Miracle-dz/UniFAR-FTUs huggingface dataset:
The Factorial Structure of Trait Anxiety and Its Mediating Effect Between Mindfulness and Depression

Background: Increasing studies have found that high trait anxiety is a key susceptibility phenotype that causes depression. Mindfulness-based interventions can target on dealing with depressogenic vulnerability effectively. Evidence indicates that trait anxiety could affect the trajectory of anti-depressive psychotherapy, and play an important role in the relationship between mindfulness and depression. Furthermore, related studies have found that trait anxiety could involve factors beyond anxiety and be a two-factor construct instead of one-dimensional concept. This viewpoint provides a new prospective for exploring the pathways of the two factors of trait anxiety in the complex relationship and further understand the potential mechanism of vulnerable personality mediated the link of mindfulness and depression. Methods: A cross-sectional survey and a preliminary intervention study were conducted. Thousand two hundred and sixty-two subjects completed a set of self-reported questionnaires that evaluated trait anxiety, mindfulness, and depressive symptoms. Twenty-Three eligible participants with depression were recruited to attend mindfulness-based cognitive training for eight weeks. The same questionnaires were completed 1 week before the training and 6 months after the training. Factor analysis was performed on the 1262-subject sample to explore and confirm the factorial structure of trait anxiety. In addition, mediating effect analysis was conducted in the two studies to test whether two factors of trait anxiety were mediators of the relationship between mindfulness and depression. Results: The exploratory factor analysis extracted two dimensions of trait anxiety, namely, trait anxiety-present factor (TA-P) and trait anxiety-absent factor (TA-A). And confirmatory factor analysis showed that the fit of the two-factor model was acceptable. Both TA-P and TA-A were significantly negatively correlated with mindfulness and positively correlated with depression, and they played a mediating role between mindfulness and depression. The two factors of trait anxiety had multiple mediating effects on the relationship between mindfulness and depression, and the mediating effect of the TA-P factor was stronger than that of the TA-A factor. Conclusion: Our results demonstrated a two-factor model of trait anxiety in the Chinese population. TA-P and TA-A played a multiple mediating role in the relationship between mindfulness and depression. The findings provide new perspectives for psychological interventions to treat depression for people with susceptible personalities. Aiming to reduce negative emotional tendencies (TA-P factor) and enhance positive cognition (TA-A factor) may achieve the early prevention and efficient treatment of depression.
Phenotypic Screens Reveal Posaconazole as a Rapidly Acting Amebicidal Combination Partner for Treatment of Primary Amoebic Meningoencephalitis

Naegleria fowleri is the causative agent of primary amoebic meningoencephalitis (PAM), which is fatal in >97% of cases. In this study, we aimed to identify new, rapidly acting drugs to increase survival rates. We conducted phenotypic screens of libraries of Food and Drug Administration-approved compounds and the Medicines for Malaria Venture Pathogen Box and validated 14 hits (defined as a 50% inhibitory concentration of <1 μM). The hits were then prioritized by assessing the rate of action and efficacy in combination with current drugs used to treat PAM. Posaconazole was found to inhibit amoeba growth within the first 12 hours of exposure, which was faster than any currently used drug. In addition, posaconazole cured 33% of N. fowleri-infected mice at a dose of 20 mg/kg and, in combination with azithromycin, increased survival by an additional 20%. Fluconazole, which is currently used for PAM therapy, was ineffective in vitro and vivo. Our results suggest posaconazole could replace fluconazole in the treatment of PAM.
Learning with Interpretable Structure from RNN

In structure learning, the output is generally a structure that is used as supervision information to achieve good performance. Considering the interpretation of deep learning models has raised extended attention these years, it will be beneficial if we can learn an interpretable structure from deep learning models. In this paper, we focus on Recurrent Neural Networks (RNNs) whose inner mechanism is still not clearly understood. We find that Finite State Automaton (FSA) that processes sequential data has more interpretable inner mechanism and can be learned from RNNs as the interpretable structure. We propose two methods to learn FSA from RNN based on two different clustering methods. We first give the graphical illustration of FSA for human beings to follow, which shows the interpretability. From the FSA's point of view, we then analyze how the performance of RNNs are affected by the number of gates, as well as the semantic meaning behind the transition of numerical hidden states. Our results suggest that RNNs with simple gated structure such as Minimal Gated Unit (MGU) is more desirable and the transitions in FSA leading to specific classification result are associated with corresponding words which are understandable by human beings.
Continuous versus intermittent moderate energy restriction for increased fat mass loss and fat free mass retention in adult athletes: protocol for a randomised controlled trial—the ICECAP trial (Intermittent versus Continuous Energy restriction Compared in an Athlete Population)

Introduction Reducing fat mass (FM) while retaining fat free mass (FFM) is a common goal of athletes. Evidence suggests that some—but not all—forms of intermittent energy restriction (IER) may be superior to the conventional method of continuous energy restriction (CER) for people with excess body fat that are sedentary, by reducing some of the adaptive responses to ER. However, it is yet to be established whether this dietary approach is effective for athletes. Methods and analysis A single-blind, parallel group, randomised controlled trial with a 1:1 allocation ratio is proposed. Sixty healthy athletes aged ≥18 years will be recruited from local sporting facilities and randomised to an intervention of either moderate CER (mCER) or moderate IER (mIER). Both interventions will consist of 12 weeks of moderate ER, plus 3 weeks in energy balance (EB). The mCER intervention will entail 12 weeks of continuous moderate ER, followed by 3 weeks in EB. The mIER intervention will entail 12 weeks of moderate ER, administered as 4×3 week blocks of moderate ER, interspersed with 3×1 week blocks of EB. The co-primary outcomes are changes in FM and FFM after 12 weeks of moderate ER. Secondary outcomes will be changes in FM and FFM at 15 weeks after intervention commencement, as well as muscle performance, physical activity, sleep quality, changes in resting energy expenditure, subjective drive to eat, circulating concentrations of appetite-regulating hormones, mood states and diet acceptability. Trial registration ACTRN12618000638235p.
A Proof of the Low Speed Centrifugation Concept in Rodents: New Perspectives for In Vivo Research.

IMPACT STATEMENT This study evaluated for the first time the composition and bioactivity of platelet-rich fibrin (PRF) produced from small animal blood by reducing the initial blood volume needed for the preparation of PRF from 10 to 3 mL. The results showed that different preparation protocols of PRF produced using 3 mL of animal blood exhibit the same composition, properties, and bioactivity as PRF prepared using 10 mL human blood.
Pre‐ and postdonation kidney function in donors of a kidney paired donation with unique criteria for donor glomerular filtration rate – a longitudinal cohort analysis

Baseline predonation estimated GFR (eGFR) appears to predict the risk of postdonation chronic kidney disease in live donors. New KIDGO guidelines recommend an eGFR ≥90 ml/min/1.73 m2 as an acceptable level of glomerular filtration rate (GFR) for kidney donation. In the Australian Paired Kidney Exchange (AKX) program, all donors with a raw measured GFR (mGFR) ≥80 ml/min are deemed suitable for donation, but the significance of this selection indicator is unclear. We analysed the first 129 live donors in the AKX program with at least 1‐year follow‐up linking records in the AKX database and ANZDATA. There were 73 male and 56 female donors; mean (±SD) age was 53 ± 11 years. Predonation eGFR was 94 ± 13 ml/min/1.73 m2, mGFR 99 ± 17 ml/min/1.73 m2 and raw mGFR 108 ± 18 ml/min. Baseline eGFR was <80 ml/min/1.73 m2 in 19 donors, and <90 ml/min/1.73 m2 in 42 donors. At 1 year postdonation eGFR was 68 ± 15 ml/min/1.73 m2 and the predicted eGFR at 30 years postdonation was on average 50 (29–83) ml/min/1.73 m2. The hypothetical mean age at end‐stage kidney disease was estimated to be 145 (95% CI 120–263) years. Over 30% of AKX live donors would have been excluded from donation using KDIGO guidelines. Using AKX donor guidelines, the majority of donors with predicted eGFR <30 ml/min/1.73 m2 30‐year postdonation were aged ≥50 years. Long‐term outcome data on AKX donors with low eGFR will need careful monitoring.
Omega-3 fatty acid supplement skin cancer prophylaxis in lung transplant recipients

Background : Lung transplant recipients are at very high risk of skin cancer. Omega-3 fatty acids (FAs) are anti-inflammatory and immune-modulating and potentially could reduce this risk. We assessed the feasibility of omega-3 FA supplementation to reduce skin cancer among these patients. Methods : LTRs aged 18+ years, at least one year post-transplant, were recruited from the outpatient clinic,
CPFG-SLAM:a Robust Simultaneous Localization and Mapping based on LIDAR in Off-Road Environment

Simultaneous localization and mapping (SLAM), as an important tool for vehicle positioning and mapping, plays an important role in the unmanned vehicle technology. This paper mainly presents a new solution to the LIDAR-based SLAM for unmanned vehicles in the off-road environment. Many methods have been proposed to solve the SLAM problems well. However, in complex environment, especially off-road environment, it is difficult to obtain stable positioning results due to the rough road and scene diversity. We propose a SLAM algorithm based on grid which combining probability and feature by Expectation-maximization (EM). The algorithm is mainly divided into three steps: data preprocessing, pose estimation, updating feature grid map. Our algorithm has strong robustness and real-time performance. We have tested our algorithm with our datasets of the multiple off-road scenes which obtained by LIDAR. Our algorithm performs pose estimation and feature map updating in parallel, which guarantees the real-time performance of the algorithm. The average processing time of each frame is about 55ms, and the average relative translation error is around 0.94%. Compared with several state-of-the-art algorithms, our algorithm has better performance in robustness and location accuracy.
Randomized dose-escalation designs for drug combination cancer trials with immunotherapy

ABSTRACT This work considers Phase I cancer dual-agent dose-escalation clinical trials in which one of the compounds is an immunotherapy. The distinguishing feature of trials considered is that the dose of one agent, referred to as a standard of care, is fixed and another agent is dose-escalated. Conventionally, the goal of a Phase I trial is to find the maximum tolerated combination (MTC). However, in trials involving an immunotherapy, it is also essential to test whether a difference in toxicities associated with the MTC and the standard of care alone is present. This information can give useful insights about the interaction of the compounds and can provide a quantification of the additional toxicity burden and therapeutic index. We show that both, testing for difference between toxicity risks and selecting MTC can be achieved using a Bayesian model-based dose-escalation design with two modifications. Firstly, the standard of care administrated alone is included in the trial as a control arm and each patient is randomized between the control arm and one of the combinations selected by a model-based design. Secondly, a flexible model is used to allow for toxicities at the MTC and the control arm to be modeled directly. We compare the performance of two-parameter and four-parameter logistic models with and without randomization to a current standard of such trials: a one-parameter model. It is found that at the cost of a small reduction in the proportion of correct selections in some scenarios, randomization provides a significant improvement in the ability to test for a difference in the toxicity risks. It also allows a better fitting of the combination-toxicity curve that leads to more reliable recommendations of the combination(s) to be studied in subsequent phases.
Integrating Odometry and Inter-vehicular Communication for Adaptive Cruise Control with Target Detection Loss

Adaptive Cruise Control (ACC) systems utilize distance sensors and control algorithms to enable a vehicle to follow its preceding vehicle with desired headways. There are situations when distance sensors may lose the target, i.e., the preceding vehicle, when unfavorable weather conditions result in low reflectance or the preceding vehicle escapes the sensor’s angle of view on curvy roads. In these situations, a common strategy is to suppress acceleration and maintain current speed (Cruise Control) until the sensor detects the preceding vehicle again. In this paper, we propose a new solution which integrates odometry and inter-vehicular communication to enable vehicle following for the period of target detection loss. With intervehicular communication, a following vehicle can obtain the odometry data of its preceding vehicle to compute the intervehicle distance. This work focuses on the design of an ACC system that can enable vehicle following during short-term target detection loss. The feasibility of the system design is validated through mobile robot experiments. Autonomous lane keeping capability is developed such that the mobile robots move according to the center of the lane. The robot following experiment results show that with accurate odometry and lane centering, the proposed system design can maintain desired headway following.
Insights into 2D MXenes for Versatile Biomedical Applications: Current Advances and Challenges Ahead

Great and interdisciplinary research efforts have been devoted to the biomedical applications of 2D materials because of their unique planar structure and prominent physiochemical properties. Generally, ceramic‐based biomaterials, fabricated by high‐temperature solid‐phase reactions, are preferred as bone scaffolds in hard tissue engineering because of their controllable biocompatibility and satisfactory mechanical property, but their potential biomedical applications in disease theranostics are paid much less attention, mainly due to their lack of related material functionalities for possibly entering and circulating within the vascular system. The emerging 2D MXenes, a family of ultrathin atomic nanosheet materials derived from MAX phase ceramics, are currently booming as novel inorganic nanosystems for biologic and biomedical applications. The metallic conductivity, hydrophilic nature, and other unique physiochemical performances make it possible for the 2D MXenes to meet the strict requirements of biomedicine. This work introduces the very recent progress and novel paradigms of 2D MXenes for state‐of‐the‐art biomedical applications, focusing on the design/synthesis strategies, therapeutic modalities, diagnostic imaging, biosensing, antimicrobial, and biosafety issues. It is highly expected that the elaborately engineered ultrathin MXenes nanosheets will become one of the most attractive biocompatible inorganic nanoplatforms for multiple and extensive biomedical applications to profit the clinical translation of nanomedicine.
Effects of neonicotinoids on putative escape behavior of juvenile wood frogs (Lithobates sylvaticus) chronically exposed as tadpoles

Neonicotinoids are water‐soluble neurotoxic insecticides widely used in agriculture that are being detected in nontarget aquatic environments. Nontarget aquatic wildlife, such as amphibians, may be at risk of exposure. Studies using larval stages suggest neonicotinoids are a minor concern to amphibians; however, behavioral effects manifesting later in life are not often considered. Behavioral endpoints could further our understanding of potential sublethal neurotoxic effects after exposure has ended. Using juvenile wood frogs (Lithobates sylvaticus), we investigated the effects of chronic larval exposure to 3 concentrations (1, 10, and 100 μg/L) of formulations containing imidacloprid or thiamethoxam on the putative escape response to a simulated heron attack. We found that control frogs actively responded (i.e., moved or jumped) to the simulated predator attack but frogs exposed to imidacloprid at 10 and 100 μg/L were less likely to respond. The exposed frogs, specifically from the imidacloprid treatment at 10 μg/L (tendency at 100 μg/L) were less likely to leave the attack area compared with controls. However, frogs used refuge similarly among all treatments. Finally, there were no differences in locomotor performance, as measured by total number of jumps and distance traveled during a trial among treatments. In conclusion, our study suggests that exposure to neonicotinoids during amphibian larval development may affect a juvenile frog's ability to perceive or respond to a predator, potentially increasing their vulnerability to predation. Future studies should validate and explore this potential effect further. Environ Toxicol Chem 2018;37:3115–3123. © 2018 Crown in the right of Canada. Published by Wiley Periodicals Inc. on behalf of SETAC.
Ccdc61 controls centrosomal localization of Cep170 and is required for spindle assembly and symmetry

Microtubule nucleation was uncovered as a key principle of spindle assembly. However, the mechanistic details about microtubule nucleation and the organization of spindle formation and symmetry are currently being revealed. Here we describe the function of coiled-coil domain containing 61 (Ccdc61), a so far uncharacterized centrosomal protein, in spindle assembly and symmetry. Our data describe that Ccdc61 is required for spindle assembly and precise chromosome alignments in mitosis. Microtubule tip-tracking experiments in the absence of Ccdc61 reveal a clear loss of the intrinsic symmetry of microtubule tracks within the spindle. Furthermore, we show that Ccdc61 controls the centrosomal localization of centrosomal protein of 170 kDa (Cep170), a protein that was shown previously to localize to centrosomes as well as spindle microtubules and promotes microtubule organization and microtubule assembly. Interestingly, selective disruption of Ccdc61 impairs the binding between Cep170 and TANK binding kinase 1, an interaction that is required for microtubule stability. In summary, we have discovered Ccdc61 as a centrosomal protein with an important function in mitotic microtubule organization.
Comprehensive evaluation of candidate reference genes for real-time quantitative PCR (RT-qPCR) data normalization in nutri-cereal finger millet [Eleusine Coracana (L.)]

Finger millet (Eleusine coracana L.) is an annual herbaceous self-pollinating C4 cereal crop of the arid and semi-arid regions of the world. Finger millet is a food security crop proven to have resilience to changing climate and scores very high in nutrition. In the current study, we have assessed sixteen candidate reference genes for their appropriateness for the normalization studies in finger millet subjected to experimental regimes and treatments. Ten candidate reference genes (GAPDH, β-TUB, CYP, EIF4α, TIP41, UBC, G6PD, S24, MACP and MDH) were cloned and six (ACT, ELF1α, PP2A, PT, S21 and TFIID) were mined from the NCBI database as well as from the literature. Expression stability ranking of the finger millet reference genes was validated using four different statistical tools i.e., geNorm, NormFinder, BestKeeper, ΔCt and RefFinder. From the study, we endorse MACP, CYP, EIF4α to be most stable candidate reference genes in all ‘tissues’, whereas PT, TFIID, MACP ranked high across genotypes, β-TUB, CYP, ELF1α were found to be best under abiotic stresses and ‘all samples set’. The study recommends using minimum of two reference genes for RT-qPCR data normalizations in finger millet. All in all, CYP, β-TUB, and EF1α, in combination were found to be best for robust normalizations under most experimental conditions. The best and the least stable genes were validated for confirmation by assessing their appropriateness for normalization studies using EcNAC1 gene. The report provides the first comprehensive list of suitable stable candidate reference genes for nutritional rich cereal finger millet that will be advantageous to gene expression studies in this crop.
An Orientation Corrected Bounding Box Fit Based on the Convex Hull under Real Time Constraints

An important requirement for safe autonomous driving is the perception of dynamic and static objects. In urban scenarios, there exist hundreds of potential obstacles. Therefore, it is crucial to have a fast and accurate fitting method which is a key step for many tracking algorithms. In this paper, we demonstrate an orientation corrected bounding box fit based on the convex hull and a line creation heuristic. Our method is capable of fitting hundreds of objects in less than 10 ms and involves only few tuning parameters. Furthermore, orientation estimated through the dynamics of the object can be used to improve the fitting result. Real-world experiments have proven the robustness and effectiveness of our method.
Linkage analysis reveals allosteric coupling in Kir2.1 channels

Potassium-selective inward rectifier (Kir) channels are a class of membrane proteins necessary for maintaining stable resting membrane potentials, controlling excitability, and shaping the final repolarization of action potentials in excitable cells. In addition to the strong inward rectification of the ionic current caused by intracellular blockers, Kir2.1 channels possess “weak” inward rectification observed in inside-out patches after prolonged washout of intracellular blockers. The mechanisms underlying strong inward rectification have been attributed to voltage-dependent block by intracellular Mg2+ and polyamines; however, the mechanism responsible for weak rectification remains elusive. Hypotheses include weak voltage-dependent block and intrinsic voltage-dependent gating. Here, we performed a conductance Hill analysis of currents recorded with a double-ramp protocol to evaluate different mechanisms proposed for weak inward rectification of Kir2.1 channels. Linkage analysis in the form of a Hill plot revealed that the ramp currents could be best explained by allosteric coupling between a mildly voltage-dependent pore gate (gating charge ∼0.18 eo) and a voltage sensor (gating charge ∼1.7 eo). The proposed voltage sensor stabilized the closing of the pore gate (coupling factor ∼31). We anticipate that the use of linkage analysis will broaden understanding of functional coupling in ion channels and proteins in general.