syedzayyan/paper_mill_benchmark huggingface dataset:
Development and Identification of a Novel Wheat-Thinopyrum scirpeum4E (4D) Chromosomal Substitution Line with Stripe Rust and Powdery Mildew Resistance.

Stripe rust caused by puccinia striiformisf.Sp.triticiand powdery mildew caused by blumeria graminisf.Sp.triticiare devastating diseases of wheat worldwide.Exploration of new disease-resistant genes from cultivated wheat and wild relatives are the most effective means of reducing the amounts of fungicides applied to combat these diseases.thinopyrum scirpeum(2n= 4x= 28, eeee) is an important promising reservoir of useful genes, including stripe rust and powdery mildew resistance, and may be useful for increasing wheat disease resistance.Here, we characterize a novel wheat-th.Scirpeumdisomic substitution line, k16-730-3, and chromosome-specific markers were developed that can be used to trace the th.Scirpeumchromosome or chromosome segments transferred into wheat.Genomic in situ hybridization and fluorescence in situ hybridization analyses indicated that k16-730-3 is a new 4e (4d) chromosomal substitution line.Evaluation of seedling and adult disease responses revealed that k16-730-3 is resistant to stripe rust and powdery mildew.In addition, no obvious difference in grain yield was observed between k16-730-3 and its wheat parents.Genotyping-by-sequencing analyses indicated that 74 pcr-based markers can accurately trace chromosome 4e, which were linked to the disease resistance genes in the wheat background.Further marker validation analyses revealed that 13 specific markers can distinguish between the e-genome chromosomes of th.Scirpeumand the chromosomes of other wheat-related species.The new substitution line k16-730-3 carrying the stripe rust and powdery mildew resistance genes will be useful as novel germplasm in breeding for disease resistance.The markers developed in this study can be used in marker-assisted selection for increasing disease resistance in wheat.

Journal: Plant disease (2022)
Publication types: Journal Article
Proliferation Marker Ki67 as a Stratification Index of Adjuvant Chemotherapy for Resectable Mucosal Melanoma.

Adjuvant chemotherapy has been shown to produce a favorable prognosis for patients with resectable mucosal melanoma (mm), resulting in the need for stratification to optimally select patients to benefit from adjuvant therapy.This study analyzed ki67 as a potential stratification index for adjuvant chemotherapy in resectable mm.Methods patients with resected mm who received subsequent adjuvant therapy in beijing cancer hospital between 2010 and 2018 were retrospectively enrolled and analyzed.Relapse-free survival (rfs) and melanoma-specific survival (mss) curves were used to perform the survival comparisons across different subgroups.Results from jan 2010 to dec 2018, 1106 mm patients were screened from a database of 4706 patients and 175 of these patients were finally enrolled.A total of 100 patients received temozolomide (tmz)-based adjuvant chemotherapy and 75 patients received high-dose interferon-α2b (hdi) adjuvant therapy.Compared with hdi, patients who received tmz-based adjuvant chemotherapy had significantly superior rfs (21.0 vs.9.6 months, p = 0.002).For patients with low ki67 expression (<30%), the two regimens showed no significant difference for impact on rfs (33.9 vs.22.7 months, p = 0.329).However, for patients with high ki67 expression (≥30%), tmz-based adjuvant chemotherapy achieved favorable rfs compared with hdi (18.0 vs.6.7 months, p < 0.001) and tended to improve mss compared to hdi (41.4 vs.25.1 months, p = 0.067).Conclusion compared with hdi, adjuvant chemotherapy may be more relevant for patients with ki67 ≥ 30%.Ki67 may serve as a potential index to distinguish populations benefiting from adjuvant chemotherapy in resectable mm, and may provide a basis for stratification in the selection of adjuvant regimens.

Journal: Frontiers in oncology (2022)
Publication types: Journal Article
The osteo-metabolic phenotype of COVID-19: an update.

Context in the multifaceted covid-19 clinical scenario characterized by a multi-system disorder with negative implications not only on respiratory function but also on cardiac, hematological, neurological and endocrine-metabolic systems, a distinctive osteo-metabolic phenotype with an independent influence on disease severity and recovery of patients affected was early reported.Aim to summarize and update the main evidences regarding the distinct components of this phenotype in acute and long covid-19, reinforcing its clinical relevance and discussing the main pathophysiological and clinical-therapeutic implications of the most recent reported findings.Results this emerging phenotype is characterized by a widespread acute hypocalcemia and hypovitaminosis d with an impaired compensatory parathyroid hormone response, and a high prevalence of skeletal complications such as vertebral fractures.The clinical relevance of this osteo-metabolic phenotype on acute covid-19 is well characterized, and novel seminal evidences are progressively highlighting its importance also in predicting patient's long-term outcomes and long covid-19 occurrence.Conclusions these findings reinforced the central role of a multidisciplinary team, including endocrinologists, in evaluating these patients for a proactive search of each aspect of the osteo-metabolic phenotype components since they may represent suitable therapeutic targets to prevent sars-co v-2 infection, poor covid-19 outcomes, long covid-19 occurrence and even possibly better responses to covid-19 vaccination.

Journal: Endocrine (2022)
Publication types: Journal Article;Review
The beneficial effects of cinnamon among patients with metabolic diseases: A systematic review and dose-response meta-analysis of randomized-controlled trials.

This systematic review and meta-analysis aims to summarize and conclude the clinical evidence regarding the use of cinnamon among patients with metabolic diseases.A comprehensive literature search without any limitation on language was conducted using the following bibliographical databases: isi web of science, embase, scopus, pub med, and google scholar.Search was conducted up to 23 january 2020.A total of 35 clinical trials were included for final analysis.Pooling of results showed a significant reducing effect of cinnamon on total cholesterol (tc) (weighted mean difference (wmd) = -11.67 mg/d l; p = 0.010), triglyceride (tg) (wmd = -16.27 mg/d l; p < 0.001), low density lipoprotein-cholesterol (ldl-c) (wmd = -6.36 mg/d l; p < 0.001), serum glucose (wmd = -11.39 mg/d l; p < 0.001), serum insulin (wmd = -1.27 μiu/m l; p = 0.028), and waist circumstance (wc) (wmd = -1.68 cm; p = 0.016).These lowering effects on tg, tc, ldl-c, and serum glucose levels were robust in studies that used cinnamon supplementation dose ≤1.5 g.Also, our findings of the present meta-analysis showed that cinnamon supplementation could have favorable effects on high density lipoprotein-cholesterol (hdl-c, wmd = 1.35; p = 0.038) as well as systolic (wmd = -3.95 mm hg; p = 0.018) and diastolic (wmd = -3.36; p = 0.001) blood pressure among patients with metabolic diseases.The present meta-analysis suggests that cinnamon might exert beneficial effects on various cardiometabolic risk factors among patients with metabolic diseases.

Journal: Critical reviews in food science and nutrition (2022)
Publication types: Journal Article;Meta-Analysis;Systematic Review
Challenges and opportunities for the production of lactic acid bacteria inoculants aimed for ensiling processes.

The use of bacterial inoculants for ensiling based on lactic acid bacteria (lab) to obtain conserved forages has become an alternative for the improvement of milk and meat productivity in cattle, specifically by optimizing the nutritional and microbial quality of animal feed.Lab inoculant production involves microbial and technological aspects such as biomass obtention, the use of cocultures, the inclusion of probiotics, the production of antimicrobial peptides, operational methods used in bioreactors, and the formulation of the end product to be commercialized to farmers.This review explores the technical aspects of the manufacture of bacterial inoculants, from the main features desired in lab for ensiling purposes to the alternatives of the bioprocess involved.

Journal: Critical reviews in biotechnology (2022)
Publication types: Journal Article;Review
A Syndemic Approach to Explore Factors Associated with Bacterial Vaginosis.

Bacterial vaginosis (bv) is the most common genital infection in women and is associated with an increased risk of sexually transmitted infections and hiv.This study uses a syndemic approach to evaluate factors associated with bv.Non-pregnant, hiv-negative, sexually active, cis-gender women aged 18-45 years living in miami, florida were recruited from nov.2018- jun.2021.Participants completed a sociodemographic and behavioral questionnaire along with gynecological examinations.Bv was diagnosed by amsel criteria and confirmed by a nugent score ≥ 4.A syndemic score was calculated as the sum of factors associated with bv.The association between syndemic score and bv was assessed using logistic regression.Of 166 women included, 60.2% had bv.Race, ethnicity, education, vaginal sex, recent cannabis use, and reasons for intravaginal practices were included in the syndemic score.Higher odds of bv were found in women with a score of ≥ 3 compared to women with a score of 0/1.A higher syndemic score was associated with increased odds of having bv.Multilevel interventions to decrease bv are needed to decrease women's risk of acquiring hiv.

Journal: AIDS and behavior (2022)
Publication types: Journal Article
Serogroup distribution, diversity of exotoxin gene profiles, and phylogenetic grouping of CTX-M-1- producing uropathogenic Escherichia coli.

The emergence of ctx-m-1 producing uropathogenic escherichia coli (upec) has become a serious challenge.In addition to antimicrobial resistance, a number of virulence factors have been shown.Therefore, this study was designed to determine the prevalence of o- serogroups, phylogenetic groups, exotoxin genes, and antimicrobial resistance properties of ctx-m-1- producing upec.A total of 248 upec isolates were collected.The antibiotic resistance was performed, and pcr was used to detect the bla ctx-m1, exotoxins, serogroups and phylogroups of upec.Of 248 isolates, 95 (38.3%) harbored bla ctx-m-1.Of them, serogroups o1 and o25 were predominant, accounting for 20% and 13.7%, respectively.The hly a was the dominant exotoxin gene (32.6%), followed by sat (28.4%), vat (22.1%), cnf (13.7%), pic u (8.4%), and cdt (2.1%).The hly a gene was significantly associated with pyelonephritis (p = 0.003).Moreover, almost half of the isolates (45.4%) belonged to phylogenetic group b2.Most of exotoxin genes were present in significantly higher proportions in group b2 isolates except cdt gene (p < 0.05).All of the isolates were susceptible to imipenem, nitrofurantoin, and fosfomycin.The ctx-m-1-producing upec strains causing nosocomial infections are more likely to harbor certain exotoxin genes, raising the possibility that this increase in virulence genes may result in an increased risk of complicated uti.

Journal: Comparative immunology, microbiology and infectious diseases (2019)
Publication types: Journal Article
Clinical outcomes of a unique ulnar collateral ligament reconstruction hybrid technique with ulnar-sided suspensory fixation.

Ulnar collateral ligament reconstruction (uclr) is the gold standard for treating ulnar collateral ligament injuries in throwing athletes who have failed conservative treatment.There are several described techniques that produce successful and reproducible outcomes.In addition, there is biomechanical evidence that supports hybrid fixation of the graft with a docking technique on the humeral side and suspensory fixation on the ulnar side.However, as of this writing there are no clinical studies that have reported results.This retrospective case series is the first of its kind to report on clinical outcomes following uclr with hybrid suspensory fixation.Methods fifty throwing athletes who underwent ulcr with hybrid suspensory fixation from 2010-2017 by one of 5 surgeons at a single institution were available at a median follow-up of 7 years.Return to sport, level of sport, and postoperative complications were recorded at final follow-up.Results a total of 50 patients were included in final analysis.Nearly all were able to return to sport at the same level or higher (48/50, 96%).One of these 50 athletes (2%) played professionally, 27 (54%) played collegiately, and 21 (42%) played at the high school level.Seven patients (14%) underwent reoperation following the index procedure.The median (interquartile range) quick disabilities of the arm, shoulder, and hand questionnaire score was 0.098 (0-4.5) at final follow-up.Conclusion hybrid suspensory fixation is a safe and effective technique for uclr in the throwing athlete.Throwers can expect to return to sport at a very high rate with low risks for postoperative complications.

Journal: Journal of shoulder and elbow surgery (2021)
Publication types: Journal Article
Laterality for the next decade: Costs and benefits of neuronal asymmetries - putting lateralization in an evolutionary context.

In my comment on the target article of ocklenburg et al.[laterality 2020: entering the next decade.laterality, 1-33.I point out the relevance of studies in non-human species within natural settings for understanding the ecological pressures, which shape the direction and degree of brain asymmetries.I therefore outline some major research projects, which are not included in the paper of ocklenburg et al.And which require comparative animal research.

Journal: Laterality (2021)
Publication types: Journal Article
EEG-based texture roughness classification in active tactile exploration with invariant representation learning networks.

During daily activities, humans use their hands to grasp surrounding objects and perceive sensory information which are also employed for perceptual and motor goals.Multiple cortical brain regions are known to be responsible for sensory recognition, perception and motor execution during sensorimotor processing.While various research studies particularly focus on the domain of human sensorimotor control, the relation and processing between motor execution and sensory processing is not yet fully understood.Main goal of our work is to discriminate textured surfaces varying in their roughness levels during active tactile exploration using simultaneously recorded electroencephalogram (eeg) data, while minimizing the variance of distinct motor exploration movement patterns.We perform an experimental study with eight healthy participants who were instructed to use the tip of their dominant hand index finger while rubbing or tapping three different textured surfaces with varying levels of roughness.We use an adversarial invariant representation learning neural network architecture that performs eeg-based classification of different textured surfaces, while simultaneously minimizing the discriminability of motor movement conditions (i.e., rub or tap).Results show that the proposed approach can discriminate between three different textured surfaces with accuracies up to 70%, while suppressing movement related variability from learned representations.

Journal: Biomedical signal processing and control (2021)
Publication types: Journal Article
The size of via holes influence the amplitude and selectivity of neural signals in Micro-ECoG arrays.

Electrocorticography (eco g) arrays are commonly used to record the brain activity both in animal and human subjects.There is a lack of guidelines in the literature as to how the array geometry, particularly the via holes in the substrate, affects the recorded signals.A finite element (fe) model was developed to simulate the electric field generated by neurons located at different depths in the rat brain cortex and a micro eco g array (μeco g) was placed on the pia surface for recording the neural signal.The array design chosen was a typical array of 8 × 8 circular (100 μm in diam.) contacts with 500 μm pitch.The size of the via holes between the recording contacts was varied to see the effect.Results the results showed that recorded signal amplitudes were reduced if the substrate was smaller than about four times the depth of the neuron in the gray matter.The signal amplitude profiles had dips around the via holes and the amplitudes were also lower at the contact sites as compared to the design without the holes; an effect that increased with the hole size.Another noteworthy result is that the spatial selectivity of the multi-contact recordings could be improved or reduced by the selection of the via hole sizes, and the effect depended on the distance between the neuron pair targeted for selective recording and its depth.Conclusions the results suggest that the via-hole size clearly affects the recorded neural signal amplitudes and it can be leveraged as a parameter to reduce the inter-channel correlation and thus maximize the information content of neural signals with μeco g arrays.

Journal: BMC biomedical engineering (2022)
Publication types: Journal Article
Preservation of Endopelvic Fascia: Effects on Postoperative Incontinence and Sexual Function - A Randomized Clinical Trial.

Urinary incontinence and sexual dysfunction are common after robot-assisted radical prostatectomy (ralp).New surgical techniques to improve these functions after the operation are under evaluation for example, preservation of endopelvic fascia during ralp.However, the benefits of this technique have not been critically scrutinized in a randomized setting.Aim in this study, we compared endopelvic fascia preserving operation with the standard surgical procedure in a randomized trial at the tampere university hospital, finland.Methods a total of 158 men with localized prostate cancer and scheduled for ralp were randomized 1:1 into endopelvic fascia-preserving ralp or a control group that is, standard operation.All operations were performed by a single surgeon.Outcomes urinary and sexual function were evaluated by the expanded prostate cancer index composite-26 questionnaire at baseline and 3, 6, and 12 months after the surgery.Results there was no difference in urinary incontinence or sexual function between the groups at any time point (urinary incontinence domain at 12 months after ralp for fascia preserving and control group 73.6 ± 3 vs 78.9 ± 2.5 and sexual domain 43 ± 3.2 vs 40.3 ± 3, respectively).Clinical and pathologic tumor characteristics, duration of surgery, blood loss, rate of complications, and time to hospital discharge were similar between the study arms.Compliance of filling out the expanded prostate cancer index composite-26 questionnaire varied from 91% to 98%, with no difference between study arms.Clinical implications based on our results, endopelvic fascia preservation alone during ralp is not recommended over the standard surgical method.Strengths & limitations this is a randomized clinical study with sufficient statistical power.As a limitation, only a minority of participants underwent magnetic resonance imaging before the operation, thus we could not evaluate the role of urethral length or shape of the prostate.Urinary and sexual function results are based on questionnaires filled out by the patients, however, participants completed the surveys independently unassisted by health care personnel.Conclusion endopelvic fascia-preserving ralp does not improve urinary continence or sexual function as compared with the standard surgical technique.Future studies aiming to improve functional outcomes after ralp should focus on evaluating other technique modifications.Siltari a, riikonen j, murtola tj.Preservation of endopelvic fascia: effects on postoperative incontinence and sexual function - a randomized clinical trial.J sex med 2021;18:327-338.

Journal: The journal of sexual medicine (2021)
Publication types: Journal Article;Randomized Controlled Trial;Research Support, Non-U.S. Gov't
An analysis of the cost and impact of cosmetic tourism and its associated complications: A multi institutional study.

And purpose the increasing cost of cosmetic procedures, long elective waiting times in the public system and affordability of procedures offered abroad has driven the rapid growth of cosmetic tourism.The incidence and cost of patients presenting to the irish health service with complications related to cosmetic procedures carried out in overseas institutions is largely unknown.This heterogenous group of patients is challenging to identify.Limited data exists for this patient group in the irish context.We aimed to perform a multicentre audit and cost analysis of patients presenting to irish health services with complications related to cosmetic procedures performed in overseas institutions over a 2 year period.Methods patients presenting to two university hospitals from march 2019-april 2021 with complications after a cosmetic surgical procedure was performed abroad were studied.The hpo abf 2020 price list data was used to calculate the inpatient and procedure cost for each subject.Main findings 14 (13/92.8% female, mean age 43 ± 11.85 years) patients presented during the study period.Countries of cosmetic operation included: belgium (6/46.2%), the uk (2/15.4%), latvia, turkey, poland, lithuania, and estonia (1 patient/7.7% each country).All required a re-operative procedure.These interventions included: removal of infected implant (n = 1), adjustment or removal of a gastric band (n = 9) and debridement of an infected/necrotic wound (n = 3).Mean length of stay was 9.14 ± 7.48 (range 2-28) days.Five (38.4%) patients required vac dressing.The mean cost of the cohort for the interventional procedure and in-patient stay was €15912.53 (+/- €6388).The sum total of all the costs for the cohort was €231038.60.Conclusions significant costs were associated with prolonged hospital admissions, operative interventions, intravenous antibiotics, vac dressing application and follow up visits.Complications from procedures performed in overseas institutions account for a significant cost burden to health services in ireland.

Journal: The surgeon : journal of the Royal Colleges of Surgeons of Edinburgh and Ireland (2022)
Publication types: Multicenter Study;Journal Article
Dysprosium(III) compounds assembledviaa versatile ligand incorporating salicylic hydrazide and 8-hydroxyquinolin units: syntheses, structures and magnetic properties.

Assembly of dysprosium(iii) salts with a multidentate ligand h3l ((2-hydroxy)-n'-((8-hydroxyquinolin-2-yl)methylene)-benzohydrazide) affords a variety of products with different topological structures, namely [dy(h2l)(hl)]·ch3oh (1), [dy2(hl)2(c6h5coo)2(ch3oh)2]·3ch3oh (2), [dy2(hl)2(no3)2(dmf)4]·4dmf (3), [dy4l4(ch3oh)4]·2ch3oh·4h2o (4) and ([dy4(hl)4(c6h5coo)4(ch3oh)(h2o)]·2ch3oh·ch3cn·h2o)n (5).The versatile and flexible coordination modes of phenoxo groups from salicylic hydrazide prove to be a key factor in the assembly of corresponding structures depending upon the reaction conditions.It is noteworthy that ligands hl2- act as a long-distance link and further connect the dy2 fragments into an infinite 1d chain due to the conformational flexibility resulting from the rotatable c-c bond in 5.Furthermore, the magnetic measurements were performed on all complexes.The dc magnetic susceptibility data evidence distinct magnetic coupling interactions in the dinuclear complexes 2 (antiferromagnetic) and 3 (ferromagnetic) despite their similar structures, and only complex 3 shows slow relaxation behavior of magnetization.Ab initio calculations and electrostatic potential analysis on complexes 2, 3, and three other complexes (6, 7, 8) incorporating different kinds of ligands reveal the important interrelationship of magnetic anisotropy, magnetic coupling interactions and smm properties.

Journal: Dalton transactions (Cambridge, England : 2003) (2021)
Publication types: Journal Article