bluuebunny/crossref_metadata_2025_split huggingface dataset:
Leveraging machine learning and self-administered tests to predict COVID-19: An olfactory and gustatory dysfunction assessment through crowd-sourced data in India
Authors: Kumar Ritesh , Singh Maneet , Singh Prateek , Parma Valentina , Ohla Kathrin , Olsson Shannon B , Saini Varun , Rani Jyotsna , Kishore Kunal , Kumari Priyanka , Ichhpujani Parul , Sharma Anupma , Kumar Saurav , Sharma Manu , Bhondekar Amol P , Kothari Anamika , Sardana Viren , Iyengar Sudarshan , Dash Debasis , Kaur Rishemjit 
Published: October 2021

ABSTRACTIt has been established that smell and taste loss are frequent symptoms during COVID-19 onset. Most evidence stems from medical exams or self-reports. The latter is particularly confounded by the common confusion of smell and taste. Here, we tested whether practical smelling and tasting with household items can be used to assess smell and taste loss. We conducted an online survey and asked participants to use common household items to perform a smell and taste test. We also acquired generic information on demographics, health issues including COVID-19 diagnosis, and current symptoms. We developed several machine learning models to predict COVID-19 diagnosis. We found that the random forest classifier consistently performed better than other models like support vector machines or logistic regression. The smell and taste perception of self-administered household items were statistically different for COVID-19 positive and negative participants. The most frequently selected items that also discriminated between COVID-19 positive and negative participants were clove, coriander seeds, and coffee for smell and salt, lemon juice, and chillies for taste. Our study shows that the results of smelling and tasting household items can be used to predict COVID-19 illness and highlight the potential of a simple home-test to help identify the infection and prevent the spread.
NeuroSmog: Determining the impact of air pollution on the developing brain: project protocol
Authors: Markevych Iana , Orlov Natasza , Grellier James , Kaczmarek-Majer Katarzyna , Lipowska Małgorzata , Sitnik-Warchulska Katarzyna , Mysak Yarema , Baumbach Clemens , Wierzba-Łukaszyk Maja , Soomro Munawar Hussain , Compa Mikołaj , Izydorczyk Bernadetta , Skotak Krzysztof , Degórska Anna , Bratkowski Jakub , Kossowski Bartosz , Domagalik Aleksandra , Szwed Marcin 
Published: October 2021

AbstractBackgroundExposure to airborne particulate matter (PM) may affect neurodevelopmental outcomes in children. The mechanisms underlying these relationships are not currently known. We aim to assess whether PM affects the developing brains of schoolchildren in Poland, a European country characterized by very high levels of particulate air pollution.MethodsBetween 2020 and 2022, 800 children aged 10 to 13 years are being recruited as participants in a case-control study. Cases (children with attention deficit hyperactivity disorder (ADHD)) are being recruited from psychology clinics. Population-based controls are being sampled from schools. The study area comprises 18 towns in southern Poland characterized by wide-ranging levels of PM. Comprehensive psychological assessments are being conducted to assess cognitive and social functioning. Cases and controls undergo MRI including T1, T2 and MP2RAGE structural imaging, task (Go/NoGo) and resting-state MRI, and diffusion-weighted imaging (DWI). Concentrations of PM are being assessed using land use regression models, which incorporate data from air monitoring networks, dispersion models, and characteristics of roads and other land cover types. The estimated concentrations will be assigned to prenatal and postnatal residential and preschool/school addresses of all study subjects. We will assess whether long-term exposure to outdoor PM affects brain function, structure, and connectivity in healthy children and those diagnosed with ADHD.Results and DiscussionThis comprehensive study will provide novel, in-depth understanding of the neurodevelopmental effects of air pollution. f
Use of serology immunoassays for predicting SARS-CoV-2 infection: a serology-based diagnostic algorithm
Authors: Lazo-Langner Alejandro , Chin-Yee Benjamin , Tong Jaryd , Lowes Lori , Hedley Benjamin D. , Silverman Michael , Delport Johan , Bhayana Vipin , Knauer Michael , Chin-Yee Ian 
Published: October 2021

AbstractBackgroundDetection of viral RNA by nucleic acid amplification testing (NAAT) remains the gold standard for diagnosis of SARS-CoV-2 infection but is limited by high cost and other factors. Whether serology-based assays can be effectively incorporated into a diagnostic algorithm remains to be determined. Herein we describe the development of a serology-based testing algorithm for SARS-CoV-2 infection.Patients and MethodsBetween July 2020 and February 2021, we included symptomatic unvaccinated patients evaluated in the Emergency Department of our institution for suspected SARS-CoV-2. All patients had testing by real-time Reverse Transcription Polymerase Chain Reaction. The performance characteristics of five commercial enzymatic serology assays testing for different antibody isotypes were evaluated in a derivation cohort and the assay with the best performance was further tested on a validation cohort. Optimal cut-off points were determined using receiver operating characteristic (ROC) curves and further tested using logistic regression.ResultsThe derivation and validations cohorts included 72 and 319 patients, respectively. Based on its initial performance, the Elecsys Anti-SARS-CoV-2 assay (Roche Diagnostics) was further tested in the validation cohort. Using ROC curve analysis, we estimated the diagnostic performance for different cut-off points assuming a prevalence of positive tests of 5%. At any given cut-off point the NPV was over 97%.DiscussionThis study suggests that an initial diagnostic strategy using the Elecsys Anti-SARS-CoV-2 serology test in symptomatic unvaccinated patients could help to rule out an acute SARS-CoV2 infection and potentially lead to appropriately tailored infection control measures or rational guidance for further testing with a potential cost reduction and increased availability.
Bronco T (Shirisadi kasaya), a polyherbal formulation ameliorates LPS induced septicemia in rats
Authors: Mishra Priyanka , Pandey Ratna , Tripathi Suyash , Dubey Sushil K , Tripathi Yamini B 
Published: October 2021

AbstractSepticemia is a life-threatening state, leading to multi-organ failure, ARDS and death. So, efforts are being made to identify novel therapies. Here, Bronco T (BT), a polyherbal formulation developed in 1984 for treating asthma, has been repurposed against septicemia induced ALI. The LPS (3mg/kg BW) was injected intraperitoneally before 24 hours, of surgery to assess the cardiorespiratory parameters, blood PaO2/FiO2, pulmonary water content and histological changes in the lungs. The pentoxifylline (PTX) (25 mg/kg b.w.) was used as the positive control. The PTX was given one hour before LPS and BT was given 3 hours (orally in different doses of 3, 1.5 and 0.75 gm/kg BW) to maintain the Cmax of the drug. The LPS treated group showed significant bradypnea, bradycardia and low heart rate frequency as observed, through elongated peaks (RR) and (MAP) respectively and finally death after 95 minutes of LPS injection. The PTX and BT (3gm/kg) pretreatment significantly prevented these changes (dose-dependent in the BT group). The survival was maintained up to 190 min after LPS. The Pentoxifylline showed a better response (75%) than Bronco T (72%). In both the treatments, a significant decrease in pulmonary water content and minimal neutrophil infiltration and intact alveoli-capillary membrane was seen in the transverse section (T.S) of the lungs.Conclusion: Significant improvement was noted in survival time, lesser tissue damage and better lung physiology by treating with Bronco T in LPS induced septicemia.
Effects of single plant-based vs. animal-based meals on satiety and mood in real-world smartphone-embedded studies
Authors: Medawar Evelyn , Zedler Marie , de Biasi Larissa , Villringer Arno , Witte A. Veronica 
Published: October 2021

AbstractAdopting plant-based diets high in fiber may reduce global warming and obesity prevalence. Physiological and psychological determinants of plant-based food intake remain unclear. As fiber has been linked with improved gut-brain signaling, we hypothesized that a single plant-based (vegetarian and vegan) compared to an animal-based (animal flesh) meal, would induce higher satiety, higher mood and less stress. In three large-scale smartphone-based studies, adults (nall= 16,379) ranked satiety and mood before and after meal intake. Meal intake induced satiety and higher mood. Plant-based meal choice did not explain differences in post-meal hunger. Individuals choosing a plant-based meal reported slightly higher mood before and smaller mood increases after the meal compared to those choosing animal-based meals. Protein content marginally mediated post-meal satiety, while gender and taste ratings had a strong effect on satiety and mood in general. We could not detect profound effects of plant-based vs. animal-based meals on satiety and mood.
The role of extracellular matrix biomolecules on endometrial epithelial cell attachment and cytokeratin 18 expression on gelatin hydrogels
Authors: Zambuto Samantha G. , Jain Ishita , Clancy Kathryn B.H. , Underhill Gregory H. , Harley Brendan A.C. 
Published: October 2021

ABSTRACTThe endometrium undergoes profound changes in tissue architecture and composition, both during the menstrual cycle as well as in the context of pregnancy. Dynamic remodeling processes of the endometrial extracellular matrix (ECM) are a major element of endometrial homeostasis, including changes across the menstrual cycle. A critical element of this tissue microenvironment is the endometrial basement membrane, a specialized layer of proteins that separates the endometrial epithelium from the underlying endometrial ECM. Bioengineering models of the endometrial microenvironment that present an appropriate endometrial ECM and basement membrane may provide an improved environment to study endometrial epithelial cell (EEC) function. Here, we exploit a tiered approach using two-dimensional high throughput microarrays and three-dimensional gelatin hydrogels to define patterns of EEC attachment and cytokeratin 18 (CK18) expression in response to combinations of endometrial basement membrane proteins. We identify combinations (collagen IV + tenascin C; collagen I + collagen III; hyaluronic acid + tenascin C; collagen V; collagen V + hyaluronic acid; collagen III; collagen I) that facilitate increased EEC attachment, increased CK18 intensity, or both. We also identify significant EEC mediated remodeling of the GelMA matrix environment via analysis of nascent protein deposition. Together, we report efforts to tailor the localization of basement membrane-associated proteins and proteoglycans in order to investigate tissue engineered models of the endometrial microenvironment.
Temporal changes in resting state networks induced by propofol anesthesia
Authors: Choe Mi Kyung , Jin Seung-Hyun , Kim June Sic , Chung Chun Kee 
Published: October 2021

AbstractThe cerebral cortical changes associated with propofol-induced unconsciousness remain unknown. While the anesthetic agent affects the entire cerebral cortices, there might be spatiotemporal differences in cortical changes. In particular, we hypothesized that there might be spatiotemporal differences in cortical changes with propofol-anesthesia. To address this hypothesis, we investigated power spectrum changes in electrocorticography (ECoG) signals obtained during the induction phase from awake state to unconsciousness. We found that, 1) the power increased in the range of frequencies < 46 Hz (delta to low gamma), and decreased in the range (62–150) Hz (high gamma), in global channels during the induction phase. 2) The power in the frontoparietal network (FPN), specifically the superior parietal lobule and prefrontal cortex, started to change early, but took a long time to completely change. However, the power in the default mode network (DMN) started to change late, but took a short time to completely change. 3) The power change (ΔPower) in the DMN was more conspicuous than that of the dorsal attention network (DAN) in high gamma frequency. Considering that the FPN is involved in communication with the external world and that DMN is involved in communication with self, loss of consciousness induced by general anesthesia results from first, disrupted communication between self and external world, and is then followed by disrupted communication within self, with decreased activity of the FPN, and later, attenuated activity of the DMN.Significance StatementWe investigated the spatiotemporal changes of power spectrum in human electrocorticography (ECoG) during the induction phase from awake state to unconsciousness. We found that from delta to low gamma frequency, the power increased, while in high gamma frequency, the power decreased over all channels. The power in the frontoparietal network (FPN) preferentially changed, then the power in the DMN changed later. The power in DMN decreased more than those in other RSNs in high gamma frequency. Loss of consciousness induced by general anesthesia results from first, disrupted communication between self and external world, followed by disrupted communication within self, with decreased activity of the FPN, and later, attenuated activity of the DMN.
An externally validated deep learning model for the accurate segmentation of the lumbar paravertebral muscles
Authors: Niemeyer Frank , Zanker Annika , Jonas René , Tao Youping , Galbusera Fabio , Wilke Hans-Joachim 
Published: October 2021

AbstractPurposImaging studies about the relevance of muscles in spinal disorders, and sarcopenia in general, require the segmentation of the muscles in the images which is very labour-intensive if performed manually and poses a practical limit to the number of investigated subjects. This study aimed at developing a deep learning-based tool able to fully automatically perform an accurate segmentation of the lumbar muscles in axial MRI scans, and at validating the new tool on an external dataset.MethodsA set of 60 axial MRI images of the lumbar spine was retrospectively collected from a clinical database. Psoas major, quadratus lumborum, erector spinae, and multifidus were manually segmented in all available slices. The dataset was used to train and validate a deep neural network able to segment muscles automatically. Subsequently, the network was externally validated on images purposely acquired from 22 healthy volunteers.ResultsThe Jaccard index for the individual muscles calculated for the 22 subjects of the external validation set ranged between 0.862 and 0.935, demonstrating a generally excellent performance of the network. Cross-sectional area and fat fraction of the muscles were in agreement with published data. Conclusions. The externally validated deep neural network was able to perform the segmentation of the paravertebral muscles in axial MRI scans in an accurate and fully automated manner, and is therefore a suitable tool to perform large-scale studies in the field of spinal disorders and sarcopenia, overcoming the limitations of non-automated methods.
Smoking and subfertility: multivariable regression and Mendelian randomization analyses in the Norwegian Mother, Father and Child Cohort Study
Authors: Hernáez Álvaro , Wootton Robyn E. , Page Christian M. , Skåra Karoline H. , Fraser Abigail , Rogne Tormod , Magnus Per , Njølstad Pål R. , Andreassen Ole A. , Burgess Stephen , Lawlor Deborah A. , Magnus Maria Christine 
Published: October 2021

ABSTRACTObjectiveTo investigate the association between smoking-related traits and subfertility.DesignProspective study.SettingNationwide cohort in Norway.Patients28,606 women (average age 30) and 27,096 men (average age 33) with questionnaire and genotype information from the Norwegian Mother, Father and Child Cohort Study.InterventionSelf-reported information on smoking (having ever smoked [both sexes], age at smoking initiation [women only], smoking cessation [women only], and cigarettes smoked per week in current smokers [both sexes]) was gathered. Genetically predetermined levels or likelihood of presenting the mentioned traits were estimated for Mendelian randomization (MR) analyses.Main outcome measureSubfertility, defined as time-to-pregnancy ≥12 months.ResultsA total of 10% of couples were subfertile. In multivariable regression accounting for age, years of education, body mass index, and number of previous pregnancies, having ever smoked was not linked to subfertility in women or men. A higher intensity of tobacco use in women who were current smokers was related to greater odds of subfertility (+ 1 standard deviation [SD, 48 cigarettes/week]: odds ratio [OR] 1.12, 95% confidence interval [CI] 1.03 to 1.21), also after adjusting for the partner’s tobacco use. Later smoking initiation (+ 1 SD [3.2 years]: OR 0.89, 95% CI 0.84 to 0.95) and smoking cessation (relative to not quitting: OR 0.83, 95% CI 0.75 to 0.93) were linked to decreased subfertility in women who had ever smoked. Nevertheless, MR results were not directionally consistent for smoking intensity and cessation and were imprecisely estimated in two-sample MR, with wide confidence intervals that overlapped with the multivariable regression results. In men, greater smoking intensity was marginally linked to greater odds of subfertility in multivariable analyses, but this association was attenuated when adjusting for the partner’s smoking intensity (+ 1 SD [54 cigarettes/week]: OR 1.05, 95% CI 0.96 to 1.15). MR estimates were directionally consistent but again imprecisely estimated.ConclusionsWe did not find robust evidence of an effect of smoking on subfertility. This may be due to a true lack of effect, weak genetic instruments, or other kinds of confounding. The relevant limitations across all methods highlights the need for larger studies with information on subfertility.
Bcl-xL restricts transcriptional, morphological and functional decompensation of β-cell mitochondria under chronic glucose excess
Authors: Pasula Daniel J. , Shi Rocky , Vanderkruk Ben , Shih Alexis Z.L. , Zou Yuanjie , Chaudhry Ahsen , Hoffman Brad G. , Luciani Dan S. 
Published: October 2021

ABSTRACTIn the progression of diabetes, pancreatic islet β-cells respond to increased metabolic demand with functional compensation, followed by pathogenic decompensation of mitochondria-dependent insulin secretion. It is not clear what mechanisms drive, or control, mitochondrial decompensation. Here, we report that anti-apoptotic Bcl-xL maintains mitochondrial integrity in β-cells under non-apoptotic levels of glucose stress. Prolonged glucose excess causes transcriptional reprogramming of glycolysis and β-cell identity genes, while sensitizing glucose-stimulated Ca2+ signaling and insulin secretion. Deletion of Bcl-xL amplifies this insulin hypersecretion and increases mitochondrial fusion, mitochondrial volume, and oxygen consumption, whereas ATP-coupled respiration and mitochondrial hyperpolarization become impaired. Of note, Bcl-xL-deficient β-cells have impaired Pgc-1α expression, and develop specific defects in the expression of Tfam, mitochondrial ribosomal genes, and OXPHOS components under glucose stress. Bcl-xL limits high glucose-induced mitochondrial ROS (mitoROS) levels and pharmacological normalization of mitoROS in Bcl-xL KO cells rescues glucose-induced defects in mitochondrial gene expression and changes to β-cell identity. Our data identify mitoROS as a primary retrograde driver of transcriptional re-wiring in β-cells exposed to excess glucose, and reveal Bcl-xL as an important safeguard against transcriptional and functional decompensation of β-cell mitochondria. Bcl-xL and mitoROS may thus be viable targets to prevent early β-cell dysfunction and the progression of diabetes.
EXTENDED TUDOR-DOMAINS of the piRNA BIOGENESIS PATHWAY HAVE RNA-SPECIFIC NUCLEASE ACTIVITY
Authors: Dhimole Neha , Lage Susanne zur , Klug Wilfried , Carlomagno Teresa 
Published: October 2021

ABSTRACTpiRNAs are essential for transposon repression and protecting the germline from deleterious mutations. piRNA biogenesis comprises a primary and secondary pathway, and involves PIWI clade argonaute proteins and ancillary factors. Secondary piRNA biogenesis is tightly coupled to transposon repression. It requires processing of the 3’ end of pre-piRNA during an amplification loop by an as yet unidentified endonuclease. Here, using crystallography, and biochemical assays, we discover that the Drosophila Qin protein, which is a critical member of the core amplification complex, has endonuclease activity. Qin contains five extended Tudor domains, which had been proposed to recognize methylated ligands. Instead, we show that these domains act as RNA-specific nucleases. This supports a role for Qin in the 3’ end processing of Ago3-bound pre-piRNAs. Extended Tudor domains are frequent in piRNA-processing proteins, suggesting that the uncovered nuclease activity of this protein fold may be key to understanding the piRNA biogenesis.
Slc7a8 deletion is protective against diet-induced obesity and attenuates lipid accumulation in multiple organs
Authors: Pitere Reabetswe R. , van Heerden Marlene B. , Pepper Michael S. , Ambele Melvin A. 
Published: October 2021

AbstractAdipogenesis, through adipocyte hyperplasia and/or hypertrophy, leads to increased adiposity, giving rise to obesity. A genome-wide transcriptome analysis of adipogenesis in human adipose derived stromal/stem cells identified SLC7A8 (Solute Carrier Family 7 Member 8) as a potential novel mediator. This study has investigated the role of SLC7A8 in adipose tissue biology using a mouse model of diet-induced obesity. slc7a8 knockout (KO) and wildtype (WT) C57BL/6J mice were fed either a control diet (CD) or a high-fat diet (HFD) for 14 weeks. On HFD, both WT and KO (WTHFD and KOHFD) gained significantly more weight than their CD counterparts. However, KOHFD gained significantly less weight than WT HFD. KOHFD significantly reduced the level of glucose intolerance observed in WTHFD. KOHFD significantly reduced both adipocyte mass and hypertrophy in inguinal, mesenteric, perigonadal and brown adipose depots, with a corresponding decrease in macrophage infiltration. Additionally, KOHFD decreased lipid accumulation in the liver, heart, gastrocnemius muscle, lung, and kidney. This study demonstrates that targeting SLC7A8 protects against diet-induced obesity by reducing lipid accumulation in multiple organs, and thereby has the potential to mitigate the development of obesity-associated comorbidities.Author summaryThe development of obesity can be attributed to adipocyte hypertrophy or hyperplasia leading to increased adiposity. The C57BL/6 mouse is an excellent model used to study metabolic syndromes often associated with obesity development. Mice fed on a high-fat diet are susceptible to weight gain leading to the development of obesity and its associated metabolic syndrome. Here, we report findings from targeting a novel human adipogenic gene (SLC7A8) in condition of obesity development using a mouse model of diet-induced obesity (DIO). The results indicate that deleting slc7a8 in mice significantly protects against DIO and improves glucose metabolism. Also, deficiency in slc7a8 was observed to significantly attenuates adipocyte hypertrophy in white and brown adipose tissues, and reduced lipid accumulation in many organs. Furthermore, inflammation was significantly reduced in adipose tissues and liver of slc7a8 deficient mice in condition of DIO. Overall, results from this study shows that slc7a8 is an important molecular regulator of obesity development and mediates its function by reducing lipid accumulation in multiple organs. Hence, SLC7A8 could serve as a potential therapeutic target to combat the development of obesity and other pathophysiological conditions associated with excess lipid accumulation in organs.