Miracle-dz/UniFAR-FTUs huggingface dataset:
Prevalence and predictors of bacteremia in dairy calves with diarrhea.

Gastrointestinal disease is the most common cause of mortality in dairy calves. Septicemia is an important sequela of diarrhea, and the possibility of bacteremia is the primary justification for empirical antimicrobial therapy. Prior reports estimate that approximately one-third of diarrheic calves are bacteremic; however, those estimates may not be representative of routine cases in heifer calves on commercial dairy operations early in the course of disease. We hypothesized that the prevalence of bacteremia in calves with diarrhea and systemic signs of illness is less than prior estimates (~31%), and that clinical signs or hematological values would be associated with the presence or absence of bacteremia. Female calves less than 21 d of age with and without diarrhea were enrolled from 2 commercial dairy farms over a 10-wk period. Diarrheic calves were enrolled if they were newly diagnosed, had loose to watery stool, had either dehydration (assessed by skin tent and eye position) or depression (assessed by suckle reflex and standing ability), and had no prior antimicrobial treatments. Complete health assessments were conducted at 0, 7, and 14 d following enrollment. An aseptic jugular venous sample was collected and cultured using aerobic and anaerobic methods, and bacterial species were identified using mass spectrometry. Poisson regression models were used to identify associations with bacteremia and compute adjusted prevalence ratios. The prevalence of bacteremia in diarrheic and healthy calves was 9.26% (10/108, 95% confidence interval: 4.5-16%) and 14.8% (4/27, 95% confidence interval: 1.4-28.2%), respectively. Among calves with diarrhea, those with a fever (>39.7°C) or depression were 4.8 and 6.5 times more likely, respectively, to have bacteremia. Only 1 of 47 calves (2%) without signs of depression was bacteremic. The prevalence of bacteremia in diarrheic calves with signs of systemic illness (depression or dehydration) was significantly lower than previous estimates, and bacteremia was rare among calves without observed depression. Antimicrobial therapy targeting bacteremia is not currently justified in routine cases of diarrhea in preweaning calves without signs of depression. These results suggest a substantial opportunity for more targeted antimicrobial therapy to improve antimicrobial stewardship.
Effectiveness of Immersive Virtual Reality in Nursing Education

Background: Digital education using immersive virtual reality (VR) technology is available in nursing. Evidence of its effectiveness is essential. Purpose: This review analyzed the effectiveness of and barriers to using immersive VR in nursing education. Methods: A structured search was performed in PubMed, Cumulative Index to Nursing and Allied Health Literature, EMBASE, PsycINFO, Web of Science, and ProQuest Nursing & Allied Health Database. The Medical Education Research Study Quality Instrument was used to assess the quality of studies. Results: The final review was composed of 9 studies of moderate to high quality published between 2018 and 2020. The review indicated that immersive VR increased learning, cognitive, and psychomotor performance. Most participants of the studies preferred using immersive VR in education and with a variety of experiential scenarios. Barriers were associated with technological hardware and software (eg, simulation sickness, lack of visual comfort). Conclusion: The review supports the viability of immersive VR technology in nursing education.
A survey of anaesthetists on uterotonic usage practices for elective caesarean section in Australia and New Zealand

Prophylactic administration of uterotonics ensures adequate uterine contraction at elective caesarean section to prevent substantial haemorrhage. Royal College of Obstetricians and Gynaecologists guidelines advise the administration of oxytocin at 5 IU as a ‘slow bolus’ but there are variations in clinical practice. This study aimed to determine the beliefs and uterotonic usage practices at elective caesarean section by surveying anaesthetist members of the Obstetric Anaesthesia Special Interest Group in Australia and New Zealand. Questionnaires were emailed to Obstetric Anaesthesia Special Interest Group members and the response rate was 33%, with analysis of 279 completed reports. Oxytocin was the most commonly used first-line uterotonic, but extensive variation in oxytocin bolus use was identified. Thirty-eight per cent of anaesthetists routinely administered Royal College of Obstetricians and Gynaecologists guideline-recommended 5 IU, whereas 38% favoured low dose (<5 IU), 10% high dose (≥10 IU) oxytocin and 13% carbetocin (100 µg). More than 50% felt the evidence was weak for guideline-recommended 5 IU. Wide variation in the duration of oxytocin administration was also identified. Fifty-eight per cent of anaesthetists routinely gave follow-up oxytocin infusions, most commonly at 40 IU over 4 hours, but there was significant variation in the dosage (10–40 IU) and administration duration (1 hour to ≥6 hours). In conclusion, there is significant variation in oxytocin usage practices at elective caesarean section among Australian and New Zealand anaesthetists. This variation may be due to a lack of strong evidence to guide practice. This emphasises the need for high quality trials in this clinically important area.
A heuristic algorithm for medical staff’s scheduling problems with multiskills and vacation control

Introduction The main issue related to the duty schedule is to allocate medical staff to each medical department by considering personnel skills and personal vocation preferences. However, how to effectively use staff’s multiskill characteristics and how to execute vocation control have not been well investigated. Objectives This article aims to develop duty scheduling and vacation permission decisions to minimize the sum of customers’ waiting costs, the overtime cost of medical staff, the cost of failing to meet medical staff’ vacation requirements, and the cost of mutual support between departments. Methods This study formulated the problem as a multiperiod mixed integer nonlinear programming model and developed a hybrid heuristic based on evolutionary mechanism of genetic algorithm and linear programming to efficiently solve the proposed model. Results Five types of problems were solved through Lingo optimization and the proposed approach. For small-scale problems, both methods can find the optimal solutions. For a slightly larger problem, the solutions found by the proposed approach are superior those of Lingo. Conclusion This research discusses the complex decision-making problem of on-duty arrangement and vacation control of medical staff in a multidepartmental medical center. This research formulates the medical staff’s scheduling and vacation control problems as constrained mixed integer quadratic programming problems. Computational results indicate that the proposed approach can efficiently produce compromise solutions that outperform the solutions of the Lingo optimization software.
Prospective versus retrospective recordings of comorbidities and complications in bladder cancer patients undergoing radical cystectomy – a randomized controlled trial

Abstract Background Patients undergoing radical cystectomy are predominantly elderly with many comorbidities and high risk of complications. Studies on comorbidity and complications following cancer surgery are often based on data collected retrospectively from records. However, prospective registration is often considered a more valid source of information. Therefore, it is relevant to investigate if the amount and severity of complications and comorbidities is valid when using retrospective registration compared to a more meticulous prospective registration. Objective To investigate the difference in registered comorbidities and complications between prospective and retrospective data collection in patients with bladder cancer undergoing radical cystectomy. Method Seventy-three bladder cancer patients undergoing radical cystectomy were randomized to receive prospective or retrospective collection of data regarding comorbidities and complications. Data in the prospective arm was collected daily during hospitalization, 14-days after discharge and 90-days postoperatively. In the retrospective arm, medical records were reviewed retrospectively at 90-days. Comorbidities were compared using the Charlson Comorbidity Index (CCI) and complications were reported as overall, minor and major dependent on Clavien Dindo Classification (CDC). The primary endpoint was the difference in overall complication rate. Results No statistically significant difference in CCI was observed with median [IQR] 2[0;3] and 1[0;2] (p = 0.21). No statistically significant difference was found regarding all, minor (CDC I-II) or major (CDC III-V) complications at all three time points. Conclusion No statistically significant difference in comorbidity and complications between retrospectively and prospectively collected data was observed. We find that retrospective collected data is reliable when strict reporting guidelines are used in this single-centre study.
Self‐reported medication use as an alternate phenotyping method for anxiety and depression in the UK Biobank

The requirement for large sample sizes for psychiatric genetic analyses necessitates novel approaches to derive cases. Anxiety and depression show substantial genetic overlap and share pharmacological treatments. Data on prescribed medication could be effective for inferring case status when other indicators of mental health are unavailable. We investigated self‐reported current medication use in UK Biobank participants of European ancestry. Medication Status cases reported using antidepressant or anxiolytic medication (n = 22,218), controls did not report psychotropic medication use (n = 168,959). A subset, “Medication Only,” additionally did not meet criteria for any other mental health indicator (case n = 2,643, control n = 107,029). We assessed genetic overlap between these phenotypes and two published genetic association studies of anxiety and depression, and an internalizing disorder trait derived from symptom‐based questionnaires in UK Biobank. Genetic correlations between Medication Status and the three anxiety and depression phenotypes were significant (rg = 0.60–0.73). In the Medication Only subset, the genetic correlation with depression was significant (rg = 0.51). The three polygenic scores explained 0.33% – 0.80% of the variance in Medication Status and 0.07% – 0.19% of the variance in Medication Only. This study provides evidence that self‐reported current medication use offers an alternate or supplementary anxiety or depression phenotype in genetic studies where diagnostic information is sparse or unavailable.
Different transcriptional levels of Corazonin, Elevenin and PDF according to the body-color of the two-spotted cricket, Gryllus bimaculatus.

Body-color in insects changes according to the living environment and physiological stresses possibly involved in endocrine factors. To date, three predominant bioactive peptides, Corazonin, Elevenin, and pigment-dispersing factor (PDF) have been illuminated to be involved in the body-color in insects and crustaceans. Here, we examined the possibilities that these three factors would contribute to body-color changes via melanization in the two-spotted cricket, Gryllus bimaculatus, whose body color changes according to population density drastically. Quantitative analyses revealed that the higher transcriptional levels of Corazonin and Elevenin in the crowded-conditioned crickets, whereas the transcriptional level of PDF was higher in the isolated-conditioned crickets. However, the body color was not changed by knockdown of Corazonin, Elevenin, and PDF by RNA interference. The present data indicated that coloration mechanisms in G. bimaculatus is differently controlled from the previous observation in Locusta migratoria, a closely related orthopteran species.
Oxytocin receptor polymorphism influences characterization of harm avoidance by moderating susceptibility to affectionless control parenting

Oxytocin receptor (OXTR) gene polymorphism reportedly moderates effects of negative environments during childhood on mental function and behavior such as depressive symptoms and externalizing problems. This study examined OXTR gene polymorphism effects on personality traits in healthy participants, considering interaction effects of polymorphism with affectionless control (AC) parenting which is one of the dysfunctional and pathogenic parenting styles.
Modelling the impact of HIV and HCV prevention and treatment interventions for people who inject drugs in Dar es Salaam, Tanzania

People who inject drugs (PWID) in Dar es Salaam, Tanzania, have a high prevalence of HIV and hepatitis C virus (HCV). While needle and syringe programmes (NSP), opioid agonist therapy (OAT) and anti‐retroviral therapy (ART) are available in Tanzania, their coverage is sub‐optimal. We assess the impact of existing and scaled up harm reduction (HR) interventions on HIV and HCV transmission among PWID in Dar es Salaam.
Censoring‐robust time‐dependent receiver operating characteristic curve estimators

Time‐dependent receiver operating characteristic curves are often used to evaluate the classification performance of continuous measures when considering time‐to‐event data. When one is interested in evaluating the predictive performance of multiple covariates, it is common to use the Cox proportional hazards model to obtain risk scores; however, previous work has shown that when the model is mis‐specified, the estimand corresponding to the partial likelihood estimator depends on the censoring distribution. In this manuscript, we show that when the risk score model is mis‐specified, the AUC will also depend on the censoring distribution, leading to either over‐ or under‐estimation of the risk score's predictive performance. We propose the use of censoring‐robust estimators to remove the dependence on the censoring distribution and provide empirical results supporting the use of censoring‐robust risk scores.
Pleiotropic Effects of the P5-Type ATPase SpfA on Stress Response Networks Contribute to Virulence in the Pathogenic Mold Aspergillus fumigatus

The fungal UPR is an adaptive signaling pathway in the ER that buffers fluctuations in ER stress but also serves as a virulence regulatory hub in species of pathogenic fungi that rely on secretory pathway homeostasis for pathogenicity. This study demonstrates that the gene encoding the ER-localized P5-type ATPase SpfA is a downstream target of the UPR in the pathogenic mold A. fumigatus and that it works together with a second ER-localized P-type ATPase, SrcA, to support ER homeostasis, oxidative stress resistance, susceptibility to antifungal drugs, and virulence of A. fumigatus. ABSTRACT Aspergillus fumigatus is a human-pathogenic mold that extracts nutrients from the environment or from host tissues by secreting hydrolytic enzymes. The ability of A. fumigatus to adjust secretion levels in proportion to demand relies on the assistance of the unfolded protein response (UPR), an adaptive stress response pathway that regulates the unique protein-folding environment of the endoplasmic reticulum (ER). The P5-type ATPase Spf1 has recently been implicated in a novel mechanism of ER homeostasis that involves correcting errors in ER-membrane protein targeting. However, the contribution of this protein to the biology of A. fumigatus is unknown. Here, we employed a gene knockout and RNA sequencing strategy to determine the functional role of the A. fumigatus gene coding for the orthologous P5 ATPase SpfA. The data reveal that the spfA gene is induced by ER stress in a UPR-dependent manner. In the absence of spfA, the A. fumigatus transcriptome shifts toward a profile of altered redox and lipid balance, in addition to a signature of ER stress that includes srcA, encoding a second P-type ATPase in the ER. A ΔspfA deletion mutant showed increased sensitivity to ER stress, oxidative stress, and antifungal drugs that target the cell wall or plasma membrane. The combined loss of spfA and srcA exacerbated these phenotypes and attenuated virulence in two animal infection models. These findings demonstrate that the ER-resident ATPases SpfA and SrcA act jointly to support diverse adaptive functions of the ER that are necessary for fitness in the host environment. IMPORTANCE The fungal UPR is an adaptive signaling pathway in the ER that buffers fluctuations in ER stress but also serves as a virulence regulatory hub in species of pathogenic fungi that rely on secretory pathway homeostasis for pathogenicity. This study demonstrates that the gene encoding the ER-localized P5-type ATPase SpfA is a downstream target of the UPR in the pathogenic mold A. fumigatus and that it works together with a second ER-localized P-type ATPase, SrcA, to support ER homeostasis, oxidative stress resistance, susceptibility to antifungal drugs, and virulence of A. fumigatus.
SysInflam HuDB, a Web Resource for Mining Human Blood Cells Transcriptomic Data Associated with Systemic Inflammatory Responses to Sepsis

Sepsis develops after a dysregulated host inflammatory response to a systemic infection. Identification of sepsis biomarkers has been challenging because of the multifactorial causes of disease susceptibility and progression. Public transcriptomic data are a valuable resource for mechanistic discoveries and cross-studies concordance of heterogeneous diseases. Nonetheless, the approach requires structured methodologies and effective visualization tools for meaningful data interpretation. Currently, no such database exists for sepsis or systemic inflammatory diseases in human. Hence we curated SysInflam HuDB (http://sepsis.gxbsidra.org/dm3/geneBrowser/list), a unique collection of human blood transcriptomic datasets associated with systemic inflammatory responses to sepsis. The transcriptome collection and the associated clinical metadata are integrated onto a user-friendly and Web-based interface that allows the simultaneous exploration, visualization, and interpretation of multiple datasets stemming from different study designs. To date, the collection encompasses 62 datasets and 5719 individual profiles. Concordance of gene expression changes with the associated literature was assessed, and additional analyses are presented to showcase database utility. Combined with custom data visualization at the group and individual levels, SysInflam HuDB facilitates the identification of specific human blood gene signatures in response to infection (e.g., patients with sepsis versus healthy control subjects) and the delineation of major genetic drivers associated with inflammation onset and progression under various conditions. Visual Abstract
Effects of the Herbicide Metolachlor and Fish Presence on Pond Mesocosm Communities

Abstract. The effects of many pesticides on aquatic ecosystems remain poorly understood, especially in naturalistic communities in which organisms are connected by a complex array of direct and indirect interactions. Moreover, multiple stressors can interact, and the addition of apex predators, such as fish, may introduce additional ecosystem changes that exacerbate or mitigate pesticide effects. Despite being both common and environmentally persistent, the effects of the herbicide metolachlor on realistic aquatic communities have received insufficient research attention. We tested the effects of metolachlor on pond mesocosms at three concentrations (0, 20, and 80 ppb), along with the presence vs. absence of fish (black crappie, Pomoxis nigromaculatus) to determine the independent and combined effects of these two environmental changes. We found both metolachlor and fish altered the pond mesocosms, but their effects did not interact. Metolachlor reduced phytoplankton as expected, but had nonlinear effects on dissolved oxygen. Metolachlor also altered tadpole behavior, making them less prone to hiding. Fish presence increased periphyton and decreased snail counts, as well as changing the behavior of tadpoles, reducing their hiding behavior. This work demonstrates previously undocumented effects of metolachlor in the presence and absence of fish and suggests future avenues of investigation.
Reflect, not Regret: Understanding Regretful Smartphone Use with App Feature-Level Analysis

Digital intervention tools against problematic smartphone usage help users control their consumption on smartphones, for example, by setting a time limit on an app. However, today's social media apps offer a mix of quasiessential and addictive features in an app (e.g., Instagram has following feeds, recommended feeds, stories, and direct messaging features), which makes it hard to apply a uniform logic for all uses of an app without a nuanced understanding of feature-level usage behaviors. We study when and why people regret using different features of social media apps on smartphones. We examine regretful feature uses in four smartphone social media apps (Facebook, Instagram, YouTube, and KakaoTalk) by utilizing feature usage logs, ESM surveys on regretful use collected for a week, and retrospective interviews from 29 Android users. In determining whether a feature use is regretful, users considered different types of rewards they obtained from using a certain feature (i.e., social, informational, personal interests, and entertainment) as well as alternative rewards they could have gained had they not used the smartphone (e.g., productivity). Depending on the types of rewards and the way rewards are presented to users, probabilities to regret vary across features of the same app. We highlight three patterns of features with different characteristics that lead to regretful use. First, "following"-based features (e.g., Facebook's News Feed and Instagram's Following Posts and Stories) induce habitual checking and quickly deplete rewards from app use. Second, recommendation-based features situated close to actively used features (e.g., Instagram's Suggested Posts adjacent to Search) cause habitual feature tour and sidetracking from the original intention of app use. Third, recommendation-based features with bite-sized contents (e.g., Facebook's Watch Videos) induce using "just a bit more," making people fall into prolonged use. We discuss implications of our findings for how social media apps and intervention tools can be designed to reduce regretful use and how feature-level usage information can strengthen self-reflection and behavior changes.
The Everyday HCI of Uber Drivers in India: A Developing Country Perspective

Uber drivers in India are witnessing a slow emergence of everyday work formalization predominantly through their engagement with the Uber platform. If a vast segment of the informal employment sector in a country resembles gig work, can companies like Uber bring organizational ability and wage regularity to employment? Despite Uber's economic model being challenged on several labor fronts in scholarship from the global North, we argue everyday interactions with the Uber platform are ushering organized work practices and improved financial stability for drivers who formerly hail from the informal employment sector in India. The everyday driving for Uber is filtered through a conceptual and practical work model drivers gain with due experience of Uber's platform features. Our study uncovers the relationship between the controlling demands of the Uber platform and ensuing driver work adaptations. We present findings from a qualitative investigation of Uber ride-hailing services impacting drivers to 1. optimize earnings 2. link work effort to wages 3. converge towards platform compliance. We posit engaged and persistent interactions with the Uber platform bring structure and formality to the profession of driving for Indian Uber drivers.