Miracle-dz/UniFAR-FTUs huggingface dataset:
How Parallel Is Parallel Evolution? A Comparative Analysis in Fishes

Evidence of phenotypic parallelism is often used to infer the deterministic role played by natural selection. However, variation in the extent or direction of divergence is often evident among independent evolutionary replicates, raising the following question: just how parallel, overall, is parallel evolution? We answer this question through a comparative analysis of studies of fishes, a taxon where parallel evolution has been much discussed. We first ask how much of the among-population variance in phenotypic traits can be explained by different “environment” types, such as high predation versus low predation or benthic versus limnetic. We then use phenotypic change vector analysis to quantify variation in the direction (vector angles) and magnitude (vector lengths) of environment-associated divergence. All analyses show high variation in the extent of parallelism—from very high to very low, along with everything in between—highlighting the importance of quantifying parallelism rather than just asserting its presence. Interestingly, instances of low extents of parallelism represent important components of divergence in many cases, promising considerable opportunities for inferences about the factors shaping phenotypic divergence.
Invasive legumes can associate with many mutualists of native legumes, but usually do not

Abstract Mutualistic interactions can strongly influence species invasions, as the inability to form successful mutualisms in an exotic range could hamper a host's invasion success. This barrier to invasion may be overcome if an invader either forms novel mutualistic associations or finds and associates with familiar mutualists in the exotic range. Here, we ask (1) does the community of rhizobial mutualists associated with invasive legumes in their exotic range overlap with that of local native legumes and (2) can any differences be explained by fundamental incompatibilities with particular rhizobial genotypes? To address these questions, we first characterized the rhizobial communities naturally associating with three invasive and six native legumes growing in the San Francisco Bay Area. We then conducted a greenhouse experiment to test whether the invasive legume could nodulate with any of a broad array of rhizobia found in their exotic range. There was little overlap between the Bradyrhizobium communities associated with wild‐grown invasive and native legumes, yet the invasive legumes could nodulate with a broad range of rhizobial strains under greenhouse conditions. These observations suggest that under field conditions in their exotic range, these invasive legumes are not currently associating with the mutualists of local native legumes, despite their potential to form such associations. However, the promiscuity with which these invading legumes can form mutualistic associations could be an important factor early in the invasion process if mutualist scarcity limits range expansion. Overall, the observation that invasive legumes have a community of rhizobia distinct from that of native legumes, despite their ability to associate with many rhizobial strains, challenges existing assumptions about how invading species obtain their mutualists. These results can therefore inform current and future efforts to prevent and remove invasive species.
Gender dependent association of 25-hydroxyvitamin D and circulating leptin in saudi subjects: influence of dyslipidemia.

BACKGROUND AND OBJECTIVE Leptin and vitamin D play an important role in obesity development and metabolic effects; however, the association between leptin and vitamin D is not well studied in Saudi subjects. We aimed to examine gender dependent association between serum leptin and 25-OH-VitD in adult Saudi subjects. SUBJECTS AND METHODS For this cross-sectional study in a cohort of 259 Saudi adults (100 male, age: 46.4 ± 0.9 yr [mean ± SD]; BMI: 27.8 ± 0.5 Kg/m(2)) and (159 female, age 46.5 ± 0.7 [mean ± SD]; BMI: 28.4 ± 0.4 Kg/m(2)) anthropometrics, fasting bloods, and biochemical data were collected. Serum leptin and 25-hydroxyvitamin D (vitamin D or 25-OH-VitD) were quantified using an enzyme-linked immunosorbent assay. RESULTS Circulating leptin and vitamin D levels were significantly higher in females compared to male (P<0.001 and P<0.01 respectively). Visceral adiposity index (VAI), triglycerides and total cholesterol were significantly higher (P<0.05, P<0.001, and P<0.05, respectively) while HDL-cholesterol were lower (P<0.001) in male compared to female subjects. In males, vitamin D levels were positively associated with leptin (r = 0.196, P<0.05). CONCLUSION Vitamin D was positively associated with serum leptin in male Saudi subjects. Additionally, male subjects were found to be dyslipidemic, which might be a responsible factor for this discordant association between vitamin D and leptin in Saudi population.
Prediction on Housing Price Based on Deep Learning

 Abstract — In order to study the impact of various factors on the housing price, we propose to build different prediction models based on deep learning to determine the existing data of the real estate in order to more accurately predict the housing price or its changing trend in the future. Considering that the factors which affect the housing price vary widely, the proposed prediction models include two categories. The first one is based on multiple characteristic factors of the real estate. We built Convolution Neural Network (CNN) prediction model and Long Short-Term Memory (LSTM) neural network prediction model based on deep learning, and logical regression model was implemented to make a comparison between these three models. Another prediction model is time series model. Based on deep learning, we proposed an LSTM-1 model purely regard to time series, then implementing and comparing the LSTM model and the Auto-Regressive and Moving Average (ARMA) model. In this paper, comprehensive study of the second-hand housing price in Beijing has been conducted from three aspects: crawling and analyzing, housing price predicting, and the result comparing. Ultimately the best model program was produced, which is of great significance to evaluation and prediction of the housing price in the real estate industry.
Scalable Algorithms for Parallel Tree-based Adaptive Mesh Refinement with General Element Types

In this thesis, we develop, discuss and implement algorithms for scalable parallel tree-based adaptive mesh refinement (AMR) using space-filling curves (SFCs). We create an AMR framework that works independently of the used element type, such as for example lines, triangles, tetrahedra, quadrilaterals, hexahedra, and prisms. Along with a detailed mathematical discussion, this requires the implementation as a numerical software and its validation, as well as scalability tests on current supercomputers. For triangular and tetrahedral elements (simplices) with red-refinement (1:4 in 2D, 1:8 in 3D), we develop a new SFC index, the tetrahedral Morton index (TM-index). Its construction is similar to the Morton index for quadrilaterals/hexahedra, as it is also based on bitwise interleaving the coordinates of a certain vertex of the simplex, the anchor node.
Short‐term monocular deprivation alters early components of visual evoked potentials

Short‐term monocular deprivation in adult humans produces a perceptual boost of the deprived eye reflecting homeostatic plasticity. Visual evoked potentials (VEPs) to transient stimuli change after 150 min of monocular deprivation in adult humans. The amplitude of the C1 component of the VEP at a latency of about 100 ms increases for the deprived eye and decreases for the non‐deprived eye after deprivation, the two effects being highly negatively correlated. Similarly, the evoked alpha rhythm increases after deprivation for the deprived eye and decreases for the non‐deprived eye. The data demonstrate that primary visual cortex excitability is altered by a short period of monocular deprivation, reflecting homeostatic plasticity.
OV / 3-4 1 Overview of the FTU results

Steady internal transport barriers (ITB) are obtained in FTU almost full non-inductive current drive (CD) discharges at ITER relevant magnetic field and density (ne0≥1.3·10 20 m). The heating power is to electrons with no momentum input similar to ITER condition. Two RF systems, lower hybrid (LH) and electron cyclotron (EC), provide the CD and power sources. The energy confinement time exceeds the ITER 97-L scaling by about 1.6 times. The barrier dynamics is unaffected by ion collisional heating: turbulence is strongly suppressed and the ion transport remains at the ohmic level. ITB radius on FTU can be varied between 0.2≤r/a≤0.65 modifying the LHCD deposition profile and the safety factors q or via ad hoc use of co/counter ECCD. Feedback control/suppression of MHD tearing modes (TM, m=2) with EC waves relies on a real-time detection of the TM and of its radial location. A liquid lithium limiter (LLL) of novel design, composed of a mesh of porous capillaries, has been tested successfully for the first time on a medium size tokamak. The LLL surface showed no damage up to the maximum thermal load of 5 MW/m. With LLL cleaner plasmas are obtained and the particle recycling strongly drops; new interesting regimes of particle transport arise at high density. Progress on disruption mitigation by means of EC power has been made. Testing the collective Thomson scattering in ITER-relevant configuration has stressed that avoiding backscattered radiation to the source is very crucial. The theory of the evolution of fishbone-like instabilities driven by LH generated supra-thermal electrons in FTU is outlined, and its relation to the trapped α particles dynamics is stressed.
Macro-to-Micro Structural Proteomics: Native Source Proteins for High-Throughput Crystallization

Structural biology and structural genomics projects routinely rely on recombinantly expressed proteins, but many proteins and complexes are difficult to obtain by this approach. We investigated native source proteins for high-throughput protein crystallography applications. The Escherichia coli proteome was fractionated, purified, crystallized, and structurally characterized. Macro-scale fermentation and fractionation were used to subdivide the soluble proteome into 408 unique fractions of which 295 fractions yielded crystals in microfluidic crystallization chips. Of the 295 crystals, 152 were selected for optimization, diffraction screening, and data collection. Twenty-three structures were determined, four of which were novel. This study demonstrates the utility of native source proteins for high-throughput crystallography.
Impulse control disorder related behaviours during long‐term rotigotine treatment: a post hoc analysis

Dopamine agonists in Parkinson's disease (PD) are associated with impulse control disorders (ICDs) and other compulsive behaviours (together called ICD behaviours). The frequency of ICD behaviours reported as adverse events (AEs) in long‐term studies of rotigotine transdermal patch in PD was evaluated.
Reply to Comment on ‘The motion of an arbitrarily rotating spherical projectile and its application to ball games’

Jensen (2014 Phys. Scr. 89 067001) presents arguments that the expressions that we have used in our recent paper (Robinson and Robinson 2013 Phys. Scr. 88 018101) for the lift force and possibly the drag force acting on a rotating spherical projectile are dimensionally incorrect and therefore cannot be valid. We acknowledge that the alternative equations suggested by Jensen are dimensionally correct, and may well be borne out by future experimental results. However, we demonstrate that our equations are in fact also dimensionally correct, the key concept being that of having the appropriate dimensions for the multiplying constants, an extensively used practice with experimentally determined laws. After a detailed discussion of the situation, a simple illustrative example of Hookeʼs law for the restoring force, F, due to a mass attached to a spring displaced by a distance x from its equilibrium position is presented, where the spring constant, k, has such units as to render the equation dimensionally correct. Finally we discuss the implications of some relevant existing experimental results for the lift force.
A Young Blood Environment Decreases Aging of Senile Mice Kidneys

Whether changes in internal body environment affect kidney aging remains unclear. Specifically, it is unknown whether transplanted kidneys from older donors recover from tissue damage after placement in younger recipients. In this study, a parabiosis animal model was established to investigate the effects of a young internal body environment on aged kidneys. The animals were divided into six groups: young (Ycon) and old control (Ocon) groups, isochronic youth-youth group (Y-IP), elderly-elderly group (O-IP), and heterochronic youth (Y-HP) and elderly (O-HP) groups. After parabiosis, tubule and interstitial tissue scores in the O-HP group were significantly lower than in the Ocon and O-IP groups. The expression of aging-related protein p16 and SA-β-gal in the O-HP group was significantly reduced compared with the Ocon and O-IP groups. Autophagy factors Atg5 and LC3BII were significantly upregulated, whereas the expression of the autophagic degradation marker (P62) was significantly downregulated in the O-HP group compared with the Ocon and O-IP groups. With the same comparison, the positive cells of TUNEL staining and the expression of IL-6 and IL-1β were significantly reduced, whereas the total/cleaved caspase-3 and total/pNF-κB were significantly increased in the O-HP group. The results demonstrated that a young blood environment significantly reduces kidney aging. These findings provide new evidence supporting an increase in the upper age limit for human kidney transplantation donors.
On the Information Propagation Process in Mobile Vehicular Ad Hoc Networks

In this paper, we study the information propagation process in a 1-D mobile ad hoc network formed by vehicles Poissonly distributed on a highway and traveling in the same direction at randomly distributed speeds that are independent between vehicles. Considering a model in which time is divided into time slots of equal length and each vehicle changes its speed at the beginning of each time slot, independent of its speed in other time slots, we derive analytical formulas for the fundamental properties of the information propagation process and the information propagation speed (IPS). Using the formulas, one can straightforwardly study the impact on the IPS of various parameters such as radio range, vehicular traffic density, and time variation of vehicle speed. The accuracy of the results is validated using simulations. The research provides useful guidelines on the design of vehicular ad hoc networks (VANETs).
Assessment of Reflectance and Color Differences of Wool Fabrics after Abrasion

This paper focuses on the assessment of color differences and percentage reflectance changes that occurred in dyed wool fabrics after different cycles of abrasion for different constructional parameters of the fabric. Twelve wool fabrics having different constructional parameters were used. The fabrics differed from each other by their weft yarn counts, weft densities, warp densities and the fabric weaves. The warp yarn type and count and the warp yarn twist were the same for all fabrics. The dyeing of the fabric samples were performed by using a commercial 1: 2 metal complex dye (Mix Dye). Four different abrasion levels (2500, 5000, 7500 and 10 000) were used. The percentage reflectance values of the abraded fabrics were measured and color differences between the original (control fabric, dyed but not abraded) and abraded fabrics were calculated. Percentage reflectance values and color difference values are presented in figures for changing fabric constructional properties. The percentage reflectance values and color difference values were higher for the wool fabrics having thicker siro-spun weft yarns and having higher weft and warp densities. The effect of increasing abrasion cycles on percentage reflectance values and on color differences was more visible for plain woven wool fabrics. Photographs of the abraded fabrics are presented to show the surface of the wool fabrics after 10 000 abrasion cycles. It was observed that the yarn breakages occurred on the fabric surface because of the lower tenacity of the wool fibers made the fabric surface smoother as a result of the siro-spun yarn structure. It is concluded that the broken ends of the fibers played an important role in surface reflectance beyond a certain abrasion level which was observed to be 7500 cycles.
Free‐living monitoring of Parkinson's disease: Lessons from the field

Wearable technology comprises miniaturized sensors (eg, accelerometers) worn on the body and/or paired with mobile devices (eg, smart phones) allowing continuous patient monitoring in unsupervised, habitual environments (termed free‐living). Wearable technologies are revolutionizing approaches to health care as a result of their utility, accessibility, and affordability. They are positioned to transform Parkinson's disease (PD) management through the provision of individualized, comprehensive, and representative data. This is particularly relevant in PD where symptoms are often triggered by task and free‐living environmental challenges that cannot be replicated with sufficient veracity elsewhere. This review concerns use of wearable technology in free‐living environments for people with PD. It outlines the potential advantages of wearable technologies and evidence for these to accurately detect and measure clinically relevant features including motor symptoms, falls risk, freezing of gait, gait, functional mobility, and physical activity. Technological limitations and challenges are highlighted, and advances concerning broader aspects are discussed. Recommendations to overcome key challenges are made. To date there is no fully validated system to monitor clinical features or activities in free‐living environments. Robust accuracy and validity metrics for some features have been reported, and wearable technology may be used in these cases with a degree of confidence. Utility and acceptability appears reasonable, although testing has largely been informal. Key recommendations include adopting a multidisciplinary approach for standardizing definitions, protocols, and outcomes. Robust validation of developed algorithms and sensor‐based metrics is required along with testing of utility. These advances are required before widespread clinical adoption of wearable technology can be realized. © 2016 International Parkinson and Movement Disorder Society
Early tension loss in an anterior cruciate ligament graft. A cadaver study of four tibial fixation devices.

BACKGROUND The tensile force applied to an anterior cruciate ligament graft determines the maximal anterior translation; however, it is unknown whether the tensile force is transferred to the intra-articular portion of the graft and whether the intra-articular tension and maximal anterior translation are maintained shortly after ligament reconstruction. METHODS Ten cadaveric knees were reconstructed with a double-looped tendon graft. The graft was looped through a femoral fixation transducer that measured the resultant force on the proximal end of the graft. A pneumatic cylinder applied a tensile force of 110 N to the graft exiting the tibial tunnel with the knee in full extension. The graft was fixed sequentially with four tibial fixation devices (a spiked metal washer, double staples, a bioabsorbable interference screw, and a WasherLoc). Three cyclic loading treatments designed to conservatively load the graft and its fixation were applied. RESULTS The combined loss in intra-articular graft tension from friction, insertion of the tibial fixation device, and three cyclic loading treatments was 50% for the spiked washer (p = 0.0004), 100% for the double staples (p < 0.0001), 64% for the interference screw (p = 0.0001), and 56% for the WasherLoc (p < 0.0001). The tension loss caused an increase in the maximal anterior translation from that of the intact knee of 2.0 mm for the spiked washer (p = 0.005), 7.8 mm for the double staples (p < 0.0001), 2.7 mm for the interference screw (p = 0.001), and 2.1 mm for the WasherLoc (p < 0.0001). CONCLUSIONS The tensile force applied to a soft-tissue anterior cruciate ligament graft is not transferred intra-articularly and is not maintained during graft fixation. The loss in tension is caused by friction in the tibial tunnel and wrapping the graft around the shank of the screw of the spiked washer, insertion of the tibial fixation device, and cyclical loading of the knee. The amount of tension loss is sufficient to increase the maximal anterior translation.
Diameter-dependent wetting of tungsten disulfide nanotubes

Significance The wetting of solid surfaces by liquids is of great interest in scientific fields ranging from lubrication to the strength of composite materials. These interactions can change dramatically at the nanoscale, impacting on current development of novel devices and materials. We have studied the wetting of individual, size-selected tungsten disulfide nanotubes, both experimentally and theoretically. The results show that wetting forces and free energy can vary by orders of magnitude when capillary action is enhanced in open-ended vs. closed-ended nanotubes, as deduced from the influence of specific nanotube size and geometry in governing the final wetting properties. This work provides a comprehensive view of the molecular-level interactions involved in nanotube wetting. The simple process of a liquid wetting a solid surface is controlled by a plethora of factors—surface texture, liquid droplet size and shape, energetics of both liquid and solid surfaces, as well as their interface. Studying these events at the nanoscale provides insights into the molecular basis of wetting. Nanotube wetting studies are particularly challenging due to their unique shape and small size. Nonetheless, the success of nanotubes, particularly inorganic ones, as fillers in composite materials makes it essential to understand how common liquids wet them. Here, we present a comprehensive wetting study of individual tungsten disulfide nanotubes by water. We reveal the nature of interaction at the inert outer wall and show that remarkably high wetting forces are attained on small, open-ended nanotubes due to capillary aspiration into the hollow core. This study provides a theoretical and experimental paradigm for this intricate problem.
Network analysis of depression and anxiety symptom relationships in a psychiatric sample

Background Researchers have studied psychological disorders extensively from a common cause perspective, in which symptoms are treated as independent indicators of an underlying disease. In contrast, the causal systems perspective seeks to understand the importance of individual symptoms and symptom-to-symptom relationships. In the current study, we used network analysis to examine the relationships between and among depression and anxiety symptoms from the causal systems perspective. Method We utilized data from a large psychiatric sample at admission and discharge from a partial hospital program (N = 1029, mean treatment duration = 8 days). We investigated features of the depression/anxiety network including topology, network centrality, stability of the network at admission and discharge, as well as change in the network over the course of treatment. Results Individual symptoms of depression and anxiety were more related to other symptoms within each disorder than to symptoms between disorders. Sad mood and worry were among the most central symptoms in the network. The network structure was stable both at admission and between admission and discharge, although the overall strength of symptom relationships increased as symptom severity decreased over the course of treatment. Conclusions Examining depression and anxiety symptoms as dynamic systems may provide novel insights into the maintenance of these mental health problems.