Miracle-dz/UniFAR-FTUs huggingface dataset:
Molecular Characterization of GABA-A Receptor Subunit Diversity within Major Peripheral Organs and Their Plasticity in Response to Early Life Psychosocial Stress

Gamma aminobutyric acid (GABA) subtype A receptors (GABAARs) are integral membrane ion channels composed of five individual proteins or subunits. Up to 19 different GABAAR subunits (α1–6, β1–3, γ1–3, δ, ε, θ, π, and ρ1–3) have been identified, resulting in anatomically, physiologically, and pharmacologically distinct multiple receptor subtypes, and therefore GABA-mediated inhibition, across the central nervous system (CNS). Additionally, GABAAR-modulating drugs are important tools in clinical medicine, although their use is limited by adverse effects. While significant advances have been made in terms of characterizing the GABAAR system within the brain, relatively less is known about the molecular phenotypes within the peripheral nervous system of major organ systems. This represents a potentially missed therapeutic opportunity in terms of utilizing or repurposing clinically available GABAAR drugs, as well as promising research compounds discarded due to their poor CNS penetrance, for the treatment of peripheral disorders. In addition, a broader understanding of the peripheral GABAAR subtype repertoires will contribute to the design of therapies which minimize peripheral side-effects when treating CNS disorders. We have recently provided a high resolution molecular and function characterization of the GABAARs within the enteric nervous system of the mouse colon. In this study, the aim was to determine the constituent GABAAR subunit expression profiles of the mouse bladder, heart, liver, kidney, lung, and stomach, using reverse transcription polymerase chain reaction and western blotting with brain as control. The data indicate that while some subunits are expressed widely across various organs (α3–5), others are restricted to individual organs (γ2, only stomach). Furthermore, we demonstrate complex organ-specific developmental expression plasticity of the transporters which determine the chloride gradient within cells, and therefore whether GABAAR activation has a depolarizing or hyperpolarizing effect. Finally, we demonstrate that prior exposure to early life psychosocial stress induces significant changes in peripheral GABAAR subunit expression and chloride transporters, in an organ- and subunit-specific manner. Collectively, the data demonstrate the molecular diversity of the peripheral GABAAR system and how this changes dynamically in response to life experience. This provides a molecular platform for functional analyses of the GABA–GABAAR system in health, and in diseases affecting various peripheral organs.
Mechanisms Governing Microstructural Evolution During Consolidation of Nanoparticles

In micron-scale, powder consolidation process is driven by diffusion phenomenon, while in nano-scale the higher surface energy of particles leads to some anomalous behaviors within the process. In order to investigate the nano-sintering occurrence, an atomistic approach is employed via molecular dynamics simulations. Within this approach, the effect of particle size and temperature is examined. The study of particle structure emphasizes on a transition on the governing mechanism of process depending on the material energy levels. The results show that in a specific particle size at low temperatures, the main sintering mechanism is the plastic deformation, while at elevated temperatures it switches to the surface diffusion. Calculating the sintering activation energy, an anomalous trend is observed with the variations in the particle size. This trend can be described by annihilation of the grain boundary. The identified governing sintering mechanisms are presented in the sintering governing mechanism diagram. The diagram shows that the temperature, at which the main mechanism switches, depends on the particle size. The importance of this finding is that below the switching temperature, increasing time or temperature does not increase the efficiency of the process, significantly.
Electrical pulse stimulation induces GLUT4 translocation in a Rac‐Akt‐dependent manner in C2C12 myotubes

Muscle contraction increases skeletal muscle glucose uptake, but the underlying mechanisms are not fully elucidated. While important for insulin‐stimulated glucose uptake, the role of Akt in contraction‐stimulated muscle glucose uptake is controversial. In our study, C2C12 skeletal muscle myotubes were contracted by electrical pulse stimulation (EPS). We found that EPS leads to Akt phosphorylation on sites S473 and T308 in a time‐dependent manner. The Akt inhibitor MK2206 partly reduces EPS‐stimulated GLUT4 translocation without affecting EPS‐stimulated AMPK phosphorylation. EPS activates Rac1 GTP‐binding, and EPS‐stimulated GLUT4 translocation is partly inhibited by Rac1 inhibitor II and siRac1. Interestingly, both Rac1 inhibitor II and siRac1 inhibit EPS‐stimulated Akt phosphorylation on sites S473 and T308. Our findings implicate a Rac1‐Akt signaling pathway in EPS‐stimulated GLUT4 translocation in C2C12 myotubes.
The influence of HPCToolkit and Score-p on hardware performance counters

Performance measurement and analysis are commonly carried out tasks for high-performance computing applications. Both sampling and instrumentation approaches for performance measurement can capture hardware performance counter (HWPC) metrics to asses the software's ability to use the functional units of the processor. Since the measurement software usually executes on the same processor, it necessarily competes with the target application for hardware resources. Consequently, the measurement system perturbs the target application, which often results in runtime overhead. While the runtime overhead of different measurement techniques has been previously studied, it has not been thoroughly examined to what extent HWPC values are perturbed by the measurement process. In this paper, we investigate the influence of the two widely-used performance measurement systems HPCToolkit (sampling) and Score-P (instrumentation) w.r. t. their influence on HWPC. Our experiments on the SPEC CPU 2006 C/C++ benchmarks show that, while Score-P's default instrumentation can massively increase runtime, it does not always heavily perturb relevant HWPC. On the other hand, HPCToolkit shows no significant runtime overhead, but significantly influences some relevant HWPC. We conclude that for every performance experiment sufficient baseline measurements are essential to identify the HWPC that remain valid indicators of performance for a given measurement technique. Thus, performance analysis tools need to offer easily accessible means to automate the baseline and validation functionality.
Authorship Verification based on Syntax Features

Authorship verification is wildly discussed topic at these days. In the authorship verification problem, we are given examples of the writing of an author and are asked to determine if given texts were or were not written by this author. In this paper we present an algorithm using syntactic analysis system SET for verifying authorship of the documents. We propose three variants of two-class machine learning approach to authorship verification. Syntactic features are used as attributes in suggested algorithms and their performance is compared to established word-lenth distribution features. Results indicate that syntactic features provide enough information to improve accuracy of authorship verification algorithms.
A Strategic Bargaining Game for a Spectrum Sharing Scheme in Cognitive Radio-Based Heterogeneous Wireless Sensor Networks

In Wireless Sensor Networks (WSNs), unlicensed users, that is, sensor nodes, have excessively exploited the unlicensed radio spectrum. Through Cognitive Radio (CR), licensed radio spectra, which are owned by licensed users, can be partly or entirely shared with unlicensed users. This paper proposes a strategic bargaining spectrum-sharing scheme, considering a CR-based heterogeneous WSN (HWSN). The sensors of HWSNs are discrepant and exist in different wireless environments, which leads to various signal-to-noise ratios (SNRs) for the same or different licensed users. Unlicensed users bargain with licensed users regarding the spectrum price. In each round of bargaining, licensed users are allowed to adaptively adjust their spectrum price to the best for maximizing their profits. Then, each unlicensed user makes their best response and informs licensed users of “bargaining” and “warning”. Through finite rounds of bargaining, this scheme can obtain a Nash bargaining solution (NBS), which makes all licensed and unlicensed users reach an agreement. The simulation results demonstrate that the proposed scheme can quickly find a NBS and all players in the game prefer to be honest. The proposed scheme outperforms existing schemes, within a certain range, in terms of fairness and trade success probability.
The prognostic value of Niemann-Pick C1-like protein 1 and Niemann-Pick disease type C2 in hepatocellular carcinoma

Niemann-Pick C1-like 1 (NPC1L1) and Niemann-Pick C2 (NPC2) is a critical mediator of cholesterol absorption. The aim of the present study was to investigate the prognostic value of NPC1L1 and NPC2 in human primary hepatocellular carcinoma (HCC). The expression level of NPC1L1 and NPC2 were evaluated by Immunohistochemistry, Westen blot and Real-time Quantitative PCR. Protein expression level in tissue was represented by integral optic density (IOD). For prognosis analyses, outcome-based cut-point was calculated by X-tile software. Kaplan-Meier analysis, Cox regression analysis were used evaluate prognostic value of NPC1L1 and NPC2 and NPC1L1/NPC2 combination. Both of NPC1L1 and NPC2 were significantly decreased in HCC tissues than peritumoral liver tissues (61 pairs of tissue for Immunohistochemistry and 10 pairs of tissues for Western blot and Real-time Quantitative PCR), respectively. (n=61: p=0.0005 for NPC1L1 and p=0.0001 for NPC2; n=10: p=0.0002 for NPC1L1 and p=0.0489 for NPC2). Kaplan-Meier analyses in 265 HCC cases were showed that the low expression level of NPC1L1 and NPC2 and NPC1L1/NPC2 combination were significantly correlated with poor overall survival (OS) and shorter time to recurrence (TTR). In addition, univariate and multivariate Cox analyses showed that the expression level of NPC1L1/NPC2 combination in HCC was an independent prognostic factor for OS and TTR. Conclusion: NPC1L1 and NPC2 were lowly expressed in HCC compared with peritumoral liver tissues, and low expression of NPC1L1 and NPC2 in HCC tissues may indicate poor outcome of HCC patients after surgery. NPC1L1/NPC2 combination is an independent prognostic factor for OS and TTR in postoperative HCC patients.
Escort: Efficient Sparse Convolutional Neural Networks on GPUs

Deep neural networks have achieved remarkable accuracy in many artificial intelligence applications, e.g. computer vision, at the cost of a large number of parameters and high computational complexity. Weight pruning can compress DNN models by removing redundant parameters in the networks, but it brings sparsity in the weight matrix, and therefore makes the computation inefficient on GPUs. Although pruning can remove more than 80% of the weights, it actually hurts inference performance (speed) when running models on GPUs. Two major problems cause this unsatisfactory performance on GPUs. First, lowering convolution onto matrix multiplication reduces data reuse opportunities and wastes memory bandwidth. Second, the sparsity brought by pruning makes the computation irregular, which leads to inefficiency when running on massively parallel GPUs. To overcome these two limitations, we propose Escort, an efficient sparse convolutional neural networks on GPUs. Instead of using the lowering method, we choose to compute the sparse convolutions directly. We then orchestrate the parallelism and locality for the direct sparse convolution kernel, and apply customized optimization techniques to further improve performance. Evaluation on NVIDIA GPUs show that Escort can improve sparse convolution speed by 2.63x and 3.07x, and inference speed by 1.38x and 1.60x, compared to CUBLAS and CUSPARSE respectively.
Probabilistic estimation of the reachable set of model reference adaptive controllers using the scenario approach

ABSTRACTA fundamental and critical problem for Model Reference Adaptive Control (MRAC) systems is the characterisation of the system response during transients. This problem is strictly related to the estimation of the reachable set (RS) from a fixed set of initial conditions and it is typically tackled using the Lyapunov's direct method. One well-known drawback of this approach is the excessive conservatism in the estimation of the RS. To overcome this limitation the authors propose a novel probabilistic framework where uncertain parameters and control signals are considered as random variables. In this framework the RS design is translated into a stochastic convex optimisation problem. This brings the benefit that (probabilistic) LMIs with reduced conservatism can be worked out. The so-called scenario optimisation approach is then used to solve the stochastic optimisation problem with a-priori specified level of reliability. The novel approach is compared with an existing worst-case approach in determin.
Recombinant CC16 protein inhibits the production of pro-inflammatory cytokines via NF-κB and p38 MAPK pathways in LPS-activated RAW264.7 macrophages

Abstract Accumulating evidence indicates that Clara cell protein-16 (CC16) has anti-inflammatory functions, although the involved molecular pathways have not been completely elucidated. Here, we evaluated the effect of recombinant rat CC16 (rCC16) on the expression of tumor necrosis factor alpha (TNF-α), interleukin-6 (IL-6), and IL-8 in lipopolysaccharide (LPS)-stimulated mouse macrophages (RAW264.7 cells) and explored the underlying molecular mechanisms. It was found that rCC16 inhibited LPS-induced TNF-α, IL-6, and IL-8 expression at both the messenger ribonucleicacid (mRNA) level and protein level in a concentration-dependent manner, as demonstrated by real-time reverse transcriptase-polymerase chain reaction and enzyme-linked immunosorbent assay. Such suppressive effects were accompanied by the inhibition of transcriptional activity and the deoxyribonucleic acid binding activity of nuclear factor (NF)-κB but not activator protein (AP)-1. Western blot analysis further revealed that rCC16 inhibited the increase of nuclear NF-κB and the reduction of cytosolic NF-κB, the phosphorylation and reduction of NF-κB inhibitory protein IκBα, and the p38 mitogen-activated protein kinase (MAPK)-dependent NF-κB activation by phosphorylation at Ser276 of its p65 subunit. Furthermore, rCC16 was found to have no effect on the phosphorylation of c-Jun N-terminal kinase, c-Jun, or the nuclear translocation of c-Jun. In addition, reduction of TNF-α, IL-6, and IL-8 were reversed when the level of endogenous uteroglobin-binding protein was reduced by RNA interference in rCC16- and LPS-treated RAW264.7 cells. Our data suggest that rCC16 suppresses LPS-mediated inflammatory mediator TNF-α, IL-6, and IL-8 production by inactivating NF-κB and p38 MAPK but not AP-1 in RAW264.7 cells.
Pathways to Firesetting for Mentally Disordered Offenders: A Preliminary Examination

The current study aimed to investigate the specific pathways in the offence process for mentally disordered firesetters. In a previous study, an offence chain model was constructed (i.e., the Firesetting Offence Chain for Mentally Disordered Offenders, FOC-MD) using offence descriptions obtained from 23 mentally disordered firesetters, detailing the sequence of contextual, behavioural, affective, and cognitive factors that precipitate an incidence of firesetting for this population. The current study examines the prevalence of the specific pathways to firesetting for the original 23 mentally disordered firesetters and a further sample of 13 mentally disordered firesetters. Three distinct pathways to firesetting are identified within the FOC-MD: fire interest–childhood mental health, no fire interest–adult mental health, fire interest–adult mental health. In this article, we describe these three pathways in detail using illustrative case studies. The practice implications of these identified pathways are also discussed.
Shifts in positive and negative psychotic symptoms and anger: effects on violence

Background Changes in positive and negative symptom profiles during acute psychotic episodes may be key drivers in the pathway to violence. Acute episodes are often preceded by fluctuations in affect before psychotic symptoms appear and affective symptoms may play a more important role in the pathway than previously recognised. Methods We carried out a prospective cohort study of 409 male and female patients discharged from medium secure services in England and Wales to the community. Measures were taken at baseline (pre-discharge), 6 and 12 months post-discharge using the Positive and Negative Syndrome Scale. Information on violence was obtained using the McArthur Community Violence Instrument and Police National Computer. Results The larger the shift in positive symptoms the more likely violence occurred in each 6-month period. However, shifts in angry affect were the main driving factor for positive symptom shifts associated with violence. Shifts in negative symptoms co-occurred with positive and conveyed protective effects, but these were overcome by co-occurring shifts in anger. Severe but stable delusions were independently associated with violence. Conclusions Intensification of angry affect during acute episodes of psychosis indicates the need for interventions to prevent violence and is a key driver of associated positive symptoms in the pathway to violence. Protective effects against violence exerted by negative symptoms are not clinically observable during symptom shifts because they are overcome by co-occurring anger.
DNA methylation imprinting errors in spermatogenic cells from maturation arrest azoospermic patients

Imprinting errors have been described in spermatozoa from infertile patients with oligozoospermia and azoospermia. However, little is known about methylation of imprinted genes in other spermatogenic cells from azoospermic patients. Therefore, we aimed to evaluate the methylation status of single CpGs located in the differentially methylated regions (DMRs) of two imprinted genes, one paternally (H19) and one maternally (MEST) methylated, in primary spermatocytes of azoospermic patients presenting complete (MAc, n = 7) and incomplete (MAi, n = 8) maturation arrest, as well as in other spermatogenic cells from MAi patients that presented focus of complete spermatogenesis in some seminiferous tubules. We observed H19 imprinting errors in primary spermatocytes from one MAi patient and MEST imprinting errors in one MAi and two MAc patients. Additionally, H19 imprinting errors were observed in elongated spermatids/spermatozoa from one MAi patient. Nevertheless, no statistical differences were found for H19 and MEST global methylation levels (percentage of methylated and unmethylated CpGs, respectively) between patients with complete and incomplete MA and also between MA groups and a control group. These results provide further evidence that imprinting errors occur in spermatogenic cells from patients presenting impaired spermatogenesis, as we and others have previously described in ejaculated and testicular spermatozoa. As paternal imprinting errors can be transmitted to the embryo by the sperm cell, they can provide a possible explanation for poor embryo development and/or low pregnancy rates as correct expression of imprinted genes is crucial for embryo and placental development and function. Therefore, in cases with male factor infertility where unsuccessful in vitro fertilization (IVF) treatments are recurrent, analysis of imprinting marks in spermatozoa might be a useful diagnostic tool.
Effects of Two Halophytic Plants (Kochia and Atriplex) on Digestibility, Fermentation and Protein Synthesis by Ruminal Microbes Maintained in Continuous Culture

Eight continuous culture fermenters were used in a completely randomized design to evaluate various nutritional values of Kochia (Kochia scoparia) compared with Atriplex (Atriplex dimorphostegia). Dried and pelleted samples (leaves and stems) provided substrate for metabolism by ruminal microbes maintained in a continuous culture fermentation system. Results indicated that there were no differences (p>0.05) in dry matter (DM) and crude protein (CP) digestibility between the two halophytic plants. Atriplex had higher (p<0.05) organic matter (OM) digestibility compared with Kochia. Neutral detergent fiber (aNDF) digestibility of Atriplex (411 g/kg) was higher (p<0.05) than that of Kochia (348 g/kg), however acid detergent fiber (ADF) digestibility was higher (p<0.05) in Kochia compared with Atriplex (406 vs. 234 g/kg). There were no differences (p>0.05) between the two halophytic plants in molar proportion of acetate and propionate, but the concentration of butyrate and valerate in Kochia were about two fold of Atriplex (p<0.05). When Kochia provided substrate to the microbes, protein synthesis was higher (p<0.05) compared with feeding Atriplex (5.96 vs. 4.85 g N/kg of OM truly digested). It was concluded that Kochia scoparia and Atriplex dimorphostegia had similar digestibility of DM and CP. It appears that these halophytic plants may not have enough digestible energy for high producing ruminants.
A Platform Based Distributed Service Framework for Large-Scale Cloud Ecosystem Development

In the era of Internet, service-oriented development becomes a popular software development paradigm for developing large-scale systems and cloud apps. Followed by this new emerging paradigm, functions would be designed and developed as components, deployed separately and provided as services for integration. In generally, experienced developers tend to introduce some reusable distributed service frameworks in their projects. These frameworks are usually developed based on Service-Oriented Architecture (SOA), and take charge of Remote Procedure Call (RPC), distributed service collaboration, remote service communication and other common duties. It has been proved that these distributed service frameworks are a kind of effective software infrastructures to facilitate development. However, in large-scale cloud ecosystems development, chaos might occur if interdependent remote services composed together to enable cloud services and complex systems. Towards this problem, this paper proposes a novel framework developed by leveraging a platform as a unified access gateway of remote services for different cloud services in the ecosystem. Experimental results show that the framework could effectively reduce the development difficulty of the large-scale cloud ecosystems, and improve the performance of the developed systems.