catalysts in the ethynylation of formaldehyde are merely focused on the tuning of electronic configuration and dispersion of the cu+species.So far, little attention has been paid to the synergy between cu species and promoters.Herein, binary nano-cu o-moxcatalysts (m = si, al, and mg) were synthesized and the effects of the promoter on the surface basicity/acidity were systematically studied as well as the ethynylation performance of the nano-cu o-based catalysts.The results show that the introduction of mg o provided a large number of basic sites, which could coordinate with the active cu+species and facilitate the dissociation of acetylene as hc ≡ cδ-and hδ+.The strongly nucleophilic acetylenic carbon (hc≡cδ-) is favorable to the attack at the electropositive carbonyl cδ+of formaldehyde.The mg o-promoted cu o catalyst showed the highest yield of bd (94%) and the highest stability (the bd yield decreased only from 94% to 82% after eight reaction cycles).Si o2effectively dispersed cu species, which improved catalytic activity and stability.However, the introduction of al2o3resulted in a large number of acidic sites on the catalyst's surface.This led to the polymerization of acetylene, which covered the active sites and decreased the catalyst's activity.

Journal: Nanomaterials (Basel, Switzerland) (2019)
Publication types: Journal Article
The impact of a health systems strengthening initiative on child morbidity: The case of the Ghana Essential Health Interventions Program in rural northern Ghana.

Improving child and maternal health remains a core objective of global health priorities, extending from the millennium development goal (mdg) era to the current focus on the sustainable development goals (sgds).This paper analyses the childhood morbidity effects of the ghana essential heath interventions program (gehip), a community-based health systems strengthening in rural northern ghana.Gehip was a five-year embedded implementation science plausibility trial that implemented a set of health systems strengthening strategies and tested the proposition that their combined effect at the district, subdistrict and community levels could foster effective community engagement and thereby improve maternal and child health outcomes.Methods a two stage random sample survey of reproductive-aged women residing in treatment and comparison districts at the gehip baseline and end line was used for heckman difference-in-differences (di d) regression models for estimating the incremental effect of gehip exposure on three child morbidity conditions (diarrhea, fever and cough), as recalled by maternal respondents in the course of survey interviews.Results after controlling for child age and gender, maternal age, education, marital status, health insurance status, religion, ethnicity, occupation and household wealth index, regression results show that gehip had a statistically significant 45% reduction in fever (or = 0.55, ci = 0.31-0.98) and 47% reduction in cough (or = 0.53, ci = 0.30-0.94), over and above temporal reductions that prevailed in study districts.Although not significant, gehip also had 38% reduction in the incidence of diarrhea.Conclusion previous research has shown that gehip had a pronounced positive effect with a reduction in mortality.Our results show that household location in gehip districts also led to a significant reduction in morbidity due to cough and fever among under-five children.This association is a likely outcome of gehip's impact on the accessibility of primary health care services.Results lend further support to the growing body of evidence that strengthening health systems in rural africa through the provision of community-based strategies enhances prospects for achieving the united nations child health sdgs.

Journal: PloS one (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Plea for a Simple But Radical Change in Scientific Publication: To Improve Openness, Reliability, and Reproducibility, Let's Deposit and Validate Our Results before Writing Articles.

Limited reproducibility and validity are major sources of concern in biology and other fields of science.Their origins have been extensively described and include material variability, incomplete materials and methods report, results selection, defective experimental design, lack of power, inappropriate statistics, overinterpretation, and reluctance to publish negative results.Promoting complete and accurate communication of positive and negative results is a major objective.Multiple steps in this direction are taken, but they are not sufficient and the general construction of articles has not been questioned.I propose here a simple change with a potentially strong positive impact.First, when they complete a substantial coherent set of experiments, scientists deposit their positive or negative results in a database ["deposited results," (drs)], including detailed materials, methods, raw data, analysis, and processed results.The drs are technically reviewed and validated as "validated drs" (v drs) or rejected until satisfactory.V dr databases are open (after an embargo period if requested by the authors) and can later be updated by them or others with replications or replication failures, providing a comprehensive active log of scientific data.Articles, in this proposal, are then built as they currently are, except they only include v drs as strong and open building blocks.I argue that this approach would increase the transparency, reproducibility, and reliability of scientific publications and have additional advantages including accurate author credit, better material for evaluation, exhaustive scientific archiving, and increased openness of life science material.

Journal: eNeuro (2022)
Publication types: Journal Article
Pathways to understanding the genomic aetiology of osteoarthritis.

Osteoarthritis is a common, complex disease with no curative therapy.In this review, we summarize current knowledge on disease aetiopathogenesis and outline genetics and genomics approaches that are helping catalyse a much-needed improved understanding of the biological underpinning of disease development and progression.

Journal: Human molecular genetics (2017)
Publication types: Journal Article;Review;Research Support, Non-U.S. Gov't
Killing Many Birds With Two Stones: Hypoxia and Fibrosis Can Generate Ectopic Beats in a Human Ventricular Model.

During cardiac diseases many types of anatomical and functional remodeling of cardiac tissue can occur.In this work, we focus on two conditions: hypoxia and fibrosis, which are part of complex pathological modifications that take place in many cardiac diseases (hypertrophic cardiomyopathy, hypertensive heart disease, and recurrent myocardial infarction) and respiratory diseases (obstructive pulmonary disease, obstructive sleep apnea, and cystic fibrosis).Using computational models of cardiac electrophysiology, we evaluate if the interplay between hypoxia and fibrosis is sufficient to trigger cardiac arrhythmia.We study the mechanisms behind the generation of ectopic beats, an arrhythmic trigger also known as premature ventricular contractions (pvcs), in regions with high hypoxia and fibrosis.First, we modify an electrophysiological model of myocytes of the human left ventricle to include the effects of hypoxia.Second, diffuse fibrosis is modeled by randomly replacing cardiac myocytes by non-excitable and non-conducting cells.The monte carlo method is used to evaluate the probability of a region to generate ectopic beats with respect to different levels of hypoxia and fibrosis.In addition, we evaluate the minimum size of three-dimensional slabs needed to sustain reentries for different stimulation protocols.The observed mechanism behind the initiation of ectopic beats is unidirectional block, giving rise to sustained micro-reentries inside the region with diffuse fibrosis and hypoxia.In summary, our results suggest that hypoxia and fibrosis are sufficient for the creation of a focal region in the heart that generates pvcs.

Journal: Frontiers in physiology (2018)
Publication types: Journal Article
Usefulness of combined handheld ultrasound and fluoroscopy-guided injection in adhesive capsulitis of the shoulder: A prospective, randomized single blind-pilot study.

Ultrasound is increasingly being utilized in the diagnosis and treatment of adhesive capsulitis.Objective to compare the therapeutic effects and advantages of combined handheld ultrasound and fluoroscopy-guided intra-articular corticosteroid injection with those of conventional ultrasound-guided corticosteroid injection in adhesive capsulitis of the shoulder.Methods a total of 39 patients diagnosed with adhesive capsulitis of the shoulder were randomly assigned into two groups.Group a patients (n= 19) underwent combined handheld ultrasound and fluoroscopy-guided corticosteroid injection and group b patients (n= 20) underwent conventional ultrasound-guided corticosteroid injection to the intra-articular space of the shoulder twice.Treatment efficacy was assessed at 2 and 6 weeks after the final injection, based on the verbal numeric pain scale, shoulder pain and disability index, and range of motion.Secondary outcome measures were the accuracy and procedure time.Results both injection methods were effective in the treatment of adhesive capsulitis.No significant differences in treatment efficacy and injection accuracy were observed between the two groups (p> 0.05).Conclusions this study showed no statistical differences in treatment efficacy between 2 groups.However, the combined use of ultrasound and fluoroscopy can increase the accuracy of injection compared with conventional ultrasound alone.

Journal: Journal of back and musculoskeletal rehabilitation (2022)
Publication types: Journal Article;Randomized Controlled Trial
Living in the concrete jungle: carnivore spatial ecology in urban parks.

People and wildlife are living in an increasingly urban world, replete with unprecedented human densities, sprawling built environments, and altered landscapes.Such anthropogenic pressures can affect multiple processes within an ecological community, from spatial patterns to interspecific interactions.We tested two competing hypotheses, human shields vs.Human competitors, to characterize how humans affect the carnivore community using multispecies occupancy models.From 2017 to 2020, we conducted the first camera survey of city parks in detroit, michigan, and collected spatial occurrence data of the local native carnivore community.Our 12,106-trap night survey captured detection data for coyotes (canis latrans), red foxes (vulpes vulpes), raccoons (procyon lotor), and striped skunks (mephitis mephitis).Overall occupancy varied across species (ψcoyote= 0.40, ψraccoon= 0.54, ψred fox= 0.19, ψstriped skunk= 0.09).Contrary to expectations, humans did not significantly affect individual occupancy for these urban carnivores.However, co-occurrence between coyote and skunk increased with human activity.The observed positive spatial association between an apex and subordinate pair supports the human shield hypothesis.Our findings demonstrate how urban carnivores can exploit spatial refugia and coexist with humans in the cityscape.

Journal: Ecological applications : a publication of the Ecological Society of America (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Accelerating 3D Convolutional Neural Network with Channel Bottleneck Module for EEG-Based Emotion Recognition.

Deep learning-based emotion recognition using eeg has received increasing attention in recent years.The existing studies on emotion recognition show great variability in their employed methods including the choice of deep learning approaches and the type of input features.Although deep learning models for eeg-based emotion recognition can deliver superior accuracy, it comes at the cost of high computational complexity.Here, we propose a novel 3d convolutional neural network with a channel bottleneck module (cnn-bn) model for eeg-based emotion recognition, with the aim of accelerating the cnn computation without a significant loss in classification accuracy.To this end, we constructed a 3d spatiotemporal representation of eeg signals as the input of our proposed model.Our cnn-bn model extracts spatiotemporal eeg features, which effectively utilize the spatial and temporal information in eeg.We evaluated the performance of the cnn-bn model in the valence and arousal classification tasks.Our proposed cnn-bn model achieved an average accuracy of 99.1% and 99.5% for valence and arousal, respectively, on the deap dataset, while significantly reducing the number of parameters by 93.08% and flops by 94.94%.The cnn-bn model with fewer parameters based on 3d eeg spatiotemporal representation outperforms the state-of-the-art models.Our proposed cnn-bn model with a better parameter efficiency has excellent potential for accelerating cnn-based emotion recognition without losing classification performance.

Journal: Sensors (Basel, Switzerland) (2022)
Publication types: Journal Article
Tuning Liposome Stability in Biological Environments and Intracellular Drug Release Kinetics.

Ideal drug carriers should be stable in biological environments but eventually release their drug load once inside the targeted cells.These two aspects can be in contrast with each other, thus they need to be carefully tuned in order to achieve the desired properties for specific applications.Quantifying drug release profiles in biological environments or inside cells can be highly challenging, and standard methods to determine drug release kinetics in many cases cannot be applied to complex biological environments or cells.Within this context, the present work combined kinetic studies by flow cytometry with aging experiments in biological fluids and size-exclusion chromatography to determine drug release profiles in biological environments and inside cells.To this purpose, anionic and zwitterionic liposomes were used as model nanomedicines.By changing lipid composition, liposome stability in serum and intracellular release kinetics could be tuned and formulations with very different properties could be obtained.The methods presented can be used to characterize liposome release profiles in complex biological media, as well as inside cells.In this way, liposome composition can be tuned in order to achieve formulations with optimal balance between stability and release kinetics for specific applications.

Journal: Biomolecules (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Pneumocystis jiroveciiPneumonia in Patients with Solid Malignancies: A Retrospective Study in Two Hospitals.

Pneumocystis jiroveciipneumonia (pjp) is a rare opportunistic infection in patients with solid malignancies.This study aimed to examine the characteristics of patients with solid cancers and pjp.We retrospectively reviewed the medical records of patients with solid tumors and pjp over an 11-year period, enrolling a total of 47 patients (30-day survival group: n = 20, 30-day mortality group: n = 27).Only 34% of patients received ≥20 mg of prednisolone for ≥2 weeks, and the 30-day mortality rate was 57.4%.The 30-day survival group included more women and patients with colon cancer than the mortality group.Furthermore, absolute lymphocyte counts (alcs) were decreased at pjp symptom onset, as compared with the values observed 1-3 months earlier.Increased oxygen demand and low alcs after 5-7 days of pjp treatment were also related to poor prognosis.Due to the limitations of this retrospective study, further studies that adhere to the pjp criteria of the european organization for research and treatment of cancer and the mycoses study group education and research consortium will be needed to evaluate pjp in solid malignancies more clearly.

Journal: Pathogens (Basel, Switzerland) (2022)
Publication types: Journal Article