Miracle-dz/UniFAR-FTUs huggingface dataset:
Photoperiodic responses of four wild-trapped desert rodent species.

The purpose of this study was to examine the effect of the photoperiod on reproductive status and body and lipid masses in four Egyptian desert rodent species ( Dipodillus dasyurus, Acomys cahirinus, Gerbillus andersoni, and Gerbillus pyramidum). Adult males and females were housed in long days for 11 wk. At that time, one-half of the animals were killed and the remaining animals were moved to short days (SDs) for 11 wk. Some individuals of Gerbillus andersoni and Gerbillus pyramidum had access to running wheels. Testes index and spermatogenesis, but not testis mass, were decreased in all species in SDs. In contrast, SDs did not affect female reproductive status in all species. Exercise stimulated spermatogenesis but did not affect female reproductive status. SDs increased body and lipid masses in male Acomys cahirinus, but not in other species. Collectively, these desert rodent species were responsive to day length changes, but these changes alone did not induce robust alterations in reproductive status and body and lipid masses.
Architecture of the ORION Next-Generation Database System

Various architectural components of ORION-1 and ORION-1SX are described and a review of the current implementation is provided. The message handler receives all messages sent to the ORION system. The object subsystem provides high-level data management functions, including query optimization, schema management, long data management (including text search) and support for versionable objects, composite objects, and multimedia objects. The transaction management subsystem coordinates concurrent object accesses and provides recovery capabilities. The storage subsystem manages persistent storage of objects and controls the flow of objects between the secondary storage device and main memory buffers. In ORION-1, all subsystems reside in one computer. The ORION-1SX architecture is significantly different from ORION-1 in the management of shared data structures and distribution of these subsystems and their components. >
A Comparative Study for Predicting Heart Diseases Using Data Mining Classification Methods

Improving the precision of heart diseases detection has been investigated by many researchers in the literature. Such improvement induced by the overwhelming health care expenditures and erroneous diagnosis. As a result, various methodologies have been proposed to analyze the disease factors aiming to decrease the physicians practice variation and reduce medical costs and errors. In this paper, our main motivation is to develop an effective intelligent medical decision support system based on data mining techniques. In this context, five data mining classifying algorithms, with large datasets, have been utilized to assess and analyze the risk factors statistically related to heart diseases in order to compare the performance of the implemented classifiers (e.g., Naive Bayes, Decision Tree, Discriminant, Random Forest, and Support Vector Machine). To underscore the practical viability of our approach, the selected classifiers have been implemented using MATLAB tool with two datasets. Results of the conducted experiments showed that all classification algorithms are predictive and can give relatively correct answer. However, the decision tree outperforms other classifiers with an accuracy rate of 99.0% followed by Random forest. That is the case because both of them have relatively same mechanism but the Random forest can build ensemble of decision tree. Although ensemble learning has been proved to produce superior results, but in our case the decision tree has outperformed its ensemble version.
Conscious sedation in critically ill patients is associated with stressors perception lower than assessed by caregivers.

BACKGROUND In ICU, the stay is frequently a stressful experience. Caregivers may help to understand patients' perceptions; however, their reliability is uncertain. Despite the recent recommendations of lighter sedation targets, little is known about the impact of "conscious sedation" on ICU patients memories. Purpose of this prospective, observational study is to analyze the stress perception in consciously-sedated ICU-patients, comparing it to caregivers and staff members. METHODS Twenty-nine high-risk ICU-patients treated with awake/cooperative sedation were enrolled. Before discharge, patients received a validated questionnaire for ICU stressors evaluation, also administered to their main caregiver (N.=29), to caregivers of other ICU patients not enrolled in the study (N.=33) and to staff members (ICU nurses, attending physicians, residents, medical students, N.=56). RESULTS Total stress score was: patients 141±41, patient relatives 210±63, other relatives: 202±73, ICU staff: 232±44, P<0.001. Among patients, older age (P=0.031), longer ICU-stay (P=0.018) and awake-sedation (P=0.022) were associated with lower stress; sex and illness severity had no effect; mechanical ventilation length (P=0.021) and agitation (P=0.029) were associated with higher stress. Nurses tended to overestimate stressors more than attending physicians and trainees. Within staff members, age (P=0.021) and years of experience (P=0.069) were positively associated with overestimation. CONCLUSIONS Conscious sedation is associated with stress perception lower than stress assessed by caregivers: relatives and staff members tend to overestimate ICU patient stress, more so with increasing age or expertise. A number of stressors underestimated by staff and families could be target of specific interventions to ameliorate quality of life during ICU stay.
The effect of nurses’ empowerment perceptions on job safety behaviours: a research study in Turkey

Objective. This study aimed to investigate the effect of nurses’ empowerment perceptions on job safety behaviours. Methods. A survey of 377 nurses working in five hospitals in Turkey was conducted using the conditions of work effectiveness questionnaire, psychological empowerment instrument, universal precautions compliance scale and occupational health and safety obligations compliance scale. Relations between variables were tested using Pearson's correlation and path analysis. Results. There was a moderate and statistically significant relationship between psychological and structural empowerment and complying with universal safety measures and meeting occupational health and safety obligations. Also, an increase of 1 unit on the level of psychological empowerment was found to correspond to an increase of 0.37 units on the level of universal precautions compliance and to an increase of 0.46 units on the level of occupational health and safety obligations compliance. As such, an increase of 1 unit in structural empowerment corresponds to an increase of 0.53 units on the level of universal precautions compliance and to an increase of 0.36 units (total effect) on the level of occupational health and safety obligations compliance. Conclusions. The findings reveal that empowerment is a valuable tool for nurses’ positive job safety behaviours.
Revisiting Knowledge Transfer for Training Object Class Detectors

We propose to revisit knowledge transfer for training object detectors on target classes from weakly supervised training images, helped by a set of source classes with bounding-box annotations. We present a unified knowledge transfer framework based on training a single neural network multi-class object detector over all source classes, organized in a semantic hierarchy. This generates proposals with scores at multiple levels in the hierarchy, which we use to explore knowledge transfer over a broad range of generality, ranging from class-specific (bycicle to motorbike) to class-generic (objectness to any class). Experiments on the 200 object classes in the ILSVRC 2013 detection dataset show that our technique (1) leads to much better performance on the target classes (70.3% CorLoc, 36.9% mAP) than a weakly supervised baseline which uses manually engineered objectness [11] (50.5% CorLoc, 25.4% mAP). (2) delivers target object detectors reaching 80% of the mAP of their fully supervised counterparts. (3) outperforms the best reported transfer learning results on this dataset (+41% CorLoc and +3% mAP over [18, 46], +16.2% mAP over [32]). Moreover, we also carry out several across-dataset knowledge transfer experiments [27, 24, 35] and find that (4) our technique outperforms the weakly supervised baseline in all dataset pairs by 1.5 Ã— - 1. 9Ã—, establishing its general applicability.
Specific Gene- and MicroRNA-Expression Pattern Contributes to the Epithelial to Mesenchymal Transition in a Rat Model of Experimental Colitis

The aim of this study was to determine the gene- and microRNA-expression profile contributing to epithelial to mesenchymal transition in a rat model of experimental colitis. For this, inflammation was induced by injecting 2,4,6-trinitrobenzene sulphonic acid to the colon of male Wistar rats. Samples were taken from both inflamed and uninflamed regions of the same colon, total RNA was isolated, and the mRNA and microRNA expressions were monitored. We have determined that the expression of genes responsible for inducing mesenchymal phenotype, such as Egr1, Fgf2, Fgf7, Jak2, Notch2, Hif1α, Zeb2, Mmp9, Lox, and Vim, was all significantly induced in the inflamed regions of the affected colons while the epithelial marker E-cadherin (Cdh1) was downregulated. In contrast, the expression of microRNAs miR-192, miR-143, miR-375, miR-30a, miR-107, and miR-200b responsible for the regulation of the above mentioned genes was significantly downregulated in inflamed colon. Importantly, we detected moderate induction in the expression of five out of six tested microRNAs in the uninflamed regions. In summary, we identified numerous interacting genes and microRNAs with mutually exclusive expression pattern in inflamed regions of colitis-induced rats. These findings suggest that—among others—an important step in the epithelial to mesenchymal transition in experimental colitis is the dysregulated microRNA expression.
Circadian Contrasts in Heart Rate Variability Associated With Posttraumatic Stress Disorder Symptoms in a Young Adult Cohort.

Prior research has demonstrated that individuals exposed to trauma have shown impaired autonomic function. We sought to determine if heart rate variability (HRV), a marker of impaired autonomic function, differed across periods of wake, rest, and sleep as a function of the level of symptoms of posttraumatic stress disorder (PTSD). A sample of young adults (N = 209), 95 of whom met full criteria for current PTSD based on the Clinician Administered PTSD Scale (CAPS; Blake et al., 1995), were evaluated for ≈ 24 hr using actigraphy and electrocardiogram. Actigraphy data were categorized as active, rest, or sleep. Multilevel modeling analyses showed that individuals with high PTSD symptom severity had lower high-frequency HRV than individuals with low PTSD symptom severity during periods of sleep, t(1083) = 2.20, p = . 028, Cohen's d = 0.12. No differences were found during periods of activity, t(1083) = 1.34, p = . 499, d = 0.05, or rest, t(1083) = 1.34, p = . 180, d = 0.09. Our findings extended the import of prior studies to suggest that those with elevated PTSD symptoms may have decreased parasympathetic control during sleep. Moreover, relative to periods of wake and rest, sleep may represent a state of increased vulnerability for decreased parasympathetic cardiac control. Individuals with elevated PTSD symptoms may benefit from early screening for detection of cardiovascular disease.
An attempt at revisiting the factor structure of the Dysexecutive Questionnaire in the Chinese setting

This study examined the factor structure of the Chinese version of the Dysexecutive Questionnaire (DEX) in a large nonclinical sample of college students (n = 1,586). All participants completed the self-report version of the DEX. An exploratory factor analysis was first performed on a sub-sample (randomly split, n = 766) and produced a four-factor model (Volition, Intentionality, Inhibition, and Abstract Problem-Solving), which was similar to previous models reported in Western samples. In addition, a series of confirmatory factor analyses was conducted on the remaining sample (n = 820). The findings suggested that a four-factor solution of the self-report DEX might better explain the latent structure in the present healthy Chinese sample.
Evaluating the potential for undesired genomic effects of the piggyBac transposon system in human cells

Non-viral transposons have been used successfully for genetic modification of clinically relevant cells including embryonic stem, induced pluripotent stem, hematopoietic stem and primary human T cell types. However, there has been limited evaluation of undesired genomic effects when using transposons for human genome modification. The prevalence of piggyBac(PB)-like terminal repeat (TR) elements in the human genome raises concerns. We evaluated if there were undesired genomic effects of the PB transposon system to modify human cells. Expression of the transposase alone revealed no mobilization of endogenous PB-like sequences in the human genome and no increase in DNA double-strand breaks. The use of PB in a plasmid containing both transposase and transposon greatly increased the probability of transposase integration; however, using transposon and transposase from separate vectors circumvented this. Placing a eGFP transgene within transposon vector backbone allowed isolation of cells free from vector backbone DNA. We confirmed observable directional promoter activity within the 5′TR element of PB but found no significant enhancer effects from the transposon DNA sequence. Long-term culture of primary human cells modified with eGFP-transposons revealed no selective growth advantage of transposon-harboring cells. PB represents a promising vector system for genetic modification of human cells with limited undesired genomic effects.
Non-B-Form DNA Is Enriched at Centromeres

Abstract Animal and plant centromeres are embedded in repetitive “satellite” DNA, but are thought to be epigenetically specified. To define genetic characteristics of centromeres, we surveyed satellite DNA from diverse eukaryotes and identified variation in <10‐bp dyad symmetries predicted to adopt non‐B‐form conformations. Organisms lacking centromeric dyad symmetries had binding sites for sequence‐specific DNA‐binding proteins with DNA‐bending activity. For example, human and mouse centromeres are depleted for dyad symmetries, but are enriched for non‐B‐form DNA and are associated with binding sites for the conserved DNA‐binding protein CENP‐B, which is required for artificial centromere function but is paradoxically nonessential. We also detected dyad symmetries and predicted non‐B‐form DNA structures at neocentromeres, which form at ectopic loci. We propose that centromeres form at non‐B‐form DNA because of dyad symmetries or are strengthened by sequence‐specific DNA binding proteins. This may resolve the CENP‐B paradox and provide a general basis for centromere specification.
Optical π phase shift created with a single-photon pulse

A single-photon pulse creates a π phase shift for another light pulse, which is important for optical quantum computation. A deterministic photon-photon quantum logic gate is a long-standing goal. Building such a gate becomes possible if a light pulse containing only one photon imprints a phase shift of π onto another light field. We experimentally demonstrate the generation of such a π phase shift with a single-photon pulse. A first light pulse containing less than one photon on average is stored in an atomic gas. Rydberg blockade combined with electromagnetically induced transparency creates a phase shift for a second light pulse, which propagates through the medium. We measure the π phase shift of the second pulse when we postselect the data upon the detection of a retrieved photon from the first pulse. This demonstrates a crucial step toward a photon-photon gate and offers a variety of applications in the field of quantum information processing.
Role of central IL-1 in regulating peripheral IGF-I during endotoxemia and sepsis.

Inflammatory cytokines may mediate the host response to infection via central nervous system, endocrine, and/or paracrine/autocrine signaling mechanisms. Previous studies have shown that intravenous administration of interleukin (IL)-1β alters the concentration of the anabolic hormone insulin-like growth factor (IGF)-I in plasma and various tissues. The purpose of the present study was to determine 1) whether the intracerebroventricular injection of IL-1β can influence peripheral IGF-I levels in control animals and 2) whether the central administration of a IL-1 receptor antagonist (IL-1ra) can prevent the changes in peripheral IGF-I induced by endotoxin [lipopolysaccharide (LPS)] or sepsis produced by cecal ligation and puncture. In the first experiment, injection of IL-1β (100 ng/rat) decreased IGF-I levels in plasma, liver, and gastrocnemius muscle 28-36% by 1.5 h in conscious fasted rats. IGF-I levels remained reduced at 3 h, but returned to baseline by 6 h. IGF-I content was not altered in soleus, kidney, spleen, intestine, or whole brain after IL-1β. In the second series of experiments, LPS injected intravenously decreased IGF-I levels in plasma, liver, and gastrocnemius at 1.5 h, and levels were even further reduced at 3 and 6 h in these tissues (59, 57, and 48%, respectively). Moreover, the IGF-I content was also decreased in soleus (30-35%) and increased in kidney (2- to 3-fold) after LPS. In the third experiment, changes in IGF-I levels in plasma and tissues, similar to those seen in LPS-treated rats, were detected 24 h after induction of peritonitis. Intracerebroventricular infusion of IL-1ra did not alter any of the changes in IGF-I produced by either LPS or sepsis, although it did attenuate the concomitant changes in growth hormone levels. These data suggest that, although central IL-1β is capable of modulating peripheral IGF-I levels, central administration of IL-1ra was unable to modulate the changes in peripheral IGF-I in blood and tissues produced by either endotoxemia or peritonitis.
Strain-associated differences in hypoxic chemosensitivity of the carotid body in rats.

Studies in humans indicate genetic effects on the ventilatory response to hypoxia, but the site of these effects is unknown. The present study explores the question of whether there are genetically directed effects on the intrinsic hypoxic chemosensitivity of the carotid body. The approach was to study these responses in two inbred rat strains [spontaneously hypertensive rats (SHR) and Fischer 344 (F-344)] and to measure in vivo carotid chemosensitivity as the change in carotid sinus nerve (CSN) activity during progressive, isocapnic hypoxia and the isolated, in vitro responses of excised superfused carotid bodies, loaded with the fluorimetric indicator fura 2, measured as the cytosolic calcium response to moderate hypoxia ([Formula: see text] = 55 mmHg). CSN responses in F-344 rats ( n = 12) were uniformly low, with a shape parameter A of 13.8 ± 6.59 (SE), whereas responses in SHR ( n = 15) were sevenfold higher (108 ± 24.1; P < 0.002) and showed greater variation. In vitro, intracellular calcium responses of superfused carotid bodies estimated from the fluorimetric ratio (340/380 nm) showed a greater peak increase during hypoxia in carotid bodies from SHR (140 ± 4.7%) than from F-344 rats (114 6.0%; P < 0.01). Our results indicate strain-related differences in hypoxic chemosensitivity that are intrinsic to the carotid body and that could mediate genetic effects on ventilatory responsiveness to hypoxia.
Discrete torsion orbifolds and D-branes II

The consistency of the orbifold action on open strings between D-branes in orbifold theories with and without discrete torsion is analysed carefully. For the example of the C^3/Z_2 x Z_2 theory, it is found that the consistency of the orbifold action requires that the D-brane spectrum contains branes that give rise to a conventional representation of the orbifold group as well as branes for which the representation is projective. It is also shown how the results generalise to the orbifolds C^3/Z_N x Z_N for which a number of novel features arise. In particular, the N>2 theories with minimal discrete torsion have non-BPS branes charged under twisted R-R potentials that couple to none of the (known) BPS branes.
eDNA from roots: a robust tool for determining Phytophthora communities in natural ecosystems

Proper isolation and identification of Phytophthora species is critical due to their broad distribution and huge impact on natural ecosystems throughout the world. In this study, five different sites were sampled and seven methods were compared to determine the Phytophthora community. Three traditional isolation methods were conducted (i) soil baiting, (ii) filtering of the bait water and (iii) isolation from field roots using Granny Smith apples. These were compared to four sources of eDNA used for metabarcoding using Phytophthora-specific primers on (i) sieved field soil, (ii) roots from field, (iii) filtered baiting water and (iv) roots from bait plants grown in the glasshouse in soil collected from these sites. Six Phytophthora species each were recovered by soil baiting using bait leaves and from the filtered bait water. No Phytophthora species were recovered from Granny Smith apples. eDNA extracted from field roots detected the highest number of Phytophthora species (25). These were followed by direct DNA isolation from filters (24), isolation from roots from bait plants grown in the glasshouse (19), and DNA extraction from field soil (13). Therefore, roots were determined to be the best substrate for detecting Phytophthora communities using eDNA.
Rhinovirus infection of primary cultures of human tracheal epithelium: role of ICAM-1 and IL-1β.

Exacerbations of asthma are often associated with respiratory infection caused by rhinoviruses. To study the effects of rhinovirus infection on respiratory epithelium, a primary target for respiratory viruses, human rhinovirus (HRV)-2 and HRV-14 were infected to primary cultures of human tracheal epithelial cells. Viral infection was confirmed by showing that viral titers of supernatants and lysates from infected cells increased with time and by polymerase chain reaction. HRV-2 and HRV-14 infections upregulated the expression of intercellular adhesion molecule-1 (ICAM-1) mRNA, the major rhinovirus receptor, on epithelial cells, and they increased the production of interleukin (IL)-1β, IL-6, IL-8, and tumor necrosis factor (TNF)-α in supernatants. Antibodies to ICAM-1 inhibited HRV-14 infection of epithelial cells and decreased the production of cytokines after HRV-14 infection, but they did not alter HRV-2 infection-induced production of cytokines. IL-1β upregulated ICAM-1 mRNA expression and increased susceptibility to HRV-14 infection, whereas other cytokines failed to alter ICAM-1 mRNA expression. Furthermore, a neutralizing antibody to IL-1β significantly decreased viral titers of supernatants and ICAM-1 mRNA expression after HRV-14 infection, but a neutralizing antibody to TNF-α was without effect. Immunohistochemical studies revealed that both HRV-14 infection and IL-1β increased ICAM-1 expression on cultured epithelial cells. These findings imply that HRV-14 infection upregulated ICAM-1 expression on epithelial cells through increased production of IL-1β, thereby increasing susceptibility to infection. These events may be important for amplification of airway inflammation after viral infection in asthma.