syedzayyan/paper_mill_benchmark huggingface dataset:
Venous Thrombotic Risk in Transgender Women Undergoing Estrogen Therapy: A Systematic Review and Metaanalysis.

Transgender women are female individuals who were recorded men at birth based on natal sex.Supporting a person's gender identity improves their psychological health, and gender-affirming hormones reduce gender dysphoria and benefit mental health.For transgender women, estrogen administration has clinically significant benefits.Previous reviews have reported conflicting literature on the thrombotic risk of estrogen therapy in transgender women and have highlighted the need for more high-quality research.Content to help address the gap in understanding thrombotic risk in transgender women receiving estrogen therapy, we performed a systematic literature review and metaanalysis.Two evaluators independently assessed quality using the ottawa scale for cohort studies.The poisson normal model was used to estimate the study-specific incidence rates and the pooled incidence rate.Heterogeneity was measured using higgins i2statistic.The overall estimate of the incidence rate was 2.3 per 1000 person-years (95% ci, 0.8-6.9).The heterogeneity was significant (i2= 74%;p= 0.0039).Summary our study estimated the incidence rate of venous thromboembolism in transgender women prescribed estrogen to be 2.3 per 1000 person-years, but because of heterogeneity this estimate cannot be reliably applied to transgender women as a group.There are insufficient data in the literature to partition by subgroup for subgroup prohibiting the analysis to control for tobacco use, age, and obesity, which is a major limitation.Additional studies of current estrogen formulations, modes of administration, and combination therapies, as well as studies in the aging transgender population, are needed to confirm thrombotic risk and clarify optimal therapy regimens.

Journal: Clinical chemistry (2019)
Publication types: Journal Article;Meta-Analysis;Systematic Review
The bioprofiling of antibacterials in olive leaf extracts via thin layer chromatography-effect directed analysis (TLC-EDA).

In this study, effect-directed analysis (eda) (i.e.Tlc hyphenated with an in situ mtt (3-(4,5-dimethylthiazol-2-yl)- 2,5-diphenyltetrazolium bromide) antimicrobial assay), was used for screening and identification of antimicrobials in olive leaf extract.Eda detected that the same compounds exhibited significant antimicrobial activity against bacterial species of the genera enterococcus (e.Faecalis), escherichia (e.Coli), streptococcus (s.Mutans) and staphylococcus (s.Aureus).Flash chromatography-fractionation was used to isolate antimicrobial compounds in olive leaf extract.The active compounds were identified as maslinic acid and oleanolic acid by comparing rfvalues of the detected active bands with the standard reference materials, with identity confirmed with nmr and atr-ftir spectroscopy.Maslinic and oleanolic acids were tested on the e.Faecalis strain (which displayed the highest sensitivity in the mtt assay) to determine their inhibiting concentration 50% (ic50) and minimum bactericidal concentrations.

Journal: Journal of pharmaceutical and biomedical analysis (2022)
Publication types: Journal Article
Genetic variation and genetic control of intraspikelet differences in grain weight and seed dormancy in wild and domesticated emmer wheats.

Seed dormancy, a vital strategy for wild plant species to adapt to an unpredictable environment in their natural habitats, was eliminated from cereals during the domestication process.Intraspikelet differences in grain size and seed dormancy have been observed in wild emmer wheat.To elucidate the genetic variation of these intraspikelet differences and to determine their genetic control, grain weight ratio (first florets/second florets) (gwr), germination rate, and germination index (gi) were analyzed in 67 wild and 82 domesticated emmer wheat accessions, as well as f1hybrids, f2populations, and f3-f6populations derived from reciprocal crosses between wild and domesticated lines.Only the grains on the first florets of two-grained spikelets in wild accessions had varying degrees of dormancy with gi ranging from 0 to 1, which positively correlated with their gwr.This implies that wild emmer populations comprised genotypes with varying degrees of dormancy, including nondormant genotypes.According to segregations observed in f2populations, the intraspikelet grain weight difference was controlled by two independently inherited loci.Furthermore, low-gwr populations with low or high gi values could be selected in f5and f6generations, implying that the major loci associated with dormancy might be independent of intraspikelet grain weight difference.

Journal: Breeding science (2022)
Publication types: Journal Article
Accurate Determination of the Neutron Skin Thickness of ^{208}Pb through Parity-Violation in Electron Scattering.

We report a precision measurement of the parity-violating asymmetry a_{pv} in the elastic scattering of longitudinally polarized electrons from ^{208}pb.We measure a_{pv}=550±16(stat)±8(syst) parts per billion, leading to an extraction of the neutral weak form factor f_{w}(q^{2}=0.00616 ge v^{2})=0.368±0.013.Combined with our previous measurement, the extracted neutron skin thickness is r_{n}-r_{p}=0.283±0.071 fm.The result also yields the first significant direct measurement of the interior weak density of ^{208}pb: ρ_{w}^{0}=-0.0796±0.0036(exp)±0.0013(theo) fm^{-3} leading to the interior baryon density ρ_{b}^{0}=0.1480±0.0036(exp)±0.0013(theo) fm^{-3}.The measurement accurately constrains the density dependence of the symmetry energy of nuclear matter near saturation density, with implications for the size and composition of neutron stars.

Journal: Physical review letters (2021)
Publication types: Journal Article
Presence and Virulence Characteristics of Shiga ToxinEscherichia coliand Non-Shiga Toxin-ProducingEscherichia coliO157 in Products from Animal Protein Supply Chain Enterprises in South Africa.

Consumption of food that is contaminated with shiga toxin-producing escherichia coli(stec) has been linked to serious foodborne disease outbreaks.Our aim was to provide a descriptive study on the presence and virulence factors of stec and non-stec o157 isolates recovered from 2017 diverse meat and meat product samples from all provinces of south africa (n= 1758) and imported meat from south africa's major ports of entry (n= 259).A cross-sectional study was undertaken to analyze raw intact meat, raw processed (nonintact) meat, and ready-to-eat (rte) meat from cattle, game, sheep, pork, and poultry.Isolation was performed using international organization for standardization-based microbiological techniques, while detection and characterization were performed using real-time pcr (rt-pcr) and conventional pcr targeting thestx1,stx2,eae, andehx agenes.A total of 28 of 1758 (1.59%; confidence interval [ci] 1.1-2) samples from the domestic market tested positive (n= 10escherichia coli o157:h7;n= 14escherichia coli o157: non-h7; andn= 4 non-o157 stec), while 4/259 (1.54%; ci 0.4-4) samples from ports of entry tested positive for escherichia coli o157:h7 based on rt-pcr.On average, diverse samples from domestic meat and meat products from cattle showed the highest number of positive samples (22/1758; 1.3%; ci 0.8-2).Rt-pcr detected more positive samples (n= 32) compared with culture (n= 17).Sixteen different virulence factor combinations were observed.Our findings demonstrate a relatively low presence of diverse stec strains along the meat value chain.To our knowledge, this is the first extensive report in south africa to analyze stec and non-stec o157 from local and imported samples from many animal species.This is important as it reveals virulence factors in stec strains circulating in meat and meat products in south africa, which contribute to the risk of infection.

Journal: Foodborne pathogens and disease (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Correlates of a southern diet pattern in a national cohort study of blacks and whites: the REasons for Geographic And Racial Differences in Stroke (REGARDS) study.

The southern dietary pattern, derived within the reasons for geographic and racial differences in stroke (regards) cohort, is characterised by high consumption of added fats, fried food, organ meats, processed meats and sugar-sweetened beverages and is associated with increased risk of several chronic diseases.The aim of the present study was to identify characteristics of individuals with high adherence to this dietary pattern.We analysed data from regards, a national cohort of 30 239 black and white adults ≥45 years of age living in the usa.Dietary data were collected using the block 98 ffq.Multivariable linear regression was used to calculate standardised beta coefficients across all covariates for the entire sample and stratified by race and region.We included 16 781 participants with complete dietary data.Among these, 34·6 % were black, 45·6 % male, 55·2 % resided in stroke belt region and the average age was 65 years.Black race was the factor with the largest magnitude of association with the southern dietary pattern (δ = 0·76 sd, p < 0·0001).Large differences in southern dietary pattern adherence were observed between black participants and white participants in the stroke belt and non-belt (stroke belt δ = 0·75 sd, non-belt δ = 0·77 sd).There was a high consumption of the southern dietary pattern in the us black population, regardless of other factors, underlying our previous findings showing the substantial contribution of this dietary pattern to racial disparities in incident hypertension and stroke.

Journal: The British journal of nutrition (2021)
Publication types: Journal Article;Research Support, N.I.H., Extramural
The Gill Microbiota ofArgopecten purpuratusScallop Is Dominated by Symbiotic Campylobacterota and Upwelling Intensification Differentially Affects Their Abundance.

Despite the great importance of gills for bivalve mollusks (respiration, feeding, immunity), the microbiota associated with this tissue has barely been characterized in scallops.The scallop argopecten purpuratusis an important economic resource that is cultivated in areas where coastal upwelling is intensifying by climate change, potentially affecting host-microbiota interactions.Thus, we first characterized the bacterial community present in gills from cultivated scallops (by 16s r rna gene amplicon sequencing) and assessed their stability and functional potential in animals under farm and laboratory conditions.Results showed that under both conditions the gill bacterial community is dominated by the phylum campylobacterota (57%), which displays a chemoautotrophic potential that could contribute to scallop nutrition.Within this phylum, two phylotypes, namely symbionts a and b, were the most abundant; being, respectively, taxonomically affiliated to symbionts with nutritional functions in mussel gills, and to uncultured bacteria present in coral mucus.Additionally, in situ hybridization and scanning electron microscopy analyses allowed us to detect these symbionts in the gills of a.Purpuratus.Given that shifts in upwelling phenology can cause disturbances to ecosystems, affecting bacteria that provide beneficial functions to the host, we further assessed the changes in the abundance of the two symbionts (via q pcr) in response to a simulated upwelling intensification.The exposure to combined decreasing values in the temperature, p h, and oxygen levels (upwelling conditions) favored the dominance of symbiont b over symbiont a; suggesting that symbiont abundances are modulated by these environmental changes.Overall, results showed that changes in the main campylobacterota phylotypes in response to upwelling intensification could affect its symbiotic function in a.Purpuratusunder future climate change scenarios.These results provide the first insight into understanding how scallop gill-microbial systems adapt and respond to climate change stressors, which could be critical for managing health, nutrition, and scallop aquaculture productivity.

Journal: Microorganisms (2022)
Publication types: Journal Article
Performance of constructed wetland for selenium, nutrient and heavy metals removal from mine effluents.

Passive biological treatment using constructed wetlands has been employed as a cost-effective and environmentally friendly alternative for mine effluents treatment in canada.The current work aimed to assess the performance of a laboratory-scale constructed wetland for the removal of selenium, nutrients and heavy metals.This work achieved a maximum selenium removal rate of 54.13% corresponding to the highest hydraulic residence time (almost 47 days).Typha latifolia was efficient for selenium assimilation and removal from mine effluent.4.4% of se mass was accumulated in the under and aboveground biomass while 32.2% was volatilized.Levels 96%) and nitrite in association with the increase of nitrate concentrations in the outlet compared to the inlet.The concentrations of other nitrogen compounds mainly thiocyanate and cyanate have significantly decreased from initial average values of 163 and 22.7 mg.l-1in the influent to 1.5 and 0.3 mg.l-1final concentrations, respectively.Orthophosphate concentrations were also efficiently decreased from an influent average value of 21.5 ± 3.3 mg.l-1to an effluent concentration of 9.1 ± 4.4 mg.l-1.Understanding the selenium and nutrient removal mechanisms will allow treatment performance enhancement and the development of large-scale constructed wetlands for sophisticated mine effluent treatment.

Journal: Chemosphere (2021)
Publication types: Journal Article
Prenatal exposure to chemical mixtures and working memory among adolescents.

Working memory is the ability to keep information in one's mind and mentally manipulate it.Decrements in working memory play a key role in many behavioral and psychiatric disorders, therefore identifying modifiable environmental risk factors for such decrements is important for mitigating these disorders.There is some evidence that prenatal exposure to individual chemicals may adversely impact working memory among children, but few studies have explored the association of co-exposure to multiple chemicals with this outcome in adolescence, a time when working memory skills undergo substantial development.We investigated the association of organochlorines (dde, hcb, pcbs) and metals (lead, manganese) measured in cord serum and cord blood, respectively, with working memory measured with the wide range assessment of memory and learning, 2nd edition among 373 adolescents living near a superfund site in new bedford, massachusetts.We used bayesian kernel machine regression (bkmr) and linear regression analyses and assessed effect modification by sex and prenatal social disadvantage.In bkmr models, we observed an adverse joint association of the chemical mixture with verbal, but not symbolic, working memory.In co-exposure and covariate-adjusted linear regression models, a twofold increase in cord blood manganese was associated with lower working memory scaled scores, with a stronger association with verbal working memory (difference = -0.75; 95% ci: -1.29, -0.20 points) compared to symbolic working memory (difference = -0.44; 95% ci: -1.00, 0.12 points).There was little evidence of effect modification by sex and some evidence associating organochlorine pesticides with poorer working memory scores among those with greater prenatal social disadvantage.This study provided evidence of an adverse joint association of a chemical mixture with a verbal working memory task among adolescents, as well as an adverse association of prenatal manganese exposure with working memory.

Journal: Environmental research (2022)
Publication types: Journal Article;Research Support, N.I.H., Extramural;Research Support, U.S. Gov't, P.H.S.
Peripheral Nerve Stimulation for Chronic Shoulder Pain Due to Rotator Cuff Pathology.

Chronic shoulder pain affects millions of patients each year.Various conditions can result in shoulder pain ranging from rotator cuff injury, subacromial impingement, post-surgical pain, bursitis, adhesive capsulitis, and osteoarthritis.Typically, rotator cuff pathology is diagnosed by physical exam maneuvers along with advanced imaging modalities.Initial treatment for rotator cuff injury typically consists of physical therapy, nsaids, and possible injections depending on the extent of the injury.If conservative measures fail or the injury is too substantial, surgery is typically the appropriate treatment for healthy patients.For patients who are not surgical candidates or refuse surgery, peripheral nerve stimulation (pns) can be considered.With the use of pns, the suprascapular and axillary nerves can be targeted to provide pain relief for a variety of chronic shoulder pain issues.We describe the use of pns in 2 patients with significant rotator cuff pathology who were not surgical candidates.

Journal: Orthopedic reviews (2022)
Publication types: Journal Article
Heparanase regulates EMT and cancer stem cell properties in prostate tumors.

Prostate cancer displays a certain phenotypic plasticity that allows for the transition of cells from the epithelial to the mesenchymal state.This process, known as epithelial-mesenchymal transition (emt), is one of the factors that give the tumor cells greater invasive and migratory capacity with subsequent formation of metastases.In addition, many cancers, including prostate cancer, are derived from a cell population that shows the properties of stem cells.These cells, called cancer stem cells (cscs) or tumor-initiating cells, not only initiate the tumor process and growth but are also able to mediate metastasis and drug resistance.However, the impact of emt and cscs in prostate cancer progression and patient survival is still far from fully understood.Heparanase (hpse), the sole mammalian endoglycosidase capable of degrading heparan sulfate (hs), is also involved in prostate cancer progression.We had previously proved that hpse regulates emt in non-cancerous pathologies.Two prostate cancer cell lines (du145 and pc3) were silenced and overexpressed for hpse.Expression of emt and stemness markers was evaluated.Results showed that the expression of several emt markers are modified by hpse expression in both the prostate cancer cell lines analyzed.In the same way, the stemness markers and features are also modulated by hpse expression.Taken together, the present findings seem to prove a new mechanism of action of hpse in sustaining prostate cancer growth and diffusion.As for other tumors, these results highlight the importance of hpse as a potential pharmacological target in prostate cancer treatment.

Journal: Frontiers in oncology (2022)
Publication types: Journal Article
Effect Of Bevacizumab On Growth Of Human Nasal Polyposis In Vitro; An Off-Label Use Of Anti-Angiogenic Agent For Nasal Polyposis Treatment.

Introduction nasal polyposis (np) is a frequent problem during adulthood.Treatment of np is primarily based on drugs, such as oral or topical steroids and in some types, by surgery.Despite of available therapeutic options for np, recurrence after polypectomy is found.Vascular endothelial growth factor (vegf) is a known factor involved in np.Bevacizumab is a monoclonal antibody, which acts against vegf.Aim regarding the availability of bevacizumab and its use in ophthalmic off-label application, in this study, we hypothesized that it could be a choice of non-invasive treatment.The researchers aimed at evaluating the use of bevacizumab in vitro on the growth of np.Materials and methods in this experimental study, the researchers used eight non-allergic np tissues from patients admitted for polypectomy clinic of imam reza hospital, mashhad.Tissues were cultured in dmem medium based on standard protocols in the presence or absence of bevacizumab (10 to 250 μm) then incubated.The mean of the responses was reported.The level of vegf and mtt test for np epithelial cell viability were determined for each group.Data were analyzed using the spss software.Results the researchers demonstrated that bevacizumab leads to a decrease in the level of vegf (the most common cause of angiogenesis in np) in media culture of np, dose-dependently (p<0.001).The highest mean was related to the 10-μm group and the least mean was related to the 250-μm group.In mtt test after 5 days, it was shown that the percentage of viable epithelial np cells (due to apoptosis) was decreased dose-dependently and could lead to resolving np tissue (p<0.001), significantly.Conclusion this study showed that bevacizumab could help decrease the growth of np tissue dose-dependently in organ culture in vitro by inhibiting vegf.It seems that bevacizumab could be a good candidate for the treatment of non-allergic np.

Journal: Drug design, development and therapy (2019)
Publication types: Journal Article
Borane Adducts of Aromatic Phosphorus Heterocycles: Synthesis, Crystallographic Characterization and Reactivity of a Phosphinine-B(C6F5)3Lewis Pair.

A phosphinine-borane adduct of a me3si-functionalized phosphinine and the lewis acid b(c6f5)3has been synthesized and characterized crystallographically for the first time.The reaction strongly depends on the nature of the substituents in the α-position of the phosphorus heterocycle.In contrast, the reaction of b2h6with various substituted phosphinines leads to an equilibrium between the starting materials and the phosphinine-borane adducts that is determined by the lewis basicity of the phosphinine.The novel phosphinine borane adduct (6-b(c6f5)3) shows rapid and facile insertion and [4+2] cycloaddition reactivity towards phenylacetylene.A hitherto unknown dihydro-1-phosphabarrelene is formed with styrene.The reaction with an ester provides a new, facile and selective route to 1-r-phosphininium salts.These salts then undergo a [4+2] cycloaddition in the presence of me3si-c≡ch and styrene to cleanly form unprecedented derivatives of 1-r-phosphabarrelenium salts.

Journal: Chemistry (Weinheim an der Bergstrasse, Germany) (2022)
Publication types: Journal Article
Rubber-like elasticity in laser-driven free surface flow of a Newtonian fluid.

The energy needed to deform an elastic solid may be recovered, while in newtonian fluids, like water and glycerol, deformation energy dissipates on timescales of the intermolecular relaxation time [formula: see text] .For times considerably longer than [formula: see text] the existence of shear elasticity requires long-range correlations, which challenge our understanding of the liquid state.We investigated laser-driven free surface bubbles in liquid glycerol by analyzing their expansion and bursting dynamics, in which we found a flow-dominating, rubber-like elasticity unrelated to surface tension forces.In extension to findings of a measurable liquid elasticity at even very low deformation frequencies [l.Noirez, p.Baroni,j.Mol.Struct.972, 16-21 (2010), a.Zaccone, k.Trachenko,proc.Natl.Acad.Sci.U.s.a.117, 19653-19655 (2020)], that is difficult to access under increased strain, we find a robust, strain rate driven elasticity.The recovery of deformation energy allows the bursting bubble to reach taylor-culick velocities 20-fold higher than expected.The elasticity is persistent for microseconds, hence four orders of magnitude longer than [formula: see text] .The dynamic shows that this persistence cannot originate from the far tail of a distribution of relaxation times around [formula: see text] but must appear by frustrating the short molecular dissipation.The longer time should be interpreted as a relaxation of collective modes of metastable groups of molecules.With strain rates of 106s-1, we observe a metastable glycerol shell exhibiting a rubber-like solid behavior with similar elasticity values and characteristic tolerance toward large strains, although the molecular interaction is fundamentally different.

Journal: Proceedings of the National Academy of Sciences of the United States of America (2023)
Publication types: Journal Article