gebhart/patrepeval huggingface dataset:
How Amidoximate Binds the Uranyl Cation (2012)

This study identifies how the amidoximate anion, AO, interacts with the uranyl cation, UO(2)(2+). Density functional theory calculations have been used to evaluate possible binding motifs in a series of [UO(2)(AO)(x)(OH(2))(y)](2-x) (x = 1-3) complexes. These motifs include monodentate binding to either the oxygen or the nitrogen atom of the oxime group, bidentate chelation involving the oxime oxygen atom and the amide nitrogen atom, and η(2) binding with the N-O bond. The theoretical results establish the η(2) motif to be the most stable form. This prediction is confirmed by single-crystal X-ray diffraction of UO(2)(2+) complexes with acetamidoxime and benzamidoxime anions.
Analysis of Multiple Brachyspira hyodysenteriae Genomes Confirms That the Species Is Relatively Conserved but Has Potentially Important Strain Variation (2015)

The intestinal spirochete Brachyspira hyodysenteriae is an important pathogen in swine, causing mucohemorrhagic colitis in a disease known as swine dysentery. Based on the detection of significant linkage disequilibrium in multilocus sequence data, the species is considered to be clonal. An analysis of the genome sequence of Western Australian B. hyodysenteriae strain WA1 has been published, and in the current study 19 further strains from countries around the world were sequenced with Illumina technology. The genomes were assembled and aligned to over 97.5% of the reference WA1 genome at a percentage sequence identity better than 80%. Strain regions not aligned to the reference ranged between 0.2 and 2.5%. Clustering of the strain genes found on average 2,354 (88%) core genes, 255 (8.6%) ancillary genes and 77 (2.9%) unique genes per strain. Depending on the strain the proportion of genes with 100% sequence identity to WA1 ranged from 85% to 20%. The result is a global comparative genomic analysis of B. hyodysenteriae genomes revealing potential differential phenotypic markers for numerous strains. Despite the differences found, the genomes were less varied than those of the related pathogenic species Brachyspira pilosicoli, and the analysis supports the clonal nature of the species. From this study, a public genome resource has been created that will serve as a repository for further genetic and phenotypic studies of these important porcine bacteria. This is the first intra-species B. hyodysenteriae comparative genomic analysis.
Reverse engineering modelling of free-form surfaces from point clouds subject to boundary conditions (1997)

Abstract In product design, a CAD model often needs to be constructed from a physical part. This process is called reverse engineering and is performed through dimensional digitising and CAD modelling. The dimensional digitising results in a cloud of points, which are input for the CAD modelling of surfaces corresponding to the object's features. Consistent with these features, some of the modelled surfaces need to join with positional, tangential or curvature continuity. This paper reports on the incorporation of these geometric boundary conditions in the CAD modelling of free-form surfaces from a cloud of points with non-uniform rational B-splines (NURBS). The described methods are illustrated with some practical, industrial examples and some alternative solutions are briefly described.
Heparin inhibits the binding of immune complexes to cultured rat mesangial cells (1994)

Glomerular mesangial cells bear Fc receptors which bind immune complexes. Cross-linking of these receptors induces the release of cytokines chemotactic for macrophages; the receptors may also be involved in the localization of large circulating immune complexes to the mesangium. Heparin has been shown to enhance the removal of antigen from the glomeruli of rats with chronic serum sickness glomerulonephritis, and from the isolated perfused rat kidney, so we investigated the effect of heparin on the binding of immune complexes by rat glomerular mesangial cells in culture. Heparin was found almost to eliminate binding of radiolabelled immune complexes to cultured rat mesangial cells. Pretreatment of the cells with heparin for 24 h followed by washing before the addition of immune complexes had the same effect. A parallel study showed that heparin had no effect on immune complex binding to thioglycollate-elicited rat peritoneal macrophages. To investigate the molecular properties required for this effect we treated cultured cells with high- or low-molecular-weight dextran sulphate. High-molecular-weight dextran sulphate was found to inhibit the subsequent binding of immune complexes to the mesangial cells, although the effect appeared to be smaller than with heparin. Low-molecular-weight dextran sulphate had no detectable effect. Subsequent studies showed that heparin is also capable of removing immune complexes which have already bound to mesangial cells in vitro. We conclude that heparin can block the binding of immune complexes to the Fc receptor of cultured mesangial cells, but not to peritoneal macrophages. The success of heparin pretreatment indicates that the effect is on the cells rather than on the complexes in suspension.(ABSTRACT TRUNCATED AT 250 WORDS)
Predicting RNA-binding sites of proteins using support vector machines and evolutionary information (2008)

Our results demonstrate that smoothed PSSM encoding scheme significantly enhances the performance of RNA-binding site prediction in proteins. This also supports our assumption that smoothed PSSM encoding can better resolve the ambiguity of discriminating between interacting and non-interacting residues by modelling the dependency from surrounding residues. The proposed method can be used in other research areas, such as DNA-binding site prediction, protein-protein interaction, and prediction of posttranslational modification sites.
Developmental Trajectories of Substance Use From Early to Late Adolescence: A Comparison of Rural and Urban Youth (2008)

This study underscores the diversity of drug use within rural communities, suggesting that living in a very rural area is protective against some forms of drug use but that living in a rural area that includes a medium or large town is not.
Plant Vitamins Agronomic, Physiological, and Nutritional Aspects (1993)

This unique book provides a comprehensive, up-to-date collection of information on the genetic factors, agronomic production methods, and environmental factors that impact the content of vitamins in plants. The effect of various biotic and abiotic stress factors is discussed, and the possible role of some vitamins in plant tolerance to stress factors is also investigated. The book features eye-opening data on vast vitamin variations among farmer-cultivated plants, as well as an extensive comparison between foods grown organically and those grown by conventional methods.With increasing evidence supporting the role of some vitamins in reducing risks of various forms of human cancer, this book provides timely information for researchers, teachers, and students in agronomy, horticulture, plant physiology, food sciences, and human nutrition.
Highly fluorinated stationary phases for analysis for polyfluorinated solutes by reversed-phase high-performance liquid chromatography (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTHighly fluorinated stationary phases for analysis for polyfluorinated solutes by reversed-phase high-performance liquid chromatographyMarie Pierre. Krafft, Francois. Jeannaux, Maurice. Le Blanc, Jean G. Riess, and Alain. BerthodCite this: Anal. Chem. 1988, 60, 18, 1969–1972Publication Date (Print):September 15, 1988Publication History Published online1 May 2002Published inissue 15 September 1988https://pubs.acs.org/doi/10.1021/ac00169a026https://doi.org/10.1021/ac00169a026research-articleACS PublicationsRequest reuse permissionsArticle Views189Altmetric-Citations16LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Posttranscriptional Regulation of Acute Phase Serum Amyloid A2 Expression by the 5′- and 3′-Untranslated Regions of Its mRNA (1999)

Human acute-phase serum amyloid A protein (A-SAA) is a major acute phase reactant, the concentration of which increases dramatically as part of the body's early response to inflammation. A-SAA is the product of two almost identical genes, SAA1 and SAA2, which are induced by the pro-inflammatory cytokines, IL-1 and IL-6. In this study, we examine the roles played by the 5'- and 3'-untranslated regions (UTRs) of the SAA2 mRNA in regulating A-SAA2 expression. SAA2 promoter-driven luciferase reporter gene constructs carrying the SAA2 5'-UTR and/or 3'-UTR were transiently transfected into the HepG2 human hepatoma cell line. After induction of chimeric mRNA with IL-1beta and IL-6, the SAA2 5'- and 3'-UTRs were both able to posttranscriptionally modify the expression of the luciferase reporter. The SAA2 5'-UTR promotes efficient translation of the chimeric luciferase transcripts, whereas the SAA2 3'-UTR shares this property and also significantly accelerates the rate of reporter mRNA degradation. Our data strongly suggest that the SAA2 5'- and 3'-UTRs each play significant independent roles in the posttranscriptional regulation of A-SAA2 protein synthesis.
INFLUENCE OF THE COOLING RATE DURING QUENCHING ON THE TOUGHNESS AT TYPICAL WORKING TEMPERATURES OF DIE-CASTING DIES (2009)

The influence of the cooling rate during quenching on the toughness of two hot-work tool steel grades at ambient temperature and at working temperatures typical for die-casting dies has been compared.The heat treatments were performed in a vacuum furnace.Different cooling rates were obtained by varying the nitrogen gas pressure and cooling fan velocity.The impact toughness was researched by conventional and instrumented Charpy V-notch impact testing at various temperatures.The fracture toughness was studied by KIc fracture toughness testing at room temperature and JIc fracture toughness testing at elevated temperatures.The researched grades were Uddeholm Vidar Superior (X37CrMoV5-1 with reduced silicon content) and Uddeholm QRO 90 Supreme.The influence of the cooling rate on the toughness differed considerably between ambient and elevated temperatures.The decrease in toughness with decreasing cooling rate was more gradual at elevated temperatures.The reason for the difference was that the fracture type at elevated temperature was fibrous while at room temperature it was more or less completely quasi cleavage.
An Energy Efficient Data Query Architecture for Large Scale Sensor Networks (2007)

With the advances of micro-electronic and wireless communication technology, deploying a large number of low cost, small-sized sensor nodes over a vast area for environment monitoring is becoming more practical. Setting up gradients for delivering queries or data reports by flooding the sensor networks consumes a great deal of energy especially for large scale sensor networks. In this paper, we propose an energy conserving observer-initiated data dissemination protocol, called Grid Map Data Query Protocol (GMDQP), for multiple mobile sinks on a large scale sensor network. It conserves communication energy by employing a grid map data query technique to avoid full network events or queries flooding. A data source only announces the existence of data within a local area and a sink collects data by sending query message in a grid map. Nodes at cross point of grid check and query the data. It conserves energy by avoiding full network flooding in setting up data forwarding path. Simulations show that the proposed architecture is quite energy efficient.
First year of Distributed Strain Sensing in the Groningen field (2017)

The Groningen field in the Netherlands is one of the largest producing gas fields in the world. Although the compaction rates from reservoir depletion are very small, a detailed understanding of the compaction and subsidence is important due to the proximity of the surface to the sea level. To improve understanding of the strain development in the field, a DSS system has been installed in a newly drilled observation, which has acquired data for more than a year. Never before has it been possible to look in-situ at strain development in the reservoir in the order of several microstrain. The sensitivity of the system to strain is such that it observes the low strain levels developing after drilling disturbances in the near well bore, and that it starts to show correlations between reservoir properties and strain rate already after a few months of data. Since Groningen experiences relatively low compaction rates, more insights into the compacting behavior are expected to develop in the coming years as correlations between the incoming data and compaction profiles and trends become more apparent over time. However, it is very promising that meaningful data has already been obtained during the short monitoring period so far.
Selecting SNPs in two‐stage analysis of disease association data: a model‐free approach (2000)

For large numbers of marker loci in a genomic scan for disease loci, we propose a novel 2-stage approach for linkage or association analysis. The two stages are (1) selection of a subset of markers that are 'important' for the trait studied, and (2) modelling interactions among markers and between markers and trait. Here we focus on stage 1 and develop a selection method based on a 2-level nested bootstrap procedure. The method is applied to single nucleotide polymorphisms (SNPs) data in a cohort study of heart disease patients. Out of the 89 original SNPs the method selects 11 markers as being 'important'. Conventional backward stepwise logistic regression on the 89 SNPs selects 7 markers, which are a subset of the 11 markers chosen by our method.
THIN-FILMS FOR SAW DEVICES (2000)

Thin-films play a significant role in surface acoustic wave (SAW) technology. Thin metal films are essential for the generation and detection of SAWs on piezoelectric subtrates, can provide for directional control, influence the velocity and propagation loss, and can be configured to produce a wide variety of time and frequency signal processing functions for electronic systems. Dielectric films have been used to selectively modify the propagation properties of surface waves, protect the surfce, and improve the coupling efficiency and temperature characteristics of SAW devices. Piezoelectric films have extended SAW device developments to amorphous and nonpiezoelectric crystals for enhanced frequency and loss performance, lower cost, and microelectronic integration. Semiconductor, optical, and magnetic films have shown promise for active acoustoelectronic, acoustooptic, and magnetoacoustic devices. Chemically sensitive films are the basis for SAW sensor developments. Active research continues today in improving the properties and utilization of thin films on SAW substrates through advances in processing and characterization.
Predictive information display for tele-handling/machining system (2002)

This paper describes the construction of tele-macro/micro handling/machining system with a predictive information display. Applications of the system are tele-machining, where the operator controls a remotely located machining machine, a micro-handling system, which operates on micro-scale objects under the microscope, and a micro surgery system. In the case of constructing a teleoperated handling/machining system, displaying information appropriately to the operator is essential to improve the operability of the system. The authors selected a machine tool as a tele-operated machine and, in particular, discuss the method of predictive force and sound information display.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Write bubble and field rise time measurements (1999)

An experimental technique has been developed for studying the write bubble created by the thin film recording heads. From the measurements of the write bubble size, we can estimate the write field magnitude and the write field gradient at the write bubble boundaries. Using the same experimental setup, we can also study the write field high frequency characteristics.
Annual Variations in Standing Stock in a Newfoundland Population of Lobsters (1983)

A time series of Petersen estimates of standing stock is presented for a localized lobster (Homarus americanus) fishing area in Notre Dame Bay on the northeast coast of Newfoundland. Standing stock has increased substantially during the 1970's as a result of increased recruitment. The proportion of recruits in the standing stock ranged as high as 91% and exploitation rates in the fishery as high as 95%. It is suggested that, in a fishery so heavily dependent on recruitment, dramatic fluctuations in annual landings are inevitable. Greater stability in landings could be achieved with lower levels of exploitation.
Gold nanoparticles for one step DNA extraction and real-time PCR of pathogens in a single chamber (2008)

The optothermal properties of nanoparticles are of interest for biosensors and highly sensitive biochip applications. In this respect, the longitudinal resonance of Au nanorods was used to transform near infrared energy into thermal energy in a microfluidic chip. The resulting heat generated effectively caused pathogen lysis. Consequently the DNA was extracted out of the cell body and transferred to a PCR system. This resulted in the successful demonstration of a one step real-time PCR system for pathogen detection without removal or changing of reagents.
Assessment of HER-2/neu Status in Breast Cancer (2001)

This retrospective study of formalin-fixed infiltrating breast cancer specimens compared manual immunohistochemical assay with a new image analyzer-assisted immunohistochemical quantitation method, using fluorescence in situ hybridization assay (FISH) as the standard. Following the manual immunohistochemical assay, 189 cases, including most manual immunohistochemically positive and some random negative cases, were analyzed by FISH assay for Her-2/neu gene amplification and by the Automated Cellular Imaging System (ACIS) for immunohistochemical staining. Using the FISH standard, the ACIS immunohistochemical assay attained a higher concordance rate and sensitivity than the manual immunohistochemical assay (91.0% and 88% vs 85.7% and 71%, respectively), with only a slight decrease in specificity (93% vs 96%, respectively). In particular, the ACIS immunohistochemical assay resulted in a higher correlation with the FISH assay in the manual immunohistochemical assay 2+ cases. The ACIS immunohistochemical assay achieved higher accuracy than the manual method according to receiver operating characteristic curve analysis. The ACIS method represents a substantial improvement over the manual method for objective evaluation of the HER-2/neu status.
Higher layer security mechanisms in personal area network (PAN) (2005)

With communication networks becoming evermore an integral part of our daily lives, securing the data exchanged on those networks is now more vital than ever. One of the latest promising next generation environments is the personal area network (PAN). To achieve a high degree of secure communication, security aspects need to be considered in all part and layers of such a system. While a high level overview of a complete system and the required security for this system is of utmost importance, security issues need to be considered in each part of the system separately as well. Each layer and component in a large system has its own security considerations in terms of possible attacks and requirements and needs in terms of security approaches to be used. To ease the introduction of PANs in different business models and applications, there is a need to identify vertical industries and applications that are relevant to the PAN environment and extrapolate today's security and privacy standards.
Protection approaches for dynamic traffic in IP/MPLS-over-WDM networks (2003)

Due to the explosive growth of data-related traffic driven by the Internet, network reliability becomes an important issue. We investigate various protection approaches to handle failures for dynamic traffic demands in IP/MPLS-over-WDM networks. An LSP can be protected at either the IP/MPLS layer or the optical layer. In IP/MPLS layer protection, an LSP is protected by providing a link-disjoint backup LSP between its end nodes. In optical layer protection, an LSP is protected by the backup lightpath of each lightpath traversed by the LSP. We present two integrated routing algorithms: hop-based integrated routing algorithm and bandwidth-based integrated routing algorithm (BIRA) to set up the restorable bandwidth-guaranteed paths efficiently. Then we present a multilayer protection scheme for multiclass traffic in such networks. This scheme takes into account the different QoS and recovery requirements of the traffic to provide protection capability either at the MPLS layer or at the optical layer in a cost-effective manner. We use the connection blocking probability and number of optical-electrical-optical conversions as performance metrics to compare various protection approaches.
Pipelining of GaAs dynamic logic circuits (2003)

Dynamic latch circuits that allow pipelining of dynamic GaAs logic gates are presented. The latches offer fast operation and good tolerance to skew between the two complementary clock signals required for pipelining. Two 4-bit prescaler/counters, which use dynamic domino and dynamic CVSL gates, were implemented in a 1 mu m process to demonstrate that the latches can be used to pipeline practical circuit designs. The prescaler/counters, which can be set to count from anywhere between 2 and 16, operated at approximately 800 MHz while dissipating 60 and 82 mW of power for the domino and CVSL versions, respectively.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Post-Growth Fabrication and Characterization of Integrated Chirped Bragg Gratings on GaAs–AlGaAs (2006)

A fully post-growth integrated chirped Bragg grating (CBG) in III-V material is presented based on a tapered waveguide geometry. The deeply etched structure provides the high coupling coefficient required in CBG devices without recourse to overgrowth fabrication techniques and the taper method allows for arbitrary chirp functions to be implemented. A 5-nm stopband with 0.0335 ps/nm dispersion is demonstrated and DFB lasers based on the CBG structure are presented
<scp>Genetics and Disease</scp>, Alfred G. Knudson, Jr. New York: McGraw-Hill Book Company, 1965, 294 pp., $10.50 (1965)

The current interest in genetics has resulted in the recent appearance of numerous reviews and monographs on the subject. Many of these have been of such a general approach that hey are difficult for the clinician to translate no terms useful at the bedside. This condensed treatise by Dr. Knudson is one of the few which attempts to perform this translation. Readers are guided systematically from the basic concepts of Mendel's "Laws of Inheritance" through almost the entire range of clinically applicable genetics, up to and including the regulatory models proposed by Jacob and Monod.