Miracle-dz/UniFAR-FTUs huggingface dataset:
Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis

Alternative splicing (AS) is a key regulatory mechanism that contributes to transcriptome and proteome diversity. As very few genome-wide studies analyzing AS in plants are available, we have performed high-throughput sequencing of a normalized cDNA library which resulted in a high coverage transcriptome map of Arabidopsis. We detect ∼150,000 splice junctions derived mostly from typical plant introns, including an eightfold increase in the number of U12 introns (2069). Around 61% of multiexonic genes are alternatively spliced under normal growth conditions. Moreover, we provide experimental validation of 540 AS transcripts (from 256 genes coding for important regulatory factors) using high-resolution RT-PCR and Sanger sequencing. Intron retention (IR) is the most frequent AS event (∼40%), but many IRs have relatively low read coverage and are less well-represented in assembled transcripts. Additionally, ∼51% of Arabidopsis genes produce AS transcripts which do not involve IR. Therefore, the significance of IR in generating transcript diversity was generally overestimated in previous assessments. IR analysis allowed the identification of a large set of cryptic introns inside annotated coding exons. Importantly, a significant fraction of these cryptic introns are spliced out in frame, indicating a role in protein diversity. Furthermore, we show extensive AS coupled to nonsense-mediated decay in AFC2, encoding a highly conserved LAMMER kinase which phosphorylates splicing factors, thus establishing a complex loop in AS regulation. We provide the most comprehensive analysis of AS to date which will serve as a valuable resource for the plant community to study transcriptome complexity and gene regulation.
Anosognosia for hemiplegia, neglect dyslexia, and drawing neglect: Clinical findings and theoretical considerations

Abstract In this paper different models of anosognosia are confronted and data concerning denial behaviors are presented that were collected on a selected population of right brain-damaged patients affected by motor and neglect disorders. Anosognosia for motor impairment and anosognosia for cognitive impairments were found to be dissociated, as well as anosognosia for the upper and lower limb motor impairments. These findings are then discussed in an attempt to choose the more suitable theoretical framework for interpreting the various disorders related to denial of illness. (JINS, 1996, 2, 426–440.)
Other Lung Diseases Due to Dust

Respiratory dust disease until comparatively recently was commonly thought of as comprising little more than silicosis and asbestosis. In the last decade, however, there has been general appreciation of the fact that the field is considerably wider. Silicosis, asbestosis and pneumoconiosis of coal miners and coal trimmers have been described in this issue and the author has been invited to deal with the remaining dust diseases of the lungs. To do so in detail in this article is impossible. His object will be to indicate something of the scope of the subject dealing only briefly with the individual dusts and the conditions they cause. The references which are given have been chosen with a view to forming a starting point for further reading about the effects of individual dusts.
Multiple two-polymerase mechanisms in mammalian translesion DNA synthesis

The encounter of replication forks with DNA lesions may lead to fork arrest and/or the formation of single-stranded gaps. A major strategy to cope with these replication irregularities is translesion DNA replication (TLS), in which specialized error-prone DNA polymerases bypass the blocking lesions. Recent studies suggest that TLS across a particular DNA lesion may involve as many as four different TLS polymerases, acting in two-polymerase reactions in which insertion by a particular polymerase is followed by extension by another polymerase. Insertion determines the accuracy and mutagenic specificity of the TLS reaction, and is carried out by one of several polymerases such as polη, polκ or polι. In contrast, extension is carried out primarily by polζ. In cells from XPV patients, which are deficient in TLS across cyclobutane pyrimidine dimers (CPD) due to a deficiency in polη, TLS is carried out by at least two backup reactions each involving two polymerases: One reaction involves polκ and polζ, and the other polι and polζ. These mechanisms may also assist polη in normal cells under an excessive amount of UV lesions.
Exhaustive physical exercise causes oxidation of glutathione status in blood: prevention by antioxidant administration.

We have studied the effect of exhaustive concentric physical exercise on glutathione redox status and the possible relationship between blood glutathione oxidation and blood lactate and pyruvate levels. Levels of oxidized glutathione (GSSG) in blood increase after exhaustive concentric physical exercise in trained humans. GSSG levels were 72% higher immediately after exercise than at rest. They returned to normal values 1 h after exercise. Blood reduced glutathione (GSH) levels did not change significantly after the exercise. We have found a linear relationship between GSSG-to-GSH and lactate-to-pyruvate ratios in human blood before, during, and after exhaustive exercise. In rats, physical exercise also caused an increase in blood GSSG levels that were 200% higher after physical exercise than at rest. GSH levels did not change significantly. Thus, both in rats and humans, exhaustive physical exercise causes a change in glutathione redox status in blood. We have also found that antioxidant administration, i.e., oral vitamin C, N-acetyl-L-cysteine, or glutathione, is effective in preventing oxidation of the blood glutathione pool after physical exercise in rats.
A randomized, placebo-controlled, phase II study of tetomilast in active ulcerative colitis.

BACKGROUND & AIMS Tetomilast (OPC-6535), a novel thiazole compound, inhibits phosphodiesterase-4 and proinflammatory functions of leukocytes including superoxide production and cytokine release. METHODS One hundred eighty-six patients with mildly to moderately active ulcerative colitis (Disease Activity Index [DAI] 4-11 points) from 35 centers were randomized to receive an oral, once-daily dose of placebo or tetomilast 25 mg or 50 mg for 8 weeks. RESULTS Percentages of patients reaching the primary end point (improvement as defined by reduction in DAI > or =3 at week 8) were not significantly different between placebo (35%) and either the 25 mg tetomilast (52%) or the 50 mg tetomilast (39%) groups (intent-to-treat population). Remission rates (DAI 0-1) were 7%, 16%, and 21%, respectively (not significant). Mean reduction in DAI at week 8 was greater in the 25-mg group than under placebo (2.8 +/- 0.4 vs 1.7 +/- 0.36, respectively, P = .041) and approached statistical significance in the 50-mg group (2.8 +/- 0.46, P = .056). A post hoc analysis focusing on patients with high activity scores (baseline DAI 7-11) suggested differences between tetomilast and placebo that will require further investigation. No significant safety concerns were raised. Main adverse effects included gastrointestinal problems (nausea, vomiting) and were preferentially seen in the 50-mg tetomilast group. CONCLUSIONS This phase II trial of tetomilast in ulcerative colitis did not achieve statistical significance for the primary end point. Secondary end points indicate a potential clinical activity of tetomilast. The post hoc analysis suggests that further clinical development should focus on patients with objective parameters of inflammation.
COMBINING MEMS-BASED IMU DATA AND VISION-BASED TRAJECTORY ESTIMATION

This paper presents an efficient location tracking algorithm that integrates vision-based motion estimation and IMU data. Orientation and translation parameters of the mobile device are estimated from video frames or highly overlapped image sequences acquired with built-in cameras of mobile devices. IMU data are used to maintain continuity of the orientation estimation between sampling of the image homography calculation. The developed algorithm consists of six primary steps: (1) pre-processing; (2) feature points detection and matching; (3) homography calculation; (4) control points detection and registration; (5) motion estimation and filtering; (6) IMU data integration. The pre-processing of the input video frames or images is to control the sampling rate and image resolution in order to increase the computing efficiency. The overlap rate between selected frames is designed to remain above 60% for matching. After preprocessing, feature points will be extracted and matched between adjacent frames as the conjugate points. A perspective homography is constructed and used to map one image to another if the co-planar feature points between subsequent images are fully matched. The homography matrix can provide the camera orientation and translation parameters according to the conjugate pairs. An area-based image-matching method is employed to recognize landmarks as reference nodes (RNs). In addition, a filtering mechanism is proposed to ensure the rotation angle was correctly recorded and to increase the tracking accuracy. Comparisons of the trajectory results with different combinations among vision-based motion estimation, filtering mechanism and IMU data integration are evaluated thoroughly and the accuracy is validated with on-site measurement data. Experimental results indicate that the develop algorithm can effectively estimate the trajectory of moving mobile devices and can be used as a cost-effective alternative for LBS device both in outdoor and indoor environment.
Compromising FPGA SoCs using malicious hardware blocks

Modern FPGA System-on-Chips (SoCs) combine high performance application processors with reconfigurable hardware. This allows to enhance complex software systems with reconfigurable hardware accelerators. Unfortunately, even when state-of-the-art software security mechanisms are implemented, this combination creates new security threats. Attacks on the software are now possible through the reconfigurable hardware as these cores share resources with the processor and may contain unwanted functionality. In this paper, we discuss software protection mechanisms offered in conventional SoCs and how they can be circumvented by malicious hardware blocks. As a concrete example, we show how the malicious functionality within an IP core accesses and replaces critical memory sections. We refer to this type of attacks as hardware-assisted attacks against running software systems. We carry-out a proof-of-concept on the Xilinx Zynq device which runs a Linux OS and a software application that verifies system updates. The malicious IP core replaces the public key used to verify system updates, thus, allowing an attacker to maliciously update the FPGA SoC. Additionally, we propose a countermeasure that can be applied against such threats in the form of a security wrapper for hardware modules.
Long-term effects of a structured life review process.

This study examined the long-term effects of a structured life review process in a group of 52 homebound elderly clients. Subjects in three groups were tested three times on four dependent variables. At 8 weeks the experimental group, after receiving the life review process, showed significant gains on two dependent variables, life satisfaction and psychological well-being, with analyses of covariance of F = 11.52, p less than . 0001 and F = 9.90, p less than . 003, respectively. Two other dependent variables, depression and activities of daily living, demonstrated no significant change at the 8 weeks posttest. Retesting 35 survivors at 1 year revealed little significant change for any group. There was, however, an upward trend in the experimental group on the outcome measure of life satisfaction and a downward trend in all groups on measures of activities of daily living and depression.
Widespread Translational Inhibition by Plant miRNAs and siRNAs

High complementarity between plant microRNAs (miRNAs) and their messenger RNA targets is thought to cause silencing, prevalently by endonucleolytic cleavage. We have isolated Arabidopsis mutants defective in miRNA action. Their analysis provides evidence that plant miRNA–guided silencing has a widespread translational inhibitory component that is genetically separable from endonucleolytic cleavage. We further show that the same is true of silencing mediated by small interfering RNA (siRNA) populations. Translational repression is effected in part by the ARGONAUTE proteins AGO1 and AGO10. It also requires the activity of the microtubule-severing enzyme katanin, implicating cytoskeleton dynamics in miRNA action, as recently suggested from animal studies. Also as in animals, the decapping component VARICOSE (VCS)/Ge-1 is required for translational repression by miRNAs, which suggests that the underlying mechanisms in the two kingdoms are related.
The Neural Energy Decoder : Energy Disaggregation by Combining Binary Subcomponents

In this paper a novel approach for energy disaggregation is introduced that identifies additive sub-components of the power signal in an unsupervised way from high-frequency measurements of current. In a subsequent step, these sub-components are combined to create appliance power traces. Once the subcomponents that constitute an appliance are identified, energy disaggregation can be viewed as non-linear filtering of the current signal. The approach introduced here tries to avoid numerous pitfalls of existing energy disaggregation techniques such as computational complexity issues, data transmission limitations and prior knowledge of appliances. We test the approach on a publicly available dataset and report an overall disaggregation error of 0.07.
Swarm aggregation using artificial potential field and fuzzy sliding mode control with adaptive tuning technique

This paper presents a framework for the decentralized control of a self-organizing swarm system. The swarm formation is maintained through artificial potential together with fuzzy sliding mode control (FSMC). The fuzzy parameters associated with the FSMC are estimated using an adaptive algorithm derived using Lyapunov stability theory. The adaptive FSMC thus proposed is intended to compensate for the modeling uncertainties existing in practical applications. It is shown that the proposed FSMC is able to avoid the chattering phenomenon completely as observed in conventional sliding mode control and hence the center of the swarm will become stationary. The simulation results for triangle formulation confirms the stability and robustness of the present scheme for model uncertainties.
Dicloxacillin and erythromycin at high concentrations increase ICAM-1 expression by endothelial cells: a possible factor in the pathogenesis of infusion phlebitis.

OBJECTIVES Antimicrobial agents are important risk factors for infusion phlebitis, but the risk varies between different antibiotics. Erythromycin and dicloxacillin are known to induce phlebitis frequently, as well as to exert toxic effects on cultured endothelial cells. The pathogenesis of infusion phlebitis is unclear, but chemical toxicity is thought to lead to inflammation and subsequent thrombosis. In the present study, endothelial cells were exposed to antibiotics at the range of concentrations used for intravenous administration, followed by analysis of pro-inflammatory and pro-coagulant surface molecules. METHODS Primary human umbilical vein endothelial cells (HUVEC) and the endothelial hybrid cell line EaHy926 were exposed to dicloxacillin, erythromycin, benzylpenicillin and cefuroxime (all at 6250 mg/L) for 60 min, followed by washing. After 5 or 24 h additional incubation, cells were analysed for E-selectin (CD62E), tissue factor (TF) or intercellular adhesion molecule 1 (ICAM-1, CD54) density by flow cytometry. RESULTS Despite constitutive expression of ICAM-1 (34%) in HUVEC, 6250 mg/L of dicloxacillin or erythromycin significantly increased the number of cells with ICAM-1 expression by 37% and 30%, respectively. In contrast, cefuroxime and benzylpenicillin did not up-regulate ICAM-1 above background levels. A similar pattern was seen with the endothelial cell line EaHy926. The E-selectin and TF density were not affected by the antibiotics examined. CONCLUSIONS The results of this study support the theory that endothelial cells that are affected by high concentrations of antibiotics may initiate an inflammatory response through expression of ICAM-1. This is a novel finding in the pathogenesis of infusion phlebitis.
Allozyme variation in a Johnston's topminnow, Aplocheilichthys johnstoni, population from the Zambezi River system

Twenty five specimens of Aplocheilichthys johnstoni (Gunther, 1893) were collected from the Cuando River in the Zambezi River system. Protein electrophoresis was used to analyse the genetic structure of this population. Seven of the 20 loci studied, ( 15% using the 95% criterion) revealed polymorphism. The heterozygosity value obtained (HO = 0.050) compare favourably to those recorded for other fish species. Observed allele frequencies deviated from expected Hardy-Weinberg proportions at the EST-3, GPD-1 and GPI-2 protein coding loci. The results from the genetic analysis of A. johnstoni are discussed in relation to its role in mosquito larval control.
Transformación del modelo de negocio al modelo de caso de uso del sistema utilizando QVT

mail: aarsaute@exa.unrc.edu.ar. 2 Marcela Daniele pertenece al Departamento de Computacion de la Universidad Nacional de Rio Cuarto, Argentina; tel. : +54-358-4676529; email: marcela@dc.exa.unrc.edu.ar. 3 Fabio A. Zorzan pertenece al Departamento de Computacion de la Universidad Nacional de Rio Cuarto, Argentina; tel. : +54-358-4676529; email: fzorzan@exa.unrc.edu.ar. 4 Daniel Riesco pertenece al Departamento de Informatica de la Universidad Nacional de San Luis, San Luis, Argentina, tel. : +54-2652-424027 int 251, e-mail: driesco@unsl.edu.ar RESUMEN
Towards An Objective Assessment Framework for Linked Data Quality: Enriching Dataset Profiles with Quality Indicators

Ensuring data quality in Linked Open Data is a complex process as it consists of structured information supported by models, ontologies and vocabularies and contains queryable endpoints and links. In this paper, the authors first propose an objective assessment framework for Linked Data quality. The authors build upon previous efforts that have identified potential quality issues but focus only on objective quality indicators that can measured regardless on the underlying use case. Secondly, the authors present an extensible quality measurement tool that helps on one hand data owners to rate the quality of their datasets, and on the other hand data consumers to choose their data sources from a ranked set. The authors evaluate this tool by measuring the quality of the LOD cloud. The results demonstrate that the general state of the datasets needs attention as they mostly have low completeness, provenance, licensing and comprehensibility quality scores.
Flexibility through HRM in management consulting firms

Purpose – This paper aims to examine how functional and numerical flexibility can be successfully combined without workforce segmentation or flexible employment contracts, by implementing a highly integrated human resource management (HRM) system.Design/methodology/approach – Six case studies were conducted between January 2002 and June 2003 in Portuguese affiliates of multinational management consulting firms using a grounded theory approach.Findings – Evidence from the case studies showed that some of these companies were able to explore both functional and numerical flexibility in a combined and interdependent way, by operating a tightly run and highly coordinated set of HRM practices geared towards the development of internal labour markets.Research limitations/implications – The study uses a sample of large multinational companies in a single sector, which limits the scope of these findings.Practical implications – It is suggested that a strategy combining numerical and functional flexibility through.
Fluconazole penetration into cerebrospinal fluid: implications for treating fungal infections of the central nervous system.

Progress in the treatment of systemic mycoses in immunocompromised patients has been greatly impeded by the paucity of new, effective antifungal compounds. The need for such compounds, particularly agents that effectively penetrate the blood-brain barrier, has become even more important with the advent of AIDS, in which there is a 6V0-8V0 frequency of cryptococcosis of the CNS [1-3]. Cryptococcal meningoencephalitis in other populations of patients will generally respond to a treatment course of amphotericin B and flucytosine [4]. Courses of similar duration in patients with AIDS who have cryptococcal meningoencephalitis are, however, associated with a recurrence rate of ^O^o or with persistence of infection. Moreover, the toxicity of flucytosine in patients with AIDS often precludes an extended treatment course with this compound [2]. The need for extended and, perhaps, lifelong therapy with amphotericin B to prevent relapse of cryptococcosis of the CNS has recently been recognized [1, 3]. Fluconazole is a new triazole antifungal agent that has unique pharmacokinetic and pharmacological properties. The bioavailability after oral administration in humans is 80^0 [5]. Fluconazole has been shown to be effective in treating cryptococcal meningitis in animal models [6, 7] and has been proposed as a therapeutic alternative to long-term therapy with amphotericin B in patients with AIDS who have cryptococcal meningoencephalitis [8]. For human and subhuman primates, no pharmacokinetic data exist, however, that examine simultaneous sequential CSF and plasma levels of fluconazole to document and characterize penetration of this drug into the CSF. The current study was performed to evaluate CSF penetration of fluconazole by using a subhuman primate model that reliably predicts CSF penetration and pharmacokinetics of drugs in humans and has been demonstrated to serve as a valid substitute for human experimentation [9, 10].
Dental Experience, Anxiety, and Oral Health in Low-income Chilean Children.

PURPOSE The purpose of this study was to evaluate the relationship between early dental experiences and clinical indicators of oral health and dental anxiety upon admission to a comprehensive oral health program for six-year-old children in Chile. METHODS One hundred twenty-nine six-year-old children were enrolled in the Recreo Family Health Center of the Municipality of San Miguel, Santiago, Chile. Oral health status was assessed based on the decayed, extracted, or filled teeth index, simplified oral hygiene index, and Streptococcus mutans score. Dental anxiety was assessed using the facial image scale and Frankl scale. Early dental experience was classified as: no previous dental visits; preventive control; restorative treatment; and emergency visit. RESULTS Children who had previous experience of restorative treatment and emergency visits showed greater dental caries damage (Kruskal-Wallis, P <.01). Those who had emergency visits had the highest S. mutans score. There was no relationship between the type of prior dental experience and the anxiety level or oral hygiene index. CONCLUSIONS Invasive dental treatment resulted in greater susceptibility to dental caries damage; however, these experiences did not influence dental anxiety levels.
Two estimation method of sensorless permanent magnet synchronous wotors

In this paper, two methods are introduced to estimate the position and speed of permanent magnet synchronous motors (PMSM). They are based on EMF and MRAS. The first method estimates the back electromotive force (EMF), then calculates rotor position and speed. In the second method, the model of PMSM is reference model and motor current is adjustable model. The derivation process and the simulation result are given, the result shows both of them have their advantages which can be used separately to obtain the unity of rapidity and stability.