Miracle-dz/UniFAR-FTUs huggingface dataset:
Regulation of Human Neurotropic JC Virus Replication by Alternative Splicing Factor SF2/ASF in Glial Cells

Background The human neurotropic virus, JC virus (JCV), is the etiologic agent of the fatal demyelinating disease of the central nervous system, Progressive Multifocal Leukoencephlopathy (PML) that is seen primarily in immunodeficient individuals. Productive infection of JCV occurs only in glial cells, and this restriction is, to a great extent, due to the activation of the viral promoter that has cell type-specific characteristics. Earlier studies led to the hypothesis that glial-specific activation of the JCV promoter is mediated through positive and negative transcription factors that control reactivation of the JCV genome under normal physiological conditions and suppress its activation in non-glial cells. Methodololgy/Principal Findings Using a variety of virological and molecular biological approaches, we demonstrate that the alternative splicing factor SF2/ASF has the capacity to exert a negative effect on transcription of the JCV promoter in glial cells through direct association with a specific DNA sequence within the viral enhancer/promoter region. Our results show that down-regulation of SF2/ASF in fetal and adult glial cells increases the level of JCV gene expression and its replication indicating that negative regulation of the JCV promoter by SF2/ASF may control reactivation of JCV replication in brain. Conclusions/Significance Our results establish a new regulatory role for SF2/ASF in controlling gene expression at the transcriptional level.
Gland Instance Segmentation by Deep Multichannel Neural Networks

In this paper, we propose a new image instance segmentation method that segments individual glands (instances) in colon histology images. This is a task called instance segmentation that has recently become increasingly important. The problem is challenging since not only do the glands need to be segmented from the complex background, they are also required to be individually identified. Here we leverage the idea of image-to-image prediction in recent deep learning by building a framework that automatically exploits and fuses complex multichannel information, regional, location and boundary patterns in gland histology images. Our proposed system, deep multichannel framework, alleviates heavy feature design due to the use of convolutional neural networks and is able to meet multifarious requirement by altering channels. Compared to methods reported in the 2015 MICCAI Gland Segmentation Challenge and other currently prevalent methods of instance segmentation, we observe state-of-the-art results based on a number of evaluation metrics.
Distributed versus face-to-face meetings for architecture evalution: a controlled experiment

Scenario-based methods for evaluating software architecture require a large number of stakeholders to be collocated for evaluation sessions. Collocating stakeholders is often an expensive exercise. To reduce expense, we have proposed a framework for supporting software architecture evaluation process using groupware systems. This paper presents a controlled experiment that we conducted to assess the effectiveness of scenario profile construction using distributed meetings. We used a cross-over experiment involving 32 teams of three 3rd and 4th year undergraduate students. We found that the quality of scenarios produced by distributed teams using a groupware tool were significantly better than the quality of scenarios produced by face-to-face teams (p<0.001). However, questionnaires indicated that most participants preferred the face-toface arrangement (82%) and 60% thought the distributed meetings were less efficient. We conclude that distributed meetings are extremely effective but that tool support must be of a high standard or participants will not find distributed meetings acceptable.
Process-variation-aware mapping of best-effort and real-time streaming applications to MPSoCs

As technology scales, the impact of process variation on the maximum supported frequency (FMAX) of individual cores in a multiprocessor system-on-chip (MPSoC) becomes more pronounced. Task allocation without variation-aware performance analysis can greatly compromise performance and lead to a significant loss in yield, defined as the percentage of manufactured chips satisfying the application timing requirement. We propose variation-aware task allocation for best-effort and real-time streaming applications modeled as task graphs. Our solutions are primarily based on the throughput requirement, which is the most important timing requirement in many real-time streaming applications. The four main contributions of this work are (1) distinguishing best-effort firm real-time and soft real-time application classes, which require different optimization criteria, (2) using dataflow graphs, which are well suited for modeling and analysis of streaming applications, we explicitly model task execution both in terms of clock cycles (which is independent of variation) and seconds (which does depend on the variation of the resource), which we connect by an explicit binding, (3) we present two optimization approaches, which give different improvement results at different costs, (4) we present both exhaustive and heuristic algorithms that implement the optimization approaches. Our variation-aware mapping algorithms are tested on models of seven real applications and are compared to mapping methods that are unaware of hardware variation. Our results demonstrate (1) improvements in the average performance (3% on average) for best-effort applications, and (2) for firm real-time and soft real-time applications, yield improvements of up to 27% with an average of 15%, showing the effectiveness of our approaches.
Depression During Hormonal Treatment Of Prostate Cancer

Prostate cancer is the most common malignancy in men, with the majority of cases detected after the seventh decade. 1 In the past treatment consisted of testosterone deprivation by orchiectomy or treatment with estrogen analogs. The recent introduction of the gonadotropin-releasing hormone analog, leuprolide, has made possible chemical castration by once-a-month intramuscular injection.2 Leuprolide is therefore being widely used. We report 3 patients who developed depression after initiation of leuprolide therapy.
Intersegmental Coordination of Central Neural Oscillators for Rhythmic Movements of the Walking Legs in Crayfish, Pacifastacus Leniusculus

The neuronal circuits underlying rhythmical movements of the walking legs in crayfish Pacifastacus leniusculns are organized into central oscillators within each thoracic hemiganglion. These segmental networks are coupled in different modes of coordination during activities such as walking and limb waving. This paper examines the nature of the coupling between hemisegmental oscillators in the absence of sensory feedback, and the effect of phasic input from a major limb proprioceptor. 1. In isolated preparations of the thoracic nerve cord, adjacent ipsilateral hemiganglia can generate a rhythmic motor output pattern in which homologous motor roots discharge approximately synchronously (the ‘in-phase’ rhythm). In contrast, contralateral hemiganglia show no evidence of any such phase-locking in their activity. 2. A single proprioceptor at the base of each limb, the thoracic-coxal muscle receptor organ (TCMRO), can influence the timing and intensity of the rhythmic output of two or more ipsilateral thoracic ganglia. Rhythmical stretch—release of the TCMRO of the fourth ganglion on one side can entrain the motor rhythms of both the third and fourth ipsilateral hemiganglia, in the in-phase pattern of coordination. 3. The TCMRO also elicits intra- and intersegmental reflexes during expression of the in-phase motor rhythm. These reflexes are centrally modulated in a phasedependent manner. Thus mechanical stimulation of the TCMRO co-activates homologous sets of motoneurones in adjacent ipsilateral hemiganglia only during their active (spiking) phase in the motor rhythm. We discuss the implications of these results for the generation and coordination of walking and other rhythmic behaviour of the thoracic limbs in decapod Crustacea. Our data shed further light on the properties of the motor rhythm generator for walking in crayfish, and suggest that the concept of a central pattern generator cannot be rigorously applied in this system. Note: Present address: Department of Zoology, University of Bristol, Woodland Road, Bristol, BS8 1UG, UK. Present address: CNRS Laboratoire de Neurobiologie et Physiologie Comparees, Universite de Bordeaux I, Place du Dr Peyneau, Arcachon, 33120, France.
Real-Time EEG-Based Happiness Detection System

We propose to use real-time EEG signal to classify happy and unhappy emotions elicited by pictures and classical music. We use PSD as a feature and SVM as a classifier. The average accuracies of subject-dependent model and subject-independent model are approximately 75.62% and 65.12%, respectively. Considering each pair of channels, temporal pair of channels (T7 and T8) gives a better result than the other area. Considering different frequency bands, high-frequency bands (Beta and Gamma) give a better result than low-frequency bands. Considering different time durations for emotion elicitation, that result from 30 seconds does not have significant difference compared with the result from 60 seconds. From all of these results, we implement real-time EEG-based happiness detection system using only one pair of channels. Furthermore, we develop games based on the happiness detection system to help user recognize and control the happiness.
Bone scintigraphic patterns in patients of tumor induced osteomalacia

Tumor induced osteomalacia (TIO) or oncogenic osteomalacia is a rare condition associated with small tumor that secretes one of the phosphaturic hormones, i.e., fibroblast growth factor 23, resulting in abnormal phosphate metabolism. Patients may present with non-specific symptoms leading to delay in the diagnosis. Extensive skeletal involvement is frequently seen due to delay in the diagnosis and treatment. The small sized tumor and unexpected location make the identification of tumor difficult even after diagnosis of osteogenic osteomalacia. The bone scan done for the skeletal involvement may show the presence of metabolic features and the scan findings are a sensitive indicator of metabolic bone disorders. We present the bone scan findings in three patients diagnosed to have TIO.
Hedonic Quality: The Inference and perspective processing approach.

This paper replicates a study made by Tuch et al. (2012), investigating the role of visual complexity (VC) and prototypicality (PT) as website design factors, on shaping users’ hedonic quality (HQ) judgments. During this study 76 website varying in VC and PT were randomly presented and rated on perceived HQ. These 76 websites were rated four times for varying presentation-times, 17, 33, 500 and without limit. Results showed that VC and PT affected HQ judgments, even when websites were presented for 17 ms. As presentation-times increase, the effect of VC declines steadily, supporting the reasoning of the information-processing stage model of aesthetic processing (Leder et al., 2004) that information is processed in different stages. As presentation-times increase the effect of PT remains stable, contradicting the stage model by Leder et al. (2004). Websites with low VC and high PT received high HQ ratings, especially when presentation-times were higher. Overall, it seems that HQ judgment is formed in a somewhat different fashion than beauty judgment, contradicting the occurrence of an inference effect as supposed by Hassenzahl & Monk (2010).
Detection of interleukin 8 and tumor necrosis factor in normal humans after intravenous endotoxin: the effect of antiinflammatory agents

Interleukin 8 (IL-8), a potent activator of neutrophils, may be important in the early host response to serious Gram-negative infections. IL-8 was measured with other acute phase cytokines (tumor necrosis factor alpha [TNF-alpha], IL-6 and IL-1 beta) in 25 normal humans randomized to receive either intravenous endotoxin alone or endotoxin after oral administration of ibuprofen or pentoxifylline, agents that alter some of the inflammatory responses induced by endotoxin in vitro. TNF immunoreactivity was maximum at 1.5 h, and total TNF (area under the curve) was 4.2- and 4.5-fold greater in subjects given endotoxin/ibuprofen compared to subjects given endotoxin alone (p = 0.026) or endotoxin/pentoxifylline (p = 0.004), respectively. IL-6 levels were maximum at 2-3 h and did not differ among the three groups. No IL-1 beta was detected in any subject. IL-8 levels peaked at 2 h in subjects given either endotoxin alone or endotoxin/pentoxifylline, falling towards baseline by 5 h. Subjects given endotoxin/ibuprofen had a more sustained rise in IL-8 with peak levels 2.8- and 2.5-fold higher at 3 h compared to endotoxin alone (p = 0.048) or endotoxin/pentoxifylline (p = 0.023), respectively. Differences in total IL-8 release among groups approached statistical significance (ANOVA, p = 0.07). This trend reflected the increased release of IL-8 by the subjects receiving ibuprofen compared to pentoxifylline (1.9-fold higher; p = 0.024). This suggests that cyclooxygenase products may provide important negative feedback loops for cytokine production in vivo. Increases in circulating IL-8 are part of the acute inflammatory response of humans to endotoxin. Altered cytokine responses caused by antiinflammatory therapy may have important implications for both host defense and injury during septicemia.
Importance of Religion and Spirituality in the Lives of African Americans, Caribbean Blacks and Non-Hispanic Whites

Abstract:This study examined the importance of spirituality and religion in daily life (i.e., only religion, only spirituality, both religion and spirituality, and neither religion nor spirituality) among a nationally representative sample of African Americans, Caribbean Blacks and non-Hispanic Whites. A majority in each group felt they were both important, suggesting the constructs are largely congruent. However, African Americans and Caribbean Blacks were more likely than Whites to indicate "both religion and spirituality" are important and less likely to indicate "only spirituality" or "neither" is important. These findings and others are discussed in relation to previous research on spirituality and religiosity. Practice implications for the use of spirituality and religiosity to promote student well-being are also discussed.
Immune correlates for dengue vaccine development

ABSTRACT Dengue virus is the leading cause of vector-borne viral disease with four serotypes in circulation. Vaccine development has been complicated by the potential for both protection and disease enhancement during heterologous infection. Secondary infection triggers cross-reactive immune memory responses that have varying functional and epitope specificities that determine protection or risk. Strongly neutralizing antibodies to quaternary epitopes may be especially important for virus neutralization. Cell-mediated immunity dominated by Th1 functions may also play an important role. Determining an immune correlate of protection or risk would be highly beneficial for vaccine development but is hampered by mechanistic uncertainties and assay limitations. Clinical efficacy trials and human infection models along with a systems approach may provide future opportunities to elucidate such correlates.
Congenital Hypothyroidism: Optimal Initial Dosage and Time of Initiation of Treatment: A Systematic Review

Context Appropriate management of neonates, tested positive for congenital hypothyroidism (CH), in particular, the initial dosage of levothyroxine and the time of initiation of treatment is a critical issue. The aim of this study was to assess all current evidence available on the subject to ascertain the optimal initial dose and optimal initiation time of treatment for children with CH. Evidence Acquisition In this study, all published research related to the initiation treatment dose and the onset time of treatment in congenital hypothyroidism were reviewed. The searched electronic databases included Medline, Science direct, Scopus EMBASE, PsycINFO, Cochrane, BIOSIS and ISI Web of Knowledge. Additional searches included websites of relevant organizations, reference lists of included studies, and issues of major thyroid and pediatrics journals published within the past 35 years. Studies were included if they were written in English and investigated levothyroxine dose or timing of treatment or both, used for the treatment of children with congenital hypothyroidism. Results Two thousand three hundred and seventy-four articles (excluding duplicates) were retrieved from the primary search. After reviewing the titles, abstracts and full-texts of studies, eventually, 22 studies were found that met our inclusion criteria. Amongst these, 17 and 12 evaluated outcomes of different treatment doses and treatment timing, respectively. Overall, the majority of these studies emphasized the initial high dose of levothyroxine and early treatment of newborns with hypothyroidism. There were, however, some studies that disagreed with increasing levothyroxine dose at initiation of treatment. Conclusions Considering the results of this review, apparently there is no difference in opinion regarding the early initiation of treatment, whereas determining the optimal dose of levothyroxine for start of treatment in CH patients still remains a controversial issue, demonstrating the need for further studies, despite the fact that use of high doses can lead to rapid normalization of biochemical indices, although this may cause complications.
Angular upsampling of projection measurements in 3D computed tomography using a sparsity prior

We propose an algorithm for angular upsampling of the projections in 3D computed tomography (CT). The central assumption of the proposed method is that small blocks extracted from stacked projections have a sparse representation in an overcomplete dictionary. We present methods for fast solution of the optimization problems involved and apply the proposed algorithm on simulated and real projections. Our results show that upsampling of the projections with the proposed method can lead to a significant improvement in the quality of the reconstructed image.
The Effects of Ouabain on Induction of Atrioventricular Nodal Re‐entrant Paroxysmal Supraventricular Tachycardia

Electrophysiological studies utilizing His bundle recordings and atrial extra-stimulus technique were performed in 17 patients (pts) with documented paroxysmal supraventricular tachycardia (PSVT) before and after 0.01 mg/kg, i.v. , ouabain. Before ouabain, echo zones (EZ) were demonstrated in 11 patients. After ouabain, EZ were abolished in two, decreased in five, unchanged in three, and increased in one. In one patient, EZ was demonstrated only after ouabain. Eleven patients could sustain PSVT before ouabain; after ouabain, only six patients could sustain PSVT. Analysis of A1-A2 H1-H2, curves revealed 11 patients with discontinuous (dual pathway) and six patients with smooth conduction curves. In dual pathway patients, both the fast and slow pathway curves were shifted rightward and upward after ouabain. The changes in EZ were dependent upon the relative rightward shifts of the two pathways. In patients with smooth curves, EZ tended to shift rightward with a critical A-H being achieved at longer A1-A2 intervals after ouabain. In conclusion, the effects of ouabain on PSVT were variable. Beneficial effects included abolition or decrease of EZ and loss of the ability to sustain PSVT. Potentially deleterious effects included widening or new development of EZ.
Heme Oxygenase-1 Deficiency Accelerates Formation of Arterial Thrombosis Through Oxidative Damage to the Endothelium, Which Is Rescued by Inhaled Carbon Monoxide

Heme oxygenase (HO)-1 (encoded by Hmox1) catalyzes the oxidative degradation of heme to biliverdin and carbon monoxide. HO-1 is induced during inflammation and oxidative stress to protect tissues from oxidative damage. Because intravascular thrombosis forms at sites of tissue inflammation, we hypothesized that HO-1 protects against arterial thrombosis during oxidant stress. To investigate the direct function of HO-1 on thrombosis, we used photochemical-induced vascular injury in Hmox1−/− and Hmox1+/+ mice. Hmox1−/− mice developed accelerated, occlusive arterial thrombus compared with Hmox1+/+ mice, and we detected several mechanisms accounting for this antithrombotic effect. First, endothelial cells in Hmox1−/− arteries were more susceptible to apoptosis and denudation, leading to platelet-rich microthrombi in the subendothelium. Second, tissue factor, von Willebrand Factor, and reactive oxygen species were significantly elevated in Hmox1−/− mice, consistent with endothelial cell damage and loss. Third, following transplantation of Hmox1−/− donor bone marrow into Hmox1+/+ recipients and subsequent vascular injury, we observed rapid arterial thrombosis compared with Hmox1+/+ mice receiving Hmox1+/+ bone marrow. Fourth, inhaled carbon monoxide and biliverdin administration rescued the prothrombotic phenotype in Hmox1−/− mice. Fifth, using a transcriptional analysis of arterial tissue, we found that HO-1 determined a transcriptional response to injury, with specific effects on cell cycle regulation, coagulation, thrombosis, and redox homeostasis. These data provide direct genetic evidence for a protective role of HO-1 against thrombosis and reactive oxygen species during vascular damage. Induction of HO-1 may be beneficial in the prevention of thrombosis associated with vascular oxidant stress and inflammation.
Alcohol intake increases human immunodeficiency virus type 1 replication in human peripheral blood mononuclear cells.

The effects of alcohol consumption on various T lymphocyte subset functions and on the degree of susceptibility of peripheral blood mononuclear cells (PBMC) to human immunodeficiency virus (HIV) type 1 infection and replication in vitro were investigated. PBMC from 60 HIV-1-seronegative healthy volunteers were studied before and after ingestion of alcohol beverages. After alcohol consumption, there was significantly increased HIV-1 replication (P < .001) in PBMC, as determined by HIV-1 p24 antigen levels in the culture supernatants, than in cultures obtained before alcohol ingestion. There was a decreased ability of lymphocytes, obtained after alcohol consumption, to produce interleukin-2 and soluble immune response suppressor activity after stimulation with concanavalin A. The data show that alcohol ingestion increases HIV-1 replication in human PBMC infected with HIV-1 in cell culture. This may be due to alcohol-induced functional impairment of various subsets of lymphocytes in the peripheral blood. Thus, HIV-1 replication may be augmented by alcohol in HIV-1-infected individuals, and alcohol intake may increase an individual's risk for acquiring HIV-1 infection.
Mentoring: A Learning Collaboration.

Mentoring has been a focus for individual career development since the mid-1980s when researchers and human resource administrators began to pay attention to its benefits. Research has shown that successful mentoring relationships can assist individuals in learning the ropes at an organization; increase career satisfaction, salaries, and influence in the organization; and decrease turnover rates.1 Over the years, the concept of mentoring has changed dramatically, particularly as the job environment has changed.2 The presumed definition of mentoring as a one-on-one relationship between a senior member and a junior member of the same organization has expanded to include different types of relationships. Today’s literature explores mentoring as a peer relationship that has expanded to include relationships within professions, not just those within the organization.3