Miracle-dz/UniFAR-FTUs huggingface dataset:
Characterization of nuclear structures in cells infected with herpes simplex virus type 1 in the absence of viral DNA replication

Herpes simplex virus type 1 DNA replication occurs in nuclear domains termed replication compartments, which are areas of viral single-stranded DNA-binding protein (UL29) localization (M.P. Quinlan, L. B. Chen, and D. M. Knipe, Cell 36:857-868). In the presence of herpesvirus-specific polymerase inhibitors, UL29 localizes to punctate nuclear foci called prereplicative sites. Using versions of the helicase-primase complex proteins containing short peptide epitopes which can be detected in an immunofluorescence assay, we have found that the helicase-primase complex localizes to prereplicative sites and replication compartments. To determine if prereplicative site formation is dependent upon these and other essential viral replication proteins, we have studied UL29 localization in cells infected with replication-defective viruses. Cells infected with viruses that fail to express one of the three helicase-primase subunits or the origin-binding protein show a diffuse nuclear staining for UL29. However, in the presence of polymerase inhibitors, mutant-infected cells contain UL29 in prereplicative sites. Replication-defective viruses containing subtle mutations in the helicase or origin-binding proteins behaved identically to their null mutant counterparts. In contrast, cells infected with viral mutants which fail to express the polymerase protein contain prereplicative sites in the absence and presence of polymerase inhibitors. We propose that active viral polymerase prevents the formation of prereplicative sites. Models of the requirement of essential viral replication proteins in the assembly of prereplicative sites are presented.
An Easy to Use PSPICE Model for Power Transistors in RF Switching Operation and Including Voltage Dependent Output Capacitance

An easy to build and use power transistor model for high efficiency switching RF power amplifiers has been built and used. Advantages of the model are inclusion of a voltage variable capacitance (Cout) and time saved in its construction compared with classical methods. The model is useful to study the influence of Cout in the behaviour of the amplifier and has been yet used in that way with successful results for class E topology including experimental verification [1]. In this paper the structure of the model, the way to build it and some examples of its use are described. More details and results will be published in an extended version of this work.
A Rotation-invariant Script Identification based on BEMD and LBP

Script identification is very important to develop the scripts OCR systems. In this paper, we proposed a new algorithm for script identification based on the global and local texture of document images. The BEMD method is used to decompose the image to some components (IMFs) and then the Local Binary Patterns (LBP) method is used to detect the features. Experiments shown the recognition rate based on BEMD-LBP is as well as the LBPV and wavelet based energy feature in 0 angles. At the same time, for the different angles rotation script, the BEMD-LBP feature present some robust adaptive to the rotation script.
Spectrum Sensing, Access and Coexistence Testbed for Cognitive Radio using USRP

The idea of cognitive radio has created a great interest in academic and industrial research recently. As a result, there are a large number of proposals for physical and network layer functionalities. In this paper, we demonstrate an experimental platform with the USRP board developed by Ettus Research that can facilitate the development of PHY and MAC layers functionality. Some key results from this experience so far are presented, including an over-the-air interoperability analysis of two different SDR (software defined radio) architectures in the same frequency band, the effect of dynamic spectrum access on legacy system and analysis of actual co-existence experiences involving primary users and secondary opportunistic spectrum users. In particular, we focus our attention on spectrum sensing and spectrum coexistence as an example that incorporates both digital signal processing and networking techniques to show how this platform could be used to conduct comprehensive research in cognitive radio.
Modeling the effect of hot lots in semiconductor manufacturing systems

The presence of hot lots or high-priority jobs in semiconductor manufacturing systems is known to significantly affect the cycle time and throughput of the regular lots since the hot lots get priority at all stages of processing. In this paper, we present an efficient analytical model based on re-entrant lines and use an efficient, approximate analysis methodology for this model in order to predict the performance of a semiconductor manufacturing line in the presence of hot lots. The proposed method explicitly models scheduling policies and can be used for rapid performance analysis. Using the analytical method and also simulation, we analyze two re-entrant lines, including a full-scale model of a wafer fab, under various buffer priority scheduling policies. The numerical results show the severe effects hot lots can have on the performance characteristics of regular lots.
The National Prostate Cancer Register in Sweden 1998—2002: Trends in incidence, treatment and survival

Objectives. To provide a descriptive review of the establishment of the National Prostate Cancer Register (NPCR) in Sweden, to present clinical characteristics at diagnosis and to calculate the relative survival of different risk groups after 5 years. Material and methods. Since 1998, data on all newly diagnosed prostate cancers, including TNM classification, grade of malignancy, prostate-specific antigen (PSA) level and treatment, have been prospectively collected. For the 35 223 patients diagnosed between 1998 and 2002, relative survival in different risk groups has been calculated. Results. Between 1998 and 2002, 96% of all prostate cancer cases diagnosed in Sweden were registered in the NPCR. The number of new cases increased from 6137 in 1998 to 7385 in 2002. The age-standardized rate rose in those aged <70 years, while it was stable, or possibly declining from 1999, in the older age groups. The proportion of T1c tumours increased from 14% to 28% of all recorded cases. The age-adjusted incidence of advanced tumours (M1 or PSA >100 ng/ml) decreased by 17%. The proportion of patients receiving curative treatment doubled. Patients with N1 or M1 disease or poorly differentiated tumours (G3 or Gleason score 8–10) had a markedly reduced relative 5-year survival rate. Conclusions. It is possible to establish a nationwide prostate cancer register including basic data for assessment of the disease in the whole of Sweden. The introduction of PSA screening has increased the detection of early prostate cancer in younger men and, to a lesser extent, decreased the incidence of advanced disease. The effect of these changes on mortality is obscure but the NPCR in Sweden will serve as an important tool in such evaluation.
Cross-Layer-Optimized User Grouping Strategy in Downlink Multiuser MIMO Systems

This paper proposes a cross-layer-optimized user selection and packet transmission technique for the downlink multi-user (MU) multiple-input multiple-output (MIMO) system in IEEE 802.11 wireless LAN (WLAN). In IEEE 802.11 WLAN, packet duration is decided by a data size and a selected transmission mode (modulation and coding scheme, MCS), and therefore, in general, the packet duration of each user varies according to the channel conditions and the applications. If multiple users whose packet durations are considerably different are selected as the target of the downlink MU-MIMO transmission, then the efficiency of spatial multiplexing degrades and the network throughput cannot be enhanced. When selecting users as the target of the downlink MU-MIMO transmission, the degree of spatial channel correlation among users (from the viewpoint of the physical layer) and the packet waiting times in a queue (from the viewpoint of the MAC layer) have to be considered. In addition to these criteria, in IEEE 802.11 WLAN, uniformity of the packet durations among users has to be considered as a criterion. In the proposed method, data size is adjusted in order to make the packet durations of the users uniform after selecting the users based on the spatial compatibility and the packet waiting times. This means that the proposed downlink MU- MIMO transmission is optimized in 3 dimensions by the cross- layer approach: the spatial channel correlations, packet waiting times and the uniformity of the packet durations. Computer simulations are performed and the results show the effectiveness of the proposed method.
Multisite Management of Scientific Workflows in the Cloud. (Gestion multisite de workflows scientifiques dans le cloud)

Scientific Workflows (SWfs) allow scientists to easily express multi-step computational activities, such as load input data files, process the data, run analyses, and aggregate the results. A SWf describes the dependencies between activities, typically as a graph where the nodes are activities and the edges express the activity dependencies. SWfs are often data-intensive, i.e. process, manage or produce huge amounts of data. In order to execute data-intensive SWfs within a reasonable time, Scientific Workflow Management Systems (SWfMSs) can be used and deployed in High Performance Computing (HPC) environments (cluster, grid or cloud). By offering stable services and virtually infinite computing, and storage resources at a reasonable cost, the cloud becomes appealing for SWf execution. SWfMSs can be easily deployed in the cloud using Virtual Machines (VMs). A cloud is typically made of several sites (or data centers), each with its own resources and data. Since a SWf may process data located at different sites, SWf execution should be adapted to a multisite cloud while exploiting distributed computing or storage resources. In this thesis, we study the problem of efficiently executing data-intensive SWfs in a multisite cloud, where each site has its own cluster, data and programs. Most SWfMSs have been designed for computer clusters or grids, and some have been extended to operate in the cloud, but only for single site. To address the problem in the multisite case, we propose a distributed and parallel approach that leverages the resources available at different cloud sites. To exploit parallelism, we use an algebraic approach, which allows expressing SWf activities using operators and automatically transforming them into multiple tasks. The main contribution is a multisite architecture for SWfMSs and distributed techniques to execute SWfs. The main techniques consist of SWf partitioning algorithms, a dynamic VM provisioning algorithm, an activity scheduling algorithm and a task scheduling algorithm. SWf partitioning algorithms partition a SWf to several fragments, each to be executed at a different cloud site. The VM provisioning algorithm is used to dynamically create an optimal combination of VMs for executing workflow fragments at each cloud site. The activity scheduling algorithm distributes the SWf fragments to the cloud sites based on a multi-objective cost model, which combines both execution time and monetary cost. The task scheduling algorithm directly distributes tasks among different cloud sites while achieving load balancing at each site. Our experiments show that our approach can reduce considerably the overall cost of SWf execution in a multisite cloud.
The Statistical Theory of Racism and Sexism

My recent book, Inflation Policy and Unemployment Theory, introduces what is called the statistical theory of racial (and sexual) discrimination in the labor market. ' The theory fell naturally out of the non-Walrasian treatment there of the labor "market" as operating imperfectly because of the scarcity of information about the existence and characteristics of workers and jobs. A paradigm for the theory is the traveller in a strange town faced with choosing between dinner at the hotel and dinner somewhere in the town. If he makes it a rule to dine outside the hotel without any prior investigation, he is said to be discriminating against the hotel. Though there will be instances where the hotel cuisine would have been preferable, the rule represents rational behavior it maximizes expected utilityif the cost of acquiring evaluations of restaurants is sufficiently high and if the hotel restaurant is believed to be inferior at least half the time. In the same way, the employer who seeks to maximize expected profit will discriminate against blacks or women if he believes them to be less qualified, reliable, long-term, etc. on the average than whites and men, respectively, and if the cost of gaining information about the individual applicants is excessive. Skin color or sex is taken as a proxy for relevant data not sampled. The a priori belief in the probable preferability of a white or a male over a black or female candidate who is not known to differ in other respects might stem from the employer's previous statistical experience with the two groups (members from the less favored groups might have been, and continue to be, hired at less favorable terms); or it might stem from prevailing sociological beliefs that blacks and women grow up disadvantaged due to racial hostility or at least prejudices toward them in the society (in which latter case the discrimination is self-perpetuating). The theory is applicable to the class of "liberal" employers and workers who have no distaste for hiring and working alongside black or female workers. By contrast, the theory of discrimination originated by Gary Becker is based on the factor of racial taste. The pioneering work of Gunnar Myrdal et al. also appears to center on racial (and, in an appendix, sexual) antagonism. Some indications of interest in the new theory, and the independent discovery of the same statistical theoryby Kenneth Arrow, convince me that it is time for a formalization of the theory in terms of an exact statistical model. Though what follows is very simple, it may be useful to those who like exact models and it may stimulate others to develop the theory further. An employer samples from a population of job applicants. The employer is able to measure the performance of each applicant in some kind of test, yi, which, after suitable scaling, may be said to measure the applicant's promise or degree of qualification, qi, plus an error term, ps.
Lack of a role for cyclic nucleotide gated cation channels in lung liquid absorption in fetal sheep

1 Late gestation fetal sheep were chronically catheterised in uteroto allow measurement of the rate of production of lung liquid (Jv) from 132–143 days gestation (term, 147 days), and to test the hypothesis that cyclic nucleotide gated cation channels mediate a component of fetal lung liquid absorption. 2 In eight experiments, 0·5 μg min−1 adrenaline caused a significant (P < 0·005) reduction in Jv from +18·12 ± 3·52 to −10·27 ± 5·26 ml h−1. Dichlorobenzamil (a blocker of cyclic nucleotide gated cation channels) at 1·5 × 10−5 M did not significantly inhibit the adrenaline‐induced lung liquid absorption (Jv dichlorobenzamil, −5·77 ± 2·78 ml h−1; P> 0·1) when the data were grouped, but did exert a significant gestational effect (r= 0·90, P< 0·01). Subsequent addition of 10−4 M amiloride (a blocker of epithelial sodium channels) abolished the adrenaline‐induced absorption of lung liquid (mean Jv amiloride, +6·45 ± 1·59 ml h−1; P< 0·01 relative to Jv adrenaline and P< 0·005 relative to Jv dichlorobenzamil). 3 In seven experiments, 0·5 μg min−1 adrenaline caused a significant (P < 0·0005) reduction in Jv from +18·95 ± 2·98 to −10·08 ± 3·75 ml h−1. Amiloride (10−4 M) inhibited the adrenaline response (Jv amiloride, +5·46 ± 1·09 ml h−1; P< 0·005). However, subsequent addition of 1·5 × 10−5 M dichlorobenzamil had no additive effect to that of amiloride (Jv dichlorobenzamil, +4·58 ± 0·93 ml h−1; P> 0·1). 4 In six experiments, the cGMP analogue 8‐Br‐cGMP at 10−4 M caused a significant (P < 0·05) reduction in Jv from +15·20 ± 2·81 to +11·63 ± 1·71 ml h−1. Amiloride (10−4 M) did not block the effect of 8‐Br‐cGMP (Jv amiloride, +14·00 ± 2·49 ml h−1; not significantly different from 8‐Br‐cGMP). Subsequent addition of 1·5 × 10−5 M dichlorobenzamil also did not block the effect of 8‐Br‐cGMP (Jv dichlorobenzamil, +11·37 ± 1·22 ml h−1; not significantly different from either Jv amiloride or Jv 8‐Br‐cGMP). 5 We conclude that, in fetal sheep, neither adrenaline nor cGMP stimulate lung liquid absorption by actions on cyclic nucleotide gated cation channels, and that the effect of cGMP on fetal lung liquid secretion is minor and does not involve epithelial sodium channels. The effect of dichlorobenzamil, when given before amiloride, was probably due to an action on amiloride sensitive epithelial sodium channels.
Use of multiple biomarkers for a molecular diagnosis of prostate cancer

The identification of biomarkers capable of providing a reliable molecular diagnostic test for prostate cancer (PCa) is highly desirable clinically. We describe here 4 biomarkers, UDP‐N‐Acetyl‐α‐D‐galactosamine transferase (GalNAc‐T3; not previously associated with PCa), PSMA, Hepsin and DD3/PCA3, which, in combination, distinguish prostate cancer from benign prostate hyperplasia (BPH). GalNAc‐T3 was identified as overexpressed in PCa tissues by microarray analysis, confirmed by quantitative real‐time PCR and shown immunohistochemically to be localised to prostate epithelial cells with higher expression in malignant cells. Real‐time quantitative PCR analysis across 21 PCa and 34 BPH tissues showed 4.6‐fold overexpression of GalNAc‐T3 (p = 0.005). The noncoding mRNA (DD3/PCA3) was overexpressed 140‐fold (p = 0.007) in the cancer samples compared to BPH tissues. Hepsin was overexpressed 21‐fold (p = 0.049, whereas the overexpression for PSMA was 66‐fold (p = 0.047). When the gene expression data for these 4 biomarkers was combined in a logistic regression model, a predictive index was obtained that distinguished 100% of the PCa samples from all of the BPH samples. Therefore, combining these genes in a real‐time PCR assay represents a powerful new approach to diagnosing PCa by molecular profiling. (Supplemental material for this article can be found on the International Journal of Cancer website at http://www.interscience.wiley.com/jpages/0020‐7136/suppmat/index.html.) © 2004 Wiley‐Liss, Inc.
Effects of octreotide on central hemodynamics and systemic oxygen use in patients with viral cirrhosis

OBJECTIVE:Octreotide has potentially beneficial effects in patients with cirrhosis. However, the effects of octreotide on central hemodynamics and oxygen use have not been established. The present study was undertaken to evaluate the effect of octreotide on central hemodynamics and oxygen use in patients with viral cirrhosis.METHODS:Twenty-five patients with cirrhosis were enrolled in the study. They were randomly assigned to receive either placebo (n = 10) or a continuous infusion of 100 μg/h of octreotide after an initial 100-μg bolus (n = 15). Hemodynamic measurements and oxygenation values were obtained before and 60 min after octreotide or placebo administration.RESULTS:Placebo administration did not have any effect on hemodynamic and oxygenation values. In patients who received octreotide, systemic hemodynamic values including cardiac index, mean arterial pressure, and systemic vascular resistance were not affected. The mean pulmonary arterial pressure tended to increase after octreotide administration but was statistically insignificant. There was a significant increase in pulmonary arterial vascular resistance, whereas the pulmonary capillary wedge pressure and right atrial pressure were significantly decreased. Arterial oxygen tension, systemic oxygen uptake, and oxygen extraction ratio were significantly decreased after octreotide administration, whereas oxygen transport as well as arterial and mixed venous oxygen contents remained unchanged.CONCLUSIONS:In patients with viral cirrhosis, octreotide administration exerted a significant effect on pulmonary circulation. It also resulted in a decrease in systemic oxygen uptake and oxygen extraction ratio. These results suggested that octreotide may impair tissue oxygenation in patients with viral cirrhosis.
Verification of new protection algorithm for compensated MV distribution systems

In the paper authors propose the application of optimization techniques to developing filters dedicated for computation of criterion quantities suitable for distribution feeders protection. The fault detection algorithm has been investigated on the basis of data acquired from the physical model of the compensated MV distribution network and data from computer simulations in EMTP. The investigated algorithm is based on computational scheme with linear filtration that is used for analyzing fundamental component and high frequency components induced in compensated MV network during arcing faults in faulty and sound feeders. Since proposed structure realizes linear filtration and is composed of only five computational units, it is easy to interpret the final decision on the state of the feeder. The relaying scheme requires much less computational units when compared to approaches proposed so far. It is highly selective and secure.
Antioxidant activity of phytochemicals and their method of analysis.

1School of Natural Sciences, National University of Ireland Galway, Galway, Ireland 2Department of Food Science, University of Guelph, Guelph, Ontario, Canada 3Pacifi c Agri-Food Research Centre, Agriculture and Agri-Food Canada, Summerland, BC, Canada 4Public Food Center Program (PROPAC), Research and Graduate Studies in Food Science, School of Chemistry, Queretaro State University, Mexico 5Department of Food Biosciences, Teagasc Food Research Centre, Ashtown, Dublin, Ireland
Dynamic Course of Intracortical TMS Paired-Pulse Responses During Recovery of Motor Function After Stroke

Background. Recovery of motor function after stroke may be associated with changes in inhibitory and facilitatory circuits within the motor cortex. Objective. We explored such changes longitudinally after stroke, using transcranial magnetic stimulation (TMS). Methods. Subjects (N = 27) with a single cerebral infarction affecting movement of either hand were studied at <10 days poststroke, 1 month, and 6 months. Age-matched control subjects (N = 9) were studied at 2 times. Results. In contrast to previous studies, paired-pulse inhibition was increased in patients with a subcortical stroke compared to control subjects. After a cortical stroke, paired-pulse facilitation was also increased. Stroke location affected the time course of inhibition. Subcortical stroke resulted in increased inhibition initially that decreased over time, whereas cortical stroke had no significant effect on inhibition and a more immediate and lasting effect on facilitation. Conclusions. The time course of a decline in inhibition based on TMS after subcortical stroke followed the gain in motor recovery. Increased facilitation in cortical stroke patients is more likely to represent the effect of early cortical circuit disruption and may not play a role in subacute changes in motor function.