syedzayyan/paper_mill_benchmark huggingface dataset:
Estrogen supplementation deteriorates visceral adipose function in aged postmenopausal subjects via Gas5 targeting IGF2BP1.

Increased visceral fat is strongly associated with a series of metabolic complications.Postmenopausal women have an increased risk of visceral fat accumulation, metabolic disorders, and a high incidence of cardiovascular events.However, the effect of estrogen replacement therapy on visceral adipose tissue among postmenopausal women of different ages remains controversial, and the underlying mechanism remains unclear.Hence, it is important to understand when estrogen replacement therapy affects the function of visceral adipose tissue (vat).Therefore, we collected vat from pre- and post-menopausal females and we observed increased pro-inflammatory cytokines and insulin resistance-inducing factors, decreased insulin-sensitizing factors, and thermogenic factors in vat of postmenopausal women.The analysis of adipocytes isolated from the vat of females of different ages indicated that adiponectin and browning signature genes were significantly decreased with estrogen treatment in postmenopausal women, but were not altered in the young group.Estrogen supplementation in aged female mice (22 m) significantly prevented visceral fat accumulation.However, it deteriorated vat function by inducing pro-inflammatory cytokines and insulin resistance-inducing factors and decreasing insulin-sensitizing and thermogenic factors.Mechanistically, estrogen induced the expression of long non-coding rna gas5 via binding erα in premenopausal women, which therefore suppressed igf2bp1 to maintain vat function.After menopause, with the reversal of erα/erβ ratio in vat, estrogen supplementation mainly worked through erβ, which led to low expression levels of gas5 and eventually caused vat dysfunction.Our study demonstrated the adverse effects of estrogen supplementation on vat function in aged postmenopausal population and further elucidated the involved mechanism.

Journal: Experimental gerontology (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Association Between Anterior Chamber Angle and Corneal Endothelial Cell Density in Chronic Angle Closure.

To study the association between corneal endothelial cell density (ecd) and degree of anterior chamber angle (aca) opening in eyes with chronic angle closure glaucoma.Methods the study was conducted at jec eye hospitals in indonesia.Treatment-naïve patients aged ≥40 years with iop >21 mm hg and peripheral anterior chamber depth (acd) grade 2 or less by van herick's technique were recruited.Trabecular iris angle (tia; degree) was measured using anterior segment optical coherence tomography (as-oct) and classified as: grade 1 ≤10°, grade 2 11-20°, and grade 3 >20°.Noncontact specular microscopy was performed, and the following corneal parameters were obtained:ecd (cells/mm2), coefficient of variation (cv; μm2/cell), percentage of hexagonal cells, and central corneal thickness (cct; μm).Results a total of 52 eyes from 52 subjects were recruited (16 grade 1 tia, 24 grade 2 tia, and 12 grade 3 tia).Presenting iop was not significantly different between groups.The median central corneal ecd was 2684.5 (1433-2934), 2587.0 (1902-3103), and 2441.0 (1659-3005) cells/mm2in grade 1, 2, and 3 tia, respectively, with no significant differences across the groups (p= 0.67).The cv was lowest in grade 3 tia (36.4 ± 7.2 μm2/cell), and highest in grade 1 tia (38.3 ± 9.6 μm2/cell), but the differences were not significant (p= 0.74).Likewise, the percentage of hexagonality and cct was not significantly different.Tia was not correlated with iop but was modestly correlated with age.Conclusion the corneal ecd and morphological characteristics such as cv and hexagonality were not significantly different across various tia grading in chronic angle closure.This may reflect the lack of chronic and gradual iop insult on corneal endothelial parameters as tia did not show direct effect towards iop.

Journal: Clinical ophthalmology (Auckland, N.Z.) (2021)
Publication types: Journal Article
Ulcerative colitis after SARS-CoV-2 infection.

Although severe acute respiratory syndrome coronavirus-2 (sars-co v-2) affects mainly the respiratory system, the gastrointestinal tract is also considered a site of viral activity.We hereby present the case of a 74-year-old male patient with the diagnosis of new-onset ulcerative colitis.One month earlier, the patient presented fever, running nose, and diarrhea and was tested positive for sars-co v-2.Studies with covid-19 patients revealed significant changes in gut microbiota composition and alterations in immune responses that could lead to chronic inflammation and manifestations of inflammatory bowel disease.We review additional cases of ulcerative colitis presented after sars-co v-2 infection and summarize the possible mechanisms that underlie the gastrointestinal abnormalities in covid-19 patients.

Journal: Autopsy & case reports (2022)
Publication types: Case Reports;Journal Article
Phosphorus Release and Regeneration Following Laboratory Lysis of Bacterial Cells.

The availability of phosphorus limits primary production in large regions of the oceans, and marine microbes use a variety of strategies to overcome this limitation.One strategy is the production of alkaline phosphatase (apase), which allows hydrolysis of larger dissolved organic phosphorus (dop) compounds in the periplasm or at the cell surface for transport of orthophosphate into the cell.Cell lysis, driven by grazing and viral infection, releases phosphorus-containing cell components, along with active enzymes that could persist after lysis.The importance of this continued enzymatic activity for orthophosphate regeneration is unknown.We used three model bacteria -escherichia coli k-12 mg1655,synechococcussp.Wh7803, and prochlorococcussp.Med4 - to assess the impact of continued apase activity after cell lysis, via lysozyme treatment, on orthophosphate regeneration.Direct release of orthophosphate scaled with cell size and was reduced under phosphate-starved conditions where apase activity continued for days after lysis.All lysate incubations showed post-lysis orthophosphate generation suggesting phosphatases other than apase maintain activity.Rates of dop hydrolysis and orthophosphate remineralization varied post-lysis among strains.escherichia coli k-12 mg1655 rates of remineralization were 0.6 and 1.2 amol cell-1hr-1under deplete and replete conditions;synechococcus wh7803 lysates ranged from 0.04 up to 0.3 amol cell-1hr-1during phosphorus deplete and replete conditions, respectively, while in prochlorococcus med4 lysates, rates were stable at 0.001 amol cell-1hr-1in both conditions.The range of rates of hydrolysis and regeneration underscores the taxonomic and biochemical variability in the process of nutrient regeneration and further highlights the complexity of quantitatively resolving the major fluxes within the microbial loop.

Journal: Frontiers in microbiology (2021)
Publication types: Journal Article
Defining the clinician's role in early health technology assessment during medical device innovation - a systematic review.

Early health technology assessment (ehta) is an evolving field in health policy which aims to provide decision support and mitigate risk during early medical device innovation.The clinician is a key stakeholder in this process and their role has traditionally been confined to assessing device efficacy and safety alone.There is however, no data exploring their role in this process and how they can contribute towards it.This motivated us to carry out a systematic review to delineate the role of the clinician in ehta as per the prisma guidelines.Methods a systematic search of peer reviewed literature was undertaken across pubmed, ovid medline and web of science up till june 2018.Studies that were suitable for inclusion focused on clinician input in health technology assessment or early medical device innovation.A qualitative approach was utilised to generate themes on how clinicians could contribute in general and specific areas of ehta.Data was manually extracted by the authors and themes were agreed in consensus using a grounded theory framework.The specific stages included: all stages of ehta, basic research on mechanisms, targeting for specific product, proof of principle and prototype and product development.Bias was assessed utilising the nice qualitative checklist.Results a total of 33 articles met the inclusion criteria for the review.Areas identified in which the clinicians could contribute to ehta included: i) needs driven problem solving, ii) conformity assessment of mds, iii) economic evaluation of mds and iv) addressing the conflicts in interest.For clinicians' input across the various specific areas of ehta, an innovation framework was generated based on the subthemes extracted.Conclusions the following review has identified the various segments in which clinicians can contribute to ehta to inform stakeholders and has also proposed an innovation framework.

Journal: BMC health services research (2019)
Publication types: Journal Article;Systematic Review
The role of PKA/PP2B-mediated Drp1 phosphorylation and the subsequent EGFR inhibition in Cr(VI)-induced premature senescence.

In recent years, frequent hexavalent chromium [cr(vi)] pollution incidents have severely damaged the ecology and endangered the public health.It is well known that cell senescence could promote the carcinogenesis, thus the related research on the occurrence of premature senescence is of great significance to the elucidation of the carcinogenic mechanism of cr(vi).We previously confirmed that long-term low-dose cr(vi) exposure induced premature senescence, but the key molecular events that determine the occurrence of premature senescence are still unclear.In the present study, we found that cr(vi) induced phosphorylation of dynamin-relatedprotein 1 (drp1)-s637 site in premature senescent cells, which was accompanied with the decrease of mitochondrial fission.We also demonstrated that the phosphorylation status of drp1-s637 after cr(vi) exposure was related to the antagonism of pka/pp2b, and continuous dephosphorylation of drp1-s637 attenuated premature senescence caused by cr(vi).The epidermal growth factor receptor (egfr) overexpression significantly alleviated the occurrence of premature senescence, and the expressions of efgr and its downstream molecules were related to the phosphorylation status of drp1-s637.In brief, we revealed the role of pka/pp2b-mediated drp1 phosphorylation and the subsequent egfr inhibition in cr(vi)-induced premature senescence.This study is the first time to link the phosphorylation of drp1 with cr(vi)-induced premature senescence, in order to find the key molecular events that determine the occurrence of premature senescence and demonstrate the molecular mechanism of abnormal elongated mitochondria formation in the senescence process.The significance of this study is to explore the carcinogenesis of cr(vi) and provide new ideas and strategies for the targeted treatment of cr(vi)-related cancers.

Journal: Ecotoxicology and environmental safety (2021)
Publication types: Journal Article
Development of the eTAP-T: A measure of mental health professionals' attitudes and process towards e-interventions.

The development of technological applications within psychotherapy has opened up new opportunities for mental health professionals (mhps) to address client need.Despite the clinical efficacy and utility of evidence-based electronic interventions, mhps' engagement with these interventions remains poorly understood.Objective the aim of the current study was to develop and conduct a preliminary psychometric investigation of the measurement properties of the electronic-therapy attitudes and process questionnaire - therapist version (e tap-t).Based upon the theory of planned behaviour (tpb), the e tap-t measures factors related to mhps' engagement with e-interventions for clients' mental health concerns.Methods participants were 222 practicing mhps who reported being in direct contact with clients.Participants completed the e tap-t and related measures with a subsample of 40 participants completing a two-week follow up questionnaire.Results exploratory factor analysis with item reduction resulted in a 12-item e tap-t, with four factors accounting for 82% of variance.The four factors (subjective norms, perceived behavioural control, attitudes and intentions) were consistent with the four tpb domains.The e tap-t demonstrated satisfactory validity and reliability as per the consensus-based standards for the selection of health measurement instruments.Conclusions the development and preliminary psychometric investigation supported the validity and reliability of the e tap-t.Further research is required for confirmatory analyses.The e tap-t may be useful in identifying the training needs of mhps and evaluating training programs.Specific areas for intervention, such as attitudes or perceived credibility may be identified and targetted, with the measure then also used to evaluate change across these domains.It is anticipated that the e tap-t may useful tool in improving uptake of digital interventions by mhps.

Journal: Internet interventions (2019)
Publication types: Journal Article
Not enough can be enough: feasibility of the IdyllaEGFRmutation test when reuse of stained tissue slides is the only option available.

S the minimally invasive procedures used in the diagnostic workup of patients with advanced non-small cell lung cancer (nsclc) often provide poor yields of pathological material suitable for molecular analyses.Not infrequently, the dna yield from small biopsies/cytological samples is insufficient for the assessment of genomic biomarkers that inform personalised therapies.The idylla egfrmutation test (iemt) has been specifically designed to process formalin-fixed paraffin-embedded sections without requiring preliminary dna extraction.this study aims to evaluate the diagnostic accuracy of iemt when used to analyse archival histopathology material.More specifically, our objective was to establish whether or not different staining procedures could affect assay performance.Methods twenty nsclc samples were selected accordingly to egfrmutational status.To mimic archived stained material, sections were subjected to h&e staining, fluorescent in situ hybridisation analyses or immunodetection by immunohistochemistry before being processed for iemt.Results parallel assessment of egfrmutational status by iemt on stained sections and next-generation sequencing on dna yielded a concordant result in 50 out of 60 tests (83.3%).The discoloration of h&e of the archived sample was found to be the optimal procedure to highlight all the actionable alterations of egfr.Conclusions iemt can provide remarkable diagnostic accuracy for the assessment of egfrmutational status also when the only source of pathological material available for molecular analyses is represented by h&e stained sections.Ad hoc supervision by a qualified molecular biologist is in any case recommended.

Journal: Journal of clinical pathology (2022)
Publication types: Journal Article
Giant perpendicular magnetic anisotropy in Fe/III-V nitride thin films.

Large perpendicular magnetic anisotropy (pma) in transition metal thin films provides a pathway for enabling the intriguing physics of nanomagnetism and developing broad spintronics applications.After decades of searches for promising materials, the energy scale of pma of transition metal thin films, unfortunately, remains only about 1 me v.This limitation has become a major bottleneck in the development of ultradense storage and memory devices.We discovered unprecedented pma in fe thin-film growth on the [formula: see text] n-terminated surface of iii-v nitrides from first-principles calculations.Pma ranges from 24.1 me v/u.c.In fe/bn to 53.7 me v/u.c.In fe/in n.Symmetry-protected degeneracy betweenx2-y2andxyorbitals and its lift by the spin-orbit coupling play a dominant role.As a consequence, pma in fe/iii-v nitride thin films is dominated by first-order perturbation of the spin-orbit coupling, instead of second-order in conventional transition metal/oxide thin films.This game-changing scenario would also open a new field of magnetism on transition metal/nitride interfaces.

Journal: Science advances (2018)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Research Support, U.S. Gov't, Non-P.H.S.
Methyl jasmonate mediates melatonin-induced cold tolerance of grafted watermelon plants.

Root-shoot communication has a critical role in plant adaptation to environmental stress.Grafting is widely applied to enhance the abiotic stress tolerance of many horticultural crop species; however, the signal transduction mechanism involved in this tolerance remains unknown.Here, we show that pumpkin- or figleaf gourd rootstock-enhanced cold tolerance of watermelon shoots is accompanied by increases in the accumulation of melatonin, methyl jasmonate (me ja), and hydrogen peroxide (h2o2).Increased melatonin levels in leaves were associated with both increased melatonin in rootstocks and me ja-induced melatonin biosynthesis in leaves of plants under cold stress.Exogenous melatonin increased the accumulation of me ja and h2o2and enhanced cold tolerance, while inhibition of melatonin accumulation attenuated rootstock-induced me ja and h2o2accumulation and cold tolerance.Me ja application induced h2o2accumulation and cold tolerance, but inhibition of ja biosynthesis abolished rootstock- or melatonin-induced h2o2accumulation and cold tolerance.Additionally, inhibition of h2o2production attenuated me ja-induced tolerance to cold stress.Taken together, our results suggest that melatonin is involved in grafting-induced cold tolerance by inducing the accumulation of me ja and h2o2.Me ja subsequently increases melatonin accumulation, forming a self-amplifying feedback loop that leads to increased h2o2accumulation and cold tolerance.This study reveals a novel regulatory mechanism of rootstock-induced cold tolerance.

Journal: Horticulture research (2021)
Publication types: Journal Article
Surgical management and long-term follow-up of aberrant right coronary arteries in adults.

S anomalous origins of the right coronary artery (rca) can cause ischaemia and sudden cardiac death, particularly if the rca runs between the aorta and pulmonary artery.Conventional coronary artery bypass grafting (cabg) can be affected by early graft failure due to collateral blood flow.We present our institutional experience in managing patients with rca anomalies.Methods a single-center retrospective review of all patients who underwent surgery for aberrant right coronary arteries between 2005 and 2021 was conducted and in-hospital and long-term outcomes were analysed at our institution.Results a total of 10 patients (5 females, median age: 51 years, 36-62) were identified.They presented with symptoms of chest pain (n = 8), dyspnoea (n = 1) or following cardiac arrest (n = 1).In the majority the rca originated from the left coronary sinus (n = 9).In one of those patients and one in whom the rca originated directly from the left anterior descending artery cabg was performed.The other 8 patients were treated using transfer of the rca ostium.All patients were discharged home (median hospital stay 5 days, range: 4-10).Four patients experienced post-op atrial fibrillation.No other complications were observed.At a median follow-up of 10 years and 9 months, 9 patients were alive and free from cardiac symptoms.One patient died 3 years postsurgery due to liver failure, unrelated to cardiac disease.Conclusions in patients with an aberrant rca, transfer of the ostium into the rcs carries a low surgical risk.It overcomes early graft failure in these patients, who present with a dynamic impairment in rca blood flow.However, if fixed proximal rca flow-limiting pathology exists, conventional bypass surgery is feasible.

Journal: Journal of cardiac surgery (2022)
Publication types: Journal Article
Controversies in Lung Cancer: Heterogeneity in Treatment Recommendations for Stage III NSCLC According to Disease Burden and Oncogenic Driver Alterations.

Introduction therapeutic options for stage iii non-small-cell lung cancer (nsclc) consist of definitive chemoradiation, surgery combined with neoadjuvant/adjuvant chemotherapy, and trimodality therapy.More recently, biologically driven systemic therapy options, including immunotherapy and targeted therapy, have become increasingly available.Methods a customized, case-based survey was designed and distributed to members of the international association for the study of lung cancer (iaslc) to determine practice habits and preferences for nsclc patients with stage iii disease and n2 to n3 nodal involvement.Results data were compiled from 87 respondents from 31 countries, including medical oncologists (49%), surgical oncologists (24%), and radiation oncologists (21%).Definitive chemoradiation was more likely to be recommended for stage iiic (98.2%) or stage iiib (75.8%) scenarios compared with stage iiia (59.6%) without actionable driver alterations (p < .0001 and .0003, respectively); and chemoradiation was more likely for stage iiib (57.7%) compared to stage iiia (39.9%) with actionable egfr/alk alterations (p = .008).Surgery was more likely to be recommended in the presence of an actionable alteration (38.7% vs.19%, p < .0001).Surgeons were more likely than medical oncologists to recommend surgical approaches in scenarios without actionable alterations (25.6% vs.11.2%, p < .0001) or with actionable alterations (57.5% vs.31.1%, p = .0001).Discussion the dominant recommended strategy for stage iii nsclc was chemoradiation, although respondents were more likely to recommend surgical approaches in the presence of actionable alterations.Despite the lack of reported clinical trial data, many iaslc lung cancer experts favored targeted therapy when actionable driver alterations were present.

Journal: Clinical lung cancer (2022)
Publication types: Journal Article
Understanding binding affinity and specificity of modular protein domains: A focus in ligand design for the polyproline-binding families.

Within the modular protein domains there are five families that recognize proline-rich sequences: sh3, ww, evh1, gyf and uev domains.This chapter reviews the main strategies developed for the design of ligands for these families, including peptides, peptidomimetics and drugs.We also describe some studies aimed to understand the molecular reasons responsible for the intrinsic affinity and specificity of these domains.

Journal: Advances in protein chemistry and structural biology (2022)
Publication types: Journal Article
Boosting nanotoxicity to combat multidrug-resistant bacteria in pathophysiological environments.

Nanomaterials are promising novel antibiotics, but often ineffective.We found that nanomaterial-bacteria complex formation occurred with various nanomaterials.The bactericidal activity of nms strongly depends on their physical binding to (multidrug-resistant) bacteria.Nanomaterials' binding and antibiotic effect was reduced by various pathophysiological biomolecule coronas strongly inhibiting their antibiotic effects.We show from analytical toin vitrotoin vivothat nanomaterial-based killing could be restored by acidic p h treatments.Here, complex formation of negatively-charged, plasma corona-covered, nanomaterials with bacteria was electrostatically enhanced by reducing bacteria's negative surface charge.Employingin vivoskin infection models, acidic p h-induced complex formation was critical to counteract staphylococcus aureusinfections by silver nanomaterials.We explain why nano-antibiotics show reduced activity and provide a clinically practical solution.

Journal: Nanoscale advances (2020)
Publication types: Journal Article