Miracle-dz/UniFAR-FTUs huggingface dataset:
Perceived Neighborhood Characteristics and Sleep in Australian Adults

Background Poor sleep can contribute to poorer health and socioemotional outcomes. Sleep health can be influenced by a range of individual and other socioecological factors. Perceptions of neighborhood physical and social characteristics reflect broader social-level factors that may influence sleep, which have not been well studied in the Australian context. This study examined the association between perceived neighborhood characteristics and sleep in a large sample of Australians. Methods Data were from 9,792 people aged 16 years or older, from Waves 16 and 17 of the nationally representative Household, Income and Labour Dynamics in Australia Survey. Associations between perceived neighborhood characteristics (neighborly interaction and support, environmental noise, physical condition, and insecurity) and self-reported sleep duration, sleep disturbance, and napping were examined using multiple logistic regression models. Results “Neighborhood interaction and support” and “neighborhood physical condition” were not significantly associated with any sleep outcomes after adjusting for relevant covariates. However, “environmental noise” and “neighborhood insecurity” remained significantly associated with sleep duration and sleep disturbance. None of the neighborhood characteristics were associated with napping. Furthermore, associations did not significantly vary by gender. Conclusions This study highlights the potential benefit of public health policies to address noise and safety in neighborhoods to improve sleep.
Phenotype characterization and biomarker evaluation in moderate to severe type 2-high asthma.

BACKGROUND There are two major pathological phenotypes of asthma, type 2 (T2)-high and T2-low asthma, which are important in determining treatment strategies. However, the characteristics and phenotypes of T2-high asthma have not yet been fully identified. OBJECTIVE This study aimed to identify the clinical characteristics and phenotypes of patients with T2-high asthma. METHODS This study used data from a nationwide asthma cohort study in Japan, NHOM Asthma Study. T2-high asthma was defined as a blood eosinophils count ≥ 300 /μL and/or fractional exhaled nitric oxide level ≥ 25 ppb, and the clinical characteristics and biomarkers were compared between T2-high and T2-low asthma. Furthermore, T2-high asthma was phenotyped via hierarchical cluster analysis using Ward's method. RESULTS Patients with T2-high asthma were older, less likely to be female, had longer asthma duration, had lower pulmonary function, and had more comorbidities, including sinusitis and SAS. Patients with T2-high asthma showed higher serum thymus and activation-regulated chemokine and urinary leukotriene E4 levels and lower serum ST2 levels than those with T2-low asthma. There were four phenotypes among patients with T2-high asthma: Cluster 1 (youngest, early-onset, and atopic), Cluster 2 (long duration, eosinophilic, and low lung function), Cluster 3 (elderly, female-dominant, and late-onset), and Cluster 4 (elderly, late-onset, and asthma-COPD overlap-dominant). CONCLUSIONS Patients with T2-high asthma have distinct characteristics and four distinct phenotypes, in which eosinophil-dominant Cluster 2 is the most severe phenotype. The present findings may be useful in precision medicine for asthma treatment in the future.
Modeling three-dimensional T-cell motility using clustering and hidden Markov models

Recent advances in imaging technologies now allow for real-time tracking of fast-moving immune cells as they search for targets such as pathogens and tumor cells through complex three-dimensional tissues. Cytotoxic T cells are specialized immune cells that continually scan tissues for such targets to engage and kill, and have emerged as the principle mediators of breakthrough immunotherapies against cancers. Modeling the way these T cells move is of great value in furthering our understanding of their collective search efficiency. T-cell motility is characterized by heterogeneity at two levels: (a) Individual cells display different distributions of translational speeds and turning angles, and (b) each cell can during a given track, its motility, switch between local search and directional motion. Despite a likely considerable influence on a motile population’s search performance, statistical models that accurately capture both such heterogeneities in a distinguishing manner are lacking. Here, we model three-dimensional T-cell trajectories through a spherical representation of their incremental steps and compare model outputs to real-world motility data from primary T cells navigating physiological environments. T cells in a population are clustered based on their directional persistence and characteristic “step lengths” therein capturing between-cell heterogeneity. The motility dynamics of cells within each cluster are individually modeled through hidden Markov model to capture within-cell transitions between local and more extensive search patterns. We explore the importance of explicitly capturing altered motility patterns when cells lie in close proximity to one another, through a non-homogenous hidden Markov model.
Automatic body part identification in real‐world clinical dermatological images using machine learning

Dermatological conditions are prevalent across all population sub‐groups. The affected body part is of importance to their diagnosis, therapy, and research. The automatic identification of body parts in dermatological clinical pictures could therefore improve clinical care by providing additional information for clinical decision‐making algorithms, discovering hard‐to‐treat areas, and research by identifying new patterns of disease.
GAPDH facilitates homologous recombination repair by stabilizing RAD51 in an HDAC1‐dependent manner

Homologous recombination (HR), a form of error‐free DNA double‐strand break (DSB) repair, is important for the maintenance of genomic integrity. Here, we identify a moonlighting protein, glyceraldehyde‐3‐phosphate dehydrogenase (GAPDH), as a regulator of HR repair, which is mediated through HDAC1‐dependent regulation of RAD51 stability. Mechanistically, in response to DSBs, Src signaling is activated and mediates GAPDH nuclear translocation. Then, GAPDH directly binds with HDAC1, releasing it from its suppressor. Subsequently, activated HDAC1 deacetylates RAD51 and prevents it from undergoing proteasomal degradation. GAPDH knockdown decreases RAD51 protein levels and inhibits HR, which is re‐established by overexpression of HDAC1 but not SIRT1. Notably, K40 is an important acetylation site of RAD51, which facilitates stability maintenance. Collectively, our findings provide new insights into the importance of GAPDH in HR repair, in addition to its glycolytic activity, and they show that GAPDH stabilizes RAD51 by interacting with HDAC1 and promoting HDAC1 deacetylation of RAD51.
An Approach for the Representation of Surface Heterogeneity in Land Surface Models. Part I: Theoretical Framework

Abstract In this paper, a theoretical framework is described for the representation of surface heterogeneity within complex biophysical surface schemes for use in climate models. The methodology adopts aspects of the mosaic approach and the statistical–dynamical approach. A grid cell is subdivided into fractional areas covered by basic surface types, that is, vegetated, bare soil, snow-covered, and impermeable surfaces, which separately exchange momentum, energy, and water vapor with the overlying atmosphere. Fractional precipitation areas within a grid box, and fractional rainfall and snowfall areas within the precipitation area, can also be specified. Within each surface type, heterogeneity is described by assuming that surface temperatures and soil water content follow continuous analytical probability density functions (PDFs) and by integrating relevant nonlinear terms over the appropriate PDF. Linear and symmetric PDFs are chosen since they allow ready analytical partial and full integration. This he.
FINITE ELEMENT SOLUTION OF SCATTERING IN COUPLED FLUID-SOLID SYSTEMS

In this thesis we investigate the mathematical theory of wave scattering by an obstacle. The obstacle considered is a bounded elastic body in a fluid domain. We analyse finite element methods and show existence and uniqueness of the solution for the coupled fluid-solid interaction problem in more than one dimension. We study the stability and regularity properties of acoustic wave scattering by introducing interpolation of spaces and scaled norms. This type of analysis, to the author’s knowledge, has not been investigated. Then we consider a multigrid method for the coupled fluid-solid interaction model problem in higher dimension. We use the Garding Inequality to obtain coercivity, then we use the Fredholm Alternative to analyze spectral properties and show uniqueness and existence of solutions. We need only weak regularity assumptions, and give a rigorous treatment of scale of spaces with constants independent of wave number k. A new approach is used to show stability of the coupled problem by using intermediate spaces and norms.
Single cell RNA-sequencing of human precision-cut lung slices: A novel approach to study the effect of vaping and viral infection on lung health

Vaping is an increasing health threat in the US and worldwide. The damaging impact of vaping on the human distal lung has been highlighted by the recent epidemic of electronic cigarette or vaping use-associated lung injury (EVALI). The pathogenesis of EVALI remains incompletely understood, due to a paucity of models that recapitulate the structural and functional complexity of the human distal lung and the still poorly defined culprit exposures to vaping products and respiratory viral infections. Our aim was to establish the feasibility of using single cell RNA-sequencing (scRNA-seq) technology in human precision-cut lung slices (PCLS) as a more physiologically relevant model to better understand how vaping regulates the antiviral and pro-inflammatory response to influenza A virus infection. Normal healthy donor PCLS were treated with vaping extract and influenza A viruses for scRNA-seq analysis. Vaping extract augmented host antiviral and pro-inflammatory responses in structural cells such as lung epithelial cells and fibroblasts, as well as in immune cells such as macrophages and monocytes. Our findings suggest that human distal lung slice model is useful to study the heterogeneous responses of immune and structural cells under EVALI conditions, such as vaping and respiratory viral infection.
Art Interventions to Mitigate Burnout in Health Care Professionals: A Systematic Review

Burnout in the medical workforce is a growing global concern. Visual arts–based interventions can be a novel way to mitigate burnout and bolster resilience in medicine. Improving tolerance of ambiguity and uncertainty has been associated with decreased rates of burnout in clinicians. No known systematic review exists summarizing the evidence behind the use of visual arts–based interventions to mitigate burnout in clinicians. The authors conducted a systematic literature review of PubMed, EMBASE, and CINAHL in November 2022 using the terms: art, medicine, burnout, and uncertainty. The authors review the evidence for the effects of visual arts–based interventions on clinician burnout. The search identified 58 articles, of which 26 met study inclusion criteria and were assessed by 2 reviewers. These studies reported mixed methods assessments of changes in burnout, empathy, and stress. Overall, visual arts–based interventions promoted empathy, connectedness, and tolerance of ambiguity and had positive effects on burnout; however, some results were mixed. Visual arts–based interventions to mitigate burnout show promise, and additional research should focus on feasibility and longer-term outcomes.
A Neural-Network-Optimized Hydrogen Peroxide Pairwise Additive Model for Classical Simulations

We have developed an all-atom pairwise additive model for hydrogen peroxide using an optimization procedure based on artificial neural networks (ANNs). The model is based on experimental molecular geometry and includes a dihedral potential that hinders the cis-type configuration and allows for crossing the trans one, defined between the planes that have the two oxygen atoms and each hydrogen. The model’s parametrization is achieved by training simple ANNs to minimize a target function that measures the differences between various thermodynamic and transport properties and the corresponding experimental values. Finally, we evaluated a range of properties for the optimized model and its mixtures with SPC/E water, including bulk-liquid properties (density, thermal expansion coefficient, adiabatic compressibility, etc.) and properties of systems at equilibrium (vapor and liquid density, vapor pressure and composition, surface tension, etc.). Overall, we obtained good agreement with experimental data.
ZNF384-Related Fusion Genes in Acute Lymphoblastic Leukemia

Zinc finger protein 384 (ZNF384) encodes a C2H2-type zinc finger protein that can function as a transcription factor. ZNF384 rearrangement in acute lymphoblastic leukemia (ALL) was first reported in 2002. More than 19 different ZNF384 fusion partners have been detected in ALL. These include E1A-binding protein P300 (EP300), CREB-binding protein (CREBBP), transcription factor 3 (TCF3), TATA-box binding protein associated factor 15 (TAF15), Ewing sarcoma breakpoint region 1 gene (EWSR1), AT-rich interactive domain-containing protein 1B (ARID1B), SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily A, member 4 (SMARCA4), SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily A, member 2 (SMARCA2), synergin gamma (SYNRG), clathrin heavy chain (CLTC), bone morphogenic protein 2-inducible kinase (BMP2K), Nipped-B-like protein (NIPBL), A Kinase Anchoring Protein 8 (AKAP8), Chromosome 11 Open Reading Frame 74 (C11orf74), DEAD-Box Helicase 42 (DDX42), ATP Synthase F1 Subunit Gamma (ATP2C1), Euchromatic Histone Lysine Methyltransferase 1 (EHMT1), Testic Expressed 41 (TEX41), etc. Patients diagnosed with ALL harboring ZNF384 rearrangements commonly had a good prognosis. The mechanisms, performance, and features of different ZNF384 rearrangements in acute lymphoblastic leukemia have been well evaluated.
Perturbation technique for LLG dynamics in uniformly magnetized bodies subject to RF fields

The problem of magnetization dynamics of a uniformly magnetized uniaxial particle or film, under elliptically polarized applied field, is considered. In the special case of circularly polarized applied field and particles (films) with a symmetry axis, pure time-harmonic magnetization modes exist that can be computed analytically. Deviations from these highly symmetric conditions are treated as perturbation of the symmetric case. The perturbation technique leads to the exactly solvable system of linear differential equations for the perturbations which enables one to compute higher order magnetization harmonic. The analytical solutions are obtained and then compared with numerical results.
Phase III study of Phlai capsules in the treatment of allergic rhinitis: A randomized, double-blind, placebo-controlled trial.

BACKGROUND Preclinical studies demonstrated anti-inflammatory effects of Zingiber montanum (J.König) Link ex Dietr. (Phlai). However, its clinical effect on allergic rhinitis (AR) is not evident. OBJECTIVE We sought to assess the efficacy and safety of Phlai for treating AR. METHODS A phase 3, randomized, double-blind, placebo-controlled study was conducted. Patients with AR were randomized into three groups and received Phlai 100 mg or Phlai 200 mg or placebo once a day for four weeks. The primary outcome was a change in the reflective total five symptom score (rT5SS). The secondary outcomes were the change in the instantaneous total five symptom score (iT5SS), the reflective individual symptom scores (rhinorrhea, nasal congestion, sneezing, itchy nose, itchy eyes), Rhinoconjunctivitis Quality of Life-36 Questionnaire (RCQ-36) score, peak nasal inspiratory flow (PNIF), and adverse events. RESULTS Two hundred and sixty-two patients were enrolled. Compared with placebo, Phlai 100 mg improved rT5SS [adjusted mean difference (aMD) -0.62; 95%CI -1.22, -0.03; p = 0.039], rhinorrhea (aMD -0.19; 95%CI -0.37, 0.002; p = 0.048), itchy nose (aMD -0.24; 95%CI -0.43, -0.05; p = 0.011), and itchy eyes (aMD -0.19; 95%CI -0.36, -0.02; p = 0.033) at week 4. Nasal obstruction, sneezing, iT5SS, overall RCQ-36 score, PNIF did not reach statistical significance. Phlai 200 mg did not bring additional benefits compared to 100 mg. Adverse events were similar among groups. CONCLUSIONS Phlai was safe. At four weeks, there were small improvements in rT5SS, together with the individual symptoms of rhinorrhea, itchy nose, and itchy eyes.
SIO-ASCO guideline on integrative medicine for cancer pain management: implications for racial and ethnic pain disparities

Abstract Racial and ethnic disparities in pain management pose major challenges to equitable cancer care delivery. These disparities are driven by complex interactions between patient-, provider-, and system-related factors that resist reductionistic solutions and require innovative, holistic approaches. On September 19, 2022, the Society for Integrative Oncology and the American Society of Clinical Oncology published a joint guideline to provide evidence-based recommendations on integrative medicine for cancer pain management. Integrative medicine, which combines conventional treatments with complementary modalities from cultures and traditions around the world, are uniquely equipped to resonate with diverse cancer populations and fill existing gaps in pain management. Although some complementary modalities, such as music therapy and yoga, lack sufficient evidence to make a specific recommendation, other modalities, such as acupuncture, massage, and hypnosis, demonstrated an intermediate level of evidence, resulting in moderate strength recommendations for their use in cancer pain management. However, several factors may hinder real-world implementation of the Society for Integrative Oncology and the American Society of Clinical Oncology guideline and must be addressed to ensure equitable pain management for all communities. These barriers include, but are not limited to, the lack of insurance coverage for many complementary therapies, the limited diversity and availability of complementary therapy providers, the negative social norms surrounding complementary therapies, the underrepresentation of racial and ethnic subgroups in the clinical research of complementary therapies, and the paucity of culturally attuned interventions tailored to diverse individuals. This commentary examines both the challenges and the opportunities for addressing racial and ethnic disparities in cancer pain management through integrative medicine.
Tibial Slope on Conventional Lateral Radiographs in Anterior Cruciate Ligament–Injured and Intact Knees: Mean Value and Outliers

Background: An increased tibial slope (TS) has been identified as a risk factor for anterior cruciate ligament (ACL) injury and graft failure after ACL reconstruction. However, different imaging modalities are used to determine the TS, resulting in divergent values. Consequently, no reference values and no consensus on thresholds can be reached, which in turn is mandatory for indicating correction osteotomies when facing outlier TS. Purpose: To determine the mean values of the TS and the incidence of their outliers in large cohorts of patients with ACL-injured and noninjured knees and to determine the feasibility of measuring TS on conventional lateral radiographs (CLRs). Study Design: Cross-sectional study; Level of evidence 3. Methods: TS of ACL-injured knees (n = 1000, group A) and ACL-intact knees (n = 1000, group B) was measured by 3 experienced examiners. Medial TS was measured on CLRs using the technique of Dejour and Bonnin. Patients with radiographs with poor image quality, osteoarthritis, previous osteotomies, or nondigital radiographs were excluded. The intra- and interrater reliability was calculated using the intraclass correlation coefficient. Results: The mean TS was significantly higher in group A than in group B (10.04°± 3° [range, 2°-22°] vs 9.02°± 2.9° [range, 1°-18°], respectively; P < .001). Significantly more participants in group A had TS larger than 12° (≥12°, 32.2% vs 19.8%, P < .001; ≥13°, 20.9% vs 11.1%, P < .001; ≥14°, 13.5% vs 5.7%, P < .001; ≥15°, 8% vs 2.7%, P < .001; ≥16°, 3.7% vs 1.4%, P = .0005), respectively. In contrast, significantly more participatns in group B had TS 8° or less (≤8°, 32.1% vs 42.7%, P < .001; ≤7°, 20% vs 30.9%, P < .001; ≤6°, 12.4% vs 19.8%, P < .001; ≤5°, 6.6% vs 12%, P = .0003; ≤4°, 2.8% vs 5.3%, P = .0045). The intraclass correlation coefficient revealed a good to excellent reliability throughout measurements. Conclusion: Median values for the TS were 9° for uninjured and 10° for ACL-injured knees on CLRs. Notwithstanding its statistical significance, this finding might be negligible in clinical practice. However, a significantly larger number of outliers were found in the ACL-injured group exceeding a TS of 12° and demonstrating an incremental proportion with increasing TS, serving as a potential threshold for correction osteotomy. Furthermore, CLRs in the largest cohort to date exhibited high reproducibility, proving the feasibility of CLRs as a routine measurement for TS.
A thrust stand for high-power steady-state plasma thrusters

The operation of an inverted-pendulum thrust stand to measure thrust for high-power steadystate plasma thrusters is presented. An extensive calibration procedure that characterizes the thrust stand response to thrust and forces induced by the interaction of current carrying conductors is discussed. Techniques are also described that reduce thrust measurement errors induced by thermal effects on the stand. Sensitivities of 3.00±0.32 mV/mN are achieved using a laser-based system to measure stand deflection. Data taken with the 30 kW Lorentz Force Accelerator with lithium vapor propellant operating at 500 A, 9.5 mg/s lithium flow rate and a 0.07 T applied field give a measured thrust of 265±48 mN and a nominal 20% thrust efficiency.
Level Up with RealAEs: Leveraging Domain Constraints in Feature Space to Strengthen Robustness of Android Malware Detection

The vulnerability to adversarial examples remains one major obstacle for Machine Learning (ML)-based Android malware detection. Realistic attacks in the Android malware domain create Realizable Adversarial Examples (RealAEs), i.e., AEs that satisfy the domain constraints of Android malware. Recent studies have shown that using such RealAEs in Adversarial Training (AT) is more effective in defending against realistic attacks than using unrealizable AEs (unRealAEs). This is because RealAEs allow defenders to explore certain pockets in the feature space that are vulnerable to realistic attacks. However, existing defenses commonly generate RealAEs in the problem space, which is known to be time-consuming and impractical for AT. In this paper, we propose to generate RealAEs in the feature space, leading to a simpler and more efficient solution. Our approach is driven by a novel interpretation of Android domain constraints in the feature space. More concretely, our defense first learns feature-space domain constraints by extracting meaningful feature dependencies from data and then applies them to generating feature-space RealAEs during AT. Extensive experiments on DREBIN, a well-known Android malware detector, demonstrate that our new defense outperforms not only unRealAE-based AT but also the state-of-the-art defense that relies on non-uniform perturbations. We further validate the ability of our learned feature-space domain constraints in representing Android malware properties by showing that our feature-space domain constraints can help distinguish RealAEs from unRealAEs.