syedzayyan/paper_mill_benchmark huggingface dataset:
Bioinformatic-based mechanism identification ofE2F1-related ceRNA andE2F1immunoassays in hepatocellular carcinoma.

E2f1is an important transcription factor.Previous studies have shown that the overexpression of e2f1is closely related to the occurrence and development of hepatocellular carcinoma (hcc).However, the current research on the regulatory mechanism of e2f1is still insufficient.This study sought to identify valuable therapeutic e2f1-related targets for hcc.Methods hcc-related transcriptome data and patient clinical information downloaded from the cancer genome atlas (tcga) database.The expression of the e2f1gene in pan-cancer was analyzed using the tumor immune estimation resource (timer) 2.0 database, and the expression level of e2f1in hcc was verified using the gene expression profiling interactive analysis database.The overall survival (os) and progression-free survival (pfs) in hcc patients were also analyzed.Subsequently, based on the encyclopedia of rna interactomes (encori) database, we adopted e2f1as the research objective and identified the target long non-coding rnas (lnc rnas) and micro rnas that suggested the competing endogenous rna (ce rna) mechanisms related to e2f1.We also performed a correlation analysis of e2f1using the r language package that contained immune cell and immune checkpoint information.Finally, the drug sensitivity of e2f1 was detected using the r language package, "p rrophetic." results ultimately, the following 6 potential ce rna-based pathways targeting e2f1were identified-lnc rna:linc01224,pcbp1-as1, and itga9-as1-mi r-29b-3p-e2f1;lnc rna: snhg7and thumpd3-as1, and linc02323-mi r-29c-3p-e2f1.Cluster of differentiation (cd)4 memory activated t cells, memory b cells, eosinophils, and t follicular helper cells were positively correlated with e2f1(p 0.2).According to the drug sensitivity analysis,e2f1may be sensitive to 39 drugs (p<0.05).Conclusions this study provides a valuable direction for researching transcription factor e2f1, which may be conducive in identifying research targets for hcc-related molecular biological therapy and immunotherapy in future.

Journal: Journal of gastrointestinal oncology (2022)
Publication types: Journal Article
Effect of Prior Exercise on Postprandial Lipemia: An Updated Meta-Analysis and Systematic Review.

The purpose of this systematic review was to synthesize the results from current literature examining the effects of prior exercise on the postprandial triglyceride (tg) response to evaluate current literature and provide future direction.A quantitative review was performed using meta-analytic methods to quantify individual effect sizes.A moderator analysis was performed to investigate potential variables that could influence the effect of prior exercise on postprandial tg response.Two hundred and seventy-nine effects were retrieved from 165 studies for the total tg response and 142 effects from 87 studies for the incremental area under the curve tg response.There was a moderate effect of exercise on the total tg response (cohen's d = -0.47; p < .0001).Moderator analysis revealed exercise energy expenditure significantly moderated the effect of prior exercise on the total tg response (p < .0001).Exercise modality (e.g., cardiovascular, resistance, combination of both cardiovascular and resistance, or standing), cardiovascular exercise type (e.g., continuous, interval, concurrent, or combined), and timing of exercise prior to meal administration significantly affected the total tg response (p < .001).Additionally, exercise had a moderate effect on the incremental area under the curve tg response (cohen's d = -0.40; p < .0001).The current analysis reveals a more homogeneous data set than previously reported.The attenuation of postprandial tg appears largely dependent on exercise energy expenditure (∼2 mj) and the timing of exercise.The effect of prior exercise on the postprandial tg response appears to be transient; therefore, exercise should be frequent to elicit an adaptation.

Journal: International journal of sport nutrition and exercise metabolism (2022)
Publication types: Systematic Review;Meta-Analysis;Journal Article
Rare case of low-grade fibromyxoid sarcoma of the thoracic wall with complete sternum reconstruction.

An 18-year-old boy presented with a giant midline mass with 9 years of evolution.The tumor was excised, and reconstruction made with a customized sternum implant and a free latissimus dorsi muscle flap with skin graft.Histological analysis was compatible with low-grade fibromyxoid sarcoma (lgfms).

Journal: Case reports in plastic surgery & hand surgery (2022)
Publication types: Case Reports;Journal Article
Health Care Disparities and the Future of Pancreatic Cancer Care.

There have been tremendous advances in the diagnosis and treatment of pancreatic cancer in the past decade, yet we are failing to achieve equitable outcomes for all patient populations.Disparities exist in the incidence, diagnosis, treatment, and outcomes of patients with pancreatic cancer.Inequities are based on racial and ethnic group, sex, socioeconomic status, and geography.To address disparities, future steps must focus on research methods, including collection and methodology, and policy measures, including access, patient tools, hospital incentives, and workforce diversity.Through these comprehensive efforts, we can begin to rectify inequitable care for treatment of patients with pancreatic cancer.

Journal: Surgical oncology clinics of North America (2021)
Publication types: Journal Article;Review
The claw sign predicts first-pass effect in mechanical thrombectomy for cerebral large vessel occlusion in the anterior circulation.

Mechanical thrombectomy (mt) is an effective treatment for acute cerebral large vessel occlusion (lvo).Complete recanalization of vessels in a single procedure is defined as the first-pass effect (fpe) and is associated with good prognosis.In this study, angiographic clot protruding sign termed the "claw sign," was examined as candidate preoperative imaging factor for predicting the fpe.Methods we retrospectively analyzed data from 91 consecutive patients treated for acute lvo in the anterior circulation by mt between january 2014 and december 2019.The claw sign was defined as a thrombus that protruded proximally by more than half of the diameter of the parent artery.Radiological findings such as claw sign, clinical and etiological features, and outcomes were compared between groups with and without successful fpe.Multivariate analysis was conducted to evaluate perioperative factors associated with fpe.Results fpe was achieved in 26 of 91 (28.6%) patients and the claw sign was observed in 34 of 91 (37.4%) patients.The claw sign was significantly more frequent in the successful fpe group than in the failed fpe group (53.8% vs.30.8%;p= 0.040).After the multivariate analysis, the claw sign was the only pretreatment parameter that could predict fpe (odds ratio, 2.67; 95% confidence interval, 1.01-7.06;p= 0.047).Conclusion the claw sign is an angiographic imaging factor that might predict fpe after mt for anterior circulation acute ischemic stroke.

Journal: Surgical neurology international (2022)
Publication types: Journal Article
Clinical and radiological predictors of response to lumbar transforaminal epidural steroid injection at 3 months: A retrospective study.

Transforaminal epidural steroid injection (tfesi) is commonly used to relieve pain due to intervertebral disc displacements (idd).Poorly defined selection criteria lead to post procedure dissatisfaction among patients.We aimed to find clinical and magnetic resonance imaging (mri) predictors for pain relief at 3 months following a tfesi.Poorly defined selection criteria lead to post procedure dissatisfaction among patients.Methods a retrospective study of 116 patients who had undergone tfesi.Predictors used were - age, duration of symptoms, body mass index, neuropathic character of pain, dermatomal distribution of pain, claudication distance, response to anti-neuropathic medication and extent of nerve root compromise in mri as per pfirmann criteria.A relief of 50% or more at the end of 3 months was considered the criterion for significant pain relief from tfesi.Results at 3 months, 72% (84/116) had significant pain relief.Dermatomal distribution of pain (73%) and neurogenic claudication (71%) were the most prevalent clinical features.Dermatomal distribution of leg pain, responsiveness to anti-neuropathic medications and a pfirmann grade 2/3 in mri were the most important predictors with an odds ratio (or) of 12.1,p​< ​0.001, or 6.4,p​= ​0.002 and or 3.1,p​= ​0.056, respectively.The model was statistically significant χ2(3, n ​= ​116) ​= ​43.43,p ​<0.001 and explained 52% variance in the outcome.The model correctly predicted the outcome 85% times.Conclusions if a patient has leg pain which is dermatomal in distribution, responds to anti-neuropathic medications and has pfirmann grade 2/3 in mri, then chances of more than 50% relief persisting at 3 months after tfesi are significantly better.

Journal: Interventional pain medicine (2022)
Publication types: Journal Article
T cell repertoire profiling in allografts and native tissues in recipients with COVID-19 after solid organ transplantation: Insight into T cell-mediated allograft protection from viral infection.

Introduction the effects of the sars-co v-2 virus on the body, and why the effects are more severe in certain patients, remain incompletely understood.One population of special interest is transplant recipients because of their immunosuppressed state.Understanding the pathophysiology of graft dysfunction in transplant patients with the covid-19 viral syndrome is important for prognosticating the risk to the graft as well as understanding how best to prevent and, if necessary, treat graft injury in these patients.Methods we analyzed multiple types of solid organ transplant recipients (liver, kidney, heart or lung) at our institution who died from sars-co v-2 and underwent autopsy (n = 6) or whose grafts were biopsied during active sars-co v-2 infection (n = 8).Their serum inflammatory markers were examined together with the histological appearance, viral load, and tcr repertoire of their graft tissue and, for autopsy patients, several native tissues.Results histology and clinical lab results revealed a systemic inflammatory pattern that included elevated inflammatory markers and diffuse tissue damage regardless of graft rejection.Virus was detected throughout all tissues, although most abundant in lungs.The tcr repertoire was broadly similar throughout the tissues of each individual, with greater sharing of dominant clones associated with more rapid disease course.There was no difference in viral load or clonal distribution of overall, covid-associated, or putative sars-co v-2-specific tcrs between allograft and native tissue.We further demonstrated that sarsco v-2-specific tcr sequences in transplant patients lack a donor hlarestricted pattern, regardless of distribution in allograft or native tissues,suggesting that recognition of viral antigens on infiltrating recipient cells can effectively trigger host t cell anti-viral responses in both the host and graft.Discussion our findings suggest a systemic immune response to the sars-co v-2 virus in solid organ transplant patients that is not associated with rejection and consistent with a largely destructive effect of recipient hla-restricted t cell clones that affects donor and native organs similarly.

Journal: Frontiers in immunology (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Cardiovascular consequences of sickle cell disease.

Sickle cell disease (scd) is an inherited blood disorder caused by a single point mutation within the beta globin gene.As a result of this mutation, hemoglobin polymerizes under low oxygen conditions causing red blood cells to deform, become more adhesive, and increase in rigidity, which affects blood flow dynamics.This process leads to enhanced red blood cell interactions with the endothelium and contributes to vaso-occlusion formation.Although traditionally defined as a red blood cell disorder, individuals with scd are affected by numerous clinical consequences including stroke, painful crisis episodes, bone infarctions, and several organ-specific complications.Elevated cardiac output, endothelium activation along with the sickling process, and the vaso-occlusion events pose strains on the cardiovascular system.We will present a review of the cardiovascular consequences of sickle cell disease and show connections with the vasculopathy related to scd.We will also highlight biophysical properties and engineering tools that have been used to characterize the disease.Finally, we will discuss therapies for scd and potential implications on scd cardiomyopathy.

Journal: Biophysics reviews (2022)
Publication types: Journal Article;Review
Influence of anthropogenic disturbances on antibiotic resistance gene distributions along the Minjiang River in Southeast China.

River-reservoir systems have become ubiquitous among modern global aquatic environments due to the widespread construction of dams.However, little is known of antibiotic resistance gene (arg) distributions in reservoir-river systems experiencing varying degrees of anthropogenic impacts.Here, the diversity, abundance, and spatial distribution of args were comprehensively characterized along the main stem of the minjiang river, a typical subtropic reservoir-river system in southeast china using high-throughput quantitative pcr.A total of 252 arg subtypes were detected from twelve sampling sites that were dominated by aac(3)-via, followed by czc a, bla tem, and sul1.Urban river waters (sites s9-s12) harbored more diverse args than did the reservoir waters (sites s1-s7), indicating more serious antibiotic resistance pollution in areas with larger population densities.Dam construction could reduce the richness and absolute abundance of args from upstream (site s7) to downstream (site s8).Urban river waters also harbored a higher proportion of mobile genetic elements (mges), suggesting that intensive human activities may promote arg horizontal gene transfers.The mean relative abundance of proteobacteria that could promote antibiotic resistance within microbial communities was also highest in urban river waters.Variance partitioning analysis indicated that mges and bacterial communities could explain 67.33%, 44.7%, and 90.29% of variation in selected args for the entire watershed, aquaculture waters, and urban river waters, respectively.These results further suggest that urban rivers are ideal media for the acquisition and spread of args.These findings provide new insights into the occurrence and potential mechanisms determining the distributions of args in a reservoir-river system experiencing various anthropogenic disturbances at the watershed scale.

Journal: Journal of environmental management (2022)
Publication types: Journal Article
Early technical pancreas failure in Simultaneous Pancreas-Kidney Recipients does not impact renal allograft outcomes.

Early pancreas loss in simultaneous pancreas-kidney (spk) transplants has been associated with longer perioperative recovery and reduced kidney allograft function.We assessed the impact of early pancreas allograft failure on transplant outcomes in a contemporary cohort of spk patients (n = 218).Early pancreas allograft loss occurred in 12.8% (n = 28) of recipients.Delayed graft function (dgf) was more common (21.4% vs.7.4%, p = 0.03) in the early pancreas loss group, but there were no differences in hospital length of stay (median 6.5 vs.7.0, p = 0.22), surgical wound complications (p = 0.12), or rejection episodes occurring in the first year (p = 0.87).Despite differences in dgf, both groups had excellent renal function at 1 year post-transplant (e gfr 64.1 ± 20.8 vs.65.8 ± 22.9, p = 0.75).There were no differences in patient (hr 0.58, 95% ci 0.18-1.87, p = 0.26) or kidney allograft survival (hr 0.84, 95% ci 0.23-3.06, p = 0.77).One- and 2-year protocol kidney biopsies were comparable between the groups and showed minimal chronic changes; the early pancreas loss group showed more cv changes at 2 years (p = 0.04).Current data demonstrate good outcomes and excellent kidney allograft function following early pancreas loss.

Journal: Clinical transplantation (2021)
Publication types: Journal Article
Photosynthesis and Cell Growth Trigger Degradation of Phycobilisomes during Nitrogen Limitation.

Under nitrogen (n)-limited conditions, the non-n2-fixing cyanobacterium synechocystis sp.Pcc 6803 (synechocystis 6803) actively grows during early stages of starvation by performing photosynthesis but gradually stops the growth and eventually enters dormancy to withstand long-term n limitation.During n limitation, synechocystis 6803 cells degrade the large light-harvesting antenna complex phycobilisomes (pbss) presumably to avoid excess light absorption and to reallocate available n to essential functions for growth and survival.These two requirements may be driving forces for pbs degradation during n limitation, but how photosynthesis and cell growth affect pbs degradation remains unclear.To address this question, we examined involvements of photosynthesis and cell growth in pbs degradation during n limitation.Treatment of photosynthesis inhibitors and shading suppressed pbs degradation and caused non-bleaching of cells during n limitation.Limitations of photosynthesis after initial gene responses to n limitation suppressed pbs degradation, implying that photosynthesis affects pbs degradation in a post-translational manner.In addition, limitations of cell growth by inhibition of peptidoglycan and fatty acid biosynthesis, low growth temperature and phosphorous starvation suppressed pbs degradation during n limitation.Because decreased photosynthetic activity led to decreased cell growth, and vice versa, photosynthesis and cell growth would inseparably intertwine each other and affect pbs degradation during n limitation in a complex manner.Our data shed light on the coordination mechanisms among photosynthesis, cell growth and pbs degradation during n limitation.

Journal: Plant & cell physiology (2022)
Publication types: Journal Article
Psychometric validation of teacher empathy scale: Measurement invariance in gender.

Result from wang et al.Study described the development and validation of an empathy scale for teachers (est) and suggested that the est could be an effective tool to assess the empathy of primary, middle and high school teachers in relation to their students.This study examines the factorial structure and factorial invariance of the est in an iranian sample.Confirmatory factor analysis was conducted to explore dimensionality and test for measurement invariance in factor structure, factor loadings and intercepts across gender in a sample (n = 462), of iranian high-school male and female teachers (24-55 years).The data supported the multidimensional structure in both male and female samples.Accordingly, all factor loadings were significant and scale structure confirmed like the original scale.The results indicated that the est includes three dimensions: cognitive empathy, negative affective empathy and positive affective empathy, and the internal consistency reliability of the three subscales are satisfactory in total sample and both sexes.Furthermore, the results revealed that invariance of the measure according to gender was confirmed.In addition, as the validity evidence, the est is positively correlated with empathic concern scale scores.The study suggests that the est could be an effective tool to measure the empathy of high school teachers in relation to their students in iranian sample.

Journal: Frontiers in psychology (2022)
Publication types: Journal Article
A QCM study of strong carbohydrate-carbohydrate interactions of glycopolymers carrying mannosides on substrates.

Carbohydrates on cell surfaces are known to interact not only with lectins but also with other carbohydrates; the latter process is known as a carbohydrate-carbohydrate interaction.Such interactions are observed in complex oligosaccharides.It would be surprising if these interactions were observed in simple monosaccharides of mannose.In this study, the interaction between glycopolymers carrying monosaccharides of mannose was quantitatively investigated by quartz crystal microbalance measurements.We measured the interactions with glycopolymers carrying mannose, galactose and glucose.Surprisingly, the interaction between the glycopolymers and mannose was much stronger than that between other saccharides.

Journal: Journal of materials chemistry. B (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Nationwide Survey in Greece about Knowledge, Risk Perceptions, and Preventive Behaviors for COVID-19 during the General Lockdown in April 2020.

The aim of this study was to investigate the knowledge, attitudes, and practices of the greek general population toward coronavirus disease 2019 (covid-19) during the lockdown period in april 2020, to examine factors associated with misperceptions and to determine behavioral patterns that may require interventions.Methods a cross-sectional study of the general greek population (n= 1858) was conducted.A geographically stratified cluster sampling was implemented.A questionnaire was composed consisting of 35 questions.Data collection took place from 15 april to 2 may 2020.A random-digit dialing survey was conducted by 29 interviewers.Results the majority of respondents (62.7%) answered ≥12/17 questions correctly.Participants aged 18-44 years, male gender, specific occupations (freelancer, unemployed, housewife, retiree) and those who sought information about covid-19 from less than two sources received lower aggregated scores on knowledge questions.Regarding attitudes toward future vaccination, 18.9% declared that were against it, while 81.1% that they may consider or will be vaccinated.About 40% were not using a face mask and only 42% washed their hands appropriately.Conclusion adjusting information campaigns targeting especially people below 45 years of age can help to sensitize them and realise their role to control the spread.Further targeted surveys are needed to adjust/design prevention campaigns.

Journal: International journal of environmental research and public health (2020)
Publication types: Journal Article
Who are the 'silent spreaders'?: contact tracing in spatio-temporal memory models.

The covid-19 epidemic has swept the world for over two years.However, a large number of infectious asymptomatic covid-19 cases (accs) are still making the breaking up of the transmission chains very difficult.Efforts by epidemiological researchers in many countries have thrown light on the clinical features of accs, but there is still a lack of practical approaches to detect accs so as to help contain the pandemic.To address the issue of accs, this paper presents a neural network model called spatio-temporal episodic memory for covid-19 (stem-covid) to identify accs from contact tracing data.Based on the fusion adaptive resonance theory (art), the model encodes a collective spatio-temporal episodic memory of individuals and incorporates an effective mechanism of parallel searches for accs.Specifically, the episodic traces of the identified positive cases are used to map out the episodic traces of suspected accs using a weighted evidence pooling method.To evaluate the efficacy of stem-covid, a realistic agent-based simulation model for covid-19 spreading is implemented based on the recent epidemiological findings on accs.The experiments based on rigorous simulation scenarios, manifesting the current situation of covid-19 spread, show that the stem-covid model with weighted evidence pooling has a higher level of accuracy and efficiency for identifying accs when compared with several baselines.Moreover, the model displays strong robustness against noisy data and different acc proportions, which partially reflects the effect of breakthrough infections after vaccination on the virus transmission.

Journal: Neural computing & applications (2022)
Publication types: Journal Article