Miracle-dz/UniFAR-FTUs huggingface dataset:
Pressure tensor for electrostatic interaction calculated by fast multipole method with periodic boundary condition

A microscopic expression of the pressure tensor using the fast multipole method (FMM) with periodic boundary conditions has been derived. The pressure tensor calculated using this expression has been compared with that obtained using the Ewald method with high accuracy. The precision of the pressure tensor can be controlled as a function of expansion order p of FMM. Using the calculated pressure tensor, the constant pressure molecular dynamics calculation with fully fluctuating cell can be performed for anisotropic systems such as crystals, metals, liquid crystals, glasses, polymers, lipid bilayers, and interfacial regions between two phases. © 2018 Wiley Periodicals, Inc.
Dark Traits and Suicide: Associations Between Psychopathy, Narcissism, and Components of the Interpersonal–Psychological Theory of Suicide

Studies have identified independent relationships between psychopathy, narcissism, and suicidality. The current study expands upon the extant literature by exploring psychopathic and narcissistic personality traits and components of the interpersonal–psychological theory of suicide, utilizing a 3-factor model of psychopathy and 2-factor model of pathological narcissism in community, undergraduate, and military individuals. We hypothesized that the impulsive–antisocial facets of psychopathy would be related to suicidal desire, whereas all facets of psychopathy would relate to the capability for suicide. We anticipated an association between pathological narcissism, thwarted belongingness, and capability for suicide, but not perceived burdensomeness. We further hypothesized a relationship between physical pain tolerance and persistence and the affective (i.e., callousness) facet of psychopathy. Results partially supported these hypotheses and underscore the need for further examination of these associations utilizing contemporary models of psychopathy and narcissism.
Algorithm of moving object detection with illumination robustness based on confidence

The traditional methods of moving object detection in the illumination changes have no good robustness and accuracy. The background model based on texture feature may lead to cavity and the background model based on color feature is sensitive to illumination and shadow. To solve this problem, this paper proposed a method of moving object detection by fusing color feature and XCS-LBP (eXtended Center Symmetric-Local Binary Pattern) based on confidence. The difference degree of color and the texture between current pixel and its model pixel is calculated respectively, then the overall difference with confidences is calculated to achieve the better results. Our model updating method is similar to that of the ViBe model updating method. Experimental results show that the proposed algorithm can eliminate shadow effectively and have good robustness to the change of illumination, it performs the better foreground segmentation in complex dynamic background.
Improve the compression of bacterial DNA sequence

The tremendous growth in genomic data generation present an important issues in handling, storage and transmission of these data. General purpose compression tools such as Bzip2 fail in this respect; hence many algorithms have been specially suggested for the genomic data. This work introduces a new, loss-less and reference-free compression method to increase the compression performance of Bacterial DNA Sequences using Bzip2. The results show a decreasing in compression ratio by 7.74% on average with compression speed about ten times faster than ever before.
Optimizing Reweighted Belief Propagation for Distributed Likelihood Fusion Problems

Belief propagation (BP) is a powerful tool to solve distributed inference problems, though it is limited by short cycles in the corresponding factor graph. Such cycles may lead to incorrect solutions or oscillatory behavior. Only for certain types of problems are convergence properties understood. We extend this knowledge by investigating the use of reweighted BP for distributed likelihood fusion problems, which are characterized by equality constraints along possibly short cycles. Through a linear formulation of BP, we are able to analytically derive convergence conditions for certain types of graphs and optimize the convergence speed. We compare with standard belief consensus and observe significantly faster convergence.
Predisposing factors for recanalization of cerebral aneurysms after endovascular embolization: a multivariate study

Background The recanalization of cerebral aneurysms after endovascular embolization (coiling or stent-assisted coiling) has been a matter of concern. Objective To systematically evaluate the predisposing factors for cerebral aneurysm recanalization using multidimensional analysis in a large patient cohort. Methods In 238 patients with 283 aneurysms, patient baseline characteristics, aneurysm morphological characteristics, treatment-related factors, and changes in flow hemodynamics after endovascular treatment (coiling or stent-assisted coiling) were compared between the recanalization and non-recanalization groups. Multivariate logistic regression analysis was performed to determine independent risk factors correlated with recanalization. Results 16 aneurysms treated by coiling recanalized, with a recurrence rate of 18.6%, and 24 recanalized in the lesions treated by stent-assisted coiling, with a recanalization rate of 12.2%. Large aneurysms (>10 mm, p=0.002) and a follow-up interval >1 year (p=0.027) were shown to be statistically significant between the recanalization and non-recanalization groups. For flow hemodynamic changes, three parameters (velocity on the neck plane, wall shear stress on the neck wall, and wall shear stress on the whole aneurysm) showed a relatively lower amplitude of decrease after endovascular treatment in the recanalization group. Interestingly, the velocity on the neck plane and wall shear stress on the neck wall may be elevated after treatment. Specifically, the reduction ratio (RR) of velocity on the neck plane showed significant difference between the groups in the multivariate analysis (p=0.013), and was considered an independent risk factor for recanalization. Conclusions The aneurysm size, follow-up interval, and flow hemodynamic changes, especially the RR of velocity on the neck plane, have important roles in aneurysm recanalization.
Fast stereo matching with super-pixels using one-way check and score filter

This paper proposes a novel fast method of depth image generation with super-pixels (SPs) by stereo matching. The proposed method adopts an existing method in which block matching is performed at the center of the SP, and the obtained disparity is applied to all pixels of the SP. Then, in contrast to usual cross check which requires disparity estimations in both left and right directions, we newly introduce one-way check that judges errors using only unidirectional disparity estimation to reduce the amount of calculation. Furthermore, to improve disparities, a score filter on SP basis is newly introduced. The filter multiplies the matching score of the surrounding SP by the weight consisted to the reliability and the similarity, and sums up the weighted scores in the neighborhood. Even if the block size to be matched is reduced, the score filter can suppress accuracy degradation, so that the amount of calculation can be further reduced. As a result of the experiment, the execution time of the proposed method was about 1/160 of full search, about 1/3 of the conventional center matching, and the accuracy deterioration was slight.
Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI

Correct phenotypic interpretation of variants of unknown significance for cancer‐associated genes is a diagnostic challenge as genetic screenings gain in popularity in the next‐generation sequencing era. The Critical Assessment of Genome Interpretation (CAGI) experiment aims to test and define the state of the art of genotype–phenotype interpretation. Here, we present the assessment of the CAGI p16INK4a challenge. Participants were asked to predict the effect on cellular proliferation of 10 variants for the p16INK4a tumor suppressor, a cyclin‐dependent kinase inhibitor encoded by the CDKN2A gene. Twenty‐two pathogenicity predictors were assessed with a variety of accuracy measures for reliability in a medical context. Different assessment measures were combined in an overall ranking to provide more robust results. The R scripts used for assessment are publicly available from a GitHub repository for future use in similar assessment exercises. Despite a limited test‐set size, our findings show a variety of results, with some methods performing significantly better. Methods combining different strategies frequently outperform simpler approaches. The best predictor, Yang&Zhou lab, uses a machine learning method combining an empirical energy function measuring protein stability with an evolutionary conservation term. The p16INK4a challenge highlights how subtle structural effects can neutralize otherwise deleterious variants.
Elucidation of quasi-duality between series-series and series-parallel topologies of resonant inductive coupling wireless power transfer systems

Series-Series (SS) and Series-Parallel (SP) topologies are widely utilized in practical resonant inductive coupling wireless power transfer (RIC-WPT) systems owing to their simple circuit configurations. Conventionally, design optimization of the circuit parameters of these topologies were investigated separately, because these topologies are expressed by different equivalent circuits. However, analysis of these equivalent circuits is generally complicated due to the multiple resonant modes contained in the operation, which may cause difficulty in comparing the performance between the SS and SP topologies after design optimization of these topologies. This difficulty may prevent elucidating the methodology to select an appropriate topology that offers better output power or efficiency after design optimization. The purpose of this paper is to suggest a selection methodology of the SS and SP topologies by elucidating a novel insight that these topologies have the quasi-duality relation, in which the SP topology works approximately as the dual of the SS topology. This insight enables to share the analysis results between the topologies. As a result, both of these topologies were found to be expressed by a same novel equivalent circuit. Furthermore, the only difference between the SS and SP topologies were found to be the equivalent load resistance of this equivalent circuit, thus reducing the topology selection into selection of preferable load resistance. The appropriateness of the quasi-duality relation and the resultant equivalent circuit was successfully confirmed by the simulation and the experiment.
Novel Role of vBcl2 in the Virion Assembly of Kaposi's Sarcoma-Associated Herpesvirus

ABSTRACT The viral Bcl-2 homolog (vBcl2) of Kaposi's sarcoma-associated herpesvirus (KSHV) displays efficient antiapoptotic and antiautophagic activity through its central BH3 domain, which functions to prolong the life span of virus-infected cells and ultimately enhances virus replication and latency. Independent of its antiapoptotic and antiautophagic activity, vBcl2 also plays an essential role in KSHV lytic replication through its amino-terminal amino acids (aa) 11 to 20. Here, we report a novel molecular mechanism of vBcl2-mediated regulation of KSHV lytic replication. vBcl2 specifically bound the tegument protein open reading frame 55 (ORF55) through its amino-terminal aa 11 to 20, allowing their association with virions. Consequently, the vBcl2 peptide derived from vBcl2 aa 11 to 20 effectively disrupted the interaction between vBcl2 and ORF55, inhibiting the incorporation of the ORF55 tegument protein into virions. This study provides new insight into vBcl2's function in KSHV virion assembly that is separable from its inhibitory role in host apoptosis and autophagy. IMPORTANCE KSHV, an important human pathogen accounting for a large percentage of virally caused cancers worldwide, has evolved a variety of stratagems for evading host immune responses to establish lifelong persistent infection. Upon viral infection, infected cells can go through programmed cell death, including apoptosis and autophagy, which plays an effective role in antiviral responses. To counter the host response, KSHV vBcl2 efficiently blocks apoptosis and autophagy to persist for the life span of virus-infected cells. Besides its anti-programmed-cell-death activity, vBcl2 also interacts with the ORF55 tegument protein for virion assembly in infected cells. Interestingly, the vBcl2 peptide disrupts the vBcl2-ORF55 interaction and effectively inhibits KSHV virion assembly. This study indicates that KSHV vBcl2 harbors at least three genetically separable functions to modulate both host cell death signaling and virion production and that the vBcl2 peptide can be developed as an anti-KSHV therapeutic application.
Bounded Control of an Actuated Lower-Limb Exoskeleton

A bounded control strategy is employed for the rehabilitation and assistance of a patient with lower-limb disorder. Complete and partial lower-limb motor function disorders are considered. This application is centered on the knee and the ankle joint level, thereby considering a user in a sitting position. A high gain observer is used in the estimation of the angular position and angular velocities which is then applied to the estimation of the joint torques. The level of human contribution is feedback of a fraction of the estimated joint torque. This is utilised in order to meet the demands for a bounded human torque; that is, The asymptotic stability of the bounded control law without human contribution and the convergence analysis of the high gain observer is verified using Lyapunov-based analysis. Simulations are performed to verify the proposed control law. Results obtained guarantee a fair trajectory tracking of the physiotherapist trajectory.
Planning of Library Retro-Conversion

The present study guides library professionals who have not yet automated their library. After familiarizing themselves with some techniques, they should be able to start the strategies outlined in the article for retro conversion. It discusses the practical issues involved in retro conversion work like, methodologies and steps involved in each method. The solution presented here can be used as an effective tool for successful completion of library retrospective conversion.
Adaptive output feedback tracking control for a class of uncertain switched nonlinear systems under arbitrary switching

ABSTRACT This paper investigates the problem of adaptive output feedback tracking for uncertain switched nonlinear systems, under arbitrary switching. First, an adaptive output feedback controller is designed, which ensures the boundedness of all the closed-loop signals. Then, a novel adaptive-based robust output feedback control is proposed to drive the tracking error to zero, in which the bound of disturbances is not required to be known in advance. Both control algorithms are based on the common Lyapunov function method, without any restrictions on dwell time. To evaluate the performance of the proposed output feedback control schemes, a numerical example is presented and discussed.
Polarization-dependent intermodal four-wave mixing in a birefringent multimode photonic crystal fiber.

In this Letter, polarization-dependent intermodal four-wave mixing (FWM) is demonstrated experimentally in a birefringent multimode photonic crystal fiber (BM-PCF) designed and fabricated in-house. Femtosecond pump pulses at wavelengths ∼800 nm polarized along one of the principal axes of the BM-PCF are coupled into a normal dispersion region away from the zero-dispersion wavelengths of the fundamental guided mode of the BM-PCF. Anti-Stokes and Stokes waves are generated in the 2nd guided mode at visible and near-infrared wavelengths, respectively. For pump pulses at an average input power of 500 mW polarized along the slow axis, the conversion efficiencies ηas and ηs of the anti-Stokes and Stokes waves generated at wavelengths 579.7 and 1290.4 nm are 19% and 14%, respectively. For pump pulses polarized along the fast axis, the corresponding ηas and ηs at 530.4 and 1627 nm are 23% and 18%, respectively. We also observed that fiber bending and intermodal walk-off have a small effect on the polarization-dependent intermodal FWM-based frequency conversion process.
On the role of brain mineralocorticoid (type I) and glucocorticoid (type II) receptors in neuroendocrine regulation.

Administrations of the glucocorticoid receptor antagonist (anti-glucocorticoid, RU38486) and the mineralocorticoid antagonist (anti-mineralocorticoid, RU28318) followed by frequent, sequential blood sampling were employed to investigate the possible role the brain mineralocorticoid receptor (MR, type I) and glucocorticoid receptor (GR, type II) have in the regulation of basal and stress-induced adrenocortical secretion in the rat. The anti-mineralocorticoid and anti-glucocorticoid were administered subcutaneously (s.c.) at doses of 2.5 mg and 1.0 mg/100 g body weight, respectively. Both antagonists were also given intracerebroventricularly (i.c.v.) at a dose of 100 ng/rat. Under basal non-stressed conditions (at the diurnal trough in the morning), injections of either saline, anti-glucocorticoid (s.c. or i.c.v.) or anti-mineralocorticoid (s.c.) did not have effect on the plasma corticosterone level. The anti-mineralocorticoid given intracerebroventricularly, however, caused an elevation of plasma corticosterone up to 60 min after the injection. Exposure of the rats to a novel environment resulted in a large increase in the plasma corticosterone level, which was slightly reduced in the rats treated with the anti-glucocorticoid. In vehicle-treated rats, the level returned to basal values at 90 min, while in the anti-glucocorticoid- and anti-mineralocorticoid-treated groups, it remained elevated for prolonged periods. The present study thus shows that (1) the anti-glucocorticoid RU38486 via the brain GR has no effect on the basal plasma corticosterone level in the morning but interferes with a glucocorticoid negative feedback following stress and (2) the anti-mineralocorticoid RU28318 via the brain MR elevates the basal plasma corticosterone level and enhances adrenocortical secretion following stress. (ABSTRACT TRUNCATED AT 250 WORDS)
Dexamethasone for Pulmonary Interstitial Emphysema in Preterm Infants

The efficacy of a 3-day course of dexamethasone (0.5 mg/kg/day) in 10 preterm infants (≤30 weeks gestation) with pulmonary interstitial emphysema (PIE) was studied in a retrospective case review. PIE was diagnosed at a median age of 7.5 days and treatment with dexamethasone began at 8.5 days. Seven of the 10 subjects had at least 2 days of conservative treatment (lowered mean airway pressure) preceding dexamethasone during which the mean airway pressure (MAP), oxygenation index (OI) and mechanical ventilation index (MVI) were not significantly different although within 3 days of dexamethasone each variable improved significantly (p < 0.05). Similarly, for all 10 infants, OI and MAP were significantly lower at 3 and 7 days from baseline (p < 0.005). By day 7, FiO2 (p = 0.022) and MVI (p = 0.011) were significantly lower and PIE had resolved on chest X-ray in 7/9 (78%) and improved in the remaining 2/9 (22%). Nine of the 10 infants survived to term. Three days of dexamethasone was associated with significant clinical improvement in most of these infants. The mechanism may relate to reduced airway oedema and inflammation and reduced airway obstruction.
Performance analysis of OpenFlow based software defined wired and wireless network

Software Defined Networking (SDN) brings reliability, flexibility, scalability, security and advance features in the present era of networking and communication. As the demand for Wired and wireless network grow rapidly, the consistency of the network shrinks quickly and becomes harder to continue. Moreover, the smart devices are getting popular from users and thus more reliable, scalable and flexible wired and wireless network is required. In such consequences, SDN emerges as a new network paradigm for the future Internet and Next Generation Network (NGN). This paper analyzes different performance metrics of an OpenFlow based Software Defined Wired and Wireless Network using a single OpenFlow controller. The OpenFlow technology is convenient to the SDN application that enables OpenFlow controller to control multiple hardware or softwares. The proposed OpenFlow based Software Defined Wired and Wireless Network is executed in a single controller in Mininet-WiFi programmed Python script for real life experience. The QoS performance metrics such as throughput, Round Trip Time (RTT), delay and jitter is analyzed. The results ensure the consistency of the proposed OpenFlow based Software Defined Wired and Wireless Network and paves the way to implement integrated network.
Self‐compassion moderates the predictive effects of implicit cognitions on subjective well‐being

This study examined whether self-compassion may regulate the effects of implicit cognitions (automatic and preconscious responses) on the subjective well-being of Australian adults (N = 132). As hypothesized, self-compassion moderated the predictive effects of 2 implicit cognitions (positive attention bias and implicit self-esteem) on 2 indicators of subjective well-being (life satisfaction and depressive symptoms). Low implicit self-esteem and weak positive attention bias predicted more depressive symptoms and lower life satisfaction only for participants who were low in self-compassion. These results extend previous research knowledge by indicating that self-compassion may not only buffer the impact of explicit (deliberate and conscious) cognitive processes on well-being but may also regulate the effects of preconscious cognitive processes on mental health outcomes. Theoretical and treatment implications are discussed.