gebhart/patrepeval huggingface dataset:
Non‐digestible oligosaccharides reduce immunoglobulin free light‐chain concentrations in infants at risk for allergy (2011)

Prebiotic oligosaccharides influence the intestinal microbiota and can positively modulate the infant's immune system. It was demonstrated that a special prebiotic mixture (Immunofortis(®)) of short-chain galacto-oligosaccharides (scGOS) and long-chain fructo-oligosaccharides (lcFOS) can reduce the cumulative incidence of atopic dermatitis (AD) in infants at risk for allergy as determined using the AD symptom score (SCORAD). Additionally, it was shown very recently that immunoglobulin free light-chain (Ig-fLC) might be involved in the pathophysiology of allergic disease. Increased Ig-fLC concentrations were found in patients suffering from AD, cow's milk allergy, allergic rhinitis, or asthma. In this study, the effect of supplementation of scGOS/lcFOS on the Ig-fLC plasma concentrations in infants at risk for allergy was assessed. The plasma kappa and lambda Ig-fLC concentrations were measured in a double-blind, placebo-controlled, randomized trial, in which infants at risk for developing allergic disease received a hypoallergenic whey formula containing 8 g/l of the scGOS/lcFOS mixture (n = 34) or maltodextrin as a placebo (n=40) for 6 months. After intervention, plasma samples were collected, and total plasma concentrations of lambda and kappa Ig-fLC were analyzed using ELISA. Total kappa and lambda Ig-fLC plasma concentrations were higher in infants suffering from AD when compared to infants without any sign of AD. In infants receiving the prebiotic mixture, the Ig-fLC levels were significantly lower compared to the placebo-fed infants (p<0.001). Interestingly, lambda Ig-fLC concentrations were positively correlated with total IgE (p<0.05). These data demonstrate for the first time that the specific scGOS/lcFOS mixture lowered kappa and lambda Ig-fLC plasma concentrations in infants at high risk for allergies when compared to infants receiving placebo formula. Because Ig-fLC concentrations were increased in infants suffering from AD, this may have contributed, at least in part, to the reduced incidence in AD as described previously. This suggests a possible role for Ig-fLC in the pathophysiology of AD in infants at risk for allergy development.
Statistical process control for IMRT dosimetric verification (2008)

Patient-specific measurements are typically used to validate the dosimetry of intensity-modulated radiotherapy (IMRT). To evaluate the dosimetric performance over time of our IMRT process, we have used statistical process control (SPC) concepts to analyze the measurements from 330 head and neck (H&N) treatment plans. The objectives of the present work are to: (i) Review the dosimetric measurements of a large series of consecutive head and neck treatment plans to better understand appropriate dosimetric tolerances; (ii) analyze the results with SPC to develop action levels for measured discrepancies; (iii) develop estimates for the number of measurements that are required to describe IMRT dosimetry in the clinical setting; and (iv) evaluate with SPC a new beam model in our planning system. H&N IMRT cases were planned with the PINNACLE treatment planning system versions 6.2b or 7.6c (Philips Medical Systems, Madison, WI) and treated on Varian (Palo Alto, CA) or Elekta (Crawley, UK) linacs. As part of regular quality assurance, plans were recalculated on a 20-cm-diam cylindrical phantom, and ion chamber measurements were made in high-dose volumes (the PTV with highest dose) and in low-dose volumes (spinal cord organ-at-risk, OR). Differences between the planned and measured doses were recorded as a percentage of the planned dose. Differences were stable over time. Measurements with PINNACLE3 6.2b and Varian linacs showed a mean difference of 0.6% for PTVs (n=149, range, -4.3% to 6.6%), while OR measurements showed a larger systematic discrepancy (mean 4.5%, range -4.5% to 16.3%) that was due to well-known limitations of the MLC model in the earlier version of the planning system. Measurements with PINNACLE3 7.6c and Varian linacs demonstrated a mean difference of 0.2% for PTVs (n=160, range, -3.0%, to 5.0%) and -1.0% for ORs (range -5.8% to 4.4%). The capability index (ratio of specification range to range of the data) was 1.3 for the PTV data, indicating that almost all measurements were within +/-5%. We have used SPC tools to evaluate a new beam model in our planning system to produce a systematic difference of -0.6% for PTVs and 0.4% for ORs, although the number of measurements is smaller (n=25). Analysis of this large series of H&N IMRT measurements demonstrated that our IMRT dosimetry was stable over time and within accepted tolerances. These data provide useful information for assessing alterations to beam models in the planning system. IMRT is enhanced by the addition of statistical process control to traditional quality control procedures.
Purification, complete amino acid sequence and structural characterization of the heat‐stable sweet protein, mabinlin II (1993)

A new sweet protein, named mabinlin II, was extracted with 0.5 M NaCl solution from the seeds of Capparis masaikai Lévl. and purified by ammonium sulfate fractionation, carboxymethylcellulose-Sepharose ion-exchange chromatography and gel filtration. The sweetness of mabinlin II was unchanged by at least 48 h incubation at nearly boiling temperature. Purified mabinlin II thus obtained gave a single band having a molecular mass of 14 kDa on SDS/PAGE. In the presence of dithiothreitol, mabinlin II gave two bands having molecular masses of 4.6 kDa and 5.2 kDa on SDS/PAGE. Two peptides (A chain and B chain) were separated from reduced and S-carboxamidomethylated mabinlin II by HPLC. The amino acid sequences of the A chain and B chain were determined by the automatic Edman-degradation method. The A chain and B chain consist of 33-amino-acid and 72-amino-acid residues, respectively. The A chain is mostly composed of hydrophilic amino acid residues and the B chain also contains many hydrophilic residues. High similarity was found between the amino acid sequences of mabinlin II and 2S seed storage proteins, especially 2S albumin AT2S3 in Arabidopsis thaliana (mouse-ear cress).
Nucleic Acid Molecular Biomarkers for Diagnostic Biodosimetry Applications: Use of the Fluorogenic 5′-Nuclease Polymerase Chain Reaction Assay (2002)

A reliable, relatively easy method for diagnostic assessment of radiation exposure is needed to support the triage of radiation casualties and medical treatment decisions in military defense operations. Our strategy is to identify radiation-responsive DNA mutations and gene expression targets that can be analyzed using polymerase chain reaction (PCR) assays and an existing fluorescence-based nucleic acid analysis system designed for forward-deployable laboratory applications. Using an in vitro model system of human peripheral blood lymphocytes, we identified a candidate nucleic acid biomarker (i.e., gene expression target) that is responsive to ionizing radiation. In this report, we describe our preliminary Haras gene expression findings. A dose-dependent elevation in Haras gene expression levels was demonstrated using Northern-blot analysis 17 hours after exposure to a 250-kVp dose of X-rays (25-100 cGy, 1 Gy/minute); c-Haras expression levels at 100 cGy were ninefold higher than those of controls. An alternative protocol to quantify the Haras cDNA target, using the rapid, real-time reverse transcriptase fluorogenic 5'-nuclease PCR assay, is described, along with a preliminary characterization of the dynamic range for detection. Our research shows that the analysis of multitarget nucleic acid biomarkers, using the multiplex fluorogenic 5'-nuclease PCR assay, has beneficial applications in radiation epidemiology, radiation therapy, and biodosimetry.
Assessment of Cytotoxicity of Quantum Dots and Gold Nanoparticles Using Cell-Based Impedance Spectroscopy (2008)

A continuous online technique based on electric cell-substrate impedance sensing (ECIS) was demonstrated for measuring the concentration and time response function of fibroblastic V79 cells exposed to nanomaterials such as quantum dots (QDs) and fluorescent gold nanoparticles. The half-inhibition concentration, (ECIS50), the required concentration to attain 50% inhibition of the cytotoxic response, was estimated from the response function to ascertain cytotoxicity during the course of measurement. The ECIS50 values agreed well with the results obtained using the standard neutral red assay. Cadmium selenide quantum dots showed direct cytotoxicity with the ECIS assay. For the cadmium telluride quantum dots, significant toxicity could be assigned to free cadmium, although additional toxicity could be attributed to the QDs per se. The QDs synthesized with indium gallium phosphide and the fluorescent gold nanoparticles were not cytotoxic.
Imaging structures below dipping TI media (1999)

Abstract Seismic anisotropy in dipping shales causes imaging and positioning problems for underlying structures. We developed an anisotropic depth-migration approach for P-wave seismic data in transversely isotropic (TI) media with a tilted axis of symmetry normal to bedding. We added anisotropic and dip parameters to the depth-imaging velocity model and used prestack depth-migrated image gathers in a diagnostic manner to refine the anisotropic velocity model. The apparent position of structures below dipping anisotropic overburden changes considerably between isotropic and anisotropic migrations. The ray-tracing algorithm used in a 2-D prestack Kirchhoff depth migration was modified to calculate traveltimes in the presence of TI media with a tilted symmetry axis. The resulting anisotropic depth-migration algorithm was applied to physical-model seismic data and field seismic data from the Canadian Rocky Mountain Thrust and Fold Belt. The anisotropic depth migrations offer significant improvements in positioning and reflector continuity over those obtained using isotropic algorithms.
Safety, Energy Efficiency, and Cost Efficacy of the C-Leg for Transfemoral Amputees (2010)

The purpose of this paper was to review the literature through a structured literature review and provide a grade of recommendation for patient safety, gait energy efficiency, and cost effectiveness of the C-Leg microprocessor-controlled prosthetic knee for transfemoral amputees. Medline (Ovid) and CINAHL (EBSCO) data bases were searched to identify potentially pertinent studies within the 1995-2009 time range. Studies were screened and sorted. Pertinent studies were rated for methodologic quality and for risk of bias. Following assessment of methodologic quality and bias risk, the level of evidence and a grade of recommendation was determined for each of three categories: Safety, energy efficiency, and cost effectiveness. A total of 18 articles were determined to be pertinent: seven for safety, eight for energy efficiency, and three for cost effectiveness. Methodologic quality was low with a moderate risk of bias in the safety and energy effectiveness categories. Studies in cost effectiveness received high scores for methodologic quality. Though methodologic quality varied across the selected topics, there was sufficient evidence to suggest increased efficacy of the C-Leg in the areas of safety, energy efficiency and cost when compared with other prosthetic knees for transfemoral amputees.
A Vindication of the Twomey-Type Cloud Condensation Nucleus Counter (1986)

The performance of the Twomey-type cloud condensation nucleus (CCN) counter is evaluated by a numerical simulation and found to be better than that predicted in an earlier study. Due to a lack of data on CCN spectra at low supersaturations, the earlier study used extrapolations that subsequent measurements show are unrealistic for atmospheric CCN. The present study indicates that if the instrument has a 0.5 μm radius detector limit, the count is accurate to within 15% for operating supersaturations above 0.1% and for typical atmospheric aerosols.
Translation Initiation of the Insulin-like Growth Factor I Receptor mRNA Is Mediated by an Internal Ribosome Entry Site (2001)

The insulin-like growth factor I receptor (IGF-IR) is a heterotetrameric receptor mediating the effects of insulin-like growth I and other growth factors. This receptor is encoded by an mRNA containing an unusually long, G-C-rich, and highly structured 5' untranslated region. Using bicistronic constructs, we demonstrated here that the 5' untranslated region of the IGF-IR allows translation initiation by internal ribosome entry and therefore constitutes an internal ribosome entry site. In vitro cross-linking revealed that this internal ribosome entry site binds a protein of 57 kDa. Immunoprecipitation of UV cross-linked proteins proved that this protein was the polypyrimidine tract-binding protein, a well known regulator of picornavirus mRNA translation. The efficiency of translation of the endogenous IGF-IR mRNA is not affected by rapamycin, which is a potent inhibitor of cap-dependent translation. This result provides evidence that the endogenous IGF-IR mRNA is translated, at least in part, through a cap-independent mechanism. This is the first report of a growth factor receptor containing sequence elements that allow translation initiation to occur by internal initiation. Because the IGF-IR has a pivotal function in the cell cycle, this mechanism of translation regulation could play a crucial role in the control of cell proliferation and differentiation.
HIV-susceptible transgenic rats allow rapid preclinical testing of antiviral compounds targeting virus entry or reverse transcription (2007)

The current testing of anti-HIV drugs is hampered by the lack of a small animal that is readily available and easy to handle; can be infected systemically with HIV type 1 (HIV-1); harbors the major HIV-1 target cells in a physiological frequency, organ distribution, and activation state; and is established as a pharmacological model. Here, we explored the potential of outbred Sprague-Dawley rats that transgenically express the HIV-1 receptor complex on CD4 T cells and macrophages as a model for the preclinical evaluation of inhibitors targeting virus entry or reverse transcription. The concentrations of the peptidic fusion inhibitor enfuvirtide or the nonnucleoside reverse transcriptase inhibitor efavirenz required to inhibit HIV-1 infection of cultured primary CD4 T cells and macrophages from human CD4 and CCR5-transgenic rats differed by no more than 3-fold from those required for human reference cultures. Prophylactic treatment of double-transgenic rats with a weight-adapted pediatric dosing regimen for either enfuvirtide (s.c., twice-daily) or efavirenz (oral, once-daily) achieved a 92.5% or 98.8% reduction, respectively, of the HIV-1 cDNA load in the spleen 4 days after i.v. HIV-1 challenge. Notably, a once-daily dosing regimen for enfuvirtide resulted in a approximately 5-fold weaker inhibition of infection, unmasking the unfavorable pharmacokinetic characteristics of the synthetic peptide in the context of an efficacy trial. This work provides proof of principle that HIV-susceptible transgenic rats can allow a rapid and predictive preclinical evaluation of the inhibitory potency and of the pharmacokinetic properties of antiviral compounds targeting early steps in the HIV replication cycle.
Protecting Group Free Glycosidations Using <i>p</i>-Toluenesulfonohydrazide Donors (2008)

N'-Glycopyranosylsulfonohydrazides are introduced as glycosyl donors for protecting group free synthesis of O-glycosides, glycosyl azides, and oxazolines. Mono- and disaccharides containing a reducing terminal N-acetylglucosamine residue were condensed with p-toluenesulfonylhydrazide to give the desired beta- d-pyranose donors. These donors can be activated with NBS and then glycosidated with the desired alcohol or transformed to the oxazoline or glycosyl azide.
MEADOW: a middleware for efficient access to multiple geographic databases through OpenGIS wrappers (2002)

Abstract With the proliferation of various geographic databases on the Internet, we have seen increasing needs for accessing them concurrently and remotely via the Web for high‐level decision making. In this paper, we present Middleware for Efficient Access to Databases through OpenGIS Wrappers (MEADOW), an object‐oriented middleware system we have developed to meet these needs. Current OpenGIS standard addresses many interoperability issues involved in such a global utilization of geographic databases. However, existing Simple Feature specification for CORBA (SFCORBA) implementations of OpenGIS proved to be insufficient for MEADOW. The main problems are the complexity of system development and maintenance, and the inefficiency of accessing remote data servers for processing region queries. We resolved the complexity problem by automatically generating a major portion of the application code, specifically wrappers on database servers and client library modules called transparent access providers. A MEADOW view definition language was developed as a high‐level specification language for this purpose. The efficiency problem was resolved by using a region‐based group prefetching of spatial objects from a geographic region. In addition, we implemented an OID‐based semijoin for efficient global query processing, and a region‐level locking to enhance the level of concurrency among region queries. Copyright © 2002 John Wiley & Sons, Ltd
Poretools: a toolkit for analyzing nanopore sequence data (2014)

Poretools is an open-source software and is written in Python as both a suite of command line utilities and a Python application programming interface. Source code is freely available in Github at https://www.github.com/arq5x/poretools.
Transparent and Flexible Thin Film Transistors with Solution-Based Chalcogenide Materials (2014)

The fabrication and characterization of optically transparent high performance photolithography-based cadmium sulfide (CdS) thin film transistors (TFT) on polymeric and glass substrates using chemical bath deposition (CBD) is reported. The process utilizes a maximum processing temperature of 115°C, which is compatible with most flexible substrates. The extracted mobility for the fabricated CdS-TFTs ranged from ∼10–18 cm2/V-s with a threshold voltage of ∼1.6–4.8 V and Ion/Ioff ratio of ∼107. This carrier mobility is among the highest reported for a fully patterned TFT fabricated with CdS as semiconductor and the first transparent CdS-TFTs built on a flexible substrate with good optical transparency and excellent mechanical flexibility.
Fiber Push-Out Nanoindentation Study of BN Interface in SIC/SIC Composites Exposed to High Temperatures (2008)

Interfacial properties of boron nitride fiber coatings are studied in melt infiltrated Hi–Nicalon/BN(CVI)/SiC composites subjected to room temperature cyclic fatigue loading and long term annealing to 1000–1200°C in air. Interfacial shear strength was determined from single fiber push–out tests. Hi–Nicalon fibers with diameters of 13–14.5 μum were pushed out from specimens with thicknesses ranging from 110–280 μum using a spherical tip with a 1 μum radius and 90° conical shape. Interfacial shear strength was calculated from sliding load, fiber diameter and specimen thickness. Due to significant scattering, 30 individual push tests in every sample were used to obtain the average interfacial shear strength. The virgin specimen has interfacial shear strength of 20 MPa which is higher than tensile tested specimens (12 MPa). It was shown that strength of room temperature tensile and fatigue tested samples correlates with their interfacial shear strength obtained from fiber push–out study. Annealing of a virgin specimen for 100 hours at 1000°C slightly increase shear strength up to 21.5 MPa while annealing at 1100°C and 1200°C led to significant increase of shear strength up to 29 and 39 MPa correspondingly. This effect is associated with BN degradation at temperatures >1000°C.
Improving application security with data flow assertions (2009)

Resin is a new language runtime that helps prevent security vulnerabilities, by allowing programmers to specify application-level data flow assertions. Resin provides policy objects, which programmers use to specify assertion code and metadata; data tracking, which allows programmers to associate assertions with application data, and to keep track of assertions as the data flow through the application; and filter objects, which programmers use to define data flow boundaries at which assertions are checked. Resin's runtime checks data flow assertions by propagating policy objects along with data, as that data moves through the application, and then invoking filter objects when data crosses a data flow boundary, such as when writing data to the network or a file.
61. Condensation of chlorotriphenylmethane with ortho-disubstituted benzenes. Further evidence on the systematic difference of activation of ortho- and para-directing groups (1960)

G. Chuchani, J. Chem. Soc., 1960, 325 DOI: 10.1039/JR9600000325
MICROCRYSTALLINE CELLULOSE STABILIZEDEMULSIONS (1986)

ABSTRACT Miorocrystalline cellulose stabilized emulsions (o/w) were evaluated by means of brightfield and polarized light microscopy, freeze-etch electron microscopy, droplet size analyses and rheologic measurements. These studies indicated that miorocrystalline cellulose (Avicel RC591 ) forms a network around emulsified oil droplets. This structure provides a mechanical barrier at the o/w interface which stabilizes the emulsion without the necessity for decreasing interfacial tension, as in conventional surfactant-stabilized emulsions. Rheologic studies indicated that emulsions containing Avicel RC591 had a considerable degree of thlxotropy which contributed to their stability. When Tween 80 was incorporated in this system, oil droplets coalesced indicating that the stability of the emulsion was affected adversely.
A Pricing Strategy of E-Commerce Advertising Cooperation in the Stackelberg Game Model with Different Market Power Structure (2019)

A lot of research work has studied the auction mechanism of uncertain advertising cooperation between the e-commerce platform and advertisers, but little has focused on pricing strategy in stable advertising cooperation under a certain market power structure. To fill this gap, this paper makes a study of the deep interest distribution of two parties in such cooperation. We propose a pricing strategy by building two stackelberg master-slave models when the e-commerce platform and the advertiser are respectively the leader in the cooperation. It is analyzed that the optimization solution of the profits of both parties and the total system are affected by some main decision factors including the income commission proportion, the advertising product price and the cost of advertising effort of both parties’ brand in different dominant models. Then, some numerical studies are used to verify the effectiveness of the models. Finally, we draw a conclusion and make some suggestions to the platforms and the advertisers in the e-commerce advertising cooperation.
Phosphorylation of the amyloid precursor protein (APP): Is this a mechanism <i>in favor</i> or <i>against</i> Alzheimer's disease? (2004)

Abstract This review discusses the phosphorylation of the Amyloid Precursor Protein (APP) and the possible role of this phosphorylation in Alzheimer's disease (AD). AD is a neurodegenerative disorder characterized by the deposition of β‐amyloid plaques in the brain parenchyma and neurofibrillary tangles comprised of hyperphosphorylated tau. APP plays a primary role in the pathogenesis of AD, because its processing generates the amyloid beta peptide (Aβ), the core of the amyloid plaque. APP has a large N‐terminal extracellular domain and a short intracellular C‐terminal domain that can be phosphorylated by various protein kinases. This review summarized recent work describing the phsphorylation of APP and the downstream events induced by this phosphorylation as well as the impact of APP phosphorylation on APP function and on the production of Aβ peptide.