syedzayyan/paper_mill_benchmark huggingface dataset:
Reduced mitochondrial DNA content correlate with poor clinical outcomes in cryotransfers with day 6 single euploid embryos.

To investigate whether the mitochondrial dna (mt dna) content of a single biopsy at trophoblast correlates with the developmental potential and reproductive outcomes of blastocyst.Methods a retrospective analysis applied the dataset of 1,675 embryos with preimplantation genetic testing for aneuploidy (pgt-a) from 1,305 individuals, and 1,383 embryos involved cryotransfers of single euploid embryo between january 2015 and december 2019.The studied cohort was divided for algorithm establishment on the ngs platform (n=40), correlation of biological features (n=1,635), and correlation of reproductive outcomes (n=1,340).Of the algorithm derived from the ngs platform, the reliability and repeatability were validatedviaq pcr assay and inter-run controls, respectively.Of the correlation across biological features, stratification analyses were applied to evaluate the effect from a single contributor.Eventually, the correlation between the mt dna ratios and reproductive outcomes was adjusted according to the significant effector(s).Results the mt dna ratios showed statistically different between embryos with different days of blastocyst formation ([day 5]: 1.06 vs.[day 6]: 0.66, p=0.021), and between embryos with different expansion stages ([expansion 5]: 1.05 vs.[expansion 6]: 0.49, p=0.012).None or weakly correlated with the maternal age, morphology, ploidy, and gender.Analyzed by the different days of blastocyst formation with fixed expansion score as 5 in the euploid single embryo transfers (e set), the day 6 e set showed significantly lower reduced mt dna ratio (n=139) in failure groups of fetal heartbeat (p=0.004), ongoing pregnancy (p=0.007), and live birth (p=0.01); however, no correlation between mt dna ratios and pregnancy outcomes was observed in the day 5 e set (n=1,201).Conclusions the study first demonstrated that mt dna ratio was dependent on the days of blastocyst formation while expansion stage was fixed.Lower mt dna ratios were observed in the day 6 e set with adverse outcomes.The present stratification analyses reveal that the timeline of embryo is an important covariate to the mt dna content.

Journal: Frontiers in endocrinology (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Controlling Wnt Signaling Specificity and Implications for Targeting WNTs Pharmacologically.

Wnt signaling is critical for proper development of the embryo and for tissue homeostasis in the adult.Activation of this signaling cascade is initiated by binding of the secreted wnts to their receptors.With the mammalian genome encoding multiple wnts and wnt receptors, a longstanding question in the field has been how wnt-receptor specificities are achieved.Emerging from these studies is a picture of exquisite control over wnt protein production, secretion, distribution, and receptor interactions, culminating in activation of downstream signaling cascades that control a myriad of biological processes.Here we discuss mechanisms by which wnt protein activities are tuned and illustrate how the multiple layers of regulation can be leveraged for therapeutic interventions in disease.

Journal: Handbook of experimental pharmacology (2021)
Publication types: Journal Article
Securing Indium Utilization for High-Tech and Renewable Energy Industries.

Indium has emerged as a strategic metal for high-tech and renewable industries, being catalogued as a critical material to foster a greener future.Nevertheless, its global sustainability is not well addressed.Here, using dynamic substance flow analysis, we study the indium industry evolution between 2010 and 2020 and estimate its future demand in the medium and long term toward 2050 to identify potential paths and mechanisms to decrease indium losses and to identify the key stages in its life cycle.As electronics and photovoltaic industries will play a crucial role in the indium demand, we assess their indium demand employing three cumulative photovoltaic capacity scenarios (8.5, 14, and 60 tw by 2050) with different dominant photovoltaic sub-technologies.Results show that liquid-crystal displays and photovoltaic panels will drive indium future demand, increasing its current demand by 2.2-4.2, 2.6-7.0, and 6.8-38.3 times for the 8.5, 14, and 60 tw scenarios, respectively, threatening with shortages that could occur as early as the next decade.Therefore, measures to reduce losses in primary production, innovations and improvements in electronics and solar panels, and indium recycling with an effective circular economy strategy could promote and secure the future sustainability of indium.

Journal: Environmental science & technology (2023)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Relationship among psychotic features, benzodiazepine receptor agonists, and rehospitalization in patients with electroconvulsive therapy-responsive major depressive disorder: A retrospective 2-year observational study.

It is controversial whether psychotic features are a risk factor for relapse in patients with electroconvulsive therapy-responsive major depressive disorder.A recent study reported that benzodiazepine receptor agonists reduce relapse of psychotic depression.As long-term use of these agonists may induce dependence, further research is required.We examined whether psychotic features are associated with rehospitalization in electroconvulsive therapy-responsive major depressive disorder patients.We also investigated whether taking benzodiazepine receptor agonists at the end of electro-convulsive therapy was associated with rehospitalization among patients with psychotic depression.Methods this study included 47 hospitalized patients (22 with psychotic depression, 25 with non-psychotic depression) who had responded to electroconvulsive therapy.Rehospitalization for major depressive episodes within two years from the last session was investigated.Results twenty-three subjects (49%) were rehospitalized during the two-year follow-up.Kaplan-meier analysis revealed no difference in rehospitalization between patients with psychotic and non-psychotic depression (log-rank p = 0.87).Among the 22 responders to electroconvulsive therapy with psychotic depression, there was no difference in benzodiazepine receptor agonist use at the end of electroconvulsive therapy between the rehospitalization and non-rehospitalization groups.Conclusion our exploratory study found no difference in the benzodiazepine receptor agonists use at the end of electroconvulsive therapy between rehospitalization and non-rehospitalization groups in patients with electroconvulsive therapy-responsive psychotic depression.Thus, the relapse-preventing effect of these agonists in psychotic depression should be investigated in future randomized controlled trials.Further research is also needed to determine whether psychotic features are associated with rehospitalization in these patients.

Journal: Neuropsychopharmacology reports (2022)
Publication types: Observational Study;Journal Article
Efficacy of 0.05% cyclosporine A on the lipid layer and meibomian glands after cataract surgery: A randomized, double-masked study.

To quantitatively evaluate the effects of 0.05% cyclosporine a (cs a) on lipid layer thickness (llt) and meibomian glands after cataract surgery using the lipi view® ocular surface interferometer.Methods this study was a prospective randomized double-masked clinical trial conducted by pusan national university yangsan hospital between april 04, 2019, and november 31, 2019.Sixty-two participants were recruited, and 12 of them were not enrolled because they had undergone previous treatments for ocular surface diseases.The participants were adult patients with cataract, exhibiting normal lid position; they did not present any other ocular disease and did not meet the exclusion criteria of the clinical trial.Fifty subjects were enrolled in the study.The randomized subjects received treatment with 0.05% cs a (group a) or 0.5% carboxymethyl cellulose (cmc) (group b) over the 3 months following the cataract surgery.Subjective and objective assessments were performed at preoperative and postoperative visits.Ocular surface disease index (osdi), tear breakup time (tbut), and schirmer's i test were performed by the same surgeon, and llt and meiboscore were determined using the lipi view® interferometer.Results fifty subjects subjects enrolled consisted of men (50%) and women (50%), with a mean (sd) age of 65.94 (10.35) years.Four subjects in group a and five in group b were excluded from the analysis as they were lost to follow-up within 1 month after cataract surgery.Thus, the study comprised 41 eyes of 41 subjects; 21 subjects were treated with cs a and 20 subjects with cmc.Comparing the clinical measurements between groups a and b taken at the last visit, while controlling the effects of the preoperative values, tbut and llt showed significant differences (p = 0.035 and p = 0.047, respectively, by ancova).The tbut between the subjects using cs a and those using cmc after cataract surgery showed a significant difference during follow up (p = 0.003 by repeated measures anova).In the multivariate analysis, preoperative llt and the use of cs a were found to be independent parameters for postoperative llt (r2 = 0.303; p = 0.008 and p = 0.045, respectively), whereas the follow-up duration exhibited a positive correlation with the difference between the preoperative and postoperative values of llt in the group treated with cs a (r2 = 0.738 and p < 0.001).Conclusion treatment with 0.05% cs a following cataract surgery is effective in improving tbut and llt in comparison with 0.5% cmc.A higher preoperative value of llt and the postoperative use of cs a could be significant determinants of a higher postoperative llt value.Trial registration isrctn registry with isrctn 10173448.

Journal: PloS one (2021)
Publication types: Journal Article;Randomized Controlled Trial
Fish Consumption and Cardiovascular Health: A Systematic Review.

Studies evaluating fish consumption and cardiovascular disease events have shown inconsistent results.We performed a systematic review of peer-reviewed publications from an extensive query of ovid medline, ovid embase, ovid cochrane database of systematic reviews, scopus, and web of science from database inception to september 2020 for observational studies that reported the association between fish consumption and cardiovascular disease events.We identified and reviewed 24 studies related to fish consumption and the effect on cardiovascular outcomes.The study population included a total of 714,526 individuals and multiple cohorts from several countries.We found that nonfried fish consumption is probably associated with a reduced risk of overall cardiovascular disease events and myocardial infarction risk.In contrast, fried fish consumption is probably associated with an increased risk of overall cardiovascular disease events and myocardial infarction risk.No studies to date have shown any significant association between fish consumption and stroke.Our analysis suggests that fish consumption may reduce cardiovascular disease events, but fried fish consumption was associated with an increased risk of cardiovascular events.

Journal: The American journal of medicine (2021)
Publication types: Journal Article;Systematic Review
A teleost interleukin-16 is implicated in peripheral blood leukocytes recruitment and anti-bacterial immunity.

Interleukin-16 (il-16), as a lymphocyte chemoattractant cytokine, plays a crucial role in regulating cellular activities and anti-pathogen immunity.In teleost, the information about the antibacterial effect of il-16 is scarce.In our study, we examined the immune functions of an il-16 homologue (cs il-16) from tongue sole cynoglossus semilaevis.The cs il-16 precursor (pro cs il-16) is comprised of 1181 amino acid residues, sharing 21.1%-67.3% identities with il-16 precursor from invertebrate and vertebrate.The c-terminal pro cs il-16 containing two pdz domains was designated as mature cs il-16 which was released into the supernatant of peripheral blood leukocytes (pbls).Cs il-16 was expressed in various tissues and regulated by bacterial invasion.Recombinant cs il-16 (r cs il-16), as a homodimer, was able to bind to the membrane of pbls and played essential roles in regulating chemotaxis and activation of pbls, which in vitro inhibited intracellular survival of e.Tarda.Under in vivo condition, r cs il-16 could dramatically regulate the induction of inflammatory genes, and suppress the bacterial dissemination in fish tissues.Collectively, our results reveal that cs il-16 plays positive roles in antibacterial immunity, and provide insights into the immune function of cs il-16.

Journal: International journal of biological macromolecules (2021)
Publication types: Journal Article
Deciphering the antagonistic effect of Streptomyces spp. and host-plant resistance induction against charcoal rot of sorghum.

The findings of this study suggest that the selected five strains of streptomyces spp.Could be used for biological control of charcoal rot disease in sorghum.Two strains each of streptomyces albus (cai-17 and kai-27) and streptomyces griseus (kai-26 and mma-32) and one strain of streptomyces cavourensis (sai-13) previously reported to have plant growth-promotion activity in chickpea, rice and sorghum were evaluated for their antagonistic potential against macrophomina phaseolina, which causes charcoal rot in sorghum.The antagonistic potential of these strains against m.Phaseolina was assessed through dual culture assay, metabolite production assay, blotter paper assay in greenhouse and field disease screens.In both dual culture and metabolite production assays, the selected strains significantly inhibited the growth of m.Phaseolina (63-74%).In the blotter paper assay, all the five strains of streptomyces spp.Inhibited the pathogen (80-90%).When these five strains were tested for their antagonistic potential under the greenhouse (two times) and field (two seasons) conditions by toothpick method of inoculation, significant differences were observed for charcoal rot severity.Principal component analysis capturing 91.3% phenotypic variations, revealed that the shoot samples treated with both streptomyces and the pathogen exhibited significantly enhanced antioxidant parameters including superoxide dismutase, catalase, ascorbate peroxidase, guaiacol peroxidase, glutathione reductase, phenylalanine ammonia-lyase, polyphenol oxidase, and total phenolic contents when compared to shoot samples treated with only m.Phaseolina.Scanning electron microscope analysis revealed that the phloem and xylem tissues of the streptomyces treated stem samples were intact compared to that of pathogen inoculated plants.This study indicated that the selected strains of streptomyces spp.Have the potential for biological control of charcoal rot disease in sorghum.

Journal: Planta (2021)
Publication types: Journal Article
Deep-Learning-Based Automatic Monitoring of Pigs' Physico-Temporal Activities at Different Greenhouse Gas Concentrations.

Pig behavior is an integral part of health and welfare management, as pigs usually reflect their inner emotions through behavior change.The livestock environment plays a key role in pigs' health and wellbeing.A poor farm environment increases the toxic ghgs, which might deteriorate pigs' health and welfare.In this study a computer-vision-based automatic monitoring and tracking model was proposed to detect pigs' short-term physical activities in the compromised environment.The ventilators of the livestock barn were closed for an hour, three times in a day (07:00-08:00, 13:00-14:00, and 20:00-21:00) to create a compromised environment, which increases the ghgs level significantly.The corresponding pig activities were observed before, during, and after an hour of the treatment.Two widely used object detection models (yolov4 and faster r-cnn) were trained and compared their performances in terms of pig localization and posture detection.The yolov4, which outperformed the faster r-cnn model, was coupled with a deep-sort tracking algorithm to detect and track the pig activities.The results revealed that the pigs became more inactive with the increase in ghg concentration, reducing their standing and walking activities.Moreover, the pigs shortened their sternal-lying posture, increasing the lateral lying posture duration at higher ghg concentration.The high detection accuracy (m ap: 98.67%) and tracking accuracy (mota: 93.86% and motp: 82.41%) signify the models' efficacy in the monitoring and tracking of pigs' physical activities non-invasively.

Journal: Animals : an open access journal from MDPI (2021)
Publication types: Journal Article
Feasibility of wireless cardiorespiratory monitoring with dry electrodes incorporated in a belt in preterm infants.

Monitoring heart rate (hr) and respiratory rate (rr) is essential in preterm infants and is currently measured with ecg and chest impedance (ci), respectively.However, in current clinical practice these techniques use wired adhesive electrodes which can cause skin damage and hinder parent-infant interaction.Moreover, ci is not always reliable.We assessed the feasibility of a wireless dry electrode belt to measure hr and rr via transcutaneous diaphragmatic electromyography (d emg).approach.in this prospective, observational study, infants were monitored up to 72 h with the belt and standard ci.Feasibility of the belt was expressed by its ability to retrieve a respiratory waveform from d emg, determining the percentage of time with stable respiration data without signal errors ('lead-off' and bluetooth loss error, 'ble'), skin-friendliness of the belt (skin score) and by exploring the ability to monitor trends in hr and rr with the belt.main results.in all 19 included infants (median gestational age 27.3 weeks) a respiratory waveform could be obtained.The amount of signal errors was low (lead-off 0.5% (iqr 0.1-1.6) and ble 0.3% (iqr 0.1-0.9)) and 76.5% (iqr 69.3-80.0) of the respiration measurement was stable.No adverse skin effects were observed (median skin score of 3(3-4)).A similar hr and rr trend between the belt and ci was observed.significance.dry electrodes incorporated in a non-adhesive belt can measure d emg in preterm infants.The belt provided a hr and rr trend similar to ci.Future studies are required to investigate the non-inferiority of the belt as a cardiorespiratory monitor compared to ci.

Journal: Physiological measurement (2022)
Publication types: Journal Article;Observational Study;Research Support, Non-U.S. Gov't
Structures and functions of the membrane-damaging pore-forming proteins.

Pore-forming proteins (pfps) of the diverse life forms have emerged as the potent cell-killing entities owing to their specialized membrane-damaging properties.Pfps have the unique ability to perforate the plasma membranes of their target cells, and they exert this functionality by creating oligomeric pores in the membrane lipid bilayer.Pathogenic bacteria employ pfps as toxins to execute their virulence mechanisms, whereas in the higher vertebrates pfps are deployed as the part of the immune system and to generate inflammatory responses.Pfps are the unique dimorphic proteins that are generally synthesized as water-soluble molecules, and transform into membrane-inserted oligomeric pore assemblies upon interacting with the target membranes.In spite of sharing very little sequence similarity, pfps from diverse organisms display incredible structural similarity.Yet, at the same time, structure-function mechanisms of the pfps document remarkable versatility.Such notions establish pfps as the fascinating model system to explore variety of unsolved issues pertaining to the structure-function paradigm of the proteins that interact and act in the membrane environment.In this article, we discuss our current understanding regarding the structural basis of the pore-forming functions of the diverse class of pfps.We attempt to highlight the similarities and differences in their structures, membrane pore-formation mechanisms, and their implications for the various biological processes, ranging from the bacterial virulence mechanisms to the inflammatory immune response generation in the higher animals.

Journal: Advances in protein chemistry and structural biology (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Discovery of (2-(pyrrolidin-1-yl)thieno[3,2-d]pyrimidin-4-yl)(3,4,5-trimethoxyphenyl)methanone as a novel potent tubulin depolymerizing and vascular disrupting agent.

In this study, a series of 2-substituted thieno[3,2-d]pyrimidin-4-yl(3,4,5-trimethoxyphenyl)methanones were designed, synthesized and evaluated as novel anti-tubulin polymerization and vascular disrupting agents.A pyrrolidin-1-yl derivative, compound 20, exhibited strong antiproliferative activities (average ic50= 13.4 n m) against four cancer cell lines.20 also showed retained potency toward paclitaxel-resistant a549 cells.20 could significantly inhibit tubulin polymerization with an ic50of 1.6 μm.20 displayed strong induction of g2/m arrest and apoptosis through the mitochondrial pathway.Dose-dependent suppression of the migration of cancer cells and the formation of a vascular network were observed after treatment with 20.The acceptable microsomal stability implied that it is worth conducting further study on the analogues of 20 as novel drug candidates of cbsis.

Journal: European journal of medicinal chemistry (2022)
Publication types: Journal Article
Secoiridoids from Dogwood (Cornus officinalis) Potentiate Progesterone Signaling.

The use of botanical dietary supplements for the alleviation of conditions such as hot flashes, premenstrual syndrome, and fertility is prolific worldwide.Estrogen and progesterone receptors (er and pr) and their corresponding steroid hormones are critical for the relief of hot flashes and the treatment of patients who develop endometriosis, and these pathways can influence the development of endometrial, ovarian, and breast cancers.However, few studies have investigated or identified the natural product components in herbal supplements that act on the pr.In the current study, a new secoiridoid, demethoxy-cornuside (1), along with six known secoiridoids (2-7) were isolated from the twigs of dogwood (cornus officinalis) by bioassay-guided isolation with a progesterone response element (pre)/luciferase (luc) reporter assay in ishikawa cells.Four phytoprogestins (1,2,6,7) potentiated the effect of progesterone in the pre/luc assay.This study demonstrates that c.Officinaliscomponents might potentiate progesterone signaling in the presence of progesterone, which could modify progesterone receptor action in hormone-responsive tissues such as the uterus and mammary gland.

Journal: Journal of natural products (2021)
Publication types: Journal Article