Miracle-dz/UniFAR-FTUs huggingface dataset:
Nosocomial bloodstream infection in human immunodeficiency virus-infected patients in Taiwan: descriptive epidemiology and risk factors for mortality.

BACKGROUND AND PURPOSE Nosocomial bloodstream infection (NBSI) is common in patients with human immunodeficiency virus (HIV) infection. This study evaluated the incidence, causative pathogens, and outcome of NBSIs in hospitalized HIV-infected patients at a university hospital in Taiwan. METHODS The medical records of all HIV-infected patients who developed NBSIs from June 1994 to June 2003 were retrospectively reviewed. A standardized case record form was used to collect demographic, clinical, laboratory, and microbiologic data. RESULTS During the study period, 57 episodes of NBSIs occurred in 51 HIV-infected patients whose median age was 37 years (range, 23 to 60 years). All of the patients were at HIV infection stage C. The incidence of NBSIs was 2.3 per 1000 person-days of hospitalization (41.4 per 1000 discharges). More than three-fourths of the 57 episodes (77.2%) were classified as primary NBSIs. Other infection foci included respiratory tract (6 episodes), urinary tract (3), surgical site (2), and skin (2). Staphylococcus species were the leading pathogens (42.1%). The crude and attributable mortality rates in patients with NBSIs during the study period were 38.6% and 26.1%, respectively. Multivariate analysis using a logistic regression model revealed that shock and hypoalbuminemia at the onset of NBSIs were the 2 factors predictive of mortality. CONCLUSIONS NBSIs in hospitalized patients in the late stage of HIV infection were associated with a high attributable mortality rate. Staphylococcus species were the leading pathogen responsible for NBSIs. Presentations of shock and hypoalbuminemia were predictive of mortality.
Erratum: Bulk flow and shear moments of the SFI++ survey

The paper ‘Bulk flow and shear moments of the SFI++ survey’ was published in Mon. Not. R. Astron. Soc. 387, 825–829 (2008). There is a typographical error in the penultimate paragraph that reads ‘The composite SFI++ catalogue gives an estimate of the mean bulk flow to have a magnitude of 22 km s−1 ± 71 km s−1 toward l = 285◦ ± 14◦ and b = 11◦ ± 10◦ where l and b are the galactic longitude and latitude, respectively. ’ The correct bulk flow magnitude should be 288 km s−1 ± 71 km s−1. Nothing else in the article should be affected.
Prediction of soil organic carbon using VIS-NIR spectroscopy: Application to Red Mediterranean soils from Croatia

Received : 09.03. 2017 Accepted : 24.05. 2017 The objectives of this research were: (i) to assess the accuracy of diffuse reflectance spectroscopy (DRS) in predicting the soil organic carbon (SOC) content, and (ii) determine the importance of wavelength ranges and specific wavelengths in the SOC prediction model. The reflectance spectra of a total of 424 topsoils (0-25 cm) samples were measured in a laboratory using a portable Terra Spec 4 Hi-Res Mineral Spectrometer with a wavelength range 350-2500 nm. Partial least squares regression (PLSR) with leave-one-out cross validation was used to develop calibration models for SOC prediction. The accuracy of the estimate determined by the coefficient of determination (R2), the concordance correlation coefficient (ρc), the ratio of performance to deviation (RPD), the range error ratio (RER) and the root mean square error (RMSE) values of 0.83, 0.90, 2.22, 14.2 and 2.47 g C kg-1 respectively, indicated good model for SOC prediction. The near infrared (NIR) and the short-wave infrared (SWIR) spectrums were more accurate than those in the visible (VIS) and short-wave near-infrared (SWNIR) spectral regions. The wavelengths contributing most to the prediction of SOC were at: 1925, 1915, 2170, 2315, 1875, 2260, 1910, 2380, 435, 1960, 2200, 1050, 1420, 1425 and 500 nm. This study has shown that VIS-NIR reflectance spectroscopy can be used as a rapid method for determining organic carbon content in the Red Mediterranean soils that can be sufficient for a rough screening.
Understanding Bjerknes Compensation in Meridional Heat Transports and the Role of Freshwater in a Warming Climate

The Bjerknes compensation (BJC) under global warming is studied using a simple box model and a coupled Earth system model. The BJC states the out-of-phase changes in the meridional atmosphere and ocean heat transports. Results suggest that the BJC can occur during the transient period of global warming. During the transient period, the sea ice melting in the high latitudes can cause a significant weakening of the Atlantic meridional overturning circulation (AMOC), resulting in a cooling in the North Atlantic. The meridional contrast of sea surface temperature would be enhanced, and this can eventually enhance the Hadley cell and storm-track activities in the Northern Hemisphere. Accompanied by changes in both ocean and atmosphere circulations, the northward ocean heat transport in the Atlantic is decreased while the northward atmosphere heat transport is increased, and the BJC occurs in the Northern Hemisphere. Once the freshwater influx into the North Atlantic Ocean stops, or the ocean even loses freshwater because of strong heating in the high latitudes, the AMOC would recover. Both the atmosphere and ocean heat transports would be enhanced, and they can eventually recover to the state of the control run, leading to the BJC to become invalid. The above processes are clearly demonstrated in the coupled model CO2 experiment. Since it is difficult to separate the freshwater effect from the heating effect in the coupled model, a simple box model is used to understand the BJC mechanism and freshwater’s role under global warming. In a warming climate, the freshwater flux into the ocean can cool the global surface temperature, mitigating the temperature rise. Box model experiments indicate clearly that it is the freshwater flux into the North Atlantic that causes out-of-phase changes in the atmosphere and ocean heat transports, which eventually plays a stabilizing role in global climate change.
RETROSPECTIVE: Performance of Image and Video Processing with General-purpose Processors and Media ISA Extensions

Twenty four years ago, in ISCA1999, we published a paper titled ”Performance of image and video processing with general-purpose processors and media ISA extensions. ” At that time, the default in the architecture community was to study SPEC and SPLASH benchmarks. But a new wave of applications were emerging. Driven by advances in digitization and multimedia, and the early internet, media processing workloads – encompassing image, video, audio, and graphics – were becoming dominant. New architectures were needed to solve the computational demands of these workloads, but we did not understand these workloads well. Simultaneously, we were also in another transition – architectures that tried to more aggressively leverage instruction-level parallelism (ILP) through techniques like out-of-order execution, speculative execution, etc. Were these new architectures useful for media processing? Did they compete with, or complement, other ideas like new media-specific instruction-set extensions? We wrote this paper to address these questions.
The Causal Eect of Female Labour Participation on Household Consumption. Evidence from Spanish Data

When a household decides whether the woman participates or not in the labour market, we ask two questions: (i) Is the loss in female leisure made up for a change in consumption? , and (ii) Is this change considered when the household makes the decision? In order to answer such questions, we propose a collective model that takes into account the joint decision on consumption of several commodities and female leisure. As commodity demands switch at the corner solution of female nonparticipation, we measure the causal effect of female participation on the consumption of commodities through treatment parameters commonly used in the program evaluation literature. These treatment parameters can be interpreted as the effect of changing the ration of the rationed good (female leisure) on the consumption of freely chosen commodities. The collective analysis parallel to the traditional analysis of rationing needs to incorporate an effect of wages that operates through the man’s and the woman’s bargaining powers. Our results show that female labour participation causes a benefit in the consumption of several commodities based on observable household characteristics. Female labour participation also causes changes in consumption that are unobservable for us but are observed and considered by the household when it decides whether the woman participates. JEL codes: D11, D12, C34, J22
In vitro and in vivo correlates of physiological and neoplastic human Fallopian tube stem cells

High‐grade serous cancer (HGSC) progresses to advanced stages without symptoms and the 5‐year survival rate is a dismal 30%. Recent studies of ovaries and Fallopian tubes in patients with BRCA1 or BRCA2 mutations have documented a pre‐metastatic intramucosal neoplasm that is found almost exclusively in the Fallopian tube, termed ‘serous tubal intraepithelial carcinoma’ or STIC. Moreover, other proliferations, termed p53 signatures, secretory cell outgrowths (SCOUTs), and lower‐grade serous tubal intraepithelial neoplasms (STINs) fall short of STIC but share similar alterations in expression, in keeping with an underpinning of genomic disturbances involved in, or occurring in parallel with, serous carcinogenesis. To gain insight into the cellular origins of this unique tubal pathway to high‐grade serous cancer, we cloned and both immortalized and transformed Fallopian tube stem cells (FTSCs). We demonstrated that pedigrees of FTSCs were capable of multipotent differentiation and that the tumours derived from transformed FTSCs shared the histological and molecular features of HGSC. We also demonstrated that altered expression of some biomarkers seen in transformed FTSCs and HGSCs (stathmin, EZH2, CXCR4, CXCL12, and FOXM1) could be seen as well in immortalized cells and their in vivo counterparts SCOUTs and STINs. Thus, a whole‐genome transcriptome analysis comparing FTSCs, immortalized FTSCs, and transformed FTSCs showed a clear molecular progression sequence that is recapitulated by the spectrum of accumulated perturbations characterizing the range of proliferations seen in vivo. Biomarkers unique to STIC relative to normal tubal epithelium provide a basis for novel detection approaches to early HGSC, but must be viewed critically given their potential expression in lesser proliferations. Perturbations shared by both immortalized and transformed FTSCs may provide unique early targets for prevention strategies. Central to these efforts has been the ability to clone and perpetuate multipotent FTSCs. Copyright © 2015 Pathological Society of Great Britain and Ireland. Published by John Wiley & Sons, Ltd.
Cancer and the kidney: dangereoux liasons or price paid for the progress in medicine?

A long time ago, the links between renal disease and malignancy were observed, however, quite recently, their importance was recognized and ‘new’ subspecialty in nephrology, namely ‘onconephrology’ was established. In the XXI century, patients with malignancy make up the most growing number of the subjects seen for nephrology consult and/or critical care nephrology services. A plethora of renal problems may be found in patients with malignancy. They may influence not only their short-term outcomes but also the adequate therapy of the underlying oncological problem. Thus, all these kidney-related issues pose an important challenge for both specialities: oncology and nephrology. In the review a spectrum of acute and chronic renal injury caused by the malignancy is presented as well as the associations between renal disease and cancer. Assessment of kidney function and its importance in patients with malignancy is also discussed as medical oncologists should check the appropriate dose of chemotherapeutic drugs in relation to the actual renal function before prescribing them to the patients. Moreover, effects of kidney function on outcomes in oncology is presented. In addition, nephrology services should better understand both the biology of malignancy with its treatment to become a valuable part treating team to yield the best possible outcome. It is important for nephrology services to be acknowledged and to take an active participation in care of oncology patients.
Assessment of Water Quality in a Subtropical Alpine Lake Using Multivariate Statistical Techniques and Geostatistical Mapping: A Case Study

Concerns about the water quality in Yuan-Yang Lake (YYL), a shallow, subtropical alpine lake located in north-central Taiwan, has been rapidly increasing recently due to the natural and anthropogenic pollution. In order to understand the underlying physical and chemical processes as well as their associated spatial distribution in YYL, this study analyzes fourteen physico-chemical water quality parameters recorded at the eight sampling stations during 2008–2010 by using multivariate statistical techniques and a geostatistical method. Hierarchical clustering analysis (CA) is first applied to distinguish the three general water quality patterns among the stations, followed by the use of principle component analysis (PCA) and factor analysis (FA) to extract and recognize the major underlying factors contributing to the variations among the water quality measures. The spatial distribution of the identified major contributing factors is obtained by using a kriging method. Results show that four principal components i.e., nitrogen nutrients, meteorological factor, turbidity and nitrate factors, account for 65.52% of the total variance among the water quality parameters. The spatial distribution of principal components further confirms that nitrogen sources constitute an important pollutant contribution in the YYL.
Constrained Deep Weak Supervision for Histopathology Image Segmentation

In this paper, we develop a new weakly supervised learning algorithm to learn to segment cancerous regions in histopathology images. This paper is under a multiple instance learning (MIL) framework with a new formulation, deep weak supervision (DWS); we also propose an effective way to introduce constraints to our neural networks to assist the learning process. The contributions of our algorithm are threefold: 1) we build an end-to-end learning system that segments cancerous regions with fully convolutional networks (FCNs) in which image-to-image weakly-supervised learning is performed; 2) we develop a DWS formulation to exploit multi-scale learning under weak supervision within FCNs; and 3) constraints about positive instances are introduced in our approach to effectively explore additional weakly supervised information that is easy to obtain and enjoy a significant boost to the learning process. The proposed algorithm, abbreviated as DWS-MIL, is easy to implement and can be trained efficiently. Our system demonstrates the state-of-the-art results on large-scale histopathology image data sets and can be applied to various applications in medical imaging beyond histopathology images, such as MRI, CT, and ultrasound images.
Dose-response effects of pegylated human megakaryocyte growth and development factor on platelet production and function in nonhuman primates.

Thrombopoietin (TPO) is the physiologic Mpl-ligand regulating platelet production. Pegylated human recombinant megakaryocyte growth and development factor (PEG-rHuMGDF), a truncated polypeptide Mpl-ligand derivitized with poly-(ethylene glycol), induces megakaryocyte endoreduplication and proliferation in vitro and in vivo. In the present study, the dose-response effects of PEG-rHuMGDF on pharmacokinetics, megakaryocytopoiesis, platelet production, and platelet function were characterized for dosing 0.05, 0.10, 0.50, or 2.5 micrograms/kg/d in 22 baboons for 28 days. Daily subcutaneous injections of PEG-rHuMGDF produced linear log-dose responses in (1) steady-state trough plasma levels of PEG-HuMGDF (P < 10(-3)); (2) marrow megakaryocyte volume (P < 10(-3)), ploidy (P < 10(-4)), and number (P < .01); and (3) peripheral platelet concentrations (P < 10(-4)) and platelet mass turnover (P < 10(-3)). Platelet morphology, life span, and recovery were normal, and peripheral leukocyte, neutrophil, and erythrocyte counts were not significantly affected by PEG-rHuMGDF (P > .1 in all cases). PEG-rHuMGDF at 0.5 micrograms/kg/d produced similar blood concentrations of Mpl-ligand and platelets as 10 times the dose of rHu-MGDF (5.0 micrograms/kg/d), reflecting the extended plasma half-life achieved through pegylation. Whereas PEG-rHuMGDF did not induce platelet aggregation in vitro, platelet aggregatory responsiveness induced by thrombin receptor agonist peptide (TRAP1-6) and collagen was transiently enhanced ex vivo during the initial few days of PEG-rHuMGDF administration. However, adenosine diphosphate (ADP)-induced platelet aggregation was not enhanced ex vivo by PEG-rHuMGDF therapy. 111In-platelet deposition on segments of homologous endarterectomized aorta (EA) and vascular graft (VG) interposed in arteriovenous femoral shunts increased in direct proportion to the circulating platelet concentration (P < 10(-4) for both EA and VG); 125l-fibrin accumulation was not affected by PEG-rHuMGDF-induced increases in peripheral platelet counts. Changes in platelet production and function produced by PEG-rHuMGDF returned to baseline within 2 weeks after discontinuing treatment. Thus, in nonhuman primates, PEG-rHuMGDF increases platelet production in a linear log-dose-dependent manner by stimulating megakaryocyte endoreduplication and new megakaryocyte formation from marrow hematopoietic progenitors. These findings suggest that appropriate dosing of PEG-rHuMGDF therapy during periods of chemotherapy-induced marrow suppression may maintain hemostatic concentrations of peripheral platelets without increasing the risk of thrombosis.
Endosomal transport of neurotrophins: Roles in signaling and neurodegenerative diseases

The internalization and retrograde axonal transport of neurotrophin receptors is important for their retrograde signal transduction supporting neuronal differentiation, plasticity, and survival. To influence transcription, neurotrophin signals initiated at synapses have to be conveyed retrogradely to the cell body. Signaling endosomes containing neurotrophin receptor signaling complexes mediate retrograde neurotrophin signaling from synapses to the nucleus. Interestingly, many neurodegenerative diseases, including Alzheimer's disease, Niemann Pick disease Type C, and Charcot‐Marie‐Tooth neuropathies, show alterations of vesicular transport, suggesting that traffic jams within neuronal processes may cause neurodegeneration. Although most of these diseases are complex and may be modulated by diverse pathways contributing to neuronal death, altered neurotrophin transport is emerging as a strong candidate influence on neurodegeneration. In this article, we review the mechanisms of internalization and endocytic trafficking of neurotrophin receptors, and discuss the potential roles of perturbations in neurotrophin trafficking in a number of neurodegenerative diseases. © 2007 Wiley Periodicals, Inc. Develop Neurobiol, 2007
Pharmacovigilance and adverse drug reaction reporting: a perspective of community pharmacists and pharmacy technicians in Sana’a, Yemen

Objective The aim of this study was to compare the knowledge, attitude and barriers of pharmacy technicians and pharmacists toward pharmacovigilance, adverse drug reactions (ADRs) and ADR reporting in community pharmacies in Yemen. Methods This cross-sectional survey was conducted among community pharmacists and pharmacy technicians in the capital of Yemen, Sana’a. A total of 289 community pharmacies were randomly selected. The validated and pilot-tested questionnaire consisted of six sections: demographic data, knowledge about pharmacovigilance, experience with ADR reporting, attitudes toward ADR reporting, and the facilitators to improve ADR reporting. Results A total of 428 pharmacy technicians and pharmacists were contacted and 179 went on to complete a questionnaire (response rate: 41.8%). Of the 179 respondents, 21 (11.7%) were pharmacists and 158 (88.3%) were pharmacy technicians, of which, 176 (98.3%) were male and 3 (1.7%) were female. The mean age of the respondents was 25.87±2.63 years. There was a significant difference between the pharmacists and pharmacy technicians in terms of knowledge scores (P<0.05). The mean knowledge scores for pharmacists was 3.33±2.852 compared to 0.15±0.666 for pharmacy technicians. With regard to attitudes toward ADR reporting, all pharmacists (100%) showed a positive attitude, while only 43% of pharmacy technicians showed a positive attitude. Conclusion Pharmacists have a significantly better knowledge than pharmacy technicians with regard to pharmacovigilance. More than half of pharmacy technicians showed a negative attitude toward ADR reporting. Therefore, educational interventions and training is very important for community pharmacists and pharmacy technicians in Yemen to increase their awareness and participation in ADR reporting.
Training Outcomes in Colorectal Cancer Surgery in a District General Hospital

Abstract Objectives: The purpose of this study was to quantify the effect of training on outcomes following colorectal cancer resections in a District General Hospital. Patients and methods: Data on 102 consecutive elective colorectal cancer resections performed at a District General Hospital over a three-year period were prospectively collated. The proportion of cases performed by trainees was recorded and the seniority of the operating surgeon was related to pre-operative morbidity, operative time and postoperative outcome. Results: Consultants, staff grades and registrars performed 46, 35 and 21 procedures respectively. Of the cases performed by registrars, consultant supervision was provided in seven cases, with staff grades providing supervision in 14 cases. As compared with consultants, registrars were less likely to undertake anterior resection (p = 0.001). However, the mean operating times of trainees (145 ± 8 mins) and consultants (135 ± 6 mins) were similar. There were no significant differences between the groups with respect to postoperative mortality or morbidity. There was a trend towards more advanced disease in consultant cases, and consultants had a significantly poorer freedom from death or recurrence at two years as compared with trainees (p = 0.03). Conclusions: In our unit, trainees performed 21% of all elective colorectal resections with no detrimental effect on length of hospital stay, overall hospital costs and early and late patient outcomes. Major colorectal procedures can be successfully accomplished in a District General setting by trainees, with the training burden shared between consultants and staff grade surgeons.
Autonomous Vision-based Landing and Terrain Mapping Using an MPC-controlled Unmanned Rotorcraft

In this paper, we present a vision-based terrain mapping and analysis system, and a model predictive control (MPC)-based flight control system, for autonomous landing of a helicopter-based unmanned aerial vehicle (UAV) in unknown terrain. The vision system is centered around Geyer et al.'s recursive multi-frame planar parallax algorithm (2006), which accurately estimates 3D structure using geo-referenced images from a single camera, as well as a modular and efficient mapping and terrain analysis module. The vision system determines the best trajectory to cover large areas of terrain or to perform closer inspection of potential landing sites, and the flight control system guides the vehicle through the requested flight pattern by tracking the reference trajectory as computed by a real-time MPC-based optimization. This trajectory layer, which uses a constrained system model, provides an abstraction between the vision system and the vehicle. Both vision and flight control results are given from flight tests with an electric UAV.