Miracle-dz/UniFAR-FTUs huggingface dataset:
The role of Abrams percutaneous pleural biopsy in the investigation of exudative pleural effusions.

INTRODUCTION Blind percutaneous pleural biopsy has traditionally been performed to investigate the etiology of exudative pleural effusion in which the initial thoracentesis has been nondiagnostic. In view of the increasing use of image-guided and thoracoscopic pleural biopsies, this study examines the role of blind Abrams pleural biopsy in the investigation of pleural effusion in a large urban hospital. METHOD Patients undergoing blind Abrams needle biopsy between January 1997 and 2003 were identified from the hospital pathology database. The case notes and pathology records of these patients were analyzed retrospectively. All patients had presented to respiratory teams with an exudative pleural effusion and had initial nondiagnostic thoracentesis. RESULTS Seventy-five patients undergoing blind biopsy were identified. Pleural tissue was obtained in 59 biopsies (79%), with no statistically significant difference in pleural yield between respiratory specialist registrars (equivalent to pulmonary fellows in training) and senior house officers/preregistration house officers (equivalent to junior residents and interns, respectively) performing the biopsy (chi(2) test, p = 0.43). When up to three samples were obtained per episode, sufficient pleural tissue was obtained in 18 of 25 patients (72%) compared to 80% (32 of 40 patients) in whom four to six samples were taken (chi(2) test, p = 0.55 [not significant]). For all diagnoses, blind biopsy had a sensitivity of 38%, which rose to 43% when reviewing patients in whom sufficient pleural tissue was obtained (for malignant diagnosis alone, sensitivity values were 43% and 51%, respectively; specificity, 100%; negative and positive predictive values, 51%). No fatalities were reported, and pneumothorax was seen in eight patients (11%), with only two patients requiring specific intervention. CONCLUSIONS Blind Abrams needle biopsy obtaining pleural tissue was diagnostic in approximately 50% of patients presenting with malignant effusion in the sample, and can be performed safely by all grades of medical staff with due attention to technique and supervision. The data support the continued use of the Abrams needle in the investigation of malignant pleural disease.
Bonn potential and shell model calculations for N=126 isotones

We have performed shell-model calculations for the N=126 isotones {sup 210}Po, {sup 211}At, and {sup 212}Rn using a realistic effective interaction derived from the Bonn-A nucleon-nucleon potential by means of a G-matrix folded-diagram method. The calculated binding energies, energy spectra, and electromagnetic properties show remarkably good agreement with the experimental data. The results of this paper complement those of our previous study on neutron hole Pb isotopes, confirming that realistic effective interactions are now able to reproduce with quantitative accuracy the spectroscopic properties of complex nuclei. (c) 1999 The American Physical Society.
PTEN regulates TLR5‐induced intestinal inflammation by controlling Mal/TIRAP recruitment

Defective IL‐10 allele is a risk factor for intestinal inflammation. Indeed, IL‐10–/– mice are predisposed to spontaneous colitis in the presence of intestinal microbiota, indicating that microbial factors contribute to developing intestinal inflammation. By recognizing flagellin, TLR5 plays a quintessential role in microbial recognition in intestinal epithelial cells. Here, we treated flagellin (1.0 μg/mouse/d) in mouse colon and found that it elicited colonic inflammation in IL‐10–/– mice, characterized with tissue hypertrophy, inflamed epithelium, and enhanced cytokine production in the colon (MPO, KC, IL‐6; ≥2‐fold; P < 0.05). These inflammatory effects were dramatically inhibited in TLR5–/–;IL‐10–/– mice. Intestinal epithelium specific PTEN deletion significantly attenuated flagellin‐promoted colonic inflammation in IL‐10–/– mice. As a molecular mechanism that PTEN deletion inhibited TLR5‐elicited responses, we hypothesized that PTEN regulated TLR5‐induced responses by controlling the involvement of Mal in TLR5 engagement. Mal interacted with TLR5 on flagellin, and Mal deficiency inhibited flagellin‐induced responses in intestinal epithelial cells. Similarly, Mal–/–;IL‐10–/– mice showed reduced flagellin‐promoted responses. Furthermore, PTEN deletion disrupted Mal‐TLR5 interaction, resulting in diminished TLR5‐induced responses. PTEN deletion impeded Mal localization at the plasma membrane and suppressed Mal‐TLR5 interaction. These results suggest that, by controlling Mal recruitment, PTEN regulates TLR5‐induced inflammatory responses. —Choi, Y. J., Jung, J., Chung, H. K. , Im, E. , Rhee, S. H. PTEN regulates TLR5‐induced intestinal inflammation by controlling Mal/TIRAP recruitment. FASEB J. 27, 243–254 (2013). www.fasebj. org
Depletion of ATR selectively sensitizes ATM-deficient human mammary epithelial cells to ionizing radiation and DNA-damaging agents

DNA damage response (DDR) to double strand breaks is coordinated by 3 phosphatidylinositol 3-kinase-related kinase (PIKK) family members: the ataxia-telangiectasia mutated kinase (ATM), the ATM and Rad3-related (ATR) kinase and the catalytic subunit of the DNA-dependent protein kinase (DNA-PKcs). ATM and ATR are central players in activating cell cycle checkpoints and function as an active barrier against genome instability and tumorigenesis in replicating cells. Loss of ATM function is frequently reported in various types of tumors, thus placing more reliance on ATR for checkpoint arrest and cell survival following DNA damage. To investigate the role of ATR in the G2/M checkpoint regulation in response to ionizing radiation (IR), particularly when ATM is deficient, cell lines deficient of ATM, ATR, or both were generated using a doxycycline-inducible lentiviral system. Our data suggests that while depletion of ATR or ATM alone in wild-type human mammary epithelial cell cultures (HME-CCs) has little effect on radiosensitivity or IR-induced G2/M checkpoint arrest, depletion of ATR in ATM-deficient cells causes synthetic lethality following IR, which correlates with severe G2/M checkpoint attenuation. ATR depletion also inhibits IR-induced autophagy, regardless of the ATM status, and enhances IR-induced apoptosis particularly when ATM is deficient. Collectively, our results clearly demonstrate that ATR function is required for the IR-induced G2/M checkpoint activation and subsequent survival of cells with ATM deficiency. The synthetic lethal interaction between ATM and ATR in response to IR supports ATR as a therapeutic target for improved anti-cancer regimens, especially in tumors with a dysfunctional ATM pathway.
Salient Region Detection via High-Dimensional Color Transform and Local Spatial Support

In this paper, we introduce a novel approach to automatically detect salient regions in an image. Our approach consists of global and local features, which complement each other to compute a saliency map. The first key idea of our work is to create a saliency map of an image by using a linear combination of colors in a high-dimensional color space. This is based on an observation that salient regions often have distinctive colors compared with backgrounds in human perception, however, human perception is complicated and highly nonlinear. By mapping the low-dimensional red, green, and blue color to a feature vector in a high-dimensional color space, we show that we can composite an accurate saliency map by finding the optimal linear combination of color coefficients in the high-dimensional color space. To further improve the performance of our saliency estimation, our second key idea is to utilize relative location and color contrast between superpixels as features and to resolve the saliency estimation from a trimap via a learning-based algorithm. The additional local features and learning-based algorithm complement the global estimation from the high-dimensional color transform-based algorithm. The experimental results on three benchmark datasets show that our approach is effective in comparison with the previous state-of-the-art saliency estimation methods.
Tetherin antagonism by Vpu protects HIV-infected cells from antibody-dependent cell-mediated cytotoxicity

Significance HIV-1 viral protein U (Vpu) facilitates virus release from infected cells by down-regulating and degrading tetherin, a transmembrane protein upregulated by IFN that impedes the detachment of enveloped viruses from infected cells. Here we show that this activity of Vpu protects HIV-infected cells from antibodies that are capable of directing their elimination by antibody-dependent cell-mediated cytotoxicity. A direct implication of these observations is that tetherin serves as a link between innate and adaptive immunity to enhance the susceptibility of virus-infected cells to antibodies. Thus, the antiviral activity of tetherin may be much greater than previously appreciated based on its ability to inhibit virus release in cell culture assays. Tetherin is an IFN-inducible transmembrane protein that inhibits the detachment of enveloped viruses from infected cells. HIV-1 overcomes this restriction factor by expressing HIV-1 viral protein U (Vpu), which down-regulates and degrades tetherin. We report that mutations in Vpu that impair tetherin antagonism increase the susceptibility of HIV-infected cells to antibody-dependent cell-mediated cytotoxicity (ADCC), and conversely that RNAi knockdown of tetherin, but not other cellular proteins down-modulated by Vpu, decreases the susceptibility of HIV-infected cells to ADCC. These results reveal that Vpu protects HIV-infected cells from ADCC as a function of its ability to counteract tetherin. By serving as link between innate and adaptive immunity, the antiviral activity of tetherin may be augmented by virus-specific antibodies, and hence much greater than previously appreciated.
Hippocampal serotonin-2A receptor-immunoreactive neurons density increases after testosterone therapy in the gonadectomized male mice

The change of steroid levels may also exert different modulatory effects on the number and class of serotonin receptors present in the plasma membrane. The effects of chronic treatment of testosterone for anxiety were examined and expression of 5-HT2A serotonergic receptor, neuron, astrocyte, and dark neuron density in the hippocampus of gonadectomized male mice was determined. Thirty-six adult male NMRI mice were randomly divided into six groups: intact-no testosterone treatment (No T), gonadectomy (GDX)-No T, GDX-Vehicle, GDX-6.25 mg/kg testosterone (T), GDX-12.5 mg/kg T, and GDX-25 mg/kg T. Anxiety-related behavior was evaluated using elevated plus maze apparatus. The animals were anesthetized after 48 hours after behavioral testing, and decapitated and micron slices were prepared for immunohistochemical as well as histopathological assessment. Subcutaneous injection of testosterone (25 mg/kg) may induce anxiogenic-like behavior in male mice. In addition, immunohistochemical data reveal reduced expression of 5-HT2A serotonergic receptor after gonadectomy in all areas of the hippocampus. However, treatment with testosterone could increase the mean number of dark neurons as well as immunoreactive neurons in CA1 and CA3 area, dose dependently. The density of 5-HT2A receptor-immunoreactive neurons may play a crucial role in the induction of anxiety like behavior. As reduction in such receptor expression have shown to significantly enhance anxiety behaviors. However, replacement of testosterone dose dependently enhances the number of 5-HT2A receptor-immunoreactive neurons and interestingly also reduced anxiety like behaviors.
Oil spill detection from SAR image using SVM based classification

In this paper, the potential of fully polarimetric L-band SAR data for detecting sea oil spills is investigated using polarimetric decompositions and texture analysis based on SVM classifier. First, power and magnitude measurements of HH and VV polarization modes and, Pauli, Freeman and Krogager decompositions are computed and applied in SVM classifier. Texture analysis is used for identification using SVM method. The texture features i.e. Mean, Variance, Contrast and Dissimilarity from them are then extracted. Experiments are conducted on full polarimetric SAR data acquired from PALSAR sensor of ALOS satellite on August 25, 2006. An accuracy assessment indicated overall accuracy of 78.92% and 96.46% for the power measurement of the VV polarization and the Krogager decomposition respectively in first step. But by use of texture analysis the results are improved to 96.44% and 96.65% quality for mean of power and magnitude measurements of HH and VV polarizations and the Krogager decomposition. Results show that the Krogager polarimetric decomposition method has the satisfying result for detection of sea oil spill on the sea surface and the texture analysis presents the good results.
Fault-Tolerant Consensus in Directed Graphs

Consider a point-to-point network in which nodes are connected by directed links. This paper proves tight necessary and sufficient conditions on the underlying communication graphs for solving the following fault-tolerant consensus problems: Exact crash-tolerant consensus in synchronous systems, Approximate crash-tolerant consensus in asynchronous systems, and Exact Byzantine consensus in synchronous systems. The problem of asynchronous Byzantine consensus in directed graphs remains open. Prior work has developed analogous necessary and sufficient conditions for undirected graphs [11,3,9]. However, the conditions for undirected graphs are not adequate to completely characterize these consensus problems in directed graphs. Moreover, the algorithms for directed graphs presented in this paper are substantially different from those previously developed for undirected graphs. Other prior work on directed graphs has explored somewhat different problems than those solved in this paper.
Evolution of Pathogen Specialisation in a Host Metapopulation: Joint Effects of Host and Pathogen Dispersal

Metapopulation processes are important determinants of epidemiological and evolutionary dynamics in host-pathogen systems, and are therefore central to explaining observed patterns of disease or genetic diversity. In particular, the spatial scale of interactions between pathogens and their hosts is of primary importance because migration rates of one species can affect both spatial and temporal heterogeneity of selection on the other. In this study we developed a stochastic and discrete time simulation model to specifically examine the joint effects of host and pathogen dispersal on the evolution of pathogen specialisation in a spatially explicit metapopulation. We consider a plant-pathogen system in which the host metapopulation is composed of two plant genotypes. The pathogen is dispersed by air-borne spores on the host metapopulation. The pathogen population is characterised by a single life-history trait under selection, the infection efficacy. We found that restricted host dispersal can lead to high amount of pathogen diversity and that the extent of pathogen specialisation varied according to the spatial scale of host-pathogen dispersal. We also discuss the role of population asynchrony in determining pathogen evolutionary outcomes.
Molecular Systematics of Goniodidae (Insecta: Phthiraptera)

The higher level phylogenetic relationships within the avian feather lice (Insecta: Phthiraptera: Ischnocera) are extremely problematic. Here we investigate the relationships of 1 family (Goniodidae), sometimes recognized as distinct within Ischnocera, using parsimony and likelihood analyses of nuclear and mitochondrial DNA sequences. These data support monophyly for a restricted definition of traditional Goniodidae, but recognition of this family would result in paraphyly of the large heterogeneous family Philopteridae. We show that the New World Chelopistes is not related to other members of Goniodidae, despite similarities in morphology, but rather is the sister taxon to Oxylipeurus. Within Goniodidae, genera are divided into those occurring on Galliformes (the Goniodes complex) and those occurring on Columbiformes (the Coloceras complex). Within the well-sampled Coloceras complex, or Physconelloidinae, several groups are identified. However, traditionally recognized genera such as Coloceras and Physconelloides appear to be paraphyletic. Whereas the phylogeny of Goniodidae reflects some aspects of host relationships, biogeography also influences coevolutionary history.
Identification of a Broad-Spectrum Arenavirus Entry Inhibitor

ABSTRACT Several arenaviruses, including Lassa virus (LASV), are causative agents of hemorrhagic fever, for which effective therapeutic options are lacking. The LASV envelope glycoprotein (GP) gene was used to generate lentiviral pseudotypes to identify small-molecule inhibitors of viral entry. A benzimidazole derivative with potent antiviral activity was identified from a high-throughput screen utilizing this strategy. Subsequent lead optimization for antiviral activity identified a modified structure, ST-193, with a 50% inhibitory concentration (IC50) of 1.6 nM against LASV pseudotypes. ST-193 inhibited pseudotypes generated with other arenavirus envelopes as well, including the remaining four commonly associated with hemorrhagic fever (IC50s for Junín, Machupo, Guanarito, and Sabiá were in the 0.2 to 12 nM range) but exhibited no antiviral activity against pseudotypes incorporating either the GP from the LASV-related arenavirus lymphocytic choriomeningitis virus (LCMV) or the unrelated G protein from vesicular stomatitis virus, at concentrations of up to 10 μM. Determinants of ST-193 sensitivity were mapped through a combination of LASV-LCMV domain-swapping experiments, genetic selection of viral variants, and site-directed mutagenesis. Taken together, these studies demonstrate that sensitivity to ST-193 is dictated by a segment of about 30 amino acids within the GP2 subunit. This region includes the carboxy-terminal region of the ectodomain and the predicted transmembrane domain of the envelope protein, revealing a novel antiviral target within the arenavirus envelope GP.
The importance of definitions and methods in surgical wound infection audit.

We investigated the value of a full-time audit nurse personally following up every patient from admission to 30 days postoperatively in order to obtain accurate surgical wound infection rates. Our results show that this type of audit is an effective, although time-consuming, way of collecting accurate data on wound infection rates. It enabled the early identification of problem areas in practice and facilitated the adoption of evidence based practice. As a result of the audit there was a significant reduction in the clean wound infection rate from 13.9% in November 1995 to 7.9% in March 1998 (P= 0.05).
Multiple model adaptive control. Part 1: Finite controller coverings

We consider the problem of determining an appropriate model set on which to design a set of controllers for a multiple model switching adaptive control scheme. We show that, given mild assumptions on the uncertainty set of linear time-invariant plant models, it is possible to determine a "nite set of controllers such that for each plant in the uncertainty set, satisfactory performance will be obtained for some controller in the "nite set. We also demonstrate how such a controller set may be found. The analysis exploits the Vinnicombe metric and the fact that the set of approximately bandand time-limited transfer functions is approximately "nite-dimensional. Copyright ( 2000 John Wiley & Sons, Ltd.
Effect of leukocytes on corneal cellular proliferation and wound healing.

PURPOSE To establish whether fucoidin, by blocking the adhesion of leukocytes on the limbal vascular endothelium, prevents extravasation of the cells from the blood stream into the limbal stroma and the wounded area after corneal injury. Successful leukocyte blocking enabled investigation of the influence of leukocytes on corneal cellular proliferation after corneal wounding. METHODS Thirty-two New Zealand White rabbits were used. Photorefractive keratectomy (PRK) and a standardized alkali corneal wound were used as models in two sets of experiments. In half of the injured rabbits fucoidin was used to prevent leukocytes from leaving the local vessels. The efficiency of the blocking technique was evaluated by counting the number of leukocytes in the limbal and wounded corneal areas. Proliferating cell nuclear antigen (PCNA) was used as a marker for proliferative activity. RESULTS The infiltration of leukocytes into the limbus and the cornea after PRK and alkali injuries can be blocked by fucoidin. The healing rate of corneal epithelium after alkali burn was retarded in the absence of leukocytes. PCNA expression was enhanced in the presence of leukocytes. Fucoidin per se had no influence on corneal cell proliferation and wound healing. CONCLUSIONS Polymorphonuclear leukocytes (PMNs) can be prevented from entering the cornea in vivo by fucoidin after PRK and after alkali burn. The corneal epithelial healing rate is delayed in the absence of PMNs in vivo, and PCNA expression increases in the presence of leukocytes.
Career Development and Organizational Commitment: Case study of a Pharmaceutical Organization in United Kingdom

The purpose of study is to measure the performance of Pharmaceutical organization Abbott laboratories United Kingdom by career management and development. The study is based on the four key parts of the Human resource strategies which are Planning, Training and Development, Pay and Reward and Organizational Commitment. The motivation behind this study is to understand the concept of career management and development which lead to Human resource planning, succession planning along with Pay and reward along with understand the impact of different level of management in career management and development.
The effect of collagenase-like peptidase from rat testis and clostridial collagenase A on the rat seminal vesicle secretion and its coagulation.

Collagenase-like protein (CLP) from rat testis and clostridium collagenase A are shown to have certain effects on the proteins of the rat seminal vesicle secretion and on their coagulation. The activity of CLP was inhibited by EDTA and cysteine but not by di-iso-propyl fluorophosphate (DFP) and Traylol (trypsin-kallikrein) inhibitor. CLP and clostridial collagenase A were capable in vitro of modifying to a significant extent the coagulation process of rat seminal vesicle secretion both spontaneous and vesiculase-mediated coagulation. Disc electrophoresis of soluble proteins in seminal vesicle secretion at pH 8.3 showed that CLP and clostridial collagenase A exert a lytic effect on basic proteins. As CLP is present in spermatozoa it is possible that this enzyme by its lytic action promotes the release of spermatozoa from the copulatory plug.