Miracle-dz/UniFAR-FTUs huggingface dataset:
Does the circadian clock make RPE-mediated ion transport “tick” via SLC12A2 (NKCC1)?

ABSTRACT The presence of a circadian clock in the retinal pigment epithelium (RPE) was discovered recently. However, little is known about mechanisms or processes regulated by the RPE clock. We cultured ARPE-19 monolayers in a transwell culture system, and we found rhythmic mRNA expression of the sodium-potassium-chloride co-transporter SLC12A2. We localized the corresponding protein product, NKCC1, on the apical membrane of ARPE-19 cells. We found that concentrations of sodium, potassium, and chloride oscillated in apical supernatants. The ion concentration gradients between supernatants strongly correlated with SLC12A2 mRNA expression. Our results suggest that the circadian clock regulates ion transport by the RPE via NKCC1 expression.
Flocculation of Saccharomyces cerevisiae is dependent on activation of Slt2 and Rlm1 regulated by the cell wall integrity pathway

Flocculation is an essential characteristic of yeast cells required for survival under adverse conditions. The multicellular structure (flocs) of yeast provides a suitable microenvironment to enhance the chances of survival during stress conditions. Although the signaling events triggering flocculation have been studied earlier, molecular mechanisms remain elusive. In the present study, we used flocculating sen1 mutants to identify the mechanism of flocculation. Based on the abnormal cell surface morphology and constitutive phosphorylation of Slt2p in flocculating sen1 mutant cells, we hypothesized if flocculation was regulated by the cell wall integrity (CWI) pathway. Up‐regulation of FLO genes in wild‐type cells was observed upon the activation of CWI pathway either by chemical treatment or by deleting Slt2 phosphatase (Msg5). Our study with Slt2 mutants reveals that the active state of Slt2 is indispensable for flocculation. Deletion of either SLT2 or RLM1 leads to reduced flocculation. Furthermore, we observed overlapping binding sites for Rlm1 and Tup1 at the promoters of almost all the FLO genes. Finally, we show higher Rlm1 and lower Tup1 occupancy at the promoters of FLO1 and FLO5 in flocculating cells. Altogether we demonstrate that CWI MAPK (Slt2) pathway uses a non‐catalytic mechanism to activate the transcription of FLO genes.
Descriptive Sentence Extraction for Text to 3D Scene Generation

Three-dimensional objects (3D) allow extensive and heterogeneous information to be stored in single models which can be exploited by users to satisfy various research and study needs. Moreover, the 3D visualization would be even more interesting if it were the result of the “materialization” of descriptive sentences extrapolated from texts related to the subject matter. In other words, a direct connection between 3D models and the associated texts or drawings could provide a useful and stimulating explication of the case of study. The extrapolation of specific information from texts, however, is time-consuming and it requires the user to have in-depth knowledge of the referring domain. An innovative solution to the problem, then, would be to develop a system that can analyse and "comprehend" the documents in order to automatically provide, as output, portions of text containing geometric and spatial information useful for the 3D scenes generation. In this paper, the analysis of the framework of the above-mentioned system is presented and its implementation on a specific corpus concerning the “World City” project, is evaluated. Keywords-Sentence Extraction; 3D Models; World City project; Text-to-Scene Conversion.
Early life predictors of attention deficit/hyperactivity disorder symptomatology profiles from early through middle childhood

Abstract This study used repeated measures data to identify developmental profiles of elevated risk for ADHD (i.e., six or more inattentive and/or hyperactive-impulsive symptoms), with an interest in the age at which ADHD risk first emerged. Risk factors that were measured across the first 3 years of life were used to predict profile membership. Participants included 1,173 children who were drawn from the Family Life Project, an ongoing longitudinal study of children's development in low-income, nonmetropolitan communities. Four heuristic profiles of ADHD risk were identified. Approximately two thirds of children never exhibited elevated risk for ADHD. The remaining children were characterized by early childhood onset and persistent risk (5%), early childhood limited risk (10%), and middle childhood onset risk (19%). Pregnancy and delivery complications and harsh-intrusive caregiving behaviors operated as general risk for all ADHD profiles. Parental history of ADHD was uniquely predictive of early onset and persistent ADHD risk, and low primary caregiver education was uniquely predictive of early childhood limited ADHD risk. Results are discussed with respect to how changes to the age of onset criterion for ADHD in DSM5 may affect etiological research and the need for developmental models of ADHD that inform ADHD symptom persistence and desistance.
Association of Restless Legs Syndrome With Risk of Suicide and Self-harm

Key Points Questions Is restless legs syndrome associated with a high risk of suicide and self-harm? Findings In a cohort study that included 169 373 participants, individuals with restless legs syndrome had a higher risk of suicide and self-harm compared with age- and sex-matched participants without restless legs syndrome, and the increased risk was independent of common diseases and conditions. Meaning Restless legs syndrome was associated with an increased risk of suicide and self-harm.
Bacteriophage Therapy of Ventilator-associated Pneumonia and Empyema caused by Pseudomonas aeruginosa.

Pseudomonas aeruginosa is a frequent causative agent of ventilatorassociated pneumonia with high attributable mortality (z13%), which may double in patients with multidrug-resistant infection (1). Bacteriophage therapy was first used as antibacterial therapy in the early 1900s (2). Losing favor in the West with the advent of antibiotics, bacteriophage therapy remained in use in the former Eastern Bloc, and interest in its therapeutic potential has been renewed with the development of increasing antimicrobial resistance globally. Obligately lytic bacteriophages are viruses that destroy specific bacterial cells and are not regarded as harmful to humans, but clinical information regarding their safety and efficacy as therapy remains limited (3). Although there are reports of successful use of antipseudomonal bacteriophage therapy in mouse models of lung disease (4–6) and in in vitro or ex vivo models of respiratory tract infection (7, 8), there are few data regarding use in vivo (9).
Large-scale genome analysis of bovine commensal Escherichia coli reveals that bovine-adapted E. coli lineages are serving as evolutionary sources of the emergence of human intestinal pathogenic strains

How pathogens evolve their virulence to humans in nature is a scientific issue of great medical and biological importance. Shiga toxin (Stx)–producing Escherichia coli (STEC) and enteropathogenic E. coli (EPEC) are the major foodborne pathogens that can cause hemolytic uremic syndrome and infantile diarrhea, respectively. The locus of enterocyte effacement (LEE)–encoded type 3 secretion system (T3SS) is the major virulence determinant of EPEC and is also possessed by major STEC lineages. Cattle are thought to be the primary reservoir of STEC and EPEC. However, genome sequences of bovine commensal E. coli are limited, and the emerging process of STEC and EPEC is largely unknown. Here, we performed a large-scale genomic comparison of bovine commensal E. coli with human commensal and clinical strains, including EPEC and STEC, at a global level. The analyses identified two distinct lineages, in which bovine and human commensal strains are enriched, respectively, and revealed that STEC and EPEC strains have emerged in multiple sublineages of the bovine-associated lineage. In addition to the bovine-associated lineage-specific genes, including fimbriae, capsule, and nutrition utilization genes, specific virulence gene communities have been accumulated in stx- and LEE-positive strains, respectively, with notable overlaps of community members. Functional associations of these genes probably confer benefits to these E. coli strains in inhabiting and/or adapting to the bovine intestinal environment and drive their evolution to highly virulent human pathogens under the bovine-adapted genetic background. Our data highlight the importance of large-scale genome sequencing of animal strains in the studies of zoonotic pathogens.
Estimating the Health-Related Quality of Life of Twitter Users Using Semantic Processing

Social media presents a rich opportunity to gather health information with limited intervention through the analysis of completely unstructured and unlabeled microposts. We sought to estimate the health-related quality of life (HRQOL) of Twitter users using automated semantic processing methods. We collected tweets from 878 Twitter users recruited through online solicitation and in-person contact with patients. All participants completed the four-item Centers for Disease Control Healthy Days Questionnaire at the time of enrollment and 30 days later to measure “ground truth” HRQOL. We used a combination of document frequency analysis, sentiment analysis, topic analysis, and concept mapping to extract features from tweets, which we then used to estimate dichotomized HRQOL (“high” vs. “low”) using logistic regression. Binary HRQOL status was estimated with moderate performance (AUC=0.64). This result indicates that free-range social media data only offers a window into HRQOL, but does not afford direct access to current health status.
Health Effects of Energy Intensive Sectors and the Potential Health Co-Benefits of a Low Carbon Industrial Transition in China

Background: The issues of environmental pollution and its effects on health have become increasingly serious in China. Energy intensive sectors are not only the main energy consumers, but also the main sources of air pollution. Analyzing the health effects of energy intensive sectors and the potential health co-benefits of a low carbon industrial transition is of great importance for promoting China’s air pollution control. Methods: This study used the exposure-response (ER) relationship model and inhalation factor methods to quantitatively analyze the health effects of air pollution and forecast the potential health co-benefits in the power and steel sectors. Results: The results showed that in 2016 SO2 and PM2.5 emissions caused about 850,000 premature deaths, and 10 million cases of respiratory diseases and chest discomfort, resulting in health-related economic losses of 1.2 trillion Yuan, accounting for 1.6% of the GDP. Meanwhile, demand control in consumption could significantly reduce SO2 emissions in the power and steel sectors, thus offering significant health co-benefits. However, there was still some uncertainty regarding the reduction of PM2.5 emissions in the steel sector. Conclusions: There is a need to take advantage of the health co-benefits of emission reduction in energy intensive sectors and to adopt flexible means to stimulate their green transformation.
The circles of care game © - using gaming to teach interprofessional teamwork in clerkship

ABSTRACT The aim of this study was to gain insight into how online gaming can teach medical students about interprofessional collaborative practice and promote their development of interprofessional competencies prior to clerkship. This prospective cohort study involved third year medical students from the Schulich School of Medicine and Dentistry in London, Ontario, Canada who participated in the ‘Circles of Care’© online board game. A total of 97 student reflections were obtained and subjected to conventional qualitative descriptive content analysis. The transcribed data were analyzed question by question and line by line. Themes evolved from four questions: (1) What surprised you the most about teamwork from this learning activity, (2) What did you learn about collaborative teamwork, (3) What will you take away from this learning event to use in your practice, and (4) Please comment on the value of using a game such as this one to develop your collaborative team practice. A total of seven themes emerged including: “Gaining insights”, “What worked and what did not”, “Openness to learning”, “Comfort in sharing with others”, “Commitment and skepticism”, “Being a seeker”, and “Continuum of value to learning and practice”. Analysis of the student reflections illustrated the potential of using an online-based game to effectively introduce and teach interprofessional competencies to medical students.
Extracellular Nucleotides and P2 Receptors in Renal Function.

The understanding of the nucleotide/P2 receptor system in the regulation of renal hemodynamics and transport function has grown exponentially over the last 20 years. This review attempts to integrate the available data while also identifying areas of missing information. First, the determinants of nucleotide concentrations in the interstitial and tubular fluids of the kidney are described, including mechanisms of cellular release of nucleotides and their extracellular breakdown. Then the renal cell membrane expression of P2X and P2Y receptors is discussed in the context of their effects on renal vascular and tubular functions. Attention is paid to effects on the cortical vasculature and intraglomerular structures, autoregulation of renal blood flow, tubuloglomerular feedback, and the control of medullary blood flow. The role of the nucleotide/P2 receptor system in the autocrine/paracrine regulation of sodium and fluid transport in the tubular and collecting duct system is outlined together with its role in integrative sodium and fluid homeostasis and blood pressure control. The final section summarizes the rapidly growing evidence indicating a prominent role of the extracellular nucleotide/P2 receptor system in the pathophysiology of the kidney and aims to identify potential therapeutic opportunities, including hypertension, lithium-induced nephropathy, polycystic kidney disease, and kidney inflammation. We are only beginning to unravel the distinct physiological and pathophysiological influences of the extracellular nucleotide/P2 receptor system and the associated therapeutic perspectives.
Molecule Property Prediction Based on Spatial Graph Embedding

Accurate prediction of molecular properties is important for new compounds design, which is a crucial step in drug discovery. In this paper, molecular graph data is utilized for properties prediction based on graph convolution neural net-work. In addition, a Convolution Spatial Graph Embedding Layer (C-SGEL) is introduced to retain the spatial connection information of molecules. And multiple C-SGELs are stack to construct a Convolution Spatial Graph Embedding Network (C-SGEN) for end-to-end representation learning. In order to enhance the robustness of the network, molecular finger-prints are also combined with C-SGEN to build a composite model for predicting molecular properties. Our comparative experiments have shown that our method is accurate, and achieves the best results on some open benchmark datasets.
Effect of chronotype on academic achievement in a sample of Italian University students

ABSTRACT Circadian rhythms play an important role in biological function; their expression differs across individuals; three chronotypes are distinguished: Morning- [MT], Evening- [ET], and Neither- [NT] type. MT achieve peak activation in the first part of the day and are generally more conscientious and achievement-oriented than ET, which reach their best during the second half of the day and express a higher intelligence. University class schedules can sometimes conflict with ET circadian preferences, compromising their academic performance compared with their MT classmates. Conversely, MT students, being more aligned with their daily schedule, might be more advantaged in their mental performance. The attitudes and performance of NT students are little considered. No studies to date have investigated academic achievement in relation to chronotype in an Italian student population. To fill this gap, this study examined the relationship between chronotype and academic performance in a population of Motor Science Faculty in Milan, differentiating achievement in theoretical and practical subjects by chronotype. The study population was 423 university students (290 males and 133 females) and categorized by chronotype according to Morningness-Eveningness Questionnaire (MEQ) scores. Student transcripts were reviewed to obtain exam grades on three practical and three theoretical subjects. The interaction between MEQ score or chronotypes and mean exam grade was evaluated using one-way ANOVA. The mean grades on the theoretical and practical exams were higher for the MT than for either the ET or the NT students. The NT students (24.8 ± 0.1) had lower mean grades for the theoretical subjects than either the MT (26.3 ± 0.4) or the ET (25.3 ± 0.2) students, while the ET (26.6 ± 0.2) performed worse than either the MT (27.8 ± 0.2) or the NT students (26.9 ± 0.1) on the practical exams. The same trend was observed for the total sample and when subdivided by sex. In the total sample, significant differences in theoretical and practical exam grades were noted between chronotypes: MT vs ET (p < .002, p < .0006) and MT vs NT (p < .04, p < .003). The differences between the males were significant for the theoretical (p < .006, MT vs NT, p < .002) and the practical subjects (MT vs ET p < .004, MT vs NT, p < .01), but no significant differences were noted between the females. Our findings indicate overall better academic achievement by the MT students, whereas the NT had lower exam grades for the theoretical subjects and the ET performed worse on the practical exams. We speculate that the higher intelligence expressed by the ET students might have helped them compensate the disadvantage on the theoretical but not on practical exams, in which the effect of misalignment between circadian preferences and university class schedule was more evident.
Childhood Physical and Sexual Abuse as a Predictor of Reoffending: A Systematic Review

Experiences of childhood trauma such as physical and sexual abuse are common among offender populations, and a trauma history is related to increases in the risk of criminal conduct. Previous reviews on the link between childhood trauma and reoffending are limited in scope as they only investigate adolescent populations. The aim of the current systematic review was to explore the association between childhood physical and sexual abuse and its prediction on actual reoffending rates in adult population(s). Four databases (PsycINFO, Web of Science, PubMed, and PILOTS) were searched, and the final included articles were quality assessed by two reviewers. A total of 3,151 studies were identified, and 13 met the a priori eligibility criteria. Most of the studies obtained high quality ratings. A narrative synthesis of the results suggests that childhood physical and sexual abuse are generally high among the prison population and tend to be even higher among those who reoffend. A substantial number of studies found that childhood physical and sexual abuse predict reoffending, and the majority of the studies found a positive direction for this association, albeit of a small magnitude. These findings suggest that prisons should consider trauma-informed assessment and rehabilitation of offenders.
Impact of Perioperative Hypnosedation on Postmastectomy Chronic Pain: Preliminary Results

Objectives: The main aim of this prospective nonrandomized study was to evaluate if mastectomy performed with perioperative hypnosedation led to a lower incidence of chronic pain compared with mastectomy under general anesthesia. Methods: Forty-two breast cancer patients who underwent mastectomy either under GA (GA group, n = 21) or HYP (HYP group, n = 21) associated with local and/or regional anesthesia were included. The type of adjuvant therapy as well as the number of reconstructive surgical procedures were well balanced between the 2 groups. The average age of the patients and the type of axillary surgery were also equivalent. Incidence of postmastectomy chronic pain, lymphedema, and shoulder range of motion (ROM) were evaluated after a mean 4-year follow-up. Results: The study shows a statistically significant lower incidence of postmastectomy chronic pain in HYP group (1/21, 1 patient out of 21 experiencing pain) compared with GA group (9/21) with 9 patients out of 21 experiencing pain (P = .008). ROM for shoulder was also less frequently affected in the hypnosedation group, as only 1 patient had decreased ROM, instead of 7 in the other group (P = .04). Conclusions: Our study is the first to hint at the potential benefits of hypnosedation on postmastectomy chronic pain. Despite the limitations of this study (nonrandomized, small sample), preliminary results merit further study of hypnosedation.
Towards comparable assessment of the soil nutrient status across scales—Review and development of nutrient metrics

Nutrient availability influences virtually every aspect of an ecosystem, and is a critical modifier of ecosystem responses to global change. Although this crucial role of nutrient availability in regulating ecosystem structure and functioning has been widely acknowledged, nutrients are still often neglected in observational and experimental synthesis studies due to difficulties in comparing the nutrient status across sites. In the current study, we explain different nutrient‐related concepts and discuss the potential of soil‐, plant‐ and remote sensing‐based metrics to compare the nutrient status across space. Based on our review and additional analyses on a dataset of European, managed temperate and boreal forests (ICP [International Co‐operative Programme on Assessment and Monitoring of Air Pollution Effects on Forests] Forests dataset), we conclude that the use of plant‐ and remote sensing‐based metrics that rely on tissue stoichiometry is limited due to their strong dependence on species identity. The potential use of other plant‐based metrics such as Ellenberg indicator values and plant‐functional traits is also discussed. We conclude from our analyses and review that soil‐based metrics have the highest potential for successful intersite comparison of the nutrient status. As an example, we used and adjusted a soil‐based metric, previously developed for conifer forests across Sweden, against the same ICP Forests data. We suggest that this adjusted and further adaptable metric, which included the organic carbon concentration in the upper 20 cm of the soil (including the organic fermentation‐humus [FH] layer), the C:N ratio and pHCaCl2 of the FH layer, can be used as a complementary tool along with other indicators of nutrient availability, to compare the background nutrient status across temperate and boreal forests dominated by spruce, pine or beech. Future collection and provision of harmonized soil data from observational and experimental sites is crucial for further testing and adjusting the metric.