gebhart/patrepeval huggingface dataset:
A Framework for the Organisation and Dynamic Reconfiguration of the World Wide Web (1996)

The wide use of the World Wide Web has accentuated the problems that are inherent in the existing design. Such problems include difficulties in locating information, extensive waste in network bandwidth, lack for authoring support tools, etc. In this paper we will present a representational model and framework for hypertext networks in general and the WWW in particular. The aim of this framework it to alleviate the above mentioned problems and produce a new version of the WWW that is more usable and intuitive, without sacrificing the flexibility and openness of the current design. 1. Defining the problem The WWW is a global hypertext system consisting of an ever increasing number of nodes spread over thousands of sites. The basic philosophy behind the Web is that each site makes the data stored locally, accessible to outside (remote) clients via a number of protocols. Some of these services (eg, anonymous ftp) existed before, but what the WWW has done is that for the first time all these services are available through a common user interface. However, by its very nature, the Web is gradually becoming more difficult to use as megabytes
SeqDoC: rapid SNP and mutation detection by direct comparison of DNA sequence chromatograms (2005)

SeqDoC is ideal for small-scale SNP identification, for identification of changes in random mutagenesis screens, and for verification of PCR amplification fidelity. Differences are highlighted, not interpreted, allowing the investigator to make the ultimate decision on the nature of the change.
Thymus Organogenesis (2008)

The epithelial architecture of the thymus fosters growth, differentiation, and T cell receptor repertoire selection of large numbers of immature T cells that continuously feed the mature peripheral T cell pool. Failure to build or to maintain a proper thymus structure can lead to defects ranging from immunodeficiency to autoimmunity. There has been long-standing interest in unraveling the cellular and molecular basis of thymus organogenesis. Earlier studies gave important morphological clues on thymus development. More recent cell biological and genetic approaches yielded new and conclusive insights regarding the germ layer origin of the epithelium and the composition of the medulla as a mosaic of clonally derived islets. The existence of epithelial progenitors common for cortex and medulla with the capacity for forming functional thymus after birth has been uncovered. In addition to the thymus in the chest, mice can have a cervical thymus that is small, but functional, and produces T cells only after birth. It will be important to elucidate the pathways from putative thymus stem cells to mature thymus epithelial cells, and the properties and regulation of these pathways from ontogeny to thymus involution.
Distance between histograms of angular measurements and its application to handwritten character similarity (2002)

The similarity between two histograms has attracted many researchers in various fields. The type of histograms to be matched is often angular such as gradient directions in character images and hue values in color images. The distance between two angular type histograms differs from those of nominal or ordinal type histograms; however, conventional distance measures do not distinguish them. Thus we present a new algorithm to compute the newly proposed distance. We describe how to apply the distance to handwritten character similarity.
A Survey on Antispoofing Schemes for Fingerprint Recognition Systems (2014)

Several issues related to the vulnerability of fingerprint recognition systems to attacks have been highlighted in the biometrics literature. One such vulnerability involves the use of artificial fingers, where materials such as Play-Doh, silicone, and gelatin are inscribed with fingerprint ridges. Researchers have demonstrated that some commercial fingerprint recognition systems can be deceived when these artificial fingers are placed on the sensor; that is, the system successfully processes the ensuing fingerprint images, thereby allowing an adversary to spoof the fingerprints of another individual. However, at the same time, several countermeasures that discriminate between live fingerprints and spoof artifacts have been proposed. While some of these antispoofing schemes are hardware based, several software-based approaches have been proposed as well. In this article, we review the literature and present the state of the art in fingerprint antispoofing.
60-GHz Two-Dimensionally Scanning Array Employing Wideband Planar Switched Beam Network (2010)

A two-dimensionally (2-D) scanning array employing a planar switched beam network (SBN) is proposed for 60-GHz high data rate wireless communication. SBNs offer a number of advantages including low cost, multibeam operation, simple direction finding, and minimal power consumption. Unlike existing switched beam arrays operating at 60 GHz, the proposed array scans in both planes. Also, in contrast to 2-D scanning stacks of Butler matrices and Rotman lenses, the proposed SBN is uniplanar and, hence, leads to low-cost manufacturing and integration with 60-GHz radios. The network produces eight 2-D beam states and demonstrates beamforming capability across the entire band of interest (57-64 GHz) with the aid of dummy crossover structures. It is printed on a Rogers Duroid 5880 substrate along with a 2 × 4 patch array. This letter describes the design, operation, and realization of the beamforming array. Simulated and measured performance results are presented to verify the design.
<i>Toxoplasma gondii</i>Oocyst–specific Antibodies and Source of Infection (2010)

Infection source can determine cost-effective public health interventions. To quantify risk of acquiring Toxoplasma gondii from environmental sources versus from meat, we examined serum from pregnant women in Chile. Because 43% had oocyst-specific antibodies, we conclude that contaminated meat remains the primary source of infection but that environmental sources also pose substantial risk.
First Autonomous Inflow Control Valve AICV Well Completion Deployed in a Field Under an EOR Water & CO2 Injection Scheme (2016)

Abstract Enhanced oil recovery (EOR) schemes utilizing CO2 and water injection often experience significant problems and challenges with short circuiting of CO2 gas and water between injectors and producers, thereby leaving significant oil behind. Presented herein is the description and results of a field trial of new downhole flow control technology designed to provide autonomous inflow control of produced fluids from each zone in multi-zone wells. The new technology deployed involves integrating an autonomous inflow control valve (AICV) and a conventional (passive, non-autonomous) inflow control device (ICD) into a unique 3-position "sliding sleeve", shifted by coil tubing, to allow performance comparison between the two different inflow control devices as well as multiple flow control settings of each type. The AICV was designed (and lab tested) to selectively choke back or shut off flow of free CO2 gas and also high watercut (&gt;99%), thereby significantly improving reservoir sweep and yielding higher oil production. The AICV opens or closes autonomously depending on sensed properties of wellbore fluids. Prior to installing the advanced completion, the multi-zone (vertical) trial well was extensively characterized using PLT and other log data, which was then inputted into a commercially available computer model to help design the AICV and ICD settings. The field trial was designed to evaluate the use of flow control in the EOR scheme over a wide range of flow rates and also to compare the two different flow control technologies at different settings within the same wellbore and reservoir condititions. This paper presents the results of the world's first field trial of the AICV in a Water and CO2 injection scheme, and the world's first comparison with conventional ICD technology in the same well. In addition to lab tests, the early field trial results of the advanced flow control completion are compared with historical production and PLT data where the zones were comingled (without any downhole flow control). A performance comparison of AICV versus conventional ICD, along with conclusions, implications for other wells in the same field and other fields, and lessons learned, are all presented herein.
Influence of the Cobalt Particle Size in the CO Hydrogenation Reaction Studied by In Situ X-Ray Absorption Spectroscopy (2009)

The influence of particle size in the carbon monoxide hydrogenation reaction has been studied using cobalt nanoparticles (NPs) with narrow size distribution prepared from colloidal chemistry. The surfactant covering the NPs after synthesis could be removed by heating to 200-270 degrees C in H(2). Soft X-ray absorption spectroscopy was performed using a gas flow cell under reaction conditions of H(2) and CO at atmospheric pressure. Flow of pure hydrogen at 350 degrees C removed the protecting surfactant layer and reduced the NPs from oxidized to metallic. The NPs remained metallic during the methanation reaction with their surface covered by CO. The methanation turnover frequency of silica-supported NPs was found to decrease with diameter below 10 nm, whereas the reaction activation energy was found to be independent of NP size. H-D exchange experiments indicated that it is the dissociation of H(2) that is responsible for the observed decrease in activity with size.
A Tobramycin Vector Enhances Synergy and Efficacy of Efflux Pump Inhibitors against Multidrug-Resistant Gram-Negative Bacteria (2017)

Drug efflux mechanisms interact synergistically with the outer membrane permeability barrier of Gram-negative bacteria, leading to intrinsic resistance that presents a major challenge for antibiotic drug development. Efflux pump inhibitors (EPIs) which block the efflux of antibiotics synergize antibiotics, but the clinical development of EPI/antibiotic combination therapy to treat multidrug-resistant (MDR) Gram-negative infections has been challenging. This is in part caused by the inefficiency of current EPIs to penetrate the outer membrane and resist efflux. We demonstrate that conjugation of a tobramycin (TOB) vector to EPIs like NMP, paroxetine, or DBP enhances synergy and efficacy of EPIs in combination with tetracycline antibiotics against MDR Gram-negative bacteria including Pseudomonas aeruginosa. Besides potentiating tetracycline antibiotics, TOB-EPI conjugates can also suppress resistance development to the tetracycline antibiotic minocycline, thereby providing a strategy to develop more effective adjuvants to rescue tetracycline antibiotics from resistance in MDR Gram-negative bacteria.
Design and implementation of an unmanned aerial vehicle for autonomous firefighting missions (2016)

This paper presents a design and implementation of an unmanned aerial vehicle (UAV) for outdoor firefighting application. The proposed UAV firefighting system consists of a self-designed quadcopter as platform, a transmission system to collect and release water, a real time kinematic (RTK) based navigation system and a mission control system to monitor and coordinate the UAV. In our proposed autonomous cooperative framework, the UAV finds an optimal path (with respect to distance and power consumption) to the fire spot at first. After arriving at the target on fire, the mission control system will guide the UAV to suppress the fire. The proposed framework has been demonstrated in the 2015 International Micro Aerial Vehicle Outdoor Competition, held in Aachen, Germany and help our team V-Lion obtain the second place. Our designed framework has successfully achieved all the requirements in firefighting mission even in a challenging wind gusts environment. The video of the firefighting mission can be found at: https://youtu.be/YREngbun7zQ.
Amino- and Carboxy-Terminal PEST Domains Mediate Gastrin Stabilization of Rat <scp>l</scp>-Histidine Decarboxylase Isoforms (2000)

Control of enzymatic function by peptide hormones can occur at a number of different levels and can involve diverse pathways that regulate cleavage, intracellular trafficking, and protein degradation. Gastrin is a peptide hormone that binds to the cholecystokinin B-gastrin receptor and regulates the activity of L-histidine decarboxylase (HDC), the enzyme that produces histamine. Here we show that gastrin can increase the steady-state levels of at least six HDC isoforms without affecting HDC mRNA levels. Pulse-chase experiments indicated that HDC isoforms are rapidly degraded and that gastrin-dependent increases are due to enhanced isoform stability. Deletion analysis identified two PEST domains (PEST1 and PEST2) and an intracellular targeting domain (ER2) which regulate HDC protein expression levels. Experiments with PEST domain fusion proteins demonstrated that PEST1 and PEST2 are strong and portable degradation-promoting elements which are positively regulated by both gastrin stimulation and proteasome inhibition. A chimeric protein containing the PEST domain of ornithine decarboxylase was similarly affected, indicating that gastrin can regulate the stability of other PEST domain-containing proteins and does so independently of antizyme/antizyme inhibitor regulation. At the same time, endoplasmic reticulum localization of a fluorescent chimera containing the ER2 domain of HDC was unaltered by gastrin stimulation. We conclude that gastrin stabilization of HDC isoforms is dependent upon two transferable and sequentially unrelated PEST domains that regulate degradation. These experiments revealed a novel regulatory mechanism by which a peptide hormone such as gastrin can disrupt the degradation function of multiple PEST-domain-containing proteins.
The mdx-amplification-resistant mutation system assay, a simple and rapid polymerase chain reaction-based detection of the mdx allele (1996)

The mdx mouse is a murine genetic equivalent of the human X-linked lethal disorder, Duchenne muscular dystrophy (DMD). A number of studies utilizing the mdx mouse have demonstrated the feasibility of gene therapy for this disorder. Many such studies require the ability to determine rapidly the mdx genotype of experimental animals. Previous methods described to identify the mdx allele require multiple manipulations which are technically demanding. We now describe a simple and rapid method to detect the mdx and wild-type alleles in crude mouse DNA samples, by the mdx-amplification-resistant mutation system (ARMS) assay. With this system we correctly identified the mdx status of various transgene-containing animals in a rapid and simple fashion. We discuss the utility of this system for many other studies utilizing the mdx mouse as a model system.
Dynamique du peuplement et activités agro-pastorales durant l’âge du Bronze dans les massifs du Haut Champsaur et de l’Argentierois (Hautes-Alpes) (2006)

Des programmes de recherche pluridisciplinaires sur l’occupation du sol et le pastoralisme de la Préhistoire au Moyen Âge dans le sud du massif alpin sont menés, depuis 1998, sur les massifs du Haut Champsaur, de Freissinières et de l’Argentièrois (Hautes-Alpes). Des dix phases d’occupation et d'activité agropastorale mises en évidence (prospections pédestres et fouilles), entre 1 600 et 2 700 m d’altitude, trois se distinguent : la fin du Néolithique, l’âge du Bronze et la période médiévale. Au travers des premières données archéologiques et environnementales, cet article présente, depuis le milieu du IIIe millénaire au début du Ier millénaire, les grandes caractéristiques de l’occupation du sol mais aussi l’originalité et l’importance de l’activité humaine dans cette zone alpine. La fin du Néolithique et l’âge du Bronze correspondent à une multiplication des gisements archéologiques marquant de façon évidente une rupture dans la gestion de l'espace montagnard. Les paysages sont largement façonnés par les activités humaines et l’entretien des terres cultivées, des prairies et des alpages, paraît continu. À la lumière des données de terrain, l’une des évolutions qui apparaît sur les sites d’altitude durant cette période concerne l’apparition de structures pastorales bâties entre 2 067 et 2 303 m d’altitude (datation 14C).
Model checking and modular verification (1994)

We describe a framework for compositional verification of finite-state processes. The framework is based on two ideas: a subset of the logic CTL for which satisfaction is preserved under composition, and a preorder on structures which captures the relation between a component and a system containing the component. Satisfaction of a formula in the logic corresponds to being below a particular structure (a tableau for the formula) in the preorder. We show how to do assume-guarantee-style reasoning within this framework. Additionally, we demonstrate efficient methods for model checking in the logic and for checking the preorder in several special cases. We have implemented a system based on these methods, and we use it to give a compositional verification of a CPU controller.
Automated Classification of Breast Parenchymal Density: Topologic Analysis of X-Ray Attenuation Patterns Depicted with Digital Mammography (2008)

Topologic analysis of x-ray attenuation patterns on digital mammograms obtained with Minkowski functionals is simple and robust, and the results agree with radiologists' ratings. Because correct classification is significantly higher than with use of density features, our technique may be an objective and quantitative alternative in the evaluation of the parenchymal structure of the breast.
Rapid Communication A rapid method for measuring pericentric inversions using fluorescence in situ hybridization FISH (1997)

We used three common fluorescent probes to measure pericentric inversion frequencies in 2.9 Gy 60Co gamma-irradiated human lymphocytes. For a given chromosome, the first probe is specific to one telomeric region, the second probe is specific to one subcentromeric region and the third probe is specific to the centromere. A pericentric inversion is made observable by the change in position (switching) of the fluorescent signals relative to the chromosome centromere. Our data showed equality between pericentric inversions and centric rings. The calculated whole-genome F-ratio of apparently simple translocations to pericentric inversions was 5.6.
A Novel Generalized Ridge Regression Method for Quantitative Genetics (2013)

As the molecular marker density grows, there is a strong need in both genome-wide association studies and genomic selection to fit models with a large number of parameters. Here we present a computationally efficient generalized ridge regression (RR) algorithm for situations in which the number of parameters largely exceeds the number of observations. The computationally demanding parts of the method depend mainly on the number of observations and not the number of parameters. The algorithm was implemented in the R package bigRR based on the previously developed package hglm. Using such an approach, a heteroscedastic effects model (HEM) was also developed, implemented, and tested. The efficiency for different data sizes were evaluated via simulation. The method was tested for a bacteria-hypersensitive trait in a publicly available Arabidopsis data set including 84 inbred lines and 216,130 SNPs. The computation of all the SNP effects required <10 sec using a single 2.7-GHz core. The advantage in run time makes permutation test feasible for such a whole-genome model, so that a genome-wide significance threshold can be obtained. HEM was found to be more robust than ordinary RR (a.k.a. SNP-best linear unbiased prediction) in terms of QTL mapping, because SNP-specific shrinkage was applied instead of a common shrinkage. The proposed algorithm was also assessed for genomic evaluation and was shown to give better predictions than ordinary RR.
Character recognition performance improvement using personal handwriting characteristics (2002)

The characters written by the same writer are expected to have the following two characteristics. (1) The characters belonging to the same category have similar shapes. (2) There is a shape correlation among characters belonging to different categories. This paper is is aimed at recognition performance improvement using these characteristics. First, this paper describes a method to verify these personal handwriting characteristics using transformed features through principal component analysis. Next, based on the idea that a misrecognized character has an unnatural shape relation with other characters recognized correctly, this paper describes two methods to detect such unnaturalness, which are "within category" detection and "between category" detection. Recognition performance has been improved significantly, especially when unnaturalness is combined with the distances obtained in the recognition process.
Automated Outcome Classification of Computed Tomography Imaging Reports for Pediatric Traumatic Brain Injury (2016)

A hybrid NLP and machine learning automated classification system continues to show promise in coding free-text electronic clinical data. For complex outcomes, it can reliably identify negative reports, but manual review of positive reports may be required. As such, it can still streamline data collection for clinical research and performance improvement.
Domain organization of p130, PLC‐related catalytically inactive protein, and structural basis for the lack of enzyme activity (2000)

The 130-kDa protein (p130) was isolated as a novel inositol 1,4, 5-trisphosphate [Ins(1,4,5)P3]-binding protein similar to phospholipase C-delta1 (PLC-delta1), but lacking catalytic activity [Kanematsu, T., Takeya, H., Watanabe, Y., Ozaki, S., Yoshida, M., Koga, T., Iwanaga, S. & Hirata, M. (1992) J. Biol. Chem. 267, 6518-6525; Kanematsu, T., Misumi, Y., Watanabe, Y., Ozaki, S., Koga, T., Iwanaga, S., Ikehara, Y. & Hirata, M. (1996) Biochem. J. 313, 319-325]. To test experimentally the domain organization of p130 and structural basis for lack of PLC activity, we subjected p130 to limited proteolysis and also constructed a number of chimeras with PLC-delta1. Trypsin treatment of p130 produced four major polypeptides with molecular masses of 86 kDa, 55 kDa, 33 kDa and 25 kDa. Two polypeptides of 86 kDa and 55 kDa started at Lys93 and were calculated to end at Arg851 and Arg568, respectively. Using the same approach, it has been found that the polypeptides of 33 kDa and 25 kDa are likely to correspond to regions between Val569 and Arg851 and Lys869 and Leu1096, respectively. All the proteolytic sites were in interconnecting regions between the predicted domains, therefore supporting domain organization based on sequence similarity to PLC-delta1 and demonstrating that all domains of p130, including the unique region at the C-terminus, are stable, tightly folded structures. p130 truncated at either or both the N-terminus (94 amino acids) and C-terminus (851-1096 amino acids) expressed in COS-1 cells showed no catalytic activity, indicating that p130 has intrinsically no PLC activity. A number of chimeric molecules between p130 and PLC-delta1 were constructed and assayed for PLC activity. It was shown that structural differences in interdomain interactions exist between the two proteins, as only some domains of p130 could replace the corresponding structures in PLC-delta1 to form a functional enzyme. These results suggest that p130 and the related proteins could represent a new protein family that may play some distinct role in cells due to the capability of binding Ins(1,4,5)P3 but the lack of catalytic activity.