syedzayyan/paper_mill_benchmark huggingface dataset:
Imaging of bone and joints in vivo: pathological osteoclastogenesis in arthritis.

Osteoimmunology highlights the reciprocal interactions between the skeletal and immune systems.Over the past two decades, many molecules that link the two have been identified, including cytokines, receptors and transcription factors, leading to successful translation of research into therapeutic approaches to autoimmune diseases such as rheumatoid arthritis.The development of an intravital imaging system using two-photon microscopy, combined with a variety of fluorescent probes and reporter mouse strains, has provided valuable insights into the real-time dynamics of osteoclasts and immune cells in the bone marrow.This technique is now applied to the synovial tissue of arthritic mice to investigate the pathogenesis of osteoimmune diseases and enables direct observation of complex biological phenomena in vivo.In addition, rapid progress in the next-generation sequencing technologies has provided important insights into the field of osteoimmunology through characterizing individual cells in the synovial microenvironment.Single-cell rna sequencing (sc rna-seq) dissects cellular heterogeneity within a biological system and enables the identification of specific cells differentiating into mature osteoclasts within the previously defined 'osteoclast precursor-containing population'.In this review, we will explain the cellular interactions and cytokine milieu involved in inflammatory bone destruction and update how the novel technologies, such as sc rna-seq and intravital imaging, have contributed to better understand the pathogenesis of bone destruction in arthritis.

Journal: International immunology (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Review
An Investigation into Helmet Use, Perceptions of Sports-Related Concussion, and Seeking Medical Care for Head Injury amongst Competitive Cyclists.

The purpose of this study was to investigate competitive cyclists' helmet use, perceptions of sports-related concussion (src), and medical-care-seeking behaviors.A mixed-method approach was used with qualitative and quantitative data presented.The study comprised of a cross-sectional analysis of 405 competitive cyclists who completed an online survey.Results indicated that most participants believed a bicycle helmet protects against src (79.5%) and considerable numbers of participants would not seek medical care for potential head injury in scenarios where this would be recommended.It was also discovered that marketing of concussion reduction technology influences cyclists' helmet-purchasing behaviors.With the data presented, it is recommended that governing bodies in cycling need to develop educational resources to address gaps in knowledge regarding src amongst cyclists.We also suggest that more independent research on concussion reduction technologies in bicycle helmets is needed, with advertising supported by clear scientific evidence to avoid negatively influencing head injury management and reporting behaviors amongst cyclists.

Journal: International journal of environmental research and public health (2022)
Publication types: Journal Article
Phenotypic and biochemical analysis of an international cohort of individuals with variants in NAA10 and NAA15.

N-alpha-acetylation is one of the most common co-translational protein modifications in humans and is essential for normal cell function.Naa10 encodes for the enzyme naa10, which is the catalytic subunit in the n-terminal acetyltransferase a (nat a) complex.The auxiliary and regulatory subunits of the nat a complex are naa15 and huntington-interacting protein (hypk), respectively.Through a genotype-first approach with exome sequencing, we identified and phenotypically characterized 30 individuals from 30 unrelated families with 17 different de novo or inherited, dominantly acting missense variants in naa10 or naa15.Clinical features of affected individuals include variable levels of intellectual disability, delayed speech and motor milestones and autism spectrum disorder.Additionally, some subjects present with mild craniofacial dysmorphology, congenital cardiac anomalies and seizures.One of the individuals is an 11-year-old boy with a frameshift variant in exon 7 of naa10, who presents most notably with microphthalmia, which confirms a prior finding with a single family with lenz microphthalmia syndrome.Biochemical analyses of variants as part of the human nat a complex, as well as enzymatic analyses with and without the hypk regulatory subunit, help to explain some of the phenotypic differences seen among the different variants.

Journal: Human molecular genetics (2019)
Publication types: Journal Article;Research Support, N.I.H., Extramural;Research Support, Non-U.S. Gov't
A Novel Electrochemical Sensor Modified with a Computer-Simulative Magnetic Ion-Imprinted Membrane for Identification of Uranyl Ion.

In this paper, a novel ion-imprinted electrochemical sensor modified with magnetic nanomaterial fe3o4@si o2was established for the high sensitivity and selectivity determination of uo22+in the environment.Density functional theory (dft) was employed to investigate the interaction between templates and binding ligands to screen out suitable functional binding ligand for the reasonable design of the ion imprinted sensors.The miip/mcpe (magnetic ion imprinted membrane/magnetic carbon paste electrode) modified with fe3o4@si o2exhibited a strong response current and high sensitivity toward uranyl ion comparison with the bare carbon paste electrodes.Meanwhile, the mcpe was fabricated simultaneously under the action of strong magnetic adsorption, and the ion imprinted membrane can be adsorbed stably on the electrode surface, handling the problem that the imprinted membrane was easy to fall off during the process of experimental determination and elution.Based on the uranyl ion imprinting network, differential pulse voltammetry (dpv) was adopted for the detection technology to realize the electrochemical reduction of uranyl ions, which improved the selectivity of the sensor.Thereafter, uranyl ions were detected in the linear concentration range of 1.0 × 10-9mol l-1to 2.0 × 10-7mol l-1, with the detection and quantification limit of 1.08 × 10-9and 3.23 × 10-10mol l-1, respectively.In addition, the sensor was successfully demonstrated for the determination of uranyl ions in uranium tailings soil samples and water samples with a recovery of 95% to 104%.

Journal: Sensors (Basel, Switzerland) (2022)
Publication types: Journal Article
Predicting EGFR mutation status in lung adenocarcinoma presenting as ground-glass opacity: utilizing radiomics model in clinical translation.

S this study aimed to establish a non-invasive radiomics model based on computed tomography (ct), with favorable sensitivity and specificity to predict egfr mutation status in ggo-featured lung adenocarcinoma subsequently guiding the administration of targeted therapy.Methods clinical-pathological information and preoperative ct images of 636 lung adenocarcinoma patients (464, 100, and 72 in the training, internal, and external validation sets, respectively) that underwent ggo lesions resection were included.A total of 1476 radiomics features were extracted with gradient boosting decision tree (gbdt).Results the established radiomics model containing 102 selected features showed an encouraging discrimination performance of egfr mutation status (mutant or wild type), and the predictive ability was superior to that of the clinical model (auc: 0.838 vs.0.674, 0.822 vs.0.730, and 0.803 vs.0.746 for the training, internal validation, and external validation sets, respectively).The combined radiomics plus clinical model showed no additional benefit over the radiomics model in predicting egfr status (auc: 0.846 vs.0.838, 0.816 vs.0.822, and 0.811 vs.0.803, respectively, in three cohorts).Uniquely, this model was validated in a cohort of lung adenocarcinoma patients who have undertaken adjuvant egfr-tki treatment and harbored unresected ggos during the medication, leading to a significantly improved potency of egfr-tkis (response rate: 25.9% vs.53.8%, p = 0.006; before and after prediction, respectively).Conclusion this presented radiomics model can be served as a non-invasive and time-saving approach for predicting the egfr mutation status in lung adenocarcinoma presenting as ggo.Key points • we developed a ggo-specific radiomics model containing 102 radiomics features for egfr mutation status differentiation.• an auc of 0.822 and 0.803 in the internal and external validation cohorts, respectively, were achieved.• the radiomics model was utilized in clinical translation in an adjuvant egfr-tki treatment cohort with unresected ggos.A significant improvement in the potency of egfr-tkis was achieved (response rate: 25.9% vs.53.8%, p = 0.006; before and after prediction).

Journal: European radiology (2022)
Publication types: Journal Article
Indole-linked 1,2,3-triazole derivatives efficiently modulate COX-2 protein and PGE2levels in human THP-1 monocytes by suppressing AGE-ROS-NF-kβ nexus.

S ages augment inflammatory responses by activating inflammatory cascade in monocytes, and hence lead to vascular dysfunction.The current study aims to study a plausible role and mechanism of a new library of indole-tethered 1,2,3-triazoles 2-13 in ages-induced inflammation.Material and methods initially, the analogs 2-13 were synthesized by cycloaddition reaction between prop-2-yn-1-yl-2-(1h-indol-3-yl) acetate (1) and azidoacetophenone (1a).In vitro glycation, and metabolic assays were employed to investigate antiglycation and cytotoxicity activities of new indole-triazoles.Dcfh-da, immunostaining, western blotting, and elisa techniques were used to study the reactive oxygen species (ros), and pro-inflammatory mediators levels.Key findings among all the synthesized indole-triazoles, compounds 1-3, and 9-13, and their precursor molecule 1 were found to be active against ages production in in vitro glucose- and methylglyoxal (mgo)-bsa models.Compounds 1-2, and 11-13 were also found to be nontoxic against hepg2, and thp-1 cells.Our results show that pretreatment of thp-1 monocytes with selected lead compounds 1-2, and 11-13, particularly compounds 12, and 13, reduced glucose- and mgo-derived ages-mediated ros production (p < 0.001), as compared to standards, pdtc, rutin, and quercetin.They also significantly (p < 0.001) suppressed nf-ĸb translocation in thp-1 monocytes.Moreover, compounds 12, and 13 attenuated the ages-induced cox-2 protein levels (p < 0.001), and pge2production (p < 0.001) in thp-1 monocytes.Significance our data revealed that the indole-triazoles 12, and 13 can significantly attenuate the ages-induced proinflammatory cox-2 levels, and associated pge2production by suppressing age-ros-nf-kβ nexus in thp-1 monocytes.These compounds can thus serve as leads for further evaluation as treatment to delay early onset of diabetic complications.

Journal: Life sciences (2022)
Publication types: Journal Article
A spatial reconnaissance survey for gold exploration in a schist belt.

Geological data integration and spatial analysis for structural elucidation are more assertive approaches for reconnaissance scale mineral exploration.In this study, several methods involving fry analysis, distance correlation analysis, prediction area plots as well as knowledge driven predictive models including topsis, aras and moora were systematically employed for unravelling the spatial geological attributes related to gold mineralisation.Additionally, statistical validation of knowledge driven predictive models were implemented using the receiver operating characteristic/area under curve analysis (roc/auc).The evidence from fry and distance correlation analysis suggests that gold occurrence within parts of the malumfashi schist belt of nigeria is defined by a strong spatial association with the ene-wsw as well as the nne-ssw trending structures.The prediction area plot also revealed a robust spatial correlation between mineral occurrence and spatial data related to geological structures.The application of knowledge driven predictive models suggest a high favourability for gold occurrence within the southern, central, and north-eastern parts of the study location, while statistical validation using the roc/auc curves suggest a high prediction accuracy greater than 70% for all models.The geospatial analysis for mineral exploration within the malumfashi area has unveiled an invaluable geological criterion for gold targeting with a considerable level of certainty.

Journal: Heliyon (2021)
Publication types: Journal Article
High-performance nanostructured bio-based carbon electrodes for energy storage applications.

Polyacrylonitrile (pan)-based carbon precursor is a well-established and researched material for electrodes in energy storage applications due to its good physical properties and excellent electrochemical performance.However, in the fight of preserving the environment and pioneering renewable energy sources, environmentally sustainable carbon precursors with superior electrochemical performance are needed.Therefore, bio-based materials are excellent candidates to replace pan as a carbon precursor.Depending on the design requirement (e.g.Carbon morphology, doping level, specific surface area, pore size and volume, and electrochemical performance), the appropriate selection of carbon precursors can be made from a variety of biomass and biowaste materials.This review provides a summary and discussion on the preparation and characterization of the emerging and recent bio-based carbon precursors that can be used as electrodes in energy storage applications.The review is outlined based on the morphology of nanostructures and the precursor's type.Furthermore, the review discusses and summarizes the excellent electrochemical performance of these recent carbon precursors in storage energy applications.Finally, a summary and outlook are also given.All this together portrays the promising role of bio-based carbon electrodes in energy storage applications.Graphic abstract

Journal: Cellulose (London, England) (2021)
Publication types: Journal Article;Review
Riding the Wave: Reactive Vector-Borne Disease Policy Renders the United States Vulnerable to Outbreaks and Insecticide Resistance.

Funding for vector-borne disease surveillance, management, and research is cyclical and reactive in the united states.The subsequent effects have yielded gross inequities nationally that unintentionally support recurrent outbreaks.This policy forum is comprised of four primary subsections that collectively identify specific areas for improvement and offer innovative solutions to address national inadequacies in vector borne disease policy and infrastructure.

Journal: Journal of medical entomology (2022)
Publication types: Journal Article;Research Support, U.S. Gov't, P.H.S.
Dissociable neural signatures of passive extinction and instrumental control over threatening events.

Aberrant fear learning processes are assumed to be a key factor in the pathogenesis of anxiety disorders.Thus, effective behavioral interventions to reduce dysfunctional fear responding are needed.Beyond passive extinction learning, instrumental control over threatening events is thought to diminish fear.However, the neural mechanisms underlying instrumental control-and to what extent these differ from extinction-are not well understood.We therefore contrasted the neural signatures of instrumental control and passive extinction using an aversive learning task, relative to a control condition.Participants (n = 64) could either learn to exert instrumental control over electric shocks, received a yoked number and sequence of shocks without instrumental control or did not receive any shocks.While both passive extinction and instrumental control reduced threat-related skin conductance responses (scrs) relative to pre-extinction/control, instrumental control resulted in a significantly more pronounced decrease of scrs.Instrumental control was further linked to decreased striatal activation and increased cross talk of the ventromedial prefrontal cortex (vm pfc) with the amygdala, whereas passive extinction was associated with increased vm pfc activation.Our findings demonstrate that instrumental learning processes may shape pavlovian fear responses and that the neural underpinnings of instrumental control are critically distinct from those of passive extinction learning.

Journal: Social cognitive and affective neuroscience (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Selecting and Implementing Patient-Reported Outcome and Experience Measures to Assess Health System Performance.

Importance psychometrically robust patient-reported outcome measures (proms) and patient-reported experience measures (prems) are critical to evaluating quality and performance across health services and systems.However, the adoption and implementation of proms and prems remain a challenge in many countries.The aim of this guide is to support instrument selection and implementation to measure health system performance.Observations the guide is split into 3 step-by-step sections.Step 1: knowing what to measure discusses what proms and prems capture and how they differ from related instruments.Step 2: choosing the right instrument describes the critical psychometric properties of validity, reliability, and responsiveness, and provides resources to support instrument selection and evaluation.Step 3: mitigating potential prom and prem implementation barriers outlines key barriers and supports for instrument implementation at system, service, and individual levels.Conclusions and relevance this guide aims to provide practical resources for the identification of psychometrically robust proms and prems, as well as support for their implementation to drive improvements across health systems globally.

Journal: JAMA health forum (2022)
Publication types: Journal Article
RagC GTPase regulates mTOR to promote chemoresistance in senescence-like HepG2 cells.

Radiotherapy and chemotherapy can arrest cancer cells in a senescence-like state, which can lead to therapy resistance and cancer relapse.M tor is hyperactivated in senescent cells but the mechanisms remain unclear.In this study, we examine the roles of several m tor-regulated gtpases in senescence-like liver cancer cells and the mechanisms in drug resistance.We show that although rag c, rheb, rab1a, rab5 and arf1 gtpases were required for optimal m tor activation in proliferating hep g2 cells, only rag c and rheb are required in the senescence-like counterparts.Consistently, the drug resistance of the senescence-like hep g2 can be reduced by knocking down rag c and rheb but not the other gtpases.Autophagic and lysosomal activity were increased in senescence-like cells; pharmacological inhibition of autophagy-lysosome decreased m tor activity and preferentially sensitized senescence-like hep g2 cells to chemotherapy drugs including trametinib, cisplatin, and doxorubicin.In liver cancer patients, expression of rag c and rheb but not other gtpases examined was associated with unfavorable prognosis.Our study therefore has defined a key role of rag-rheb gtpase in mediating m tor activation and drug resistance in senescence-like hep g2 cells, which could have important implications in developing second-line treatments for liver cancer patients.

Journal: Frontiers in physiology (2022)
Publication types: Journal Article
Cardiovascular benefits of GLP-1RA and SGLT-2i in women with type 2 diabetes.

Given the cv benefit noted in the cvots, glp-1ras and sglt-2is are given preference in t2dm guidelines.While guidelines do not report potential gender difference, those differences exist.On restricting the cvots results to women with increased cv risk or established ascvd, glp-1ras significantly reduced mace while sglt-2is resulted in a non-significant reduction.

Journal: Primary care diabetes (2022)
Publication types: Journal Article
Heteroleptic Pd(II) and Pt(II) Complexes with Redox-Active Ligands: Synthesis, Structure, and Multimodal Anticancer Mechanism.

A series of heteroleptic square-planar pt and pd complexes with bis(diisopropylphenyl) iminoacenaphtene (dpp-bian) and cl, 1,3-dithia-2-thione-4,5-dithiolate (dmit), or 1,3-dithia-2-thione-4,5-diselenolate (dsit) ligands have been prepared and characterized by spectroscopic techniques, elemental analysis, x-ray diffraction analysis, and cyclic voltammetry (cv).The intermolecular noncovalent interactions in the crystal structures were assessed by density functional theory (dft) calculations.The anticancer activity of pd complexes in breast cancer cell lines was limited by their solubility.Pd(dpp-bian) complexes with dmit and dsit ligands as well as an uncoordinated dpp-bian ligand were devoid of cytotoxicity, while the [pd(dpp-bian)cl2] complex was cytotoxic.On the contrary, all pt(dpp-bian) complexes demonstrated anticancer activity in a low micromolar concentration range, which was 8-20 times higher than the activity of cisplatin, and up to 2.5-fold selectivity toward cancer cells over healthy fibroblasts.The presence of a redox-active dpp-bian ligand in pt and pd complexes resulted in the induction of reactive oxygen species (ros) in cancer cells.In addition, these complexes were able to intercalate into dna, indicating the dual mechanism of action.

Journal: Inorganic chemistry (2022)
Publication types: Journal Article
Biological machinery for polycyclic aromatic hydrocarbons degradation: A review.

Polycyclic aromatic hydrocarbons (pahs) are hazardous environmental pollutants with widespread and well-recognized health concerns.Amidst more than a hundred known pahs, 16 are categorized as priority pollutants.Use of widely diverse biological machinery comprising bacteria, fungi, and algae harnessed from contaminated sites has emerged as an ecologically safe and sustainable approach for pah degradation.The potential of these biological systems has been thoroughly examined to maximize the degradation of specific pahs by understanding their detailed biochemical pathways, enzymatic system, and gene organization.Recent advancements in microbial genetic engineering and metabolomics using modern analytical tools have facilitated the bioremediation of such xenobiotics.This review explores the role of microbes, their biochemical pathways, genetic regulation of metabolic pathways, and the effect of biosurfactants against the backdrop of pah substrate structures.

Journal: Bioresource technology (2022)
Publication types: Journal Article;Review
Platelet-Rich Plasma, an Innovative and Noninvasive Technique for Closure of Tracheoesophageal Fistula After Laryngectomy, Report of 2 Cases.

An innovative and noninvasive technique for closure of persistent tracheoesophageal fistula after total laryngectomy is described.In our preliminary study, two patients were included.No clinical and radiological signs of locoregional recurrence prior to treatment were diagnosed.We performed local injections of autologous platelet-rich plasma (prp) according to our protocol.Complete closure of the fistula was observed in both patients who were able to take normal feeding.No side effects associated with the procedure were observed.These preliminary results are encouraging to consider prp injection before more invasive surgical techniques in the treatment of persistent tracheoesophageal fistulas after total laryngectomy.

Journal: Ear, nose, & throat journal (2022)
Publication types: Journal Article