Miracle-dz/UniFAR-FTUs huggingface dataset:
Machine learning-based investigation of the relationship between immune status and left ventricular hypertrophy in patients with end-stage kidney disease

Background Left ventricular hypertrophy (LVH) is the most frequent cardiac complication among end-stage kidney disease (ESKD) patients, which has been identified as predictive of adverse outcomes. Emerging evidence has suggested that immune system is implicated in the development of cardiac hypertrophy in multiple diseases. We applied machine learning models to exploring the relation between immune status and LVH in ESKD patients. Methods A cohort of 506 eligible patients undergoing immune status assessment and standard echocardiography simultaneously in our center were retrospectively analyzed. The association between immune parameters and the occurrence of LVH were evaluated through univariate and multivariate logistic analysis. To develop a predictive model, we utilized four distinct modeling approaches: support vector machine (SVM), logistic regression (LR), multi-layer perceptron (MLP), and random forest (RF). Results In comparison to the non-LVH group, ESKD patients with LVH exhibited significantly impaired immune function, as indicated by lower cell counts of CD3+ T cells, CD4+ T cells, CD8+ T cells, and B cells. Additionally, multivariable Cox regression analysis revealed that a decrease in CD3+ T cell count was an independent risk factor for LVH, while a decrease in NK cell count was associated with the severity of LVH. The RF model demonstrated superior performance, with an average area under the curve (AUC) of 0.942. Conclusion Our findings indicate a strong association between immune parameters and LVH in ESKD patients. Moreover, the RF model exhibits excellent predictive ability in identifying ESKD patients at risk of developing LVH. Based on these results, immunomodulation may represent a promising approach for preventing and treating this disease.
Combining body mass index and waist height ratio to assess the relationship between obesity and serum uric acid levels in adolescents

Background The study aims to explore the relationship between obesity and serum uric acid in adolescents by combining body mass index and waist height ratio. Methods 475 adolescents in our study were classified as normal weight without central obesity (NW), normal weight but central obesity (NWCO), overweight or obesity without central obesity (OB) and overweight or obesity with central obesity (OBCO). Odds ratios (OR) and 95% confidence intervals (CI) for hyperuricemia were calculated using a logistic regression model. The dose-response association between obesity indicators and serum uric acid were explored by restricted cubic spline model. Results The highest serum uric acid level and the OR for hyperuricemia were found in the OBCO group, regardless of sex. After controlling for waist height ratio, the risk of hyperuricemia increased with increasing body mass index in boys and girls. The restricted cubic spline model showed that boys had higher ORs for hyperuricemia at the 25th and 75th percentiles of body mass index than for waist height ratio and girls had a higher OR for hyperuricemia than waist height ratio at the 25th percentile of body mass index. Conclusions Hyperuricemia in adolescence was not only associated with the overweight or obesity in BMI, but with the combination of overweight or obesity in BMI and central obesity in WHtR. However, in boys and girls, the increased risk of hyperuricemia associated with elevated body mass index was significantly better than that of waist height ratio.
Evaluating the outcomes and implementation determinants of interventions co-developed using human-centered design to promote healthy eating in restaurants: an application of the consolidated framework for implementation research

Background Restaurants are an emerging yet underutilized setting to facilitate healthier eating, particularly among minoritized communities that disproportionately experience health inequities. The present study aimed to examine outcomes from interventions co-developed using Human-Centered Design (HCD) in two Latin American restaurants, including sales of healthier menu items (HMI) and the consumer nutrition environment. In addition, we aimed to assess implementation outcomes (acceptability, fidelity, and sustainability) and elucidate the determinants for implementation using the Consolidated Framework for Implementation Research. Methods This study used a mixed-methods, longitudinal design. Data were collected pre-, during, and post-intervention testing. Intervention outcomes were examined through daily sales data and the Nutrition Environment Measures Survey for Restaurants (NEMS-R). Changes in HMI sales were analyzed using interrupted time series. Implementation outcomes and determinants were assessed through site visits [observations, interviews with staff (n = 19) and customers (n = 31)], social media monitoring, and post-implementation key informant interviews with owners and staff. Qualitative data were analyzed iteratively by two independent researchers using codes developed a priori based on CFIR. Results The HCD-tailored interventions had different outcomes. In restaurant one (R1), where new HMI were introduced, we found an increase in HMI sales and improvements in NEMS-R scores. In restaurant two, where existing HMI were promoted, we found no significant changes in HMI sales and NEMS-R scores. Acceptance was high among customers and staff, but fidelity and sustainability differed by restaurant (high in R1, low in R2). Barriers and facilitators for implementation were found across all CFIR constructs, varying by restaurant and intervention. Most relevant constructs were found in the inner setting (restaurant structure, implementation climate), individual characteristics, and process (HCD application). The influence of outer setting constructs (policy, peer pressure) was limited due to lack of awareness. Conclusion Our findings provide insights for interventions developed in challenging and constantly changing settings, as in the case of restaurants. This research expands the application of CFIR to complex and dynamic community-based settings and interventions developed using HCD. This is a significant innovation for the field of public health nutrition and informs future interventions in similarly dynamic and understudied settings.
Clinical target volume and organs at risk segmentation for rectal cancer radiotherapy using the Flex U-Net network

Purpose/Objective(s) The aim of this study was to improve the accuracy of the clinical target volume (CTV) and organs at risk (OARs) segmentation for rectal cancer preoperative radiotherapy. Materials/Methods Computed tomography (CT) scans from 265 rectal cancer patients treated at our institution were collected to train and validate automatic contouring models. The regions of CTV and OARs were delineated by experienced radiologists as the ground truth. We improved the conventional U-Net and proposed Flex U-Net, which used a register model to correct the noise caused by manual annotation, thus refining the performance of the automatic segmentation model. Then, we compared its performance with that of U-Net and V-Net. The Dice similarity coefficient (DSC), Hausdorff distance (HD), and average symmetric surface distance (ASSD) were calculated for quantitative evaluation purposes. With a Wilcoxon signed-rank test, we found that the differences between our method and the baseline were statistically significant (P< 0.05). Results Our proposed framework achieved DSC values of 0.817 ± 0.071, 0.930 ± 0.076, 0.927 ± 0.03, and 0.925 ± 0.03 for CTV, the bladder, Femur head-L and Femur head-R, respectively. Conversely, the baseline results were 0.803 ± 0.082, 0.917 ± 0.105, 0.923 ± 0.03 and 0.917 ± 0.03, respectively. Conclusion In conclusion, our proposed Flex U-Net can enable satisfactory CTV and OAR segmentation for rectal cancer and yield superior performance compared to conventional methods. This method provides an automatic, fast and consistent solution for CTV and OAR segmentation and exhibits potential to be widely applied for radiation therapy planning for a variety of cancers.
Pou4f1-Tbr1 transcriptional cascade controls the formation of Jam2-expressing retinal ganglion cells

More than 40 retinal ganglion cell (RGC) subtypes have been categorized in mouse based on their morphologies, functions, and molecular features. Among these diverse subtypes, orientation-selective Jam2-expressing RGCs (J-RGCs) has two unique morphologic characteristics: the ventral-facing dendritic arbor and the OFF-sublaminae stratified terminal dendrites in the inner plexiform layer. Previously, we have discovered that T-box transcription factor T-brain 1 (Tbr1) is expressed in J-RGCs. We further found that Tbr1 is essential for the expression of Jam2, and Tbr1 regulates the formation and the dendritic morphogenesis of J-RGCs. However, Tbr1 begins to express in terminally differentiated RGCs around perinatal stage, suggesting that it is unlikely involved in the initial fate determination for J-RGC and other upstream transcription factors must control Tbr1 expression and J-RGC formation. Using the Cleavage Under Targets and Tagmentation technique, we discovered that Pou4f1 binds to Tbr1 on the evolutionary conserved exon 6 and an intergenic region downstream of the 3’UTR, and on a region flanking the promoter and the first exon of Jam2. We showed that Pou4f1 is required for the expression of Tbr1 and Jam2, indicating Pou4f1 as a direct upstream regulator of Tbr1 and Jam2. Most interestingly, the Pou4f1-bound element in exon 6 of Tbr1 possesses high-level enhancer activity, capable of directing reporter gene expression in J-RGCs. Together, these data revealed a Pou4f1-Tbr1-Jam2 genetic hierarchy as a critical pathway in the formation of J-RGC subtype.
Reliable and transparent in-vehicle agents lead to higher behavioral trust in conditionally automated driving systems

Trust is critical for human-automation collaboration, especially under safety-critical tasks such as driving. Providing explainable information on how the automation system reaches decisions and predictions can improve system transparency, which is believed to further facilitate driver trust and user evaluation of the automated vehicles. However, what the optimal level of transparency is and how the system communicates it to calibrate drivers’ trust and improve their driving performance remain uncertain. Such uncertainty becomes even more unpredictable given that the system reliability remains dynamic due to current technological limitations. To address this issue in conditionally automated vehicles, a total of 30 participants were recruited in a driving simulator study and assigned to either a low or a high system reliability condition. They experienced two driving scenarios accompanied by two types of in-vehicle agents delivering information with different transparency types: “what”-then-wait (on-demand) and “what + why” (proactive). The on-demand agent provided some information about the upcoming event and delivered more information if prompted by the driver, whereas the proactive agent provided all information at once. Results indicated that the on-demand agent was more habitable, or naturalistic, to drivers and was perceived with faster system response speed compared to the proactive agent. Drivers under the high-reliability condition complied with the takeover request (TOR) more (if the agent was on-demand) and had shorter takeover times (in both agent conditions) compared to those under the low-reliability condition. These findings inspire how the automation system can deliver information to improve system transparency while adapting to system reliability and user evaluation, which further contributes to driver trust calibration and performance correction in future automated vehicles.
Non-cognitive skills and immigrant-native inequalities in the labor market in Europe

Non-cognitive skills are increasingly essential in the labor market, especially given technological advances and evolving work environments. Unequal distribution of non-cognitive skills among various groups in the population may contribute to labor market inequalities. This article investigates the significance of non-cognitive skills for immigrant-native inequalities in the European labor market. Specifically, we examine the potential differences in non-cognitive skills between native and immigrant groups and how these differences may affect their income. Additionally, we explore whether equal levels of non-cognitive skills have comparable payoffs for native and immigrant groups in society. We use, comparative survey data from the Programme for the International Assessment of Adult Competencies and OLS regressions with country fixed effects. Our findings show that many immigrants exhibit lower levels of non-cognitive skills than native-born workers, despite differences between origin groups. This difference in non-cognitive skills explains part of the immigrant-native inequality in the labor market for most immigrant-origin groups. Moreover, our results indicate that immigrants, especially those from Central and Eastern European countries, benefit less from exercising comparable non-cognitive skills than native-born workers. Our study highlights the importance of non-cognitive skills in addressing the labor market disadvantage faced by immigrants, and emphasizes that policymakers and educators should recognize the significance of these skills when developing policies targeting immigrants.
Vestibular prosthesis: from basic research to clinics

Balance disorders are highly prevalent worldwide, causing substantial disability with high personal and socioeconomic impact. The prognosis in many of these patients is poor, and rehabilitation programs provide little help in many cases. This medical problem can be addressed using microelectronics by combining the highly successful cochlear implant experience to produce a vestibular prosthesis, using the technical advances in micro gyroscopes and micro accelerometers, which are the electronic equivalents of the semicircular canals (SCC) and the otolithic organs. Reaching this technological milestone fostered the possibility of using these electronic devices to substitute the vestibular function, mainly for visual stability and posture, in case of damage to the vestibular endorgans. The development of implantable and non-implantable devices showed diverse outcomes when considering the integrity of the vestibular pathways, the device parameters (current intensity, impedance, and waveform), and the targeted physiological function (balance and gaze). In this review, we will examine the development and testing of various prototypes of the vestibular implant (VI). The insight raised by examining the state-of-the-art vestibular prosthesis will facilitate the development of new device-development strategies and discuss the feasibility of complex combinations of implantable devices for disorders that directly affect balance and motor performance.
Increased selenium and decreased iron levels in relation to risk of coronary artery disease in patients with diabetes

Background Observational studies have reported inconsistent associations between micronutrient levels and the risk of coronary artery disease (CAD) in diabetic patients. We aim to explore the causal association between genetically predicted concentrations of micronutrients (phosphorus, magnesium, selenium, iron, zinc, and copper) and CAD in patients with diabetes. Methods Single nucleotide polymorphisms (SNPs) connected to serum micronutrient levels were extracted from the corresponding published genome-wide association studies (GWASs). Summary-level statistics for CAD in diabetic patients were obtained from a GWAS of 15,666 patients with diabetes. The primary analysis was carried out with the inverse variance weighted approach, and sensitivity analyses using other statistical methods were further employed to assess the robustness of the results. Results Genetically predicted selenium level was causally associated with a higher risk of CAD in diabetic patients (odds ratio [OR]: 1.25; 95% confidence interval [CI]: 1.10–1.42; p = 5.01 × 10−4). While, genetically predicted iron concentrations in patients with diabetes were inversely associated with the risk of CAD (OR: 0.82; 95% CI: 0.75–0.90; p = 2.16 × 10−5). The association pattern kept robust in most sensitivity analyses. Nominally significant associations were observed for magnesium and copper with the risk of CAD in patients with diabetes. No consistent evidence was found for the causal associations between phosphorus and zinc levels, and the risk of CAD in patients with diabetes. Conclusion We provide consistent evidence for the causal effect of increased selenium and decreased iron levels on CAD in patients with diabetes, highlighting the necessity of micronutrient monitoring and application in these patients.
A direct replication and extension of Popp and Serra (2016, experiment 1): better free recall and worse cued recall of animal names than object names, accounting for semantic similarity

Introduction Free recall tends to be better for names of animate concepts such as animals than for names of inanimate objects. In Popp and Serra’s 2016 article, the authors replicated this “animacy effect” in free recall but when participants studied words in pairs (animate-animate pairs intermixed with inanimate-inanimate pairs) and were tested with cued recall, performance was better for inanimate-inanimate pairs than for animate-animate pairs (“reverse animacy”). We tested the replicability of this surprising effect and one possible explanation for the effect (semantic similarity). Methods Our Experiment 1 was a preregistered direct replication (N = 101) of Popp and Serra’s Experiment 1 (mixed-lists condition). In a second preregistered experiment conducted in four different samples (undergraduate N = 153, undergraduate N = 143, online Prolific N = 101, online Prolific/English-as-a-first-language N = 150), we manipulated the within-category semantic similarity of animal and object wordlists. Results AIn Experiment 1, just as in Popp and Serra, we observed an animacy effect for free recall and a reverse animacy effect for cued recall. Unlike Popp and Serra, we found that controlling for interference effects rendered the reverse animacy effect non-significant. We took this as evidence that characteristics of the stimulus sets (e.g., category structure, within-category similarity) may play a role in animacy and reverse animacy effects. In Experiment 2, in three out of our four samples, we observed reverse animacy effects when within-category similarity was higher for animals and when within-category similarity was equated for animals and objects. Discussion Our results suggest that the reverse animacy effect observed in Popp and Serra’s 2016 article is a robust and replicable effect, but that semantic similarity alone cannot explain the effect.
Distributed stress fluidisation: Insights into the propagation mechanisms of the Abona volcanic debris avalanche (Tenerife) through a novel method for indurated deposit sedimentological analysis

Introduction: Volcanic debris avalanches mobilise large volumes and achieve long runouts with high destructive potential. However, the propagation processes that generate them are not currently explained by theoretical or numerical models, which are unable to represent deposit observations. Evaluation of the dynamics represented in deposits is therefore vital for constraining su ch models. The Abona volcanic debris avalanche deposit is located on the southern flank of the island of Tenerife, Spain. The deposit exhibits universal microfracturing and cataclasis. Fluidal features such as fluidal mixing of lithological units and diffuse boundaries, and mixed matrix are observed throughout the deposit. Methods: Field description including sedimentology and facies identification and the evaluation of their distribution have allowed the generation of a new conceptual model for the propagation dynamics of this volcanic debris avalanche, and potentially others with similar properties. The deposit is indurated making the detailed study of its sedimentology difficult, especially clast-size analysis. A novel method utilising structure from motion photogrammetry and photographic sampling was employed. Results: The universal cataclasis of the material and fluidal features suggest that the lack of a major competent material component allowed the mass to fragment and enabled fluidised granular flow behaviour. It is proposed that shear was periodically distributed throughout the body of the avalanche in chaotic temporary shear networks rearranging according to the instantaneous distribution of the mass. Stress and agitation were not temporally or spatially homogenous during propagation. This is also reflected in the unsystematic erosion of the substrate according to the variable basal shear accommodation. Discussion: It is proposed that lithological properties are potentially a determining factor for the propagation mechanisms, stress distribution, and consequently the evolution of a volcanic debris avalanche from the initial collapse to its emplacement. This study highlights the importance of dedicated field examinations of sedimentological, morphological, and structural features for providing constraints for models of volcanic debris avalanche dynamics and the factors dictating them. The novel methodology proposed has the potential of broadening the number of events that can be studied and enhancing the understanding of these complex and hazardous phenomena.
Pharmacogenomics in practice: a review and implementation guide

Considerable efforts have been exerted to implement Pharmacogenomics (PGx), the study of interindividual variations in DNA sequence related to drug response, into routine clinical practice. In this article, we first briefly describe PGx and its role in improving treatment outcomes. We then propose an approach to initiate clinical PGx in the hospital setting. One should first evaluate the available PGx evidence, review the most relevant drugs, and narrow down to the most actionable drug-gene pairs and related variant alleles. This is done based on data curated and evaluated by experts such as the pharmacogenomics knowledge implementation (PharmGKB) and the Clinical Pharmacogenetics Implementation Consortium (CPIC), as well as drug regulatory authorities such as the US Food and Drug Administration (FDA) and European Medicinal Agency (EMA). The next step is to differentiate reactive point of care from preemptive testing and decide on the genotyping strategy being a candidate or panel testing, each of which has its pros and cons, then work out the best way to interpret and report PGx test results with the option of integration into electronic health records and clinical decision support systems. After test authorization or testing requirements by the government or drug regulators, putting the plan into action involves several stakeholders, with the hospital leadership supporting the process and communicating with payers, the pharmacy and therapeutics committee leading the process in collaboration with the hospital laboratory and information technology department, and healthcare providers (HCPs) ordering the test, understanding the results, making the appropriate therapeutic decisions, and explaining them to the patient. We conclude by recommending some strategies to further advance the implementation of PGx in practice, such as the need to educate HCPs and patients, and to push for more tests’ reimbursement. We also guide the reader to available PGx resources and examples of PGx implementation programs and initiatives.