Miracle-dz/UniFAR-FTUs huggingface dataset:
Valnoctamide Inhibits Cytomegalovirus Infection in Developing Brain and Attenuates Neurobehavioral Dysfunctions and Brain Abnormalities

Cytomegalovirus (CMV) is the most common infectious cause of brain defects and neurological dysfunction in developing human babies. Due to the teratogenicity and toxicity of available CMV antiviral agents, treatment options during early development are markedly limited. Valnoctamide (VCD), a neuroactive mood stabilizer with no known teratogenic activity, was recently demonstrated to have anti-CMV potential. However, it is not known whether this can be translated into an efficacious therapeutic effect to improve CMV-induced adverse neurological outcomes. Using multiple models of CMV infection in the developing mouse brain, we show that subcutaneous low-dose VCD suppresses CMV by reducing the level of virus available for entry into the brain and by acting directly within the brain to block virus replication and dispersal. VCD during the first 3 weeks of life restored timely acquisition of neurological milestones in neonatal male and female mice and rescued long-term motor and behavioral outcomes in juvenile male mice. CMV-mediated brain defects, including decreased brain size, cerebellar hypoplasia, and neuronal loss, were substantially attenuated by VCD. No adverse side effects on neurodevelopment of uninfected control mice receiving VCD were detected. Treatment of CMV-infected human fetal astrocytes with VCD reduced both viral infectivity and replication by blocking viral particle attachment to the cell, a mechanism that differs from available anti-CMV drugs. These data suggest that VCD during critical periods of neurodevelopment can effectively suppress CMV replication in the brain and safely improve both immediate and long-term neurological outcomes. SIGNIFICANCE STATEMENT Cytomegalovirus (CMV) can irreversibly damage the developing brain. No anti-CMV drugs are available for use during fetal development, and treatment during the neonatal period has substantial limitations. We studied the anti-CMV actions of valnoctamide (VCD), a psychiatric sedative that appears to lack teratogenicity and toxicity, in the newborn mouse brain, a developmental period that parallels that of an early second-trimester human fetus. In infected mice, subcutaneous VCD reaches the brain and suppresses viral replication within the CNS, rescuing the animals from CMV-induced brain defects and neurological problems. Treatment of uninfected control animals exerts no detectable adverse effects. VCD also blocks CMV replication in human fetal brain cells.
Automated Industry Classification with Deep Learning

In this paper, we present a novel technique for industry classification. Leveraging EverString's API to construct a database of companies labeled with the industries to which they belong, we train a deep neural network to predict the industries of novel companies. We examine the capacity of our model to predict six-digit NAICS codes, as well as the ability of our model architecture to adapt to other industry segmentation schemas. Additionally, we investigate the ability of our model to generalize despite the presence of noise in the labels in our training set. Finally, we explore the possibility of increasing predictive precision by thresholding based on the confidence scores that our model outputs along with its predictions. We find that our approach yields six-digit NAICS code predictions that surpass the precision of gold-standard databases.
Glycyl-tRNA synthetase specifically binds to the poliovirus IRES to activate translation initiation

Adaptation to the host cell environment to efficiently take-over the host cell's machinery is crucial in particular for small RNA viruses like picornaviruses that come with only small RNA genomes and replicate exclusively in the cytosol. Their Internal Ribosome Entry Site (IRES) elements are specific RNA structures that facilitate the 5′ end-independent internal initiation of translation both under normal conditions and when the cap-dependent host protein synthesis is shut-down in infected cells. A longstanding issue is which host factors play a major role in this internal initiation. Here, we show that the functionally most important domain V of the poliovirus IRES uses tRNAGly anticodon stem–loop mimicry to recruit glycyl-tRNA synthetase (GARS) to the apical part of domain V, adjacent to the binding site of the key initiation factor eIF4G. The binding of GARS promotes the accommodation of the initiation region of the IRES in the mRNA binding site of the ribosome, thereby greatly enhancing the activity of the IRES at the step of the 48S initiation complex formation. Moonlighting functions of GARS that may be additionally needed for other events of the virus–host cell interaction are discussed.
Strip-based registration of serially acquired optical coherence tomography angiography

Abstract. The visibility of retinal microvasculature in optical coherence tomography angiography (OCT-A) images is negatively affected by the small dimension of the capillaries, pulsatile blood flow, and motion artifacts. Serial acquisition and time-averaging of multiple OCT-A images can enhance the definition of the capillaries and result in repeatable and consistent visualization. We demonstrate an automated method for registration and averaging of serially acquired OCT-A images. Ten OCT-A volumes from six normal control subjects were acquired using our prototype 1060-nm swept source OCT system. The volumes were divided into microsaccade-free en face angiogram strips, which were affine registered using scale-invariant feature transform keypoints, followed by nonrigid registration by pixel-wise local neighborhood matching. The resulting averaged images were presented of all the retinal layers combined, as well as in the superficial and deep plexus layers separately. The contrast-to-noise ratio and signal-to-noise ratio of the angiograms with all retinal layers (reported as average±standard deviation) increased from 0.52±0.22 and 19.58±4.04 dB for a single image to 0.77±0.25 and 25.05±4.73 dB, respectively, for the serially acquired images after registration and averaging. The improved visualization of the capillaries can enable robust quantification and study of minute changes in retinal microvasculature.
Sparsity-Driven Micro-Doppler Feature Extraction for Dynamic Hand Gesture Recognition

In this paper, a sparsity-driven method of micro-Doppler analysis is proposed for dynamic hand gesture recognition with radar sensors. First, sparse representations of the echoes reflected from dynamic hand gestures are achieved through the Gaussian-windowed Fourier dictionary. Second, the micro-Doppler features of dynamic hand gestures are extracted using the orthogonal matching pursuit algorithm. Finally, the nearest neighbor classifier is combined with the modified Hausdorff distance to recognize dynamic hand gestures based on the sparse micro-Doppler features. Experiments with real radar data show that the recognition accuracy produced by the proposed method exceeds 96% under moderate noise, and the proposed method outperforms the approaches based on principal component analysis and deep convolutional neural network with small training dataset.
Proprioceptive and cutaneous sensations in humans elicited by intracortical microstimulation

Pioneering work with nonhuman primates and recent human studies established intracortical microstimulation (ICMS) in primary somatosensory cortex (S1) as a method of inducing discriminable artificial sensation. However, these artificial sensations do not yet provide the breadth of cutaneous and proprioceptive percepts available through natural stimulation. In a tetraplegic human with two microelectrode arrays implanted in S1, we report replicable elicitations of sensations in both the cutaneous and proprioceptive modalities localized to the contralateral arm, dependent on both amplitude and frequency of stimulation. Furthermore, we found a subset of electrodes that exhibited multimodal properties, and that proprioceptive percepts on these electrodes were associated with higher amplitudes, irrespective of the frequency. These novel results demonstrate the ability to provide naturalistic percepts through ICMS that can more closely mimic the body’s natural physiological capabilities. Furthermore, delivering both cutaneous and proprioceptive sensations through artificial somatosensory feedback could improve performance and embodiment in brain-machine interfaces.
Improving Scrum Adoption with Gamification Completed Research

Despite the wide adoption of agile methodologies, software development teams still struggle to meet time, budget and scope, partially due to practitioners’ lack of motivation to apply agile techniques in practice. In this paper, we present a software tool based on gamification to make Scrum techniques more fun and engaging for practitioners. This paper presents the results of the first iteration of a larger research effort that follows the Design Science Research methodology, where a prototype was developed as a Jira Software app and evaluated with a Scrum team in practice. Results suggest that the team’s Scrum practices slightly improved after using the app, when compared against the baseline. Quantitative analysis and an interview with the Scrum Master allowed to understand that the proposal should be more challenging and the score system more customized. In the future, the app will be improved based on received feedback.
Hybrid Modeling Using I* and Agentspeak(L) Agents in Agent Oriented Software Engineering

In this paper we use i* which is a semi-formal modelling framework to model agent based applications. We then describe how we execute these models into AgentSpeak(L) agents to form the essential components of a multi-agent system. We show that by making changes to the i* model we can generate different executable multi-agent systems. We also describe reverse mapping rules to see how changes to agents in the multi-agent system gets reflected in i* model. This co-evolution of two models offers a novel approach for configuring and prototyping agent based systems.
Depth-Dependent Out-of-Plane Young’s Modulus of the Human Cornea

ABSTRACT Purpose/Aim: Despite their importance in accurate mechanical modeling of the cornea, the depth-dependent material properties of the cornea have only been partially elucidated. In this work, we characterized the depth-dependent out-of-plane Young’s modulus of the central and peripheral human cornea with high spatial resolution. Materials and Methods: Central and peripheral corneal buttons from human donors were subjected to unconfined axial compression followed by stress relaxation for 30 min. Sequences of fluorescent micrographs of full-thickness corneal buttons were acquired throughout the experiment to enable tracking of fluorescently labeled stromal keratocyte nuclei and measurements of depth-dependent infinitesimal strains. The nominal (gross) out-of-plane Young’s modulus and drained Poisson’s ratio for each whole specimen was computed from the equilibrium stress and overall tissue deformation. The depth-dependent (local) out-of-plane Young’s modulus was computed from the equilibrium stress and local tissue strain based on an anisotropic model (transverse isotropy). Results: The out-of-plane Young’s modulus of the cornea exhibited a strong dependence on in-plane location (peripheral versus central cornea), but not depth. The depth-dependent out-of-plane Young’s modulus of central and peripheral specimens ranged between 72.4–102.4 kPa and 38.3–58.9 kPa. The nominal out-of-plane Young’s modulus was 87 ± 41.51 kPa and 39.9 ± 15.28 kPa in the central and peripheral cornea, while the drained Poisson’s ratio was 0.05 ± 0.02 and 0.07 ± 0.04. Conclusions: The out-of-plane Young’s modulus of the cornea is mostly independent of depth, but not in-plane location (i.e. central vs. peripheral). These results may help inform more accurate finite element computer models of the cornea.
FACTORS INFLUENCING ORGANISATIONAL CULTURE : A CONSTRUCTION PROJECT PERSPECTIVE

In seeking to improve the processes and outputs of organisations in the construction industry, culture is an important consideration. Organisations need to be able to assess and understand their own culture, how it develops, and the possible consequences of their particular orientations. To this end, this study interrogates literature on factors influencing culture, examining these factors from a construction project perspective to gain useful insights into the manner in which the culture of construction project organisations (CPO) develops. Reviewing organisational culture theory and theory on ‘short life organisations,’ the study identifies the main projectdependent determinants of the organisational culture as composition of CPOs, project characteristics, Project Managers and dominant groups, significant events, procurement approach, goals and objectives, location, and project-independent determinants as macro-culture, business environment, recruitment, training, and technology. These factors are discussed in detail. A conceptual framework for examining how organisational culture develops in CPOs emerges from this discussion and with it, a number of hypotheses that will be tested in this on-going research.
The fate of silver nanoparticles in authentic human saliva

Abstract The physicochemical properties of silver nanoparticles (AgNPs) in human whole saliva are investigated herein. In authentic saliva samples, AgNPs exhibit a great stability with over 70% of the nanomaterial remaining intact after a 24-h incubation in the presence of ∼0.3 mM dissolved oxygen. The small loss of AgNPs from the saliva sample has been demonstrated to be a result of two processes: agglomeration/aggregation (not involving oxygen) and oxidative dissolution of AgNPs (assisted by oxygen). In authentic saliva, AgNPs are also shown to be more inert both chemically (silver oxidative dissolution) and electrochemically (electron transfer at an electrode) than in synthetic saliva or aqueous electrolytes. The results thus predict based on the chemical persistence (over a 24-h study) of AgNPs in saliva and hence the minimal release of hazardous Ag+ and reactive oxygen species that the AgNPs are less likely to cause serious harm to the oral cavity but this persistence may enable their transport to other environments.
A Novel Application of Empirical Mode Decomposition ( EMD ) to Fault Signal Analysis of Gears using LabVIEW

Empirical Mode Decomposition (EMD) is a signal analysis method for non-stationary vibration signal. In order to apply EMD in signal processing, a LabVIEW based programming methods is introduced. EMD is developed as a Visual Instrument (VI) and added into the main program as a sub-function to facilitate other fault diagnosis procedures. The proposed method is exploited for fault diagnosis of gear. Intrinsic mode functions (IMF) is extracted and its frequency spectrum is analyzed to de-noise and detect the fault information of gear. The proposed method is validated by simulation and fault gear test rig.
Soil and Water Assessment Tool model predictions of annual maximum pesticide concentrations in high vulnerability watersheds

Recent national regulatory assessments of potential pesticide exposure of threatened and endangered species in aquatic habitats have led to increased need for watershed‐scale predictions of pesticide concentrations in flowing water bodies. This study was conducted to assess the ability of the uncalibrated Soil and Water Assessment Tool (SWAT) to predict annual maximum pesticide concentrations in the flowing water bodies of highly vulnerable small‐ to medium‐sized watersheds. The SWAT was applied to 27 watersheds, largely within the midwest corn belt of the United States, ranging from 20 to 386 km2, and evaluated using consistent input data sets and an uncalibrated parameterization approach. The watersheds were selected from the Atrazine Ecological Exposure Monitoring Program and the Heidelberg Tributary Loading Program, both of which contain high temporal resolution atrazine sampling data from watersheds with exceptionally high vulnerability to atrazine exposure. The model performance was assessed based upon predictions of annual maximum atrazine concentrations in 1‐d and 60‐d durations, predictions critical in pesticide‐threatened and endangered species risk assessments when evaluating potential acute and chronic exposure to aquatic organisms. The simulation results showed that for nearly half of the watersheds simulated, the uncalibrated SWAT model was able to predict annual maximum pesticide concentrations within a narrow range of uncertainty resulting from atrazine application timing patterns. An uncalibrated model's predictive performance is essential for the assessment of pesticide exposure in flowing water bodies, the majority of which have insufficient monitoring data for direct calibration, even in data‐rich countries. In situations in which SWAT over‐ or underpredicted the annual maximum concentrations, the magnitude of the over‐ or underprediction was commonly less than a factor of 2, indicating that the model and uncalibrated parameterization approach provide a capable method for predicting the aquatic exposure required to support pesticide regulatory decision making. Integr Environ Assess Manag 2018;14:358–368. © 2017 The Authors. Integrated Environmental Assessment and Management published by Wiley Periodicals, Inc. on behalf of Society of Environmental Toxicology & Chemistry (SETAC)
Diagnosis of Celiac Disease and Environmental Enteropathy 3 Color Balancing Patches Clustering ( Removing useless patches ) Image Patching Validating CNN Construction of CNN Training

Celiac Disease (CD) and Environmental Enteropathy (EE) are common causes of malnutrition and adversely impact normal childhood development. CD is an autoimmune disorder that is prevalent worldwide and is caused by an increased sensitivity to gluten. Gluten exposure destructs the small intestinal epithelial barrier, resulting in nutrient mal-absorption and childhood under-nutrition. EE also results in barrier dysfunction but is thought to be caused by an increased vulnerability to infections. EE has been implicated as the predominant cause of under-nutrition, oral vaccine failure, and impaired cognitive development in low-and middle-income countries. Both conditions require a tissue biopsy for diagnosis, and a major challenge of interpreting clinical biopsy images to differentiate between these gastrointestinal diseases is striking histopathologic overlap between them. In the current study we propose a convolutional neural network (CNN) to classify duodenal biopsy images from subjects with CD, EE, and healthy controls. We evaluated the performance of our proposed model using a large cohort containing 1000 biopsy images. Our evaluations show that the proposed model achieves area under ROC of 0.99, 1.00, and 0.97 for CD, EE, and healthy controls, respectively. These results demonstrate the discriminative power of the proposed model in duodenal biopsies classification.
Miltefosine Lipid Nanocapsules for Single Dose Oral Treatment of Schistosomiasis Mansoni: A Preclinical Study

Miltefosine (MFS) is an alkylphosphocholine used for the local treatment of cutaneous metastases of breast cancer and oral therapy of visceral leishmaniasis. Recently, the drug was reported in in vitro and preclinical studies to exert significant activity against different developmental stages of schistosomiasis mansoni, a widespread chronic neglected tropical disease (NTD). This justified MFS repurposing as a potential antischistosomal drug. However, five consecutive daily 20 mg/kg doses were needed for the treatment of schistosomiasis mansoni in mice. The present study aims at enhancing MFS efficacy to allow for a single 20mg/kg oral dose therapy using a nanotechnological approach based on lipid nanocapsules (LNCs) as oral nanovectors. MFS was incorporated in LNCs both as membrane-active structural alkylphospholipid component and active antischistosomal agent. MFS-LNC formulations showed high entrapment efficiency (EE%), good colloidal properties, sustained release pattern and physical stability. Further, LNCs generally decreased MFS-induced erythrocyte hemolytic activity used as surrogate indicator of membrane activity. While MFS-free LNCs exerted no antischistosomal effect, statistically significant enhancement was observed with all MFS-LNC formulations. A maximum effect was achieved with MFS-LNCs incorporating CTAB as positive charge imparting agent or oleic acid as membrane permeabilizer. Reduction of worm load, ameliorated liver pathology and extensive damage of the worm tegument provided evidence for formulation-related efficacy enhancement. Non-compartmental analysis of pharmacokinetic data obtained in rats indicated independence of antischistosomal activity on systemic drug exposure, suggesting possible gut uptake of the stable LNCs and targeting of the fluke tegument which was verified by SEM. The study findings put forward MFS-LNCs as unique oral nanovectors combining the bioactivity of MFS and biopharmaceutical advantages of LNCs, allowing targeting via the oral route. From a clinical point of view, data suggest MFS-LNCs as a potential single dose oral nanomedicine for enhanced therapy of schistosomiasis mansoni and possibly other diseases.
Nocturnal bird diversity in forest fragments in north-west Ecuador

Abstract: Habitat preferences and response to habitat conversion remain under-studied for many groups in the tropics, limiting our understanding of how environmental and anthropogenic factors may interact to shape patterns of diversity. To help fill this knowledge gap, we surveyed nocturnal birds such as owls, nightjars and potoos through auditory transect surveys in 22 forest fragments (2.7 to 33.6 ha) in north-west Ecuador. We assessed the relative effect of habitat characteristics (e.g. canopy height and openness, and density of large trees) and fragment attributes (e.g. area, altitude and proportion of surrounding forest cover) on species richness and community composition. Based on our previous work, we predicted that nocturnal bird richness would be highest in relatively larger fragments with more surrounding forest cover. We recorded 11 total species with an average ± SD of 3.4 ± 1.4 (range = 2–7) species per fragment, with higher richness in fragments that were larger, at lower altitudes, and characterized by more open canopies. Nocturnal bird community similarity was not significantly correlated with any measured environmental variable. These results indicate that both landscape (e.g. altitude) and fragment-specific (e.g. size, forest structure) attributes are likely to interact to shape patterns of diversity among this poorly known but ecologically important guild in fragmented tropical landscapes.
Targeting effect on gait parameters in healthy individuals and post-stroke hemiparetic individuals

Background A targeting effect may occur in any gait analysis trial where the participant is instructed to step in a particular area or a clearly marked target is in their path. The targeting effect may affect the gait parameters and any variability being studied in regard to the participants. There are few studies examining this effect for healthy subjects and none for special populations. Methods This study aimed to investigate if any targeting effects occurred in healthy and stroke-survivor populations. Eight male participants were recruited, four of whom exhibited right-hand side hemiparesis resulting from stroke. Each participant performed a series of gait trials at a comfortable walking pace after being made aware of the force plate in the centre of the walkway. The participants gait was then analysed and compared before and after the target force plate. Results The results of the trials showed significant variations (p < 0.005) in the spatiotemporal gait parameters in both the healthy and stroke-survivor groups indicating a targeting effect. Conclusions The effects were similar in both groups with the step speed and length being slower and shorter for the targeting step compared to the step after the force plate.