Miracle-dz/UniFAR-FTUs huggingface dataset:
Performance of VITEK 2 in the routine identification of bacteria from positive blood cultures in Sulaimani pediatrics ’ hospital

Sepsis is a major cause of death worldwide among hospitalized patients, however, an accurate and advanced identification method is associated with improved sepsis patient survival. This Retrospective study carried out in Sulaimani pediatric teaching hospital from January 2014 to July 2015 and aimed to compare the effectiveness of VITEK 2 system with traditional manual procedures for identification of pathogenic bacteria in patients with a serious disease like sepsis. The positive blood cultures were divided into two groups; 138 positive cultures identified by conventional manual methods and 104 positive cultures identified by automated VITEK 2 system. The results showed that VITEK 2 system identified 16 genera and 30 species whereas only nine genera with seven species diagnosed by using routine method. The most important result during this study was the identification of five uncommon bacterial genera Kocuria, Leuconostic, Cedecea, Pantoea and Burkhoderia which have never been diagnosed in the microbiology laboratory of the hospital until the modern automated system VITEK 2 use. In conclusion, using VITEK 2 is required to enhance the performance of hospital’s microbiology laboratory which is essential for accurate diagnosis and prompt effective treatment of blood stream infections.
Reduced Interhemispheric Resting-State Functional Homotopy in Obsessive-Compulsive Disorder

Neuroimaging studies have shown structural and functional abnormalities in parts of the cortico-striato-thalamo-cortical (CSTC) brain circuitry in patients with obsessive-compulsive disorder (OCD). However, little is known about changes in the interhemispheric functional homotopy in the resting-state in OCD. This study used a voxel-mirrored homotopic connectivity (VMHC) approach combined with resting-state functional magnetic resonance imaging to investigate changes in interhemispheric functional homotopy in 60 OCD patients and 60 healthy controls. Compared with the healthy controls, the OCD patients showed decreased VMHC values in the thalamus. The results suggest that changes in functional homotopy in the CSTC circuitry may be involved in the pathophysiologic mechanism of OCD. Our findings provide new evidence of abnormalities in the CSTC circuitry in OCD.
Automatic Selection of Suitable Sentences for Language Learning Exercises

In our study we investigated second and foreign language (L2) sentence readability, an area little explored so far in the case of several languages, including Swedish. The outcome of our research consists of two methods for sentence selection from native language corpora based on Natural Language Processing (NLP) and machine learning (ML) techniques. The two approaches have been made available online within Larka, an Intelligent CALL (ICALL) platform offering activities for language learners and students of linguistics. Such an automatic selection of suitable sentences can be valuable for L2 teachers during the creation of new teaching materials, for L2 students who look for additional self-study exercises as well as for lexicographers in search of example sentences to illustrate the meaning of a vocabulary item. Members from all these potential user groups evaluated our methods and found the majority of the sentences selected suitable for L2 learning purposes.
Applying Energy Consumption Schedule and Comparing It with Load Shifting Technique in Residential Load

Energy consumption schedule (ECS) technique shifts usage of loads from on peak hours and redistributes them throughout the day according to residents’ operating time preferences. This technique is used as form of indirect control from utility to improve the load curve and hence its load factor and reduce customer’s total electric bill as well. Similarly, load shifting technique achieves ECS purposes but as direct control form applied from utility. In this paper, ECS is simulated twice as optimal constrained mathematical formula, solved by using CVX program in MATLAB R2013b. First, it is utilized for single residential building with ten apartments to determine max allowable energy consumption per hour for each residential apartment. Then, it is used for single apartment with number of shiftable domestic devices, where operating schedule is deduced using previous simulation output results as constraints. The paper ends by giving differences between ECS technique and load shifting technique via literature and simulation. Based on results assessment, it will be shown whether using ECS or load shifting is more beneficial to both customer and utility. Keywords—Energy consumption schedule, load shifting technique, comparison.
Conceptualizing and Formalizing Requirements for Ontology Engineering

This paper presents the PhD project, by the first author, that develops, in frame of the OntoElect methodology, the methods, techniques, and software tools for conceptualizing and formalizing the requirements for engineering an ontology in an arbitrary domain. It takes in the terms extracted from a representative collection of high-quality textual documents written by the experts in the target domain and therefore describing this domain. It produces the representative set of the requirements by the knowledge stakeholders as ontological fragments conceptualized as UML class diagrams and formalized in OWL+SWRL. The paper presents the vision of the solution and the plan towards building it based on the background knowledge and related work in the fields of Conceptual Modeling and Ontology Engineering. It also outlines the plan for experimental evaluation and validation of the solution.
Running title : Molecular epidemiology of malaria in Vietnam

Title Longitudinal survey of Plasmodium falciparum infection in Vietnam: characteristics of antimalarial resistance and their associated factors. Author(s) Isozumi, Rie; Uemura, Haruki; Le, Duc Dao; Truong, Van Hanh; Nguyen, Duc Giang; Ha, Viet Vien; Bui, Quang Phuc; Nguyen, Van Tuan; Nakazawa, Shusuke Citation Journal of clinical microbiology, 48(1), pp.70-77; 2010 Issue Date 2010-01 URL http://hdl.handle. net/10069/23182 Right Copyright © 2010, American Society for Microbiology. All Rights Reserved. NAOSITE: Nagasaki University's Academic Output SITE
Detection and antibiotic susceptibility profiles of Listeria monocytogenes in wildlife and water samples in Kubah National Park, Sarawak, Malaysia

This study was conducted to detect the presence of Listeria monocytogenes (L. monocytogenes) and screen for its antibiotic susceptibility characteristic from wildlife and water samples at Kubah National Park, Sarawak, Malaysia. Samples collected were incubated and streaked on selective medium PALCAM agar to confirm the presence of Listeria spp. before they were further tested using molecular analysis. Specific Polymerase Chain Reaction (PCR) assay were performed to target specific virulence gene, haemolysin gene, hlyA to further distinguish the presence of this pathogenic bacteria in the samples. Overall, out of the 30 samples tested, 10 samples were confirmed as to contain L. monocytogenes strains and selected to subsequent antibiotic susceptibility test. Susceptibility patterns to 10 antibiotics were investigated among the L. monocytogenes strains. All strains were uniformly resistant to tetracycline and erythromycin. On the other hand, all strains were sensitive to gentamycin and tobramycin. The multiple antibiotic resistance shown by the strains in this study indicate the potential health hazard associated with the possible transmission between wildlife and water to its surrounding environment especially visitors and workers of Kubah National Park, Sarawak, Malaysia.
BAOJ Cancer Sciences High Sensitivity Detection of Tumor Gene Mutations

It is widely accepted that cancer develops as a results of mutations in cell growth pathway related genes particularly those mutations that occur in growth factor receptor pathways such as the cell surface Epidermal Growth Factor Receptor (EGFR) and Fibroblast Growth Factor Receptor (FGFR) pathways and in tumor suppressor genes such as p53, APC and PTEN. Detection of these mutations is critical not only for early detection of cancerous cells but also for decisions on what therapy should be applied to treat the patient. For example, mutations in the intracellular downstream signaling proteins rat sarcoma viral oncogenes KRAS, NRAS and HRAS can produce resistance to a particular therapeutic agent. In this context of ‘Precision Medicine’ tumor gene mutations have classically been measured in the DNA isolated from formalin-fixed paraffin embedded (FFPE) tumor biopsy tissue. However, surgical tumor biopsies are not only invasive and risky, but are extremely difficult for inaccessible and fragile organs such as the lungs. A recent study confirmed that this standard prognostic procedure is woefully inadequate [1]. A localized tumor biopsy could miss mutations in a distal region of the tumor that might radically change a person’s chances for survival. And although biopsies can provide data about specific mutations that might make a tumor vulnerable to targeted therapies, that information is static and bound to become inaccurate as the cancer evolves. Minimally invasive procedures such as taking blood is simple in comparison, urine sampling is even simpler. Several groups have reported that the mutational landscape of a patient’s tumor can be measured simply by monitoring the mutational status of the circulating cell-free tumor DNA (ctDNA) in the patient’s blood. However, this requires a highly sensitive technique and to date most large oncology research centers have resorted to BEAMing PCR2 to achieve this. This is partly because tumor DNA is much harder to detect in the circulation due to the large excess of wildtype DNA. There is typically less of it in the blood. In people with very advanced cancers, tumors might be the source of most of the circulating DNA in the blood, but more commonly, ctDNA makes up barely 1% of the total and possibly as little as 0.01%. Several groups in recent years have reported using ctDNA to study patients who were being treated with EGFR inhibitors. Looking for example for known KRAS mutations that confer resistance; or for mutations that prevent drugs from binding to their target [3-5].
RoPose: CNN-based 2D Pose Estimation of Industrial Robots

As production workspaces become more mobile and dynamic it becomes increasingly important to reliably monitor the overall state of the environment. Therein manipulators or other robotic systems likely have to be able to act autonomously together with humans and other systems within a joint workspace. Such interactions require that all components in non-stationary environments are able to perceive the state relative to each other. As vision-sensors provide a rich source of information to accomplish this, we present RoPose, a convolutional neural network (CNN)-based approach, to estimate the two dimensional joint configuration of a simulated industrial manipulator from a camera image. This pose information can further be used by a novel targetless calibration setup to estimate the pose of the camera relative to the manipulator's space. We present a pipeline to automatically generate synthetic training data and conclude with a discussion of the potential usage of the same pipeline to acquire real image datasets of physically existent robots.
Techniques to Combat Drift in PUF-based Authentication Systems

Physically unclonable functions (PUFs) provide a mechanism for uniquely identifying a hardware device based on the intrinsic variations of physical components. Common applications for PUFs include generating or binding cryptographic keys in a secure manner. In recent work, though, we have examined the possibility of incorporating PUFs directly into certain cryptographic protocols as part of an access control mechanism. These protocols rely on the ability of the PUF to produce an identical binary value at every attempt. One challenge with using PUFs in these authentication protocols is that device behavior can change as the device ages. This change is called drift. Although short-term drift can be handled by applying error-correcting codes, longterm drift requires a more robust solution. In this work, we propose two software-based schemes for addressing drift. Our approaches, using the Feige-Fiat-Shamir identification scheme and Merkle hash trees, work either by responding to detected drift or by attempting to prevent drift from affecting the PUF mechanism. We also examine the security guarantees and trade-offs involved in adopting either
APPLICATION OF RESPONSE SURFACE METHODOLOGY (RSM) FOR CULTURE CONDITIONS AND BIOMASS PRODUCTION OF PSYCHROPHILIC MICROALGAE ISOLATED FROM HIGH MOUNTAINS LAKE DURING THE ICE-FREE SEASON

Many studies on cold environments have been developed over the past two decades. High mountain freshwater presents high variability of nutrients and chemico-physical parameters, showing variations of pH, oxygen concentration, metals and temperature throughout the year. National Park of Sierra Nevada (Granada, Spain) (37°032 N 03°182 W), has almost 40 lakes that are reported to be both endemic and oligotrophic. However, very little information about their microbial diversity can be found in literature. In this work, a Response Surface Methodology (RSM) was used to find best nutritional conditions for the isolation of psychrophilic microalgae from La Caldera Lake. The results showed that best culture medium, was the Rodriguez-Lopez medium (RL); data were adjusted to a quadratic prediction model reporting a biomass concentration over 600 mg/L at 10 and 20oC. In this paper, the diversity of culturable freshwater microalgae in the La Caldera Lake was observed by PCR using specific primers for eukaryotic 18S rRNA genes. Samples were taken in early July and late Agust, 2011. In July presence of strains belonging to the Eustigmatophyceae, Bacillariophyceae, Trebouxiophyceae, Chlorophyceae and Scenedesmaceae families were found. In August, only microalgae from the Eustigmatophyceae, Trebouxiophyceae, Chlorophyceae and Scenedesmaceae families were found. An individual culture of each isolated strain was carried out. Microalgae S21 had phylogenetic similitude with Chlorophyceae, and showed best growth being biomass concentration in RL 393.73 mg/L and 128.52 mg/L at 20oC and 10oC, respectively. Moreover, specific growth rates (µ max ), 0.25/h and 0.13/h at 20oC and 10oC, respectively, were detected for strain S21.
A Study on Comparative Performances of Hybrid and Convential Rice Varieties in Aman Season

An experiment was done at farmer's field in Sherpur district to evaluate the comparative performance of two hybrid rice varieties, Sonarbangla-2 and Sonarbangla-3 with three conventional modern commercial varieties BRRIdhan32, BRRIdhan33 and BR11 in Transplanted aman season of 2003. It is revealed that the hybrids and conventional rice varieties differed significantly among themselves with respect to different parameters under study. The highest grain yield (6.20t/ha) was recorded from the hybrid Sonarbangla-3 followed BRRIdhan-32 (5.70 t/ha) and the lowest in BRRIdhan-33 (4.17t/ha) and these differences were statistically significant. However, BRRIdhan-32 obtained significantly higher yield compared to the hybrid Sonarbangla-2. Further, it produced the maximum amount of straw (8.6 t/ha), which varied significantly with all others. Minimum days to 1 st flowering (92) and maturity (108) were noticed in Sonarbangla-2 followed by Sonarbangla-3 (95 and 115), respectively. Both the hybrid had heavier grain weight (28.33-31.00g) than those of the conventional varieties (22-25g). It is noted that the hybrids maintained distinct statistical edge over the conventional varieties with regard to most of the parameters. Thus, the hybrid Sonarbangla-3 was found superior to conventional varieties for transplanting in the aman season in Bangladesh.
In ( 0 N 4 Incremental Recompilation for Standard ML of New Jersey 0

The design and implementation of an incremental recompilation manager (IRM) for Standard ML of New Jersey (SML/NJ) is described. Truly separate compilation is difficult to implement correctly and efficiently for SML because one compilation unit may depend not only on the interface of another, but also on its implementation. In this paper we present an integrated compilation system based on the "visible compiler" primitives provided by SML/NJ that supports "smart recompilation" to minimize system build time in most situations. Large systems are presented as hierarchical source groups. An automatic dependency analyzer determines constraints on the order in which sources must be considered. By abstracting away from the specifics of the SML/NJ compiler, the IRM readily generalizes to arbitrary "compilation tools" such as parser generators and embedded languages. This research was sponsored by the Defense Advanced Research Projects Agency, csTO, tnder the title -The Fox Project: Advanced Development of Systems Software", ARPA Order No. 831:3, isteed by ESD/AVS uider (Contract No. F19628-91-C-0168. The views and conclusions contained in this document are those of the authors and should not he interpreted ,L. representing official policies, either expressed or implied, of the Defense Advanced Research Projects Agency or the U.S. Government.
User Profile Gender : Female , Age : Elderly , Dietary : Vegetable Good morning

Most existing works on dialog systems only consider conversation content while neglecting the personality of the user the bot is interacting with, which begets several unsolved issues. In this paper, we present a personalized end-to-end model in an attempt to leverage personalization in goal-oriented dialogs. We first introduce a PROFILE MODEL which encodes user profiles into distributed embeddings and refers to conversation history from other similar users. Then a PREFERENCE MODEL captures user preferences over knowledge base entities to handle the ambiguity in user requests. The two models are combined into the PERSONALIZED MEMN2N. Experiments show that the proposed model achieves qualitative performance improvements over state-of-the-art methods. As for human evaluation, it also outperforms other approaches in terms of task completion rate and user satisfaction.
Proteinases involved in implantation initiation in the rabbit : microdisc electrophoretic studies

Implantation blastocyst trophoblast attachment uterine secretion proteinases rabbit Blastocyst and uterine secretion proteinases which, according to previous investigations, play a central role in initiation of implantation (attachment of trophoblast onto the uterine epithelium) are studied in the rabbit using miero dise eleetrophoresis. A speeifieally designed proeedure using a highly sensitive gelatin substrate film teehnique and longitudinal seetions of miero dise gels is deseribed. Comparison is made with zymograms obtained with synthetie amide substrates (BANA and GPNA). Rabbit implantation stage (62/3 d p.e.) trophoblast as weil as disintegrating blastocyst coverings are shown to eontain high aetivity of a gelatin-dissolving proteinase of identieal eleetrophoretie mobility. BANA-splitting aetivity of this enzyme is barely deteetable. Uterine flushings from the same stage exhibit a gelatinolytie proteinase whieh shows slightly different migratory properties in miero dise eleetrophoresis. Considerable BANA-splitting aetivity (optimum pH in the range of 8.0) is found in the same fraetion and is tentatively aseribed to the same enzyme whieh, by its eatalytie properties, resembles trypsin more closely than the blastoeyst-derived proteinase. Both enzymes are separable from ß-glycoprotein. Chymotrypsin-like (GPNA-splitting) amidase aetivity is found predominantly in a slowly migrating fraetion of pregnant uterine flushings. lndieations for a regulation of proteinase aetivity of trophoblast and uterine seeretion by proteinase inhibitors present in these sites, or by proenzyme aetivation, are diseussed. 1) Priv. -Doz. DR. DR. H. -W. DENKER, Abteilung Anatomie der RWTH, Melatener Str. 211, D-5100 Aaehen/West Germany. 364 H. -W. DENKERand U. PETZOLDT
Computational Analysis of Interfacial Instability in Angled Hele-Shaw Cells

We present a theoretical and numerical study on the (in)stability of the interface between immiscible liquids, i.e., viscous fingering, in angled Hele-Shaw cells across a range of capillary numbers (Ca). We consider two types of angled Hele-Shaw cells: diverging cells with positive depth gradient and converging cells with negative depth gradient, and compare those results with parallel cells without depth gradient. A modified linear stability analysis is employed to derive a novel expression for the growth rate of perturbations on the interface and for the critical capillary number ($Ca_c$) for such a tapered Hele-Shaw cell. Based on these results, a three-regime theory is formulated to describe the interface (in)stability: (i) in Regime I, the growth rate is always negative, thus the interface is stable; (ii) in Regime II, the growth rate remain zero (in parallel cells), change from negative to positive (in converging cells), or from positive to negative (in diverging cells), thus the interface (in)stability possibly changes type at some location in the cell; (iii) in Regime III, the growth rate is always positive, thus the interface is unstable. We conduct three-dimensional direct numerical simulations of Navier--Stokes-based mixture theory to verify the theory and explore the effect of depth gradient on the interface (in)stability. We demonstrate that the depth gradient has only a slight influence in Regime I, and its effect is most pronounced in Regime III. Finally, we provide a critical discussion of the stability diagram derived from theoretical considerations and direct numerical simulations.
Molecular systematics of the genera Laurencia, Osmundea and Palisada (Rhodophyta) from the Canary Islands -Analysis of rDNA and RUBISCO spacer sequences

The molecular systematics of Laurencia, Osmundea and Palisada (Rhodomelaceae, Ceramiales) species from the Canary Islands has been determined by analysis sequences of the ribulose,1-5, bisphosphate carboxylase (RUBISCO) spacer from the plastid genome and the internal transcribed spacers (ITS1 and ITS2) and the rDNA 5.8S coding region from the nuclear genome. Comparison of sequence data showed an identity of 72-83 % between the species. Three taxonomic group were identified that correspond to established phylogenetic taxons. Phylogenetic trees using both parsimony and maximum-likelihood methods were derived from the sequence data; the trees indicate that O. pinnatifida appears to be the most distantly related species from the Laurencia and Palisada species. The exact phylogenetic position of Laurencia sp. A (“amarilla”) need additional studies.
Reconstruction of the Eddy Current Distribution on the Vacuum Vessel in a Reversed Field Pinch Device based on the External Magnetic Sensor Signals

For the MHD equilibrium reconstruction of a reverse field pinch device, it is a big issue to identify accurately the strong eddy current flow on the shell. In the present work, boundary integrals of the eddy current along the shell are added to the conventional Cauchy-condition surface method formulation. The eddy current profile is unknown in advance but straightforwardly identified using only the signals from magnetic sensors located outside the plasma. Two ideas are introduced to overcome the numerical difficulties encountered in the problem. One is an accurate boundary integral scheme to damp out the near singularity occurring at the sensor position very close to the shell. The other is the modified truncated singular value decomposition technique to solve an illconditioned matrix equation when a large number of nodal points exist on the shell. The capability of the new method is demonstrated for a test problem modeling the RELAX device. c