Miracle-dz/UniFAR-FTUs huggingface dataset:
FLAME: A computerized neuropsychological composite for trials in early dementia

Abstract Introduction Sensitive neuropsychological tests are needed to improve power for clinical trials in early Alzheimer's disease (AD). Methods To develop a neuropsychological composite (FLAME – Factors of Longitudinal Attention, Memory and Executive Function), we assessed, 10,714 participants over the age of 50 from PROTECT with validated computerized assessments for 2 years. A factorial analysis was completed to identify the key cognitive factors in all participants, and further analyses examined sensitivity to change in people with stage 2/3 early Alzheimer's disease (AD) according to the US Food and Drug Administration (FDA) framework. Results The FLAME composite score (speed of attention, accuracy of attention, memory, and executive function) distinguished between normal cognition and stage 2/3 early AD at baseline, and was sensitive to cognitive and global/functional decline over 2 years, with the potential to improve power for clinical trials. Discussion FLAME is sensitive to change, providing a straightforward approach to reduce sample size for RCTs in early AD. Conclusion FLAME is a useful computerized neuropsychology composite with utility for clinical trials focusing on cognition.
GAMesh: Guided and Augmented Meshing for Deep Point Networks

We present a new meshing algorithm called guided and augmented meshing, GAMesh, which uses a mesh prior to generate a surface for the output points of a point network. By projecting the output points onto this prior and simplifying the resulting mesh, GAMesh ensures a surface with the same topology as the mesh prior but whose geometric fidelity is controlled by the point network. This makes GAMesh independent of both the density and distribution of the output points, a common artifact in traditional surface reconstruction algorithms. We show that such a separation of geometry from topology can have several advantages especially in single-view shape prediction, fair evaluation of point networks and reconstructing surfaces for networks which output sparse point clouds. We further show that by training point networks with GAMesh, we can directly optimize the vertex positions to generate adaptive meshes with arbitrary topologies. Code and data are available on the project webpage1.1https://www.ics. uci.edu/∼agarwal/GAMesh
Nearly sharp structured sketching for constrained optimization

In this work, we study a tensor-structured random sketching matrix to project a large-scale convex optimization problem to a much lower-dimensional counterpart, which leads to huge memory and computation savings. We show that while maintaining the prediction error between a random estimator and the true solution with high probability, the dimension of the projected problem obtains optimal dependence in terms of the geometry of the constraint set. Moreover, the tensor structure and sparsity pattern of the structured random matrix yields extra computational advantage. Our analysis is based on probability chaining theory, which allows us to obtain an almost sharp estimate for the sketching dimension of convex optimization problems. Consequences of our main result are demonstrated in a few concrete examples, including unconstrained linear regressions and sparse recovery problems.
Topological Disentanglement of Linear Polymers under Tension

We develop a theoretical description of the topological disentanglement occurring when torus knots reach the ends of a semiflexible polymer under tension. These include decays into simpler knots and total unknotting. The minimal number of crossings and the minimal knot contour length are the topological invariants playing a key role in the model. The crossings behave as particles diffusing along the chain and the application of appropriate boundary conditions at the ends of the chain accounts for the knot disentanglement. Starting from the number of particles and their positions, suitable rules allow reconstructing the type and location of the knot moving on the chain Our theory is extensively benchmarked with corresponding molecular dynamics simulations and the results show a remarkable agreement between the simulations and the theoretical predictions of the model.
UvA-DARE (Digital Academic Repository) Learning to Learn Variational Semantic Memory

In this paper, we introduce variational semantic memory into meta-learning to acquire long-term knowledge for few-shot learning. The variational semantic memory accrues and stores semantic information for the probabilistic inference of class prototypes in a hierarchical Bayesian framework. The semantic memory is grown from scratch and gradually consolidated by absorbing information from tasks it experiences. By doing so, it is able to accumulate long-term, general knowledge that enables it to learn new concepts of objects. We formulate memory recall as the variational inference of a latent memory variable from addressed contents, which offers a principled way to adapt the knowledge to individual tasks. Our variational semantic memory, as a new long-term memory module, confers principled recall and update mechanisms that enable semantic information to be efﬁciently accrued and adapted for few-shot learning. Experiments demonstrate that the probabilistic modelling of prototypes achieves a more informative representation of object classes compared to deterministic vectors. The consistent new state-of-the-art performance on four benchmarks shows the beneﬁt of variational semantic memory in boosting few-shot recognition.
Smooth activations and reproducibility in deep networks

Deep networks are gradually penetrating almost every domain in our lives due to their amazing success. However, with substantive performance accuracy improvements comes the price of \emph{irreproducibility}. Two identical models, trained on the exact same training dataset may exhibit large differences in predictions on individual examples even when average accuracy is similar, especially when trained on highly distributed parallel systems. The popular Rectified Linear Unit (ReLU) activation has been key to recent success of deep networks. We demonstrate, however, that ReLU is also a catalyzer to irreproducibility in deep networks. We show that not only can activations smoother than ReLU provide better accuracy, but they can also provide better accuracy-reproducibility tradeoffs. We propose a new family of activations; Smooth ReLU (\emph{SmeLU}), designed to give such better tradeoffs, while also keeping the mathematical expression simple, and thus training speed fast and implementation cheap. SmeLU is monotonic, mimics ReLU, while providing continuous gradients, yielding better reproducibility. We generalize SmeLU to give even more flexibility and then demonstrate that SmeLU and its generalized form are special cases of a more general methodology of REctified Smooth Continuous Unit (RESCU) activations. Empirical results demonstrate the superior accuracy-reproducibility tradeoffs with smooth activations, SmeLU in particular.
Prevalence and characteristics of HIV infection among female sex workers in Lubumbashi, Democratic Republic of Congo

Introduction female sex workers (FSWs) are considered a high-risk group for acquiring HIV infection due to their HIV prevalence estimated to be 10-20 times higher than in woman in the general population. This study aimed to determine the prevalence and risk factors of HIV among female sex workers (FSWs) in Lubumbashi. Methods a cross-sectional study was conducted among FSWs presenting for the first time at the sexually transmitted infections (STIs) clinic of Katuba, Lubumbashi, between April 2016 and December 2017. Information on the participants´ socio-demographic characteristics, sexual behaviors, and HIV serology results were collated and analyzed using a multiple logistic regression to identify factors associated to HIV infection among FSWs. Results information on 1555 sex workers was analysed in this study, the prevalence of HIV was 8.2%. The median age of the participants was 26 years (IQR: 21-34). Of the 127 HIV positive sex workers, 74% have been in the business for two years or less, 97% sell sex as their main income, 74% have more than 5 sexual intercourses per week, 95% reported using condom, 73% reported having history of STIs, 70% reported using alcohol before sex and 97% reported having three or more sexual partners per week. After adjusting for potentials cofounders, Age, Sex work as main income, years of selling sex, condom use, and alcohol use before sex were found to have a significant effect on HIV infection among sex workers. Conclusion these findings highlight the vulnerability of FSWs to HIV infection and the necessity of immediate interventions to strengthen HIV prevention through behavioral change strategies and making available Pre-exposure Prophylaxis (PrEP) for FSWs in Lubumbashi.
BRITE photometry and STELLA spectroscopy of bright stars in Auriga: Rotation, pulsation, orbits, and eclipses

Context. Knowing rotational and pulsational periods across the Hertzsprung-Russell diagram is of top priority for understanding stellar activity as a function of time. Aims. We aim to determine periods for bright stars in the Auriga field that are otherwise not easily accessible for ground-based photometry. Methods. Continuous photometry with up to three BRITE satellites was obtained for 12 targets and subjected to a period search. Contemporaneous high-resolution optical spectroscopy with STELLA was used to obtain radial velocities through cross correlation with template spectra as well as to determine astrophysical parameters through a comparison with model spectra. Results. The Capella red light curve was found to be constant over 176 days with a root mean square of 1 mmag, but the blue light curve showed a period of 10.1 ± 0.6 d, which we interpret to be the rotation period of the G0 component. From STELLA we obtained an improved orbital solution based on 9600 spectra from the previous 12.9 yr. We derive masses precise to ≈0.3% but 1% smaller than previously published. The BRITE light curve of the F0 supergiant ε Aur suggests 152 d as its main pulsation period, while the STELLA radial velocities reveal a clear 68 d period. An ingress of an eclipse of the ζ Aur binary system was covered with BRITE and a precise timing for its eclipse onset derived. A possible 70 d period fits the proposed tidal-induced, nonradial pulsations of this ellipsoidal K4 supergiant. η Aur is identified as a slowly pulsating B (SPB) star with a main period of 1.29 d and is among the brightest SPB stars discovered so far. The rotation period of the magnetic Ap star θ Aur is detected from photometry and spectroscopy with a period of 3.6189 d and 3.6177 d, respectively, likely the same within the errors. The radial velocities of this star show a striking non-sinusoidal shape with a large amplitude of 7 km s−1. Photometric rotation periods are also confirmed for the magnetic Ap star IQ Aur of 2.463 d and for the solar-type star κ1 Cet of 9.065 d, and also for the B7 HgMn giant β Tau of 2.74 d. Revised orbital solutions are derived for the eclipsing SB2 binary β Aur, which replaces the initial orbit dating from 1948 for the 27-year eclipsing SB1 ε Aur, and for the RS CVn binary V711 Tau, for which a spot-corrected orbital solution was achieved. The two stars ν Aur and ι Aur are found to be long-term, low-amplitude RV and brightness variables, but provisional orbital elements based on a period of 20 yr and an eccentricity of 0.7 could only be extracted for ν Aur. The variations of ι Aur are due to oscillations with a period of ≈4 yr.
The rate of intraspinal problems and clinical evaluation of scoliosis: A cross-sectional, descriptive study

Objectives This study aims to define the chronological, angular, and topographic classes in presumed idiopathic scoliosis and to investigate the frequency of generalized joint hypermobility, pain, neurological deficit, ankle deformity, Risser grade, and magnetic resonance imaging (MRI) findings in these patients. Patients and methods This cross-sectional, descriptive study included a total of 36 patients (11 males, 25 females; mean age 13.4±4.6 years; range, 6 to 24 years) with idiopathic scoliosis between January 2015 and January 2019. Data including age, sex, complaint of pain, generalized joint hypermobility (based on Beighton score), neurological deficit, ankle deformity, and definition of scoliosis were recorded. Chronological, angular, and topographic classification were carried out. The Risser grade and MRI findings were noted. Results Of all patients, 30 (83.3%) were idiopathic, five (13.9%) were neuromuscular, and one (2.8%) was congenital scoliosis based on MRI findings. Of 13 (36.1%) spine MRI scans, six (46.2%) were intraspinal anomalies, four were syringomyelia (30.8%), one was Chiari type 1 malformation (7.7%), and one was hemivertebrae with diastematomyelia (7.7%). The highest rates of classes according to chronological, angular, and topographical classifications of idiopathic scoliosis were adolescent (17/30, 56.7%), low angular (24/30, 80.0%), and lumbar scoliosis (15/30, 50.0%), respectively. Ten patients (33.3%) complained of pain, while 23 patients (76.7%) had no neurological deficit and seven (23.3%) had hypoesthesia. Seventeen patients (56.7%) had generalized joint hypermobility. Conclusion Idiopathic scoliosis with non-severe spinal deformity may present with intraspinal neural axis abnormalities, even when it is neurologically intact. Based on our study results, it seems to be useful to consider whole spine MRI for the evaluation of thoracic and lumbar scoliosis.
Medial entorhinal cortex lesions induce degradation of CA1 place cell firing stability when self-motion information is used

The entorhinal–hippocampus network plays a central role in navigation and episodic memory formation. To investigate these interactions, we examined the effect of medial entorhinal cortex lesions on hippocampal place cell activity. Since the medial entorhinal cortex is suggested to play a role in the processing of self-motion information, we hypothesised that such processing would be necessary for maintaining stable place fields in the absence of environmental cues. Place cells were recorded as medial entorhinal cortex–lesioned rats explored a circular arena during five 16-min sessions comprising a baseline session with all sensory inputs available followed by four sessions during which environmental (i.e. visual, olfactory, tactile) cues were progressively reduced to the point that animals could rely exclusively on self-motion cues to maintain stable place fields. We found that place field stability and a number of place cell firing properties were affected by medial entorhinal cortex lesions in the baseline session. When rats were forced to rely exclusively on self-motion cues, within-session place field stability was dramatically decreased in medial entorhinal cortex rats relative to SHAM rats. These results support a major role of the medial entorhinal cortex in processing self-motion cues, with this information being conveyed to the hippocampus to help anchor and maintain a stable spatial representation during movement.
Mindfulness and Smartphone Addiction before Going to Sleep among College Students: The Mediating Roles of Self-Control and Rumination

This study aims to examine the effects among college students of mindfulness on smartphone addiction before going to bed at night. We examined the mediating roles of self-control and rumination on the mindfulness–smartphone addiction path. Participants (n = 270, 59.3% females, 18–24 years old) completed self-reporting questionnaires measuring mindfulness, self-control, smartphone addiction, and rumination. In addition to the correlation analysis, we adopted a stepwise regression analysis with bootstrapping to test the mediating effects. It was found that mindfulness was inversely related to smartphone addiction before going to sleep. Most importantly, self-control and rumination significantly mediated the effects of mindfulness on smartphone addiction among college students. The findings of this study indicated that mindfulness training is beneficial to improve the ability of self-control and reduce rumination levels, thereby inhibiting the negative impact of smartphone addiction on college students before they go to sleep, and further promoting their sleep health and mental health.
Direct Acting Antivirals in Hepatitis C-Infected Kidney Transplant Recipients: Associations with Long-term Graft Failure and Patient Mortality

Background: Direct-acting antiviral (DAA) therapy among hepatitis C virus (HCV)-infected kidney transplant recipients is associated with short-term improvement in protein/creatinine (P/C) ratios, but how HCV cure affects long-term graft outcomes remains unknown. Methods: This is a retrospective follow-up study of 59 HCV-infected patients who underwent kidney transplant at the University of Alabama at Birmingham between 2007-2015 who were followed until the end of 2017. We examined the association of DAA-induced HCV cure with graft failure or death by survival analyses (Kaplan-Meier, Cox regression). Results: Mean age was 55 years, 73% were African American, and 68% were male. Median baseline creatinine was 1.4 mg/dL, P/C ratio was 0.5, and estimated glomerular filtration rate (eGFR) was 59 mL/min. Of those who received DAA, 24 (83%) achieved cure. The remaining 5 DAA patients (17%) did not have documented evidence of sustained virologic response (SVR). Overall, 19 (32%) patients experienced graft failure or death; with lower incidence in treated patients than untreated (4 vs 15 events; 2.6 vs 10.3 per 100 person-years [cHR 0.19, 95% CI: 0.06–0.66]). When adjusted for age, sex, race, and proteinuria, the association remained strong and invariant across time-varying (aHR 0.30, 95% CI: 0.08–1.10), time-averaged (aHR 0.28, 95% CI: 0.07–1.07), and time-varying-cumulative (aHR 0.32, 95% CI: 0.08–1.21) proteinuria metrics. Conclusions: DAAs therapy was associated with improved graft survival and reduced mortality. While not statistically significant, the association was strong, and these single-center findings warrant larger studies to demonstrate the benefits of HCV treatment in this population.
Conflicting phylogenetic signals in plastomes of the tribe Laureae (Lauraceae)

Background Gene tree discordance is common in phylogenetic analyses. Many phylogenetic studies have excluded non-coding regions of the plastome without evaluating their impact on tree topology. In general, plastid loci have often been treated as a single unit, and tree discordance among these loci has seldom been examined. Using samples of Laureae (Lauraceae) plastomes, we explored plastome variation among the tribe, examined the influence of non-coding regions on tree topology, and quantified intra-plastome conflict. Results We found that the plastomes of Laureae have low inter-specific variation and are highly similar in structure, size, and gene content. Laureae was divided into three groups, subclades I, II and III. The inclusion of non-coding regions changed the phylogenetic relationship among the three subclades. Topologies based on coding and non-coding regions were largely congruent except for the relationship among subclades I, II and III. By measuring the distribution of phylogenetic signal across loci that supported different topologies, we found that nine loci (two coding regions, two introns and five intergenic spacers) played a critical role at the contentious node. Conclusions Our results suggest that subclade III and subclade II are successively sister to subclade I. Conflicting phylogenetic signals exist between coding and non-coding regions of Laureae plastomes. Our study highlights the importance of evaluating the influence of non-coding regions on tree topology and emphasizes the necessity of examining discordance among different plastid loci in phylogenetic studies.
The structure of APOBEC1 and insights into its RNA and DNA substrate selectivity

Abstract APOBEC1 (APO1), a member of AID/APOBEC nucleic acid cytosine deaminase family, can edit apolipoprotein B mRNA to regulate cholesterol metabolism. This APO1 RNA editing activity requires a cellular cofactor to achieve tight regulation. However, no cofactors are required for deamination on DNA by APO1 and other AID/APOBEC members, and aberrant deamination on genomic DNA by AID/APOBEC deaminases has been linked to cancer. Here, we present the crystal structure of APO1, which reveals a typical APOBEC deaminase core structure, plus a unique well-folded C-terminal domain that is highly hydrophobic. This APO1 C-terminal hydrophobic domain (A1HD) interacts to form a stable dimer mainly through hydrophobic interactions within the dimer interface to create a four-stranded β-sheet positively charged surface. Structure-guided mutagenesis within this and other regions of APO1 clarified the importance of the A1HD in directing RNA and cofactor interactions, providing insights into the structural basis of selectivity on DNA or RNA substrates.
Work-Related Dreams: An Online Survey

Professional work is an integral part of modern life. According to the continuity hypothesis of dreaming, which states that dreams reflect waking life, work-related dreams should be quite common. As most dream content analytic studies are carried out in student samples, the topic of work in dreams is understudied. A few small studies indicate that the stress levels associated with the job are especially reflected in work-related dreams. Here, a total of 1695 people (960 women, 735 men) completed an online survey that included questions about the estimated percentage of work-related dreams, the overall emotional tone of work-related dreams, and waking-life experiences related to their current job situation (working or not working). The findings indicate that every fifth dream is related to current or previous work. Individuals who are working dreamed more often about work, with jobs that are experienced as being more stressful being more likely to affect dream content. The emotional tone of work-related dreams was related to stress and the emotions related to work in waking life. Overall, the findings demonstrate that professional life has a profound effect on dreaming in many individuals—even after years. The next steps would be to study the dream content of work-related dreams and relate these contents to specific characteristics about the jobs, e.g., professional field, hierarchical position and autonomy, etc.
BRS AG: first cultivar of irrigated rice used for alcohol production or animal feed

BRS AG is an irrigated rice cultivar developed by Embrapa, recommended for cultivation in the state of Rio Grande do Sul. It is intended for grain alcohol production or animal feed, with average thousand-grain weight of 52g (double of the conventional cultivars) and average yield of 8193 kg ha-1.