gebhart/patrepeval huggingface dataset:
Regioselective chemo-enzymatic syntheses of ferulate conjugates as chromogenic substrates for feruloyl esterases (2020)

Generally, carbohydrate-active enzymes are studied using chromogenic substrates that provide quick and easy color-based detection of enzyme-mediated hydrolysis. In the case of feruloyl esterases, commercially available chromogenic ferulate derivatives are both costly and limited in terms of their experimental application. In this study, we describe solutions for these two issues, using a chemoenzymatic approach to synthesize different ferulate compounds. The overall synthetic routes towards commercially available 5-bromo-4-chloro-3-indolyl and 4-nitrophenyl O -5-feruloyl-α-l-arabinofuranosides 1a and 1b were significantly shortened (7-8 steps reduced to 4-6) and transesterification yields enhanced (from 46 to 73% for 1a and 47 to 86 % for 1b ). This was achieved using enzymatic (immobilized Lipolase 100T from Thermomyces lanuginosus ) transesterification of unprotected vinyl ferulate to the primary hydroxyl group of α‐l‐arabinofuranosides. Moreover, a novel feruloylated-butanetriol 4-nitrocatechol-1-yl analog 12 , containing a cleavable hydroxylated linker was also synthesized in 29% overall yield in 3 steps (convergent synthesis). The latter route combined regioselective functionalization of 4-nitrocatechol and enzymatic transferuloylation. The use of 12 as a substrate to characterize type A feruloyl esterase from Aspergillus niger reveals the advantages of this substrate for the characterizations of feruloyl esterases.
Supervising secret-key agreements in a level-based hierarchy (2004)

A key agreement protocol is utilized in a network system such that two users are able to establish a commonly shared secret key. Entities within the same security level can communicate securely with each other by using the session key. In this paper, we will propose an approach to solve the problem of supervising secure communication in a level-based hierarchy. In the proposed scheme, any two users with the same security level can efficiently establish a session key and both of them can apply it to encrypt (or decrypt) the communication messages. Accordingly, a user with higher security level can conveniently derive the session key and supervise the communication. The security of the proposed scheme is based on Diffie-Hellman's key agreement and RSA's scheme. To reveal the session key, a malicious user has to solve the factorization and the discrete logarithm problems.
Automated application of clinical practice guidelines for asthma management. (1996)

Clinical practice guidelines will be more beneficial when they are integrated with the electronic medical record. We applied natural language processing (NLP) techniques to extract clinical findings from outpatient progress notes in an attempt to: 1) select outpatient chart notes appropriate for evaluation against the National Heart, Lung, and Blood/National Asthma Education Program clinical practice guidelines for the diagnosis and management of asthma, 2) determine patient need for inhaled anti-inflammatory agents, and 3) quantify the severity of asthma. Our results were compared to judgements by an expert panel of practitioners. We were able to correctly identify the need for inhaled anti-inflammatory agents 76% of the time. The success of this pilot project could have broad implications for the application of clinical practice guidelines.
Book Reviews (2007)

The Gypsy Debate: Can Discourse Control?. Joanna Richardson. Exeter: Imprint Academic, 2006. Pp. iv+151. ISBN 1-84540-057-7 (pbk): £17.95.
Shastra: multimedia collaborative design environment (1994)

A distributed environment that supports multimedia interfaces, Shastra strengthens collaboration in scientific and engineering design. Implemented on a desktop system, it provides an infrastructure for user- and application-level cooperation. We describe the Shastra architecture and tools, then walk through a scenario that shows how it enhances collaborative problem solving.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
International consensus report on the investigation and management of primary immune thrombocytopenia (2009)

Over the last decade, there have been numerous developments and changes in treatment practices for the management of patients with immune thrombocytopenia (ITP). This article is an update of the International Consensus Report published in 2010. A critical review was performed to identify all relevant articles published between 2009 and 2018. An expert panel screened, reviewed, and graded the studies and formulated the updated consensus recommendations based on the new data. The final document provides consensus recommendations on the diagnosis and management of ITP in adults, during pregnancy, and in children, as well as quality-of-life considerations.
Chlamydia trachomatis Plasmid Gene Protein 3 Is Essential for the Establishment of Persistent Infection and Associated Immunopathology (2020)

<i>Chlamydia trachomatis</i> is an obligate intracellular bacterial pathogen that causes blinding trachoma and sexually transmitted disease afflicting hundreds of millions of people globally. A fundamental but poorly understood pathophysiological characteristic of chlamydial infection is the propensity to cause persistent infection that drives damaging inflammatory disease. The chlamydial plasmid is a virulence factor, but its role in the pathogenesis of persistent infection capable of driving immunopathology is unknown. Here, we show by using mouse and nonhuman primate infection models that the secreted plasmid gene protein 3 (Pgp3) is essential for establishing persistent infection. Ppg3-dependent persistent genital tract infection resulted in a severe endometritis caused by an intense infiltration of endometrial submucosal macrophages. Pgp3 released from the cytosol of lysed infected oviduct epithelial cells, not organism outer membrane-associated Pgp3, inhibited the chlamydial killing activity of antimicrobial peptides. Genetic Pgp3 rescue experiments in cathelin-related antimicrobial peptide (CRAMP)-deficient mice showed Pgp3-targeted antimicrobial peptides to subvert innate immunity as a pathogenic strategy to establish persistent infection. These findings provide important advances in understanding the role of Pgp3 in the pathogenesis of persistent chlamydial infection and associated immunopathology.<b>IMPORTANCE</b><i>Chlamydia trachomatis</i> can cause persistent infection that drives damaging inflammatory responses resulting in infertility and blindness. Little is known about chlamydial genes that cause persistence or factors that drive damaging pathology. In this work, we show that the <i>C. trachomatis</i> plasmid protein gene 3 (Pgp3) is the essential virulence factor for establishing persistent female genital tract infection and provide supportive evidence that Pgp3 functions similarly in a nonhuman primate trachoma model. We further show that persistent Ppg3-dependent infection drives damaging immunopathology. These results are important advances in understanding the pathophysiology of chlamydial persistence.
Bacterial Flora in Pasteurized Oysters after Refrigerated Storage (1988)

ABSTRACT Freshly shucked oysters ( Crassostrea virgtnica ) were chlorinated, sealed in pouches and pasteurized. Chlorination reduced the total plate count by a range of 40% to 90%; pasteurization further reduced the population by 99.9%. During refrigerated storage, the organisms that survived pasteurization were all Gram‐positive. By comparison, the predominant organisms found in fresh oysters were Gram‐negative. Some organisms survived after heating at 80°C for 10 min, but all were killed after heating at this temperature for 15 min. The facultatively anaerobic plate count gradually increased during storage. The major bacteria surviving after pasteurization and cold‐storage were Bacillus, Clostridium, Corynebacterium, Listeria, Peptostreptococcus and Staphylococcus.
DenseFusion: 6D Object Pose Estimation by Iterative Dense Fusion (2019)

A key technical challenge in performing 6D object pose estimation from RGB-D image is to fully leverage the two complementary data sources. Prior works either extract information from the RGB image and depth separately or use costly post-processing steps, limiting their performances in highly cluttered scenes and real-time applications. In this work, we present DenseFusion, a generic framework for estimating 6D pose of a set of known objects from RGB-D images. DenseFusion is a heterogeneous architecture that processes the two data sources individually and uses a novel dense fusion network to extract pixel-wise dense feature embedding, from which the pose is estimated. Furthermore, we integrate an end-to-end iterative pose refinement procedure that further improves the pose estimation while achieving near real-time inference. Our experiments show that our method outperforms state-of-the-art approaches in two datasets, YCB-Video and LineMOD. We also deploy our proposed method to a real robot to grasp and manipulate objects based on the estimated pose.
Guide pratique de prescription antibiotique et antalgique adaptée aux patients à risque en odontostomatologie (2003)

L'utilisation des medicaments fait partie integrante de la therapeutique quotidienne du chirurgien-dentiste.La prescription en odontostomatologie n'est pas un exercice facile, et necessite une bonne connaissance des specialites pharmaceutiques utilisees, mais aussi de l'etat physiologique et physiopathologique du patient.Les effets recherches par l'utilisation de ces principes actifs, sont avant touttherapeutiques ; mais chez certains patients, ils peuvent devenir toxiques, en raisond'un etat physiologique particulier, ou d'un etat physiopathologique bien souventassocie a diverses complications et a divers traitements medicamenteux.Ainsi, dans un premier temps, nous etudierons la therapeutique anti-infectieuse, etnotamment les criteres de choix d'un antibiotique, les principales molecules utilisees en odontostomatologie, les indications d'antibiotherapie.Nous nous interesserons ensuite a la therapeutique antalgique: criteres de choix etprincipaux antalgiques d'usage odontostomatologique seront envisages.Enfin, notre troisieme partie concernera les prescriptions antibiotiques et antalgiques adaptees aux patients a risque ; il s'agira d'evoquer les principales pathologies rencontrees, et d'exposer les precautions a prendre en matiere de prescription anti-infectieuse et antalgique.
Calculation of single-ion activities in solutions simulating blood plasma (1989)

While, in principle, flame photometry of sodium and potassium measures substance concentration, and ion-selective electrodes (ISEs) measure ion activity, the situation regarding the comparison of results from the two techniques when applied to blood plasma is complex. The problem can be approached experimentally from the point of view of calibration of ISEs with concentration standards, and similar procedures are adopted for commercial ISE-based clinical analysers. Nevertheless, there is interest in the evaluation of single ion activities in blood plasma and solutions simulating its ionic composition. The theory of mixed electrolyte solutions developed by Pitzer has been applied to some solutions currently proposed for calibrating ISEs, and the results compared with the Stokes-Robinson-Bates hydration approach. It is recommended that the values from the Pitzer treatment be adopted, because, although this has some empirical features, it has a sounder theoretical basis than the Stokes-Robinson-Bates hydration approach.
Regulation of protein kinase C by transforming growth factor β1 in rat costochondral chondrocyte cultures (1994)

Transforming growth factor beta (TGF-beta) regulates the proliferation and differentiation of chondrocytes; however, the mechanism of TGF-beta signal transduction remains unclear. We examined whether the response to TGF-beta is mediated by protein kinase C activity in chondrocytes at different stages of maturation. The aims were to examine the effect of recombinant human TGF-beta 1 (rhTGF-beta 1) on protein kinase C in rat costochondral chondrocyte cultures; determine the major isoform present; assess the involvement of phospholipase C or tyrosine kinases; determine whether genomic or nongenomic pathways are involved; and test whether these mechanisms differ as a function of the stage of cell maturation. Dose-dependent increases in protein kinase C activity were observed in confluent, fourth-passage cultures of rat costochondral growth zone and resting zone chondrocytes treated with rhTGF-beta 1. In growth zone cells, elevated activity was observed at 12 h and decreased markedly by 24 h. In resting zone cells, elevated activity was observed at 9 h, maximum stimulation occurred at 12 h, and activity returned to baseline levels after 48 h. Immunoprecipitation studies showed protein kinase C alpha is the major isoform present in both untreated and treated cells. Neither the phospholipase C inhibitor, U73122, nor the tyrosine kinase inhibitor, genistein, significantly reduced the protein kinase C response to rhTGF-beta 1. Actinomycin D and cycloheximide, inhibitors of transcription and translation, produced dose-dependent inhibition of rhTGF-beta 1 stimulated protein kinase C activity in both resting zone and growth zone chondrocytes. The time course of activation and insensitivity to U73122 suggest that phospholipase C-mediated events are not involved in rhTGF-beta 1 stimulation of protein kinase C in costochondral chondrocytes. Similarly, because genistein had no effect, tyrosine kinases are not implicated. Rather, the reduction in protein kinase C activity observed when rhTGF-beta 1 is administered along with actinomycin D or cycloheximide indicates that new gene expression and protein synthesis are required for the response. These results indicate that the effect of rhTGF-beta 1 is mediated by protein kinase C; however, it is very slow and may require new protein kinase C production, perhaps via a cytokine cascade. Moreover, the classic mechanism of activation of protein kinase C by phospholipase C was not found, suggesting a novel mechanism of activation. Finally, the effects of rhTGF-beta 1 on protein kinase C are dependent on the state of cell maturation with respect to onset and duration of response.
Microwave Capable Data Converters Enabling Softare Defined Synthetic Aperture Radar (2019)

Synthetic Aperture Radar (SAR) is a type of radar technology developed in the 1950s. It is used in an extensive list of applications from sub-surface imaging in geology to satellite based earth observation payload for natural disaster monitoring and prevention, deforestation and crops monitoring. As with most applications involving high-sampling speed data converters, future SAR system aims at reducing their size, weight, cost and power consumption while becoming more flexible in order to support multiple end-use with a single hardware platform. One solution discussed in this paper is a new type of architecture supported by the latest generation of advanced data converters: Software Defined Radio (SDR) and Software Defined Microwave (SDM). These architectures aims at reducing the amount of front-end hardware needed, push as much processing and signal treatment as possible within the processing unit, translating in higher requirement for the data converters. This paper will first introduce SDR/SDM architecture before explaining the higher ADC/DAC requirements. In a last section, performance results of Teledyne e2v's latest Analog to Digital Converter (ADC) and a Digital to Analog Converter (DAC) are shown in the X-band (8-12GHz) illustrating the benefit of SDR/SDM architecture for SAR system.
[Giant cell temporal arteritis with low blood sedimentation rate]. (1984)

Attention is drawn to the existence of low erythrocyte sedimentation rate (ESR) during the active phase of temporal arteritis. The author describes the results of a retrospective study on the ESR of 34 cases diagnosed at the University Hospital of Geneva: The average value was 80 mm after 1 hour, the ESR was under 40 mm in 4 patients (11%) of whom 1 (3%) had a ESR under 20 mm. These results are close to those obtained in 373 cases reviewed in the literature. Only biopsy-positive cases were selected.
Data from Inflammatory Myofibroblastic Tumors Harbor Multiple Potentially Actionable Kinase Fusions (2023)

&lt;div&gt;Abstract&lt;p&gt;Inflammatory myofibroblastic tumor (IMT) is a neoplasm that typically occurs in children. The genetic landscape of this tumor is incompletely understood and therapeutic options are limited. Although 50% of IMTs harbor anaplastic lymphoma kinase (&lt;i&gt;ALK)&lt;/i&gt; rearrangements, no therapeutic targets have been identified in ALK-negative tumors. We report for the first time that IMTs harbor other actionable targets, including &lt;i&gt;ROS1&lt;/i&gt; and &lt;i&gt;PDGFRβ&lt;/i&gt; fusions. We detail the case of an 8-year-old boy with treatment-refractory ALK-negative IMT. Molecular tumor profiling revealed a &lt;i&gt;ROS1&lt;/i&gt; fusion, and he had a dramatic response to the ROS1 inhibitor crizotinib. This case prompted assessment of a larger series of IMTs. Next-generation sequencing revealed that 85% of cases evaluated harbored kinase fusions involving ALK, ROS1, or PDGFRβ. Our study represents the most comprehensive genetic analysis of IMTs to date and also provides a rationale for routine molecular profiling of these tumors to detect therapeutically actionable kinase fusions.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Significance:&lt;/b&gt; Our study describes the most comprehensive genomics-based evaluation of IMT to date. Because there is no “standard-of-care” therapy for IMT, the identification of actionable genomic alterations, in addition to ALK, is expected to redefine management strategies for patients with this disease. &lt;i&gt;Cancer Discov; 4(8); 889–95. ©2014 AACR&lt;/i&gt;.&lt;/p&gt;&lt;p&gt;See related commentary by Le and Doebele, p. 870&lt;/p&gt;&lt;p&gt;This article is highlighted in the In This Issue feature, p. 855&lt;/p&gt;&lt;/div&gt;
Response of Phosphorus and Zinc on Yield and Economics of Wheat (Triticum aestivum) (2023)

The field experiment titled “Response of Phosphorus and Zinc on Yield and Economics of Wheat (Triticum aestivum)" was conducted during Rabi season, 2022 at Crop Research Farm in the Department of agronomy, Naini Agriculture Institute, Sam Higginbottom University of Agriculture, Technology and Sciences, Prayagraj, Uttar Pradesh. The treatment consisted of three level of Phosphorus (60, 75 and 90 kg/ha), Zinc (15, 25 and 35 kg/ha) and control. The experiment was layout in Randomized Block Design (RBD) with 10 treatments and replicated thrice. The soil in the experimental area was sandy loam with pH (8.0), EC (0.56 dS/m), Organic Carbon (0.62%), Available N (225 kg/ha), Available P (38.2 kg/ha), and Available K (240.7 kg/ha). Application of Phosphorus 90 kg/ha and Zn 35 kg/ha produces higher Grain yield (4.90 t/ha), Straw yield (8.38 t/ha), Gross return (154405 INR/ha), Net return (103109.85 INR/ha) and B:C (2.01).
Proactive Decision Support Via Narrative-Integrated Multi-Level Support System (NIMSS) (2014)

Abstract : Overall objective is to create and test (using specific applications) a theory and model-based technology for enabling and advancing a cumulative science of Context-Driven Decision Making (CDDM). A successful project will advance cumulative CDDM science. Technologically, the effort will show the viability of creating NIMSS software technology that can provide proactive decision support based on the way that decision makers already think, demonstrated via a realistic Naval/Marine Corps warfighting domain.
SI-Database AOP (2018)

Supplementary Information for Evaluation of advanced oxidation processes for water and wastewater treatment – A critical review
Using Real-Time High-Resolution LWD Images to Navigate and Optimize Multi-Stage Completions in a Carbonate Reservoir (2013)

Abstract The Permian Basin of West Texas in North America is one of the most mature and prolific oil fields in the United States, continually evolving in production potential via the use of horizontal well drilling. Although initial well productivity has increased with new drilling and completion technologies, forecasting the success of a single well is still difficult because results may be inconsistent within the same section or across the play. This paper reviews the factors affecting well productivity and focuses on optimized completions design to grasp a better understanding of the geology and fracture network. Determining and identifying the zone of interest within the carbonate interval and then navigating within it with conventional LWD technology is a major challenge. To overcome these challenges, real-time high-resolution LWD images were proposed. Azimuthal gamma ray and multiple propagation resistivity measurements were used to determine bed dip, correlate position within the reservoir and indicate formation porosity variations. Advanced LWD imaging tools provide visual confirmation of steering up and down within the reservoir and identify structural information, porosity changes, rock type, faults and fracture types. Electrical images were incorporated as a crucial part of the completion strategy. Non-productive stages were eliminated by identifying and avoiding brecciated and faulted zones during completion, and improved completion efficiency and cycle time resulted in operator savings. In conclusion, LWD images are used to more efficiently drain the reservoir by providing necessary information to stay longer in the target zone and optimize completion. LWD images also help explain production variances between wells targeting the same interval. This paper highlights sub-seismic faults and brecciated intervals that were not resolved using traditional gamma resistivity. By characterizing structural changes through the lateral, completion techniques can be customized to the specific well and maximize recoverable hydrocarbons. The new method enabled the lateral interval to increase from 77% in the offset well to 100% in-zone. The combination of factors, including better wellbore permeability, resulted in an 8% increase in oil production and 68% increase in gas production compared to the offset well during the first five full months of production.
Adaptive Scheduling for TCP-Fairness in Wireless Broadband Networks (2011)

The exponential growth in multimedia traffic (Cisco Visual Networking Index, 2010), predominantly on UDP transport, poses a threat to the TCP’s best effort throughput. This problem is more acute in last mile broadband wireless access networks (Bakshi, Krishna, Vaidya, &amp; Pradhan, 1997). Most scheduling algorithms discuss improving the combined TCP and UDP throughput or improving the TCP throughput without studying the effects of inelastic traffic such as UDP. This chapter furthers the necessity for TCP throughput protection and proposes a novel dynamically adapting Weighted Fair Queue (WFQ) based scheduling mechanism that provides a higher degree of TCP protection. This is accomplished by differentiating between TCP and UDP flows, buffer provisioning for each flow, and prioritizing TCP ACK packets. The simulation results show that the proposed mechanism yields a relative improvement of up to 29% of TCP goodput and 7.5% of aggregate MAC throughput over the mechanism without the proposed improvements.