Miracle-dz/UniFAR-FTUs huggingface dataset:
Selective Phylogenetic Analysis Targeting 16S rRNA Genes of Hyperthermophilic Archaea in the Deep-Subsurface Hot Biosphere

ABSTRACT International drilling projects for the study of microbial communities in the deep-subsurface hot biosphere have been expanded. Core samples obtained by deep drilling are commonly contaminated with mesophilic microorganisms in the drilling fluid, making it difficult to examine the microbial community by 16S rRNA gene clone library analysis. To eliminate mesophilic organism contamination, we previously developed a new method (selective phylogenetic analysis [SePA]) based on the strong correlation between the guanine-plus-cytosine (G+C) contents of the 16S rRNA genes and the optimal growth temperatures of prokaryotes, and we verified the method's effectiveness (H. Kimura, M. Sugihara, K. Kato, and S. Hanada, Appl. Environ. Microbiol. 72:21-27, 2006). In the present study we ascertained SePA's ability to eliminate contamination by archaeal rRNA genes, using deep-sea hydrothermal fluid (117°C) and surface seawater (29.9°C) as substitutes for deep-subsurface geothermal samples and drilling fluid, respectively. Archaeal 16S rRNA gene fragments, PCR amplified from the surface seawater, were denatured at 82°C and completely digested with exonuclease I (Exo I), while gene fragments from the deep-sea hydrothermal fluid remained intact after denaturation at 84°C because of their high G+C contents. An examination using mixtures of DNAs from the two environmental samples showed that denaturation at 84°C and digestion with Exo I completely eliminated archaeal 16S rRNA genes from the surface seawater. Our method was quite useful for culture-independent community analysis of hyperthermophilic archaea in core samples recovered from deep-subsurface geothermal environments.
Treatment Patterns, Health Care Utilization, and Costs of Ovarian Cancer in Central and Eastern Europe Using a Delphi Panel Based on a Retrospective Chart Review

Objective Despite the considerable disease burden of ovarian cancer, there were no cost studies in Central and Eastern Europe. This study aimed to describe treatment patterns, health care utilization, and costs associated with treating ovarian cancer in Hungary, Poland, Serbia, and Slovakia. Method Overall clinical practice for management of epithelial ovarian cancer was investigated through a 3-round Delphi panel. Experts completed a survey based on the chart review (n = 1542). The survey was developed based on clinical guidelines and the International Federation of Gynecology and Obstetrics Annual Report. Means, ranges, and outlier values were discussed with the experts during a telephone interview. Finally, consensus estimates were obtained in face-to-face workshops. Based on these results, overall cost of ovarian cancer was estimated using a Markov model. Results The patients included in the chart review were followed up from presurgical diagnosis and in each phase of treatment, that is, surgical staging and primary surgery, chemotherapy and chemotherapy monitoring, follow-up, and palliative care. The 5-year overall cost per patient was €14,100 to €16,300 in Hungary, €14,600 to €15,800 in Poland, €7600 to €8100 in Serbia, and €12,400 to €14,500 in Slovakia. The main components were chemotherapy-associated costs (68%–74% of the total cost), followed by cost of primary treatment with surgery (15%–21%) and palliative care (3%–10%). Conclusions Patients with ovarian cancer consume considerable health care resources and incur substantial costs in Central and Eastern Europe. These findings may prove useful for clinicians and decision makers in understanding the economic implications of managing ovarian cancer in Central and Eastern Europe and the need for innovative therapies.
Image Morphing Algorithm: A Survey

Image morphing has received much attention in recent years. It has proven that a powerful tool for visual effects in film and television, enabling the fluid transformation of one digital image into another. This paper will be focus on the several methods and techniques which are used in morphing.These are the selected method and technology for the introduction: Triangulation based morphing, Mesh warping, Field morphing, Moving Least square, As rigid as possible.
Psachno: a dynamic and generic discovery framework within a peer-to-peer network model

We investigate the varying discovery protocols available and abstracts common elements to provide an interoperable framework. We look into a variety of discovery domains and treating all discoverable items as resources. An analysis and abstraction of common elements is performed to provide a structured hierarchy of discovery semantics. Different network models were investigated to derive a dynamic discovery interface from all terminal types including servers, workstations and PDAs. As proof of concept, a security model has been implemented to provide an optimized and secure discovery framework that will integrate with the associated protocols' security models. This analysis motivates the design of a generic discovery framework that provides an open interface and integrates with existing and future discovery protocols.
Optimized KNN classify rule for EEG based differentiation between capable dyslexic and normal children

Information on brain state and functionality could be obtained from Electroencephalograph (EEG) signal and is suitable to be used in analyzing brain disorders such as dyslexia. Our work here concerns on optimize setting in the classification of EEG signal for capable dyslexic and normal children using KNN (K-Nearest Neighbour) classifier. Discrete Wavelet Transform (DWT) with Daubechies of order 8 (DB8) was employed to extract the power band features, which were then normalized before classification. KNN distance function algorithm Euclidean, Correlation and Cosine were applied with the value of nearest neighbor being varied from 1 till 13. Classify rules using Random, Nearest and Consensus were explored to obtain optimum result. Results showed that the classifier accuracy is 100% for normal and capable dyslexic children using Euclidean with fc-value at 5 for Random and nearest rule.
Task-evoked pupillary responses, processing load, and the structure of processing resources.

A physiological measure of processing load or "mental effort" required to perform a cognitive task should accurately reflect within-task, between-task, and betweenindividual variations in processing demands. This article reviews all available experimental data and concludes that the task-evoked pupillary response fulfills these criteria. Alternative explanations are considered and rejected. Some implications for neurophysiological and cognitive theories of processing resources are discussed.
Fast Iterative Refinement of Articulated Solid Dynamics

A new dynamics algorithm for articulated solid animation is presented. It provides enhancements of computational efficiency and accuracy control with respect to previous solutions. Iterative refinement allows us to perform interactive animations which could be only computed off-line using previous methods. The efficiency results from managing two sets of constraints associated with the kinematic graph, and proceeding in two steps. First, the acyclic constraints are solved in linear time. An iterative process then reduces the closed-loop errors while maintaining the acyclic constraints. This allows the user to efficiently trade off accuracy for computation time. We analyze the complexity and investigate practical efficiency compared with other approaches. In contrast with previous research, we present a single method which is computationally efficient for acyclic bodies as well as for mesh-like bodies. The accuracy control is provided by the iterative improvement performed by the algorithm and also from the existence of two constraint priority levels induced by the method. Used in conjunction with a robust integration scheme, this new algorithm allows the interactive animation of scenes containing a few thousand geometric constraints, including closed loops. It has been successfully applied to real-time simulations.
Glycosidases in fowl semen.

It seems probable that the glycosidases in spermatozoa and seminal plasma are involved in the fertilization process. In mammals, this possibility may be supported by the presence of several glycosidases, hyaluronidase and neuraminidase (Hartree & Srivastava, 1965; Srivastava, Adams & Hartree, 1965; Srivastava, Zaneveld & Williams, 1970; Srivastava, 1973), \g=b\-N-acetylglucosaminidase (Conchie & Mann, 1957), \g=a\-mannosidase(Conchie & Mann, 1957) and \g=b\-glucuronidase(Bernstein & Teichman, 1973) in sperm acrosomes. Although there is a detailed report by Conchie & Mann (1957) on glycosidases in mammalian semen, little work has been done on this group of enzymes in fowl semen. The present communication deals with normal activity levels of glycosidases in whole semen and in the spermatozoa of one breed of domestic fowl. Semen was collected from ten White Leghorn males by the abdominal massage technique (Burrows & Quinn, 1937). For enzyme assay, aliquots of pooled semen, containing 3\m=. \9to 4\m=. \3 \m=x\109 spermatozoa/ml, were suitably diluted with 0\m=. \15 m-NaCl containing Triton X-100 at a final concentration of 0\m=. \1%. Spermatozoa were prepared by washing with Ringer-phosphate medium at pH 7\m=. \3 (Brooks & Mann, 1972) and by diluting the cells with the detergent at the same concentration as above. At optimal pH, all enzymes were assayed according to the procedures described by Conchie, Findlay & Lewy (1959) with some modifications. The reaction mixture (1\m=.\0 ml) was incubated during a fixed period at 41\s=deg\C and the reaction was stopped by adding 1\m=. \0 ml of 0\m=. \4 m-glycine buffer at pH 10\m=. \5. The absorbance of the supernatant fluid obtained by centrifugation was determined spectrophotometrically at 410 nm. The normal levels of glycosidase activities in the whole semen and spermato¬ zoa of fowl are summarized in Table 1. Among the enzymes present in whole
A connectionist computational method for face recognition

Abstract In this work, a modified version of the elastic bunch graph matching (EBGM) algorithm for face recognition is introduced. First, faces are detected by using a fuzzy skin detector based on the RGB color space. Then, the fiducial points for the facial graph are extracted automatically by adjusting a grid of points to the result of an edge detector. After that, the position of the nodes, their relation with their neighbors and their Gabor jets are calculated in order to obtain the feature vector defining each face. A self-organizing map (SOM) framework is shown afterwards. Thus, the calculation of the winning neuron and the recognition process are performed by using a similarity function that takes into account both the geometric and texture information of the facial graph. The set of experiments carried out for our SOM-EBGM method shows the accuracy of our proposal when compared with other state-of the-art methods.
An Algorithm for Fast Recovery of Sparse Causal Graphs

Previous asymptotically correct algorithms for recovering causal structure from sample probabilities have been limited even in sparse causal graphs to a few variables. We describe an asymptotically correct algorithm whose complexity for fixed graph connectivity increases polynomially in the number of vertices, and may in practice recover sparse graphs with several hundred variables. From sample data with n = 20,000, an implementation of the algorithm on a DECStation 3100 recovers the edges in a linear version of the ALARM network with 37 vertices and 46 edges. Fewer than 8% of the undirected edges are incorrectly identified in the output. Without prior ordering information, the program also determines the direction of edges for the ALARM graph with an error rate of 14%. Processing time is less than 10 seconds. Keywords DAGS, Causal Modelling.
A Frequency-Fixed SOGI-Based PLL for Single-Phase Grid-Connected Converters

Second-order generalized integrator (SOGI) based phase-locked loops (PLLs) are widely used for grid synchronization in single-phase grid-connected power converters. Previously, the estimated frequency of the PLL stage is fed back to the front-end SOGI block to make SOGI-PLLs frequency-adaptive, which increases the implementation complexity, and makes the tuning sensitive, thus reducing stability margins. Alternatively, a frequency-fixed SOGI-based PLL (briefly called FFSOGI-PLL) is proposed to ensure stability and simple implementation in this letter. It is commonly known that the in-phase and quadrature-phase signals generated by the frequency-fixed SOGI are of different amplitudes in the presence of frequency drifts, which causes second-harmonic ripples in the estimated parameters of the PLL loop. To deal with this issue, a simple yet effective method is developed in FFSOGI-PLL. The standard SOGI-PLL is first introduced, followed by the working principle and small-signal model of FFSOGI-PLL. The FFSOGI-PLL is then compared with the SOGI-PLL in terms of stability and transient performance. Finally, experimental results are presented to demonstrate the effectiveness of FFSOGI-PLL.
Construction of plasmid cloning vectors for lactic streptococci which also replicate in Bacillus subtilis and Escherichia coli

The cryptic Streptococcus cremoris Wg2 plasmid pWV01 (1.5 megadaltons) was genetically marked with the chloramphenicol resistance (Cmr) gene from pC194. The recombinant plasmid (pGK1, 2.4 megadaltons) replicated and expressed Cmr in Bacillus subtilis. From this plasmid an insertion-inactivation vector was constructed by inserting the erythromycin resistance (Emr) gene from pE194 cop-6. This plasmid (pGK12, 2.9 megadaltons) contained a unique BclI site in the Emr gene and unique ClaI and HpaII sites outside both resistance genes. It was stably maintained in B. subtilis at a copy number of approximately 5. pGK12 also transformed Escherichia coli competent cells to Cmr and Emr. The copy number in E. coli was about 60. Moreover, pGK12 transformed protoplasts of Streptococcus lactis. In this host both resistance genes are expressed. pGK12 is stably maintained in S. lactis at a copy number of 3.
Direct Transfer of Metallic Photonic Structures Onto End Facets of Optical Fibers

We present a flexible approach to transfer metallic photonic crystals (MPCs) onto end facets of optical fibers. The MPCs were initially fabricated on a glass substrate with a spacer layer of indium tin oxide (ITO), which was used as a buffer layer in the transferring process. The fiber ends were firstly welded on the top surface of the MPCs by a drop of polymer solution after the solvent evaporated. The ITO layer was then etched by hydrochloric acid (HCl), so that the MPCs got off the substrate and were transferred to the fiber ends. Alternatively, the MPCs may be also etched off the substrate first by immersing the sample in HCl. The ultra-thin MPC sheet consisting of gold nanolines interlaced with photoresist gratings was then transferred to cap the fiber ends. In the later approach, we can choose which side of the MPCs to be used as the contact with the fiber facet. Such methods enabled convenient nanostructuring on optical fiber tips and achieving miniaturized MPC devices with compact integration, extending significantly applications of MPCs. In particular, the fabrications presented in this manuscript enrich the lab-on-fiber engineering techniques and the resultant devices have potential applications in remote sensing and detection systems.
Sentence spotting applied to partial sentences and unknown words

Itoh et al. (1993) developed a system that uses vector continuous dynamic programming (VCDP). This system works well for sentence spotting in spontaneous speech. Partial sentences intended to convey complete meaning, as well as words that are unknown to the system appear quite often in spontaneous speech. The present authors have extended the sentence spotting algorithm such that it is now capable of accepting partial sentences and detecting unknown words. The paper proposes a method for spotting partial sentences by making networks to represent them and to cope with unknown words by detecting the section containing the unknown word and generating the appropriate demi-phoneme sequence. The results show that the same level of performance can be attained with spotting partial sentences as well as complete sentences. Also, unknown words can be detected well. <<ETX>>
Identification of a Novel Lincomycin Resistance Mutation Associated with Activation of Antibiotic Production in Streptomyces coelicolor A3(2)

ABSTRACT Comparative genome sequencing analysis of a lincomycin-resistant strain of Streptomyces coelicolor A3(2) and the wild-type strain identified a novel mutation conferring a high level of lincomycin resistance. Surprisingly, the new mutation was an in-frame DNA deletion in the genes SCO4597 and SCO4598, resulting in formation of the hybrid gene linR. SCO4597 and SCO4598 encode two histidine kinases, which together with SCO4596, encoding a response regulator, constitute a unique two-component system. Sequence analysis indicated that these three genes and their arrangement patterns are ubiquitous among all Streptomyces genomes sequenced to date, suggesting these genes play important regulatory roles. Gene replacement showed that this mutation was responsible for the high level of lincomycin resistance, the overproduction of the antibiotic actinorhodin, and the enhanced morphological differentiation of this strain. Moreover, heterologous expression of the hybrid gene linR in Escherichia coli conferred resistance to lincomycin in this organism. Introduction of the hybrid gene linR in various Streptomyces strains by gene engineering technology may widely activate and/or enhance antibiotic production.
State-feedback H∞ stabilization of state-dependent jump linear systems

A state-dependent jump linear system (SDJLS) is a particular type of stochastic switching system, where the transition rates or probabilities of the underlying random jump process depend on the state variable. In this paper, a continuous-time SDJLS subject to external disturbances with finite energy is considered. Regarding the underlying random jump process, the transition rates are assumed to have different values across different sets where the state of the system evolves. By evaluating the infinitesimal generator for the stochastic Lyapunov function of SDJLS, a state-feedback H∞ controller is synthesized that guarantees disturbance rejection while ensuring stochastic stability via solving a set of sufficient linear matrix inequalities. The overall approach is illustrated with a numerical example.
Role of Omega-3 Unsaturated Fatty Acids in the Postpartum Depression: Systematic Review and Narrative Synthesis.

BACKGROUND Postpartum depression (PPD) is a complex mental health disorder that affects women during their childbearing years. It is a serious medical condition that occurs in approximately 15% of women after birth and has an adverse effect on both the mother and the infant. Hypotheses exist relating dietary deficiencies in a pregnant or postnatal woman's diet may cause postnatal depression. It is unclear whether Omega-3 polyunsaturated fatty acids (n-3 PUFAs) are effective for treating or preventing PPD. OBJECTIVES To assess the best available evidence to date regarding the effect of n-3 PUFAs on the etiology, prevention and treatment of postnatal depression. METHODS A systematic review and narrative synthesis was conducted in order to address the gaps in knowledge. For the systematic review, a broad search of electronic databases of published quantitative literature was conducted. The narrative synthesis consists of four elements: 1) developing a theory; 2) developing a preliminary synthesis; 3) exploring relationships in the data; 4) assessing the robustness of the synthesis. Published experimental and observational studies were accepted involving women who were pregnant or who had given birth in the previous six weeks. N-3 PUFAs was the intervention of interest and PPD was the outcome. RESULTS Out of 181 potential articles, a total of 17 studies met the inclusion criteria. The overwhelming majority of the studies found that n-3 PUFAs had no inverse association with PPD evaluations. Significant heterogeneity was observed among included studies. CONCLUSIONS Overall, This systematic review and narrative synthesis failed to find a significant positive association between n-3 PUFAs intake and PPD.
(E)-Ethyl 3-(3-bromophenyl)-2-cyanoacrylate

The title molecule, C12H10BrNO2, adopts an E configuration with respect to the C=C bond of the acrylate unit. In the crystal structure, molecules are connected by a pair of intermolecular C—H⋯O hydrogen bonds, forming a centrosymmetric dimer.
Point cloud registration in shoe glue spraying line

We studied the high-precision registration method with a pair of shoes sole and vamp point cloud to gain the automatic shoe glue spraying line. A new method was suggested in the case that the point cloud pair doesn't overlap completely and the initial positions are always different. Firstly the singular value decomposition algorithm was used for the rough registration such that the direction of the point cloud pair was the same and the distance of the point cloud pair was close to each other. Then the iterative closest point algorithm was applied to the high-precision registration. Lastly the local deformation of the sole contour points was derived by Bezier curve algorithm according to the requirement of the actual production. Actual test results presented the effectively of the method that the requirement of the glue spraying production line was satisfied.
Patient-Adapted Treatment for Prosthetic Hip Joint Infection

Hip joint replacement is 1 of the most successful surgical procedures of the last century and the number of replacements implanted is steadily growing. An infected hip arthroplasty is a disaster, it leads to patient suffering, surgeon's frustration and significant costs to the health system. The treatment of an infected hip replacement is challenging, healing rates can be low, functional results poor with decreased patient satisfaction. However, if a patient-adapted treatment of infected hip joints is used a success rate of above 90% can be obtained. Patient-adapted treatment is based on 5 important concepts: teamwork; understanding the biofilm; diagnostic accuracy; correct definition and classification of PJI; and patient-tailored treatment. This review presents a patient-adapted treatment strategy to prosthetic hip infection. It incorporates the best aspects of the single and staged surgical strategies and promotes the short interval philosophy for the 2-stage approach.
An Automated Approach to Information Systems Decomposition

A method for automating the process of system decomposition is described. The method is based on a formal specification scheme, formal definition of good decomposition, heuristic rules governing the search for good candidate decompositions, and a measure of complexity that allows ranking of the candidate decompositions. The decomposition method has been implemented as a set of experimental computerized systems analysis tools and applied to a standard problem for which other designs already exist. The results are encouraging, in that decompositions generated using other methodologies map easily into those suggested by the computerized tools. Additionally, the use of the method indicates that when more than one 'good' decomposition is suggested by the system, the specifications might have been incomplete. That is, the computerized tools can identify areas where more information should be sought by analysis. >