syedzayyan/paper_mill_benchmark huggingface dataset:
Decreased Influenza Incidence under COVID-19 Control Measures, Singapore.

We compared indicators of influenza activity in 2020 before and after public health measures were taken to reduce coronavirus disease (covid-19) with the corresponding indicators from 3 preceding years.Influenza activity declined substantially, suggesting that the measures taken for covid-19 were effective in reducing spread of other viral respiratory diseases.

Journal: Emerging infectious diseases (2020)
Publication types: Journal Article
Metal-Micelle Cooperativity: Phosphine Ligand-Free Ultrasmall Palladium(II) Nanoparticles for Oxidative Mizoroki-Heck-type Couplings in Water at Room Temperature.

The amphiphile ps-750-m generates stable, phosphine ligand-free, and catalytically active ultrasmall pd(ii) nanoparticles (nps) from pd(oac)2, preventing their precipitation, polymerization, and oxidation state changes.Ps-750-m directly interacts with pd(ii) np surfaces, as confirmed by high-resolution mass spectrometry and ir spectroscopy, resulting in their high stability.The pd cations in nps are most likely held together by hydroxides and acetate ions.The nps were characterized by hrtem, revealing their morphology and particle size distribution, and by hrms and ir, providing evidence for np-amphiphile interaction.The np catalytic activity was examined in the context of oxidative mizoroki-heck-type couplings in water at room temperature.Hot filtration, hot extraction, and three-phase tests indicate heterogeneous catalysis occurring at the micellar interface rather than homogeneous catalysis occurring in the solution.Nmr studies indicate that the catalytic activity stems from metal cation-π interactions of the styrene along with transmetalation by the arylboronic acid, followed by insertion and β-h elimination to furnish the coupled product along with the reoxidation of pd by benzoquinone to complete the catalytic cycle.This method is very mild and sustainable, both in terms of np synthesis and subsequent catalysis, and shows broad substrate scope while circumventing the need for organic solvents for this important class of couplings.

Journal: JACS Au (2021)
Publication types: Journal Article
Small molecule natural compound agonist of SIRT3 as a therapeutic target for the treatment of intervertebral disc degeneration.

Oxidative stress-induced mitochondrial dysfunction is implicated in the pathogenesis of intervertebral disc degeneration (ivdd).Sirtuin 3 (sirt3), a sirtuin family protein located in mitochondria, is essential for mitochondrial homeostasis; however, the role of sirt3 in the process of ivdd has remained elusive.Here, we explored the expression of sirt3 in ivdd in vivo and in vitro; we also explored the role of sirt3 in senescence, apoptosis, and mitochondrial homeostasis under oxidative stress.We subsequently activated sirt3 using honokiol to evaluate its therapeutic potential for ivdd.We assessed sirt3 expression in degenerative nucleus pulposus (np) tissues and oxidative stress-induced nucleus pulposus cells (npcs).Sirt3 was knocked down by lentivirus and activated by honokiol to determine its role in oxidative stress-induced npcs.The mechanism by which honokiol affected sirt3 regulation was investigated in vitro, and the therapeutic potential of honokiol was assessed in vitro and in vivo.We found that the expression of sirt3 decreased with ivdd, and sirt3 knockdown reduced the tolerance of npcs to oxidative stress.Honokiol (10 μm) improved the viability of npcs under oxidative stress and promoted their properties of anti-oxidation, mitochondrial dynamics and mitophagy in a sirt3-dependent manner.Furthermore, honokiol activated sirt3 through the ampk-pgc-1α signaling pathway.Moreover, honokiol treatment ameliorated ivdd in rats.Our study indicated that sirt3 is involved in ivdd and showed the potential of the sirt3 agonist honokiol for the treatment of ivdd.

Journal: Experimental & molecular medicine (2018)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Time-course profiling of bovine alphaherpesvirus 1.1 transcriptome using multiplatform sequencing.

Long-read sequencing (lrs) has become a standard approach for transcriptome analysis in recent years.Bovine alphaherpesvirus 1 (bo hv-1) is an important pathogen of cattle worldwide.This study reports the profiling of the dynamic lytic transcriptome of bo hv-1 using two long-read sequencing (lrs) techniques, the oxford nanopore technologies min ion, and the loop seq synthetic lrs methods, using multiple library preparation protocols.In this work, we annotated viral m rnas and non-coding transcripts, and a large number of transcript isoforms, including transcription start and end sites, as well as splice variants of bo hv-1.Our analysis demonstrated an extremely complex pattern of transcriptional overlaps.

Journal: Scientific reports (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Correlation between cerebrospinal fluid and plasma neurofilament light protein in treated HIV infection: results from the COBRA study.

Cerebrospinal fluid (csf) neurofilament light protein (nf l) is a marker of central nervous system neuro-axonal injury.A novel, ultra-sensitive assay can determine plasma nf l.In untreated people-with-hiv (pwh), csf and plasma nf l are strongly correlated.We aimed to assess this correlation in pwh on suppressive antiretroviral treatment (art) and lifestyle-similar hiv-negative individuals enrolled into the comor bidity in relation to aids (cobra) study.Differences in paired csf (sandwich elisa, uman diagnostics) and plasma (simoa digital immunoassay, quanterixtm) nf l between pwh and hiv-negative participants were tested using wilcoxon's test; associations were assessed using pearson's correlation.Csf and plasma nf l, standardised to z-scores, were included as dependent variables in linear regression models to identify factors independently associated with values in pwh and hiv-negative participants.Overall, 132 pwh (all with plasma hiv rna < 50 copies/m l) and 79 hiv-negative participants were included.Neither csf (median 570 vs 568 pg/m l, p = 0.37) nor plasma (median 10.7 vs 9.9 pg/m l, p = 0.15) nf l differed significantly between pwh and hiv-negative participants, respectively.Csf and plasma nf l correlated moderately, with no significant difference by hiv status (pwh: rho = 0.52; hiv-negative participants: rho = 0.47, p (interaction) = 0.63).In multivariable regression analysis, higher csf nf l z-score was statistically significantly associated with older age and higher csf protein, and higher plasma nf l z-score with older age, higher serum creatinine and lower bodyweight.In conclusion, in pwh on art, the correlation between csf and plasma nf l is moderate and similar to that observed in lifestyle-similar hiv-negative individuals.Consideration of renal function and bodyweight may be required when utilising plasma nf l.

Journal: Journal of neurovirology (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Microbiome composition resulting from different substrates influences trichloroethene dechlorination performance.

Hydrogen-releasing substrates can stimulate the reductive dechlorination of trichloroethene (tce) mediated by organohalide-respiring bacteria (ohrb) at contaminated sites.However, how the substrate affects microbiome assembly and the accompanying influences on the growth of ohrb and reductive tce dechlorination remains unclear.We evaluated the effects of microbial community structures and potential functions on the reductive dechlorination of tce in three anaerobic reactors with acetate, soybean oil, or molasses as the substrate and no cobalamin or amino acid supplementation.The molasses-fed reactor exhibited superior performance and dechlorination of tce loadings to ethene, and the oil-fed reactor exhibited a high growth rate of the key ohrb, dehalococcoides.This finding suggests an effect of the substrate on reductive dechlorination and the growth of dehalococcoides.The three reactors developed distinct microbial community structures and the predicted metagenomes were distinguished on the basis of vitamin and amino acid metabolisms as well as fermentation pathways.In addition to the diversified hydrogen-producing pathways, the molasses-induced microbiome exhibited high potential to synthesize the cobalamin, which may account for its high dehalococcoides activity and thus effective dechlorination performance.The substrate dependence of microbiomes may provide insight into strategies of exogenous amino acid supplementation to benefit dehalococcoides growth.This study adds novel insight into the interplay of hydrogen-releasing substrates and ohrb.The results may contribute to the development of tailored and cost-effective management for the reductive dechlorination of chlorinated solvents in bioremediation.

Journal: Journal of environmental management (2022)
Publication types: Journal Article
Health System Barriers to Child Mandatory and Optional Vaccination among Ukrainian Migrants in Poland in the Context of MMR and HPV Vaccines-A Qualitative Study.

Migrants' access to healthcare services is limited.This study aimed to identify health system barriers to vaccination, specifically hpv/mmr vaccination among children in ukrainian economic migrants (ums).Methods between december 2021-march 2022, a qualitative study of ums living in poland was conducted.Six focus groups were held with 53 ums aged 15-45; in-depth interviews with 12 healthcare workers (hcws) were also performed.A thematic analysis was conducted based on the six who health system building blocks.Results hcws described gaps in integrating migrant status in accessible healthcare data which impeded active management of vaccination procedures.Ums reported that the digitization of healthcare services, intensified during the covid-19 pandemic, reduced their access to primary care.Inadequate health information systems caused problems with the provision of credible vaccine information in translated forms, and language difficulties, experienced by both ums and hcws; this was enhanced by a lack of professional interpreting services.Although most ums reported vaccinating children according to the polish schedule, the variations in schedules across countries caused concern among ums and increased hcws' uncertainty about how to interpret vaccination cards, particularly in the context of possible false certificates.Ums were affected by discrimination through hcws.Hpv was deprioritized by ums due to misconceptions about non-mandatory vaccinations; the cost was also a barrier.Conclusions the study findings have implications for migrant vaccination delivery targeting children in poland, and other ums receiving countries.A concerted effort is required to improve um's awareness of the significance of vaccinations.Barriers to healthcare access must be recognized by policymakers.Importantly, removing the cost barrier may increase the uptake of the hpv vaccine among ukrainian migrant adolescents.

Journal: International journal of environmental research and public health (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Machine Learning Model to Stratify the Risk of Lymph Node Metastasis for Early Gastric Cancer: A Single-Center Cohort Study.

Stratification of the risk of lymph node metastasis (lnm) in patients with non-curative resection after endoscopic resection (er) for early gastric cancer (egc) is crucial in determining additional treatment strategies and preventing unnecessary surgery.Hence, we developed a machine learning (ml) model and validated its performance for the stratification of lnm risk in patients with egc.We enrolled patients who underwent primary surgery or additional surgery after er for egc between may 2005 and march 2021.Additionally, patients who underwent er alone for egc between may 2005 and march 2016 and were followed up for at least 5 years were included.The ml model was built based on a development set (70%) using logistic regression, random forest (rf), and support vector machine (svm) analyses and assessed in a validation set (30%).In the validation set, lnm was found in 337 of 4428 patients (7.6%).Among the total patients, the area under the receiver operating characteristic (auroc) for predicting lnm risk was 0.86 in the logistic regression, 0.85 in rf, and 0.86 in svm analyses; in patients with initial er, auroc for predicting lnm risk was 0.90 in the logistic regression, 0.88 in rf, and 0.89 in svm analyses.The ml model could stratify the lnm risk into very low (<1%), low (<3%), intermediate (<7%), and high (≥7%) risk categories, which was comparable with actual lnm rates.We demonstrate that the ml model can be used to identify lnm risk.However, this tool requires further validation in egc patients with non-curative resection after er for actual application.

Journal: Cancers (2022)
Publication types: Journal Article
Risk factors associated with the seroprevalence of paratuberculosis in sheep flocks in the hot-arid region of Sonora, México.

Paratuberculosis is caused by mycobacterium avium subspecies paratuberculosis (map), a chronic disease of a negative economic impact on sheep production.In the state of sonora, mexico, there are no reports on the prevalence of map in sheep and risk factors associated with it.The objective of this study was to estimate the seroprevalence of map and risk factors associated by testing antibody-positive in sheep flocks located in the arid and hot region of sonora, mexico.A cross-sectional study was conducted from february 2012 to december 2014, in 43 flocks.Serum samples from 1178 individual sheep were obtained to detect antibodies against map by immunodiffusion in agar-gel.During blood sampling, information about animal and flock management risk factors were obtained by applying a questionnaire to the owners.Risk factors associated with seroprevalence of map were estimated using binary logistic regression.The true prevalence of map was 7.48% (95% ci 5.98, 8.98) and 53.5% of flocks had at least one seropositive animal.An animal was more likely to be seropositive if it was from a large flock (> 300 animals; or 3.52, 95% ci 1.24, 9.99) and was born outside the farm (or 6.24; 95% ci 2.9-1, 3.52).This is the first report of mycobacterium avium subspecies paratuberculosis seroprevalence in sheep, in sonora, mexico.Large flocks and the entry of new animals to the flock were critical risk factors associated with map seropositivity.

Journal: Tropical animal health and production (2020)
Publication types: Journal Article
Towards Physiologic Culture Approaches to Improve Standard Cultivation of Mesenchymal Stem Cells.

Mesenchymal stem cells (mscs) are of great interest for their use in cell-based therapies due to their multipotent differentiation and immunomodulatory capacities.In consequence of limited numbers following their isolation from the donor tissue, mscs require extensive expansion performed in traditional 2d cell culture setups to reach adequate amounts for therapeutic use.However, prolonged culture of mscs in vitro has been shown to decrease their differentiation potential and alter their immunomodulatory properties.For that reason, preservation of these physiological characteristics of mscs throughout their in vitro culture is essential for improving the efficiency of therapeutic and in vitro modeling applications.With this objective in mind, many studies already investigated certain parameters for enhancing current standard msc culture protocols with regard to the effects of specific culture media components or culture conditions.Although there is a lot of diversity in the final therapeutic uses of the cells, the primary stage of standard isolation and expansion is imperative.Therefore, we want to review on approaches for optimizing standard msc culture protocols during this essential primary step of in vitro expansion.The reviewed studies investigate and suggest improvements focused on culture media components (amino acids, ascorbic acid, glucose level, growth factors, lipids, platelet lysate, trace elements, serum, and xenogeneic components) as well as culture conditions and processes (hypoxia, cell seeding, and dissociation during passaging), in order to preserve the msc phenotype and functionality during the primary phase of in vitro culture.

Journal: Cells (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Review
The effects and mechanisms of the new brominated flame retardant BTBPE on thyroid toxicity.

As an alternative to octabromodiphenyl ether (octa-bde), 1, 2-bis (2,4, 6-tribromophenoxy) ethane (btbpe) has been widely used in a variety of combustible materials, such as plastics, textiles and furniture.Previous studies have demonstrated the thyroid toxicity of traditional brominated flame retardants for example octa-bde clearly.Nevertheless, little is known about the thyroid toxicity of alternative novel brominated flame retardants btbpe.In this study, it was demonstrated that btbpe in vivo exposure induced ft4 reduction in 2.5, 25 and 250 mg/kg bw treated group and tt4 reduction in 25 mg/kg bw treated group.Tg, tpo and nis are key proteins of thyroid hormone synthesis.The results of western blot and rt-pcr from thyroid tissue showed decreased protein levels and gene expression levels of tg, tpo and nis as well as regulatory proteins pax8 and ttf2.To investigate whether the effect also occurred in humans, anthropogenic nthy-ori 3-1 cells were selected.Similar results were seen in vitro condition.2.5 mg/l btbpe reduced the protein levels of pax8, ttf1 and ttf2, which in turn inhibited the protein levels of tg and nis.The results in vitro experiment were consistent with that in vivo, suggesting possible thyrotoxic effects of btbpe on humans.It was indicated that btbpe had the potential interference of t4 generation and the study provided more evidence of the effects on endocrine disorders.

Journal: Food and chemical toxicology : an international journal published for the British Industrial Biological Research Association (2023)
Publication types: Journal Article
Highly Efficient Solvothermal Synthesis of Poly(1,5-diaminoanthraquinone) Nanoflowers for Energy and Environmental Applications.

Poly(1,5-diaminoanthraquinone) (pdaa) has attracted more interest because of its unique molecular structure.However, the lower polymerization yield limits its practical application.Here, the solvothermal chemically oxidative polymerization of 1,5-diaminoanthraquinone (daa) was developed, and the well-defined pdaa nanoflowers were obtained with a high yield of 72.6% within 16 h.The pdaa nanoflower-based flexible film electrodes were fabricated with expandable graphene as conductive support, delivering a capacitance of 277 f g-1and 258 m f cm-2at 0.5 a g-1(1 m a cm-2) and superior cycling stability with retention of 99% after 10000 cycles.The flexible symmetric solid-state supercapacitors (ssscs) possessed a high capacitance of 52.5 f g-1at 0.25 a g-1and 96.6 m f cm-2at 1 m a cm-2and had only a 14% capacitance loss after 10000 cycles at 0.1 v s-1as well as excellent flexibility.Besides, the pdaa nanoflowers could be used as self-separable adsorbent for methylene blue (mb) with a capacity of 93.8 mg g-1at p h 9.

Journal: Langmuir : the ACS journal of surfaces and colloids (2022)
Publication types: Journal Article
Are Bondable Buttons a Better Option than Intermaxillary Fixation Screws for Achieving Maxillomandibular Fixation? A Prospective Randomized Clinical Study.

The aim of this study was to identify a better option in achieving maxillomandibular fixation (mmf) comparing bondable buttons and maxillomandibular fixation screws in achieving maxillomandibular fixation.Patients and methods in this randomized clinical trial, study sample was derived from the population of patients who reported with minimally displaced mandibular fractures and who required maxillomandibular fixation.The patients were divided into two groups.In group i (n= 20), maxillomandibular fixation was done with maxillomandibular fixation screws; on the other hand, in group ii (n= 20), bondable buttons were used.In both the groups the patients were analyzed for the time duration required in minutes for securing and removal of maxillomandibular fixation, plaque accumulation and postoperative stability.Plaque accumulation was evaluated using turesky-gilmore-glickman modification of the quigley-hein plaque index.The complications encountered during and after the surgery were also analyzed.Results the plaque accumulation and time required for placement and removal in group i were more as compared to group ii.In group i, there were more complications as compared to group ii such as tooth root damage, screw loosening, screw breakage and infection.Conclusion bondable buttons are a better choice for achieving maxillomandibular fixation in comparison with maxillomandibular fixation screws for the treatment of minimally displaced mandibular fractures.Further studies with a bigger sample size must be carried out.

Journal: Journal of maxillofacial and oral surgery (2019)
Publication types: Journal Article
A Data-Driven Adaptive Emotion Recognition Model for College Students Using an Improved Multifeature Deep Neural Network Technology.

With the increasing pressure on college students in terms of study, work, emotion, and life, the emotional changes of college students are becoming more and more obvious.For college student management workers, if they can accurately grasp the emotional state of each college student in all aspects of the whole process, it will be of great help to student management work.The traditional way to understand students' emotions at a certain stage is mostly through chats, questionnaires, and other methods.However, data collection in this way is time-consuming and labor-intensive, and the authenticity of the collected data cannot be guaranteed because students will lie out of impatience or unwillingness to reveal their true emotions.In order to explore an accurate and efficient emotion recognition method for college students, more objective physiological data are used for emotion recognition research.Since emotion is generated by the central nervous system of the human brain, eeg signals directly reflect the electrophysiological activity of the brain.Therefore, in the field of emotion recognition based on physiological signals, eeg signals are favored due to their ability to intuitively respond to emotions.Therefore, a deep neural network (dnn) is used to classify the collected emotional eeg data and obtain the emotional state of college students according to the classification results.Considering that different features can represent different information of the original data, in order to express the original eeg data information as comprehensively as possible, various features of the eeg are first extracted.Second, feature fusion is performed on multiple features using the autosklearn model integration technique.Third, the fused features are input to the dnn, resulting in the final classification result.The experimental results show that the method has certain advantages in public datasets, and the accuracy of emotion recognition exceeds 88%.This proves the used emotion recognition is feasible to be applied in real life.

Journal: Computational intelligence and neuroscience (2022)
Publication types: Journal Article