Miracle-dz/UniFAR-FTUs huggingface dataset:
Characterization of Hospitalized Ischemic Stroke Patients in Palestine

Objective: Stroke is a major health problem, yet no studies on stroke have been reported from Palestine. This one-year, hospital-based study was conducted to determine the prevalence of risk factors and the in-hospital mortality rate in patients with ischemic stroke. Method: All patients admitted to Al-Watani government hospital and diagnosed with ischemic stroke between September 2006 and August 2007 were included in the study. Data were obtained by retrospective review of medical charts. Pearson Chi-square and independent t test were used in the univariate analysis. Multiple logistic regression analysis was used to determine the independent predictors of in-hospital mortality rates among the patients. Statistical testing and graphics were carried out using SPSS 15. Results: We identified 153 ischemic stroke patients (83 females and 70 males) of whom 92 were having a first-ever stroke (FES). Patients had several prevalent modifiable risk factors such as hypertension (HTN) (66%), diabetes mellitus (DM) (45.8%), and renal reduced renal function (crcl < 60 ml/min) (33.9%). Twenty-six (17%) of the patients died during hospitalization. Four variables were significantly associated with in-hospital mortality: history of previous stroke (P= 0.004), crcl at admission (P=0.004), number of post-stroke complications (P=0.001), and age (P=0.043). Multiple logistic regression analysis indicated that the number of post-stroke complications (P= 0.001) and previous stroke (P=0.03) were significant independent predictors of in-hospital mortality. Conclusion: Screening and better control of risk factors, especially HTN, DM and renal dysfunction, are required to decrease the incidence and in-hospital mortality among patients with ischemic stroke.
Magic spot: (p) ppGpp

Guanosine 5′‐(tri)diphosphate, 3′‐diphosphate [(p) ppGpp] is a small nucleic acid that helps bacteria survive in limited environments. Gene chip shows that (p) ppGpp is a global transcription‐regulator of genes related to important bacterial metabolic processes. Therefore, more attention should be focused on the molecular mechanisms of (p) ppGpp, as it is the foundation to understanding how bacteria adapt to extreme circumstances through the stringent response. J. Cell. Physiol. 220: 297–302, 2009. © 2009 Wiley‐Liss, Inc.
Evaluation of Tumor Angiogenesis with a Second-Generation US Contrast Medium in a Rat Breast Tumor Model

Objective Tumor angiogenesis is an important factor for tumor growth, treatment response and prognosis. Noninvasive imaging methods for the evaluation of tumor angiogenesis have been studied, but a method for the quantification of tumor angiogenesis has not been established. This study was designed to evaluate tumor angiogenesis in a rat breast tumor model by the use of a contrast-enhanced ultrasound (US) examination with a second-generation US contrast agent. Materials and Methods The alkylating agent 19N-ethyl-N-nitrosourea (ENU) was injected into the intraperitoneal cavity of 30-day-old female Sprague-Dawley rats. Three to four months later, breast tumors were detected along the mammary lines of the rats. A total of 17 breast tumors larger than 1 cm in nine rats were evaluated by gray-scale US, color Doppler US and contrast-enhanced US using SonoVue. The results were recorded as digital video images; time-intensity curves and hemodynamic parameters were analyzed. Pathological breast tumor specimens were obtained just after the US examinations. The tumor specimens were stained with hematoxylin and eosin (H & E) and the expression of CD31, an endothelial cell marker, was determined by immunohistochemical staining. We also evaluated the pathological diagnosis of the tumors and the microvessel density (MVD). Spearman's correlation and the Kruskal-Wallis test were used for the analysis. Results The pathological diagnoses were 11 invasive ductal carcinomas and six benign intraductal epithelial proliferations. The MVD did not correlate with the pathological diagnosis. However, blood volume (BV) showed a statistically significant correlation with MVD (Spearman's correlation, p < 0.05). Conclusion Contrast-enhanced US using a second-generation US contrast material was useful for the evaluation of tumor angiogenesis of breast tumors in the rat.
Role of the Subfornical Organ in the Chronic Hypotensive Response to Losartan in Normal Rats

Abstract—Angiotensin II is known to act at a unique set of brain regions known as the circumventricular organs. These structures lack the normal blood–brain barrier and are therefore thought to participate in the central nervous system processing of neuroendocrine signals. We have reported that chronic treatment with the angiotensin type 1 (AT1) receptor antagonist, losartan, decreases arterial pressure in normotensive rats. Furthermore, this hypotension is attenuated in area postrema–lesioned rats, suggesting a role of endogenous angiotensin II at this circumventricular organ. Another circumventricular organ, the subfornical organ (SFO), has also been shown to mediate actions of angiotensin II. The present study tested the hypothesis that the SFO is a central site of action of endogenous angiotensin II at AT1 receptors. Adult male Sprague-Dawley rats were anesthetized and placed in a stereotaxic apparatus, and the SFO was sham or electrolytically lesioned. One week later, rats were instrumented with venous catheters and radiotelemetry pressure transducers for continuous infusion and monitoring of mean arterial pressure, respectively. After 3 days of control, losartan was administered intravenously (10 mg · kg−1 · d−1) for 10 days in both SFO-lesioned and sham rats. By day 4 of losartan administration, mean arterial pressure had decreased to 75±2 mm Hg in sham rats (n=9) but had only fallen to 83±2 mm Hg in lesioned rats (n=10). This attenuated hypotensive response in SFO-lesioned rats continued through day 10 of losartan treatment. These results support the hypothesis that the SFO mediates part of the hypotensive effects of chronic AT1 receptor blockade in the normotensive rat.
Chili pepper as a body weight-loss food

Abstract Chili has culinary as well as medical importance. Studies in humans, using a wide range of doses of chili intake (varying from a single meal to a continuous uptake for up to 12 weeks), concluded that it facilitates weight loss. In regard to this, the main targets of chili are fat metabolism, energy expenditure, and thermogenesis. To induce weight loss, the active substance of chili, capsaicin, activates Transient Receptor Potential Cation Channel sub-family V member 1 (TRPV1) channels) receptors causing an increase in intracellular calcium levels and triggering the sympathetic nervous system. Apart from TRPV1, chili directly reduces energy expenditure by activating Brown Adipose Tissue. Weight loss by chili is also the result of an improved control of insulin, which supports weight management and has positive effects for treatment for diseases like obesity, diabetes and cardiovascular disorders. This review summarizes the major pathways by which chili contributes to ameliorating parameters that help weight management and how the consumption of chili can help in accelerating weight loss through dietary modifications.
Prognostic value of serum cholinesterase in organophosphate poisoning.

OBJECTIVE To determine whether serum cholinesterase level has a prognostic value in human acute organophosphorus poisoning. DESIGN Cohort (prospective) prognosis study. SETTING Medical ICU at University Hospital. PATIENTS Thirty consecutive patients admitted to the ICU for acute organophosphate poisoning. MEASUREMENTS Serum cholinesterase level was measured in all patients at the time of hospital admission. Severity of intoxication was assessed by the total dose of atropine required to relieve poisoning manifestations, the Simplified Acute Physiology Score, the need for assisted ventilation, and by a specific grading system previously validated that identified two groups of patients: group 1 (low severity, n = 18) and group 2 (high severity, n = 12). RESULTS Serum cholinesterase level did not correlate with the total dose of atropine or with the Simplified Acute Physiology Score. Mean serum cholinesterase level was not significantly different between group 1 and group 2 patients (448 +/- 409 U/L in group 1 compared with 611 +/- 575 U/L in group 2 (p = NS); it was also not significantly different between patients with and without mechanical ventilation support (567 +/- 571 vs 470 +/- 409, respectively). CONCLUSION Serum cholinesterase levels have no prognostic value in acute organophosphate poisoning. Thus, a grading system to identify high-risk patients based on this measurement is most likely unreliable.
Advanced modeling of thermal NDT problems: from buried landmines to defects in composites

Advanced thermal models that can be used in the detection of buried landmines and the TNDT (thermographic nondestructive testing) of composites are discussed. The interdependence between surface temperature signals and various complex parameters, such as surface and volumetric moisture, the shape of a heat pulse, material anisotropy, etc., is demonstrated.
Increased Expression and Immunogenicity of Sequence-Modified Human Immunodeficiency Virus Type 1 gag Gene

ABSTRACT A major challenge for the next generation of human immunodeficiency virus (HIV) vaccines is the induction of potent, broad, and durable cellular immune responses. The structural protein Gag is highly conserved among the HIV type 1 (HIV-1) gene products and is believed to be an important target for the host cell-mediated immune control of the virus during natural infection. Expression of Gag proteins for vaccines has been hampered by the fact that its expression is dependent on the HIV Rev protein and the Rev-responsive element, the latter located on the env transcript. Moreover, the HIV genome employs suboptimal codon usage, which further contributes to the low expression efficiency of viral proteins. In order to achieve high-level Rev-independent expression of the Gag protein, the sequences encoding HIV-1SF2 p55Gag were modified extensively. First, the viral codons were changed to conform to the codon usage of highly expressed human genes, and second, the residual inhibitory sequences were removed. The resulting modified gag gene showed increases in p55Gag protein expression to levels that ranged from 322- to 966-fold greater than that for the native gene after transient expression of 293 cells. Additional constructs that contained the modified gag in combination with modifiedprotease coding sequences were made, and these showed high-level Rev-independent expression of p55Gag and its cleavage products. Density gradient analysis and electron microscopy further demonstrated that the modified gag andgagprotease genes efficiently expressed particles with the density and morphology expected for HIV virus-like particles. Mice immunized with DNA plasmids containing the modified gagshowed Gag-specific antibody and CD8+ cytotoxic T-lymphocyte (CTL) responses that were inducible at doses of input DNA 100-fold lower than those associated with plasmids containing the native gag gene. Most importantly, four of four rhesus monkeys that received two or three immunizations with modifiedgag plasmid DNA demonstrated substantial Gag-specific CTL responses. These results highlight the useful application of modifiedgag expression cassettes for increasing the potency of DNA and other gene delivery vaccine approaches against HIV.
Clumpak: a program for identifying clustering modes and packaging population structure inferences across K

The identification of the genetic structure of populations from multilocus genotype data has become a central component of modern population‐genetic data analysis. Application of model‐based clustering programs often entails a number of steps, in which the user considers different modelling assumptions, compares results across different predetermined values of the number of assumed clusters (a parameter typically denoted K), examines multiple independent runs for each fixed value of K, and distinguishes among runs belonging to substantially distinct clustering solutions. Here, we present Clumpak (Cluster Markov Packager Across K), a method that automates the postprocessing of results of model‐based population structure analyses. For analysing multiple independent runs at a single K value, Clumpak identifies sets of highly similar runs, separating distinct groups of runs that represent distinct modes in the space of possible solutions. This procedure, which generates a consensus solution for each distinct mode, is performed by the use of a Markov clustering algorithm that relies on a similarity matrix between replicate runs, as computed by the software Clumpp. Next, Clumpak identifies an optimal alignment of inferred clusters across different values of K, extending a similar approach implemented for a fixed K in Clumpp and simplifying the comparison of clustering results across different K values. Clumpak incorporates additional features, such as implementations of methods for choosing K and comparing solutions obtained by different programs, models, or data subsets. Clumpak, available at http://clumpak.tau. ac.il, simplifies the use of model‐based analyses of population structure in population genetics and molecular ecology.
The Enactive Torch: A New Tool for the Science of Perception

The cognitive sciences are increasingly coming to terms with the embodied, embedded, extended, and experiential aspects of the mind. Exemplifying this shift, the enactive approach points to an essential role of goal-directed bodily activity in the generation of meaningful perceptual experience, i.e., sense-making. Here, building on recent insights into the transformative effects of practical tool-use, we make use of the enactive approach in order to provide a definition of an enactive interface in terms of augmented sense-making. We introduce such a custom-built interface, the Enactive Torch, and present a study of its experiential effects. The results demonstrate that the user experience is not adequately captured by any standardly assumed perceptual modality; rather, it is a new feeling that is mediated by the design of the device and shaped by the overall situation of the task. Taken together these findings show that there is much to be gained by synergies between engineering and the cognitive sciences in the creation of new experience-centered technology. We suggest that the guiding principle should be the design of interfaces that serve as a transparent medium for augmenting our natural skills of interaction with the world, instead of requiring conscious attention to the interface as an opaque object in the world.
Thin Films for Advanced Glazing Applications

Functional thin films provide many opportunities for advanced glazing systems. This can be achieved by adding additional functionalities such as self-cleaning or power generation, or alternately by providing energy demand reduction through the management or modulation of solar heat gain or blackbody radiation using spectrally selective films or chromogenic materials. Self-cleaning materials have been generating increasing interest for the past two decades. They may be based on hydrophobic or hydrophilic systems and are often inspired by nature, for example hydrophobic systems based on mimicking the lotus leaf. These materials help to maintain the aesthetic properties of the building, help to maintain a comfortable working environment and in the case of photocatalytic materials, may provide external pollutant remediation. Power generation through window coatings is a relatively new idea and is based around the use of semi-transparent solar cells as windows. In this fashion, energy can be generated whilst also absorbing some solar heat. There is also the possibility, in the case of dye sensitized solar cells, to tune the coloration of the window that provides unheralded external aesthetic possibilities. Materials and coatings for energy demand reduction is highly desirable in an increasingly energy intensive world. We discuss new developments with low emissivity coatings as the need to replace scarce indium becomes more apparent. We go on to discuss thermochromic systems based on vanadium dioxide films. Such systems are dynamic in nature and present a more sophisticated and potentially more beneficial approach to reducing energy demand than static systems such as low emissivity and solar control coatings. The ability to be able to tune some of the material parameters in order to optimize the film performance for a given climate provides exciting opportunities for future technologies. In this article, we review recent progress and challenges in these areas and provide a perspective for future trends and developments.
Early Warnings for Catastrophic Shifts in Ecosystems: Comparison between Spatial and Temporal Indicators

The task of providing leading indicators of catastrophic regime shifts in ecosystems is fundamental in order to design management protocols for those systems. Here we address the problem of lake eutrophication (that is, nutrient enrichment leading to algal blooms) using a simple spatial lake model. We discuss and compare different spatial and temporal early warning signals announcing the catastrophic transition of an oligotrophic lake to eutrophic conditions. In particular, we consider the spatial variance and its associated patchiness of eutrophic water regions. We found that spatial variance increases as the lake approaches the point of transition to a eutrophic state. We also analyze the spatial and temporal early warnings in terms of the amount of information required by each and their respective forewarning times. From the consideration of different remedial procedures that can be followed after these early signals we conclude that some of these indicators are not early enough to avert the undesired impending shift.
The Generalized Spike Process, Sparsity, and Statistical Independence

A basis under which a given set of realizations of a stochastic process can be represented most sparsely (the so-called best sparsifying basis (BSB)) and the one under which such a set becomes as less statistically dependent as possible (the so-called least statistically-dependent basis (LSDB)) are important for data compression and have generated interests among computational neuroscientists as well as applied mathematicians. Here we consider these bases for a particularly simple stochastic process called ``generalized spike process'', which puts a single spike--whose amplitude is sampled from the standard normal distribution--at a random location in the zero vector of length $\ndim$ for each realization. Unlike the ``simple spike process'' which we dealt with in our previous paper and whose amplitude is constant, we need to consider the kurtosis-maximizing basis (KMB) instead of the LSDB due to the difficulty of evaluating differential entropy and mutual information of the generalized spike process. By computing the marginal densities and moments, we prove that: 1) the BSB and the KMB selects the standard basis if we restrict our basis search within all possible orthonormal bases in ${\mathbb R}^n$; 2) if we extend our basis search to all possible volume-preserving invertible linear transformations, then the BSB exists and is again the standard basis whereas the KMB does not exist. Thus, the KMB is rather sensitive to the orthonormality of the transformations under consideration whereas the BSB is insensitive to that. Our results once again support the preference of the BSB over the LSDB/KMB for data compression applications as our previous work did.
Non-Gaussianities from ekpyrotic collapse with multiple fields

We compute the non-Gaussianity of the curvature perturbation generated by ekpyrotic collapse with multiple fields. The transition from the multi-field scaling solution to a single-field dominated regime converts initial isocurvature field perturbations to an almost scale invariant comoving curvature perturbation. In the specific model of two fields, ϕ1 and ϕ2, with exponential potentials, −Viexp(−ciϕi), we calculate the bispectrum of the resulting curvature perturbation. We find that the non-Gaussianity is dominated by non-linear evolution on super-Hubble scales and hence is of the local form. The non-linear parameter of the curvature perturbation is given by fNL = 5cj2/12, where cj is the exponent of the potential for the field which becomes subdominant at late times. Since cj2 must be large, in order to generate an almost scale invariant spectrum, the non-Gaussianity is inevitably large. Thus, the model is strongly constrained by observational bounds on the spectral index and non-Gaussianity.
Clonal Interference, Multiple Mutations and Adaptation in Large Asexual Populations

Two important problems affect the ability of asexual populations to accumulate beneficial mutations and hence to adapt. First, clonal interference causes some beneficial mutations to be outcompeted by more-fit mutations that occur in the same genetic background. Second, multiple mutations occur in some individuals, so even mutations of large effect can be outcompeted unless they occur in a good genetic background that contains other beneficial mutations. In this article, we use a Monte Carlo simulation to study how these two factors influence the adaptation of asexual populations. We find that the results depend qualitatively on the shape of the distribution of the fitness effects of possible beneficial mutations. When this distribution falls off slower than exponentially, clonal interference alone reasonably describes which mutations dominate the adaptation, although it gives a misleading picture of the evolutionary dynamics. When the distribution falls off faster than exponentially, an analysis based on multiple mutations is more appropriate. Using our simulations, we are able to explore the limits of validity of both of these approaches, and we explore the complex dynamics in the regimes where neither one is fully applicable.
Loss of erbB signaling in oligodendrocytes alters myelin and dopaminergic function, a potential mechanism for neuropsychiatric disorders

Several psychiatric disorders are associated with white matter defects, suggesting that oligodendrocyte (OL) abnormalities underlie some aspects of these diseases. Neuregulin 1 (NRG1) and its receptor, erbB4, are genetically linked with susceptibility to schizophrenia and bipolar disorder. In vitro studies suggest that NRG1-erbB signaling is important for OL development. To test whether erbB signaling contributes to psychiatric disorders by regulating the structure or function of OLs, we analyzed transgenic mice in which erbB signaling is blocked in OLs in vivo. Here we show that loss of erbB signaling leads to changes in OL number and morphology, reduced myelin thickness, and slower conduction velocity in CNS axons. Furthermore, these transgenic mice have increased levels of dopamine receptors and transporters and behavioral alterations consistent with neuropsychiatric disorders. These results indicate that defects in white matter can cause alterations in dopaminergic function and behavior relevant to neuropsychiatric disorders.