gebhart/patrepeval huggingface dataset:
Scavenger receptor BI modulates platelet reactivity and thrombosis in dyslipidemia (2010)

Hypercholesterolemia is associated with increased platelet sensitivity to agonists and a prothrombotic phenotype. Mechanisms of platelet hypersensitivity are poorly understood; however, increased platelet cholesterol levels associated with hypercholesterolemia were proposed as leading to hypersensitivity. Scavenger receptor class B type I (SR-BI) in the liver controls plasma high-density lipoprotein (HDL) levels, and SR-BI-deficient mice display a profound dyslipoproteinemia. SR-BI is also expressed on platelets, and recent studies have suggested a role for SR-BI in platelet function; however, its role in hemostasis is unknown. Our present studies demonstrated that non-bone marrow-derived SR-BI deficiency and the dyslipidemia associated with it lead to platelet hyperreactivity that was mechanistically linked to increased platelet cholesterol content. Platelet-specific deficiency of SR-BI, on the other hand, was associated with resistance to hyperreactivity induced by increased platelet cholesterol content. Intravital thrombosis studies demonstrated that platelet SR-BI deficiency protected mice from prothrombotic phenotype in 2 types of dyslipidemia associated with increased platelet cholesterol content. These novel findings demonstrate that SR-BI plays dual roles in thrombosis and may contribute to acute cardiovascular events in vivo in hypercholesterolemia.
Lipid composition of airway secretions from patients with asthma and patients with cystic fibrosis. (1977)

Lipids from the particulate material obtained from pulmonary lavage of patients with asthma and cystic fibrosis were isolated and characterized. In both cases, lipids constituted 30 to 40 per cent of the dry insoluble material and phosphatidylcholine was the predominant lipid. Significant amounts of phosphatidylethanolamine and phosphatidyglycerol were present. Hexosyl ceramides, spingomyelin, phosphatidylinositol, phosphatidylserine, and lyso(bis)phosphatidic acid were present as minor lipid components. Appreciable quantities of neutral lipids were also found. Significant amounts of lysophosphatides and free fatty acids were present only in the lavage sediment from patients with asthma, and not in patients with cystic fibrosis. Phosphatidylcholine, lysophosphatidycholine, sphingomyelin, and phosphatidylglycerol of asthmatic lavage, but not cystic lavage, were highly saturated, containing mostly palmitic acid.
Rheological Changes During the Copolymerization of Vinyl and Divinyl Monomers (1984)

Methyl methacrylate has been polymerized with small amounts of ethylene glycol dimethacrylate (0.5, 1.0, and 2.0 volume %) via a radical chain addition mechanism. Conversion, viscosity, and gel point data are presented. Branching theory based on the recursive nature of the branching process is developed to calculate Mw, the weight average molecular weight of the polymer, and ML,w, the weight average molecular weight of the longest linear chain through a branched polymer molecule, taking into account the possibility of cyclization. It is found that the viscosity rise during the reaction correlates well to the parameter cML,w, where c is the concentration of polymer.
High-energy diffractive variable attenuator (2007)

New type of optical attenuator on the base of circular phase grating to control of high power laser radiation is developed. Theory, design and experimental investigation of polarization independent diffractive attenuators are presented.
Towards an accurate representation of electrostatics in classical force fields: Efficient implementation of multipolar interactions in biomolecular simulations (2003)

The accurate simulation of biologically active macromolecules faces serious limitations that originate in the treatment of electrostatics in the empirical force fields. The current use of "partial charges" is a significant source of errors, since these vary widely with different conformations. By contrast, the molecular electrostatic potential (MEP) obtained through the use of a distributed multipole moment description, has been shown to converge to the quantum MEP outside the van der Waals surface, when higher order multipoles are used. However, in spite of the considerable improvement to the representation of the electronic cloud, higher order multipoles are not part of current classical biomolecular force fields due to the excessive computational cost. In this paper we present an efficient formalism for the treatment of higher order multipoles in Cartesian tensor formalism. The Ewald "direct sum" is evaluated through a McMurchie-Davidson formalism [L. McMurchie and E. Davidson, J. Comput. Phys. 26, 218 (1978)]. The "reciprocal sum" has been implemented in three different ways: using an Ewald scheme, a particle mesh Ewald (PME) method, and a multigrid-based approach. We find that even though the use of the McMurchie-Davidson formalism considerably reduces the cost of the calculation with respect to the standard matrix implementation of multipole interactions, the calculation in direct space remains expensive. When most of the calculation is moved to reciprocal space via the PME method, the cost of a calculation where all multipolar interactions (up to hexadecapole-hexadecapole) are included is only about 8.5 times more expensive than a regular AMBER 7 [D. A. Pearlman et al., Comput. Phys. Commun. 91, 1 (1995)] implementation with only charge-charge interactions. The multigrid implementation is slower but shows very promising results for parallelization. It provides a natural way to interface with continuous, Gaussian-based electrostatics in the future. It is hoped that this new formalism will facilitate the systematic implementation of higher order multipoles in classical biomolecular force fields.
Variance analyses from invariance analyses (2007)

An invariance assertion for a program location l is a statement that always holds at l during execution of the program. Program invariance analyses infer invariance assertions that can be useful when trying to prove safety properties. We use the term variance assertion to mean a statement that holds between any state at l and any previous state that was also at l . This paper is concerned with the development of analyses for variance assertions and their application to proving termination and liveness properties. We describe a method of constructing program variance analyses from invariance analyses. If we change the underlying invariance analysis, we get a different variance analysis. We describe several applications of the method, including variance analyses using linear arithmetic and shape analysis. Using experimental results we demonstrate that these variance analyses give rise to a new breed of termination provers which are competitive with and sometimes better than today's state-of-the-art termination provers.
A multivariate study of the correlation between tocopherol content and fatty acid composition in vegetable oils (1997)

Abstract The main biochemical function of the tocopherols is believed to be the protection of polyunsaturated fatty acids (PUFA) against peroxidation. A critical question that must be asked in reference to this is whether there is a biochemical link between the tocopherol levels and the degree of unsaturation in vegetable oils, the main source of dietary PUFA and vitamin E. We used a mathematical approach in an effort to highlight some facts that might help address this question. Literature data on the relative composition of fatty acids (16:0, 16:1, 18:0, 18:1, 18:2, and 18:3) and the contents of tocopherols (α‐, β‐, δ‐, and γ‐tocopherol) in 101 oil samples, including 14 different botanical species, were analyzed by principal‐component analysis and linear regression. There was a negative correlation between α‐ and γ‐tocopherols ( r =0.633, P <0.05). Results also showed a positive correlation between linoleic acid (18:2) and α‐tocopherol ( r =0.549, P <0.05) and suggested a positive correlation between linolenic acid (18:3) and γ‐tocopherol.
A hybrid neural network architecture for automatic object recognition (2002)

This paper describes the application of a hybrid neural network architecture for automatic object recognition in inverse synthetic aperture radar (ISAR) imagery. The architecture employs a cascaded combination of an unsupervised and a supervised trained neural network. The unsupervised trained self-organizing feature map is used for object segmentation and the supervised trained multilayer perceptron classifies the segmented objects. The classification result is fed back to the feature map segmentor in order to improve segmentation and classification. The functionality of this approach is demonstrated by the use of simulated noisy ISAR images from different objects.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Why do internet users play massively multiplayer online role‐playing games? (2009)

Purpose The purpose of this paper is threefold. First, this study seeks to provide a framework for, and endeavor to gain, an in‐depth understanding of the decision‐making process in relation to playing or not playing massively multiplayer online role‐playing games (MMORPGs) by using qualitative data from interviewing both players and non‐players. Second, it seeks to establish a better measure and model using an ethnographic decision tree model that describes the decision‐making process of internet users. Finally, for cross‐validity purposes, it aims to verify the model using quantitative data from face‐to‐face surveys of players/non‐players in an online gaming context. Design/methodology/approach A two‐phase mixed method is adopted here. During the first phase, the decision tree development phase, to capture the concerns of internet users who are facing the choice of playing MMORPGs or not, qualitative‐based procedures are used to identify decision factors and organize them into a decision tree for better understanding a research problem. In the second phase, the decision tree verification phase, to test the predictive capability of the composite model, a quantitative‐based survey instrument, which represents the decision criteria identified in the first phase, is adopted for data collection and analysis. Findings The results revealed that 14 criteria, formulated as a decision tree, were identified in the model‐building phase. In the model‐testing phase, 137 decision processes were successfully predicted and 17 predictive pathways led to a decision against the factual, giving a predictive rate of 89 per cent. Originality/value The study bridges the gap between the research in online games and in decision making. At the theoretical level, the decision tree model can provide a more comprehensive and in‐depth explanation of the online games‐playing phenomenon. In practice, marketers can easily become aware of the user considerations and identify exactly what needs to be done to fulfil users' criteria for playing MMORPGs. And, from a methodological standpoint, a mixed method can help researchers improve techniques used in study for building more predictive models.
Comparison of<i>n</i>–3 fatty acid sources in laying hen rations for improvement of whole egg nutritional quality: a review (1997)

The nutritional manipulation of the diets of laying hens to include sources of n –3 fatty acids promotes the deposition of these nutrients into egg yolk. n –3 Fatty acid-rich eggs may provide an exciting alternative food source for enhancing consumer intake of these proposed healthful fatty acids. Care must be taken when designing n –3 fatty acid-rich poultry rations, however, to assure that the resulting egg fatty acid profile is useful for promoting consumer health yet maintaining egg sensory quality. In study 1 laying hens were fed on diets supplemented with graded levels of menhaden oil (MO), rich in both eicosapentaenoic acid (EPA; 20:5 n –3) and docosahexaenoic acid (DHA; 22: 6 n –3), for 4 weeks to determine maximal yolk fatty acid deposition attainable without sensory compromise. Yolk fatty acids were analysed for an additional 4 weeks, post-MO removal, to investigate yolk n –3 fatty acid tenacity. Dietary MO levels between 15 and 30g/kg yielded the greatest yolk n –3 fatty acid content; however, only eggs from birds fed with 15g MO/kg were considered acceptable by trained flavour panelists. Evaluation of eggs from hens fed with 15g MO/kg during storage verified that the shelf-life of enriched eggs was comparable with that of typical eggs. In study 2, graded levels of whole or ground flaxseed were used for the deposition of linolenic acid (LNA; 18:3 n –3) and to determine in vivo production of DHA from dietary LNA for yolk deposition. Flaxseed form influenced yolk n –3 fatty acids only when given at 150 g/kg diet. In vivo production of DHA, while significant, was not enhanced by increasing the level of dietary flaxseed nor by grinding the seed. In the third study, a DHA-rich natural marine alga (MA) was investigated as an n –3 fatty acid supplement. Despite similar DHA profiles, dietary MA was found to be more efficient for yolk DHA deposition than dietary MO. These studies suggest that there are numerous viable n –3 fatty acid supplements for poultry rations. It must be realized, however, that the fatty acid profile of the final product varies substantially depending on which supplement is fed.
Novel dipeptidyl hydroxamic acids that inhibit human and bacterial dipeptidyl peptidase III (2016)

Human dipeptidyl peptidase III (hDPP III), a zinc-metallopeptidase of the family M49, is an activator of the Keap1-Nrf2 cytoprotective pathway involved in defense against oxidative stress. Pathophysiological roles of DPP III have not been elucidated yet, partly due to the lack of specific inhibitors. We showed that substrate analog H-Tyr-Phe-NHOH is a strong competitive inhibitor of hDPP III, while H-Tyr-Gly-NHOH expresses much weaker inhibition. To investigate the effects of amino acid substitutions in inhibitor P1 position, we synthesized three new dipeptidyl hydroxamates and examined their influence on the activity of hDPP III and DPP III from the human gut symbiont Bacteroides thetaiotaomicron. The extent of inhibition of hDPP III, but not of bacterial enzyme, was dependent on the amino acid in P1. H-Phe-Phe-NHOH is recognized as one of the strongest inhibitors of hDPP III (K<sub>i</sub> = 0.028 μM), and H-Phe-Leu-NHOH discriminated between human and bacterial ortholog of the M49 family.
Behavioral Hearing Thresholds Between 0.125 and 20 kHz Using Depth-Compensated Ear Simulator Calibration (2012)

The depth-compensated ear simulator-based calibration method and the modified Békésy technique allow reliable measurement of hearing thresholds over the entire frequency range of human hearing. Hearing thresholds at the extended high frequencies are sensitive to aging and reveal subtle differences, which are not evident in the frequency range evaluated regularly (≤8 kHz). Previously reported gender-related differences in hearing thresholds may be related to ear-canal acoustics and the calibration procedure and not because of differences in hearing sensitivity.
Rate of orthodontic tooth movement after changing the force magnitude: an experimental study in beagle dogs (2010)

Only in the very low force range, a positive dose-response relation exists, while in higher force ranges, no such relation could be established.
Study of the Morphology and Optical Properties of Propylene/Ethylene Copolymer Films (2006)

The development of a new catalyst system by The Dow Chemical Company has resulted in the production of isotactic polypropylene and propylene/ethylene copolymers with a unique defect and comonomer distribution. This work investigated the morphology and optical properties of cast and compression molded films made from the homopolymer and copolymers with up to 20 mol% ethylene comonomer. The defect distribution of the Dow Chemical copolymers resulted in materials with lower crystallinity than Ziegler-Natta or metallocene-made materials of similar ethylene content. These materials exhibited a gamma-phase crystal content ranging from 0-95%, depending on ethylene content, processing condition, and catalyst type. The gamma-phase crystal content of quiescently crystallized copolymer films was found to significantly influence their bulk optical properties, presumably through a change in the spherulite birefringence. The bulk haze, clarity, and transparency of a homopolymer film were degraded through annealing treatments, which decreased the fraction of gamma-phase crystallinity and increased the thickness of existing lamellae, resulting in an increased intensity of scattered light and a corresponding degradation in the optical properties of the film. The haze, clarity, transparency, and gloss of the copolymer films were found to improve at higher comonomer content and higher cooling rates. The variation in the length scale and degree of disorder in the bulk morphology of films processed under different conditions was shown to correlate with the optical quality of the films, with smaller scale morphologies scattering less light and resulting in films with better optical properties. It was also shown that no single metric can completely describe the optical quality of a polymer film; the relative importance of haze, transparency, and gloss, which depends on the intended application of the film, was discussed. The influence of surface scattering from the films was controlled through the compression molding of films using substrates of different surface roughness. The contribution of light scattered from the surface of the films was isolated and found to play a significant role in the degradation of optical quality.
Diversity of sesquiterpene synthases in the basidiomycete <i>Coprinus cinereus</i> (2009)

Fungi are a rich source of bioactive secondary metabolites, and mushroom-forming fungi (Agaricomycetes) are especially known for the synthesis of numerous bioactive and often cytotoxic sesquiterpenoid secondary metabolites. Compared with the large number of sesquiterpene synthases identified in plants, less than a handful of unique sesquiterpene synthases have been described from fungi. Here we describe the functional characterization of six sesquiterpene synthases (Cop1 to Cop6) and two terpene-oxidizing cytochrome P450 monooxygenases (Cox1 and Cox2) from Coprinus cinereus. The genes were cloned and, except for cop5, functionally expressed in Escherichia coli and/or Saccharomyces cerevisiae. Cop1 and Cop2 each synthesize germacrene A as the major product. Cop3 was identified as an alpha-muurolene synthase, an enzyme that has not been described previously, while Cop4 synthesizes delta-cadinene as its major product. Cop6 was originally annotated as a trichodiene synthase homologue but instead was found to catalyse the highly specific synthesis of alpha-cuprenene. Coexpression of cop6 and the two monooxygenase genes next to it yields oxygenated alpha-cuprenene derivatives, including cuparophenol, suggesting that these genes encode the enzymes for the biosynthesis of antimicrobial quinone sesquiterpenoids (known as lagopodins) that were previously isolated from C. cinereus and other Coprinus species.
Nitrogen catabolite repression of arginase (CAR1) expression in Saccharomyces cerevisiae is derived from regulated inducer exclusion (1992)

Expression of the Saccharomyces cerevisiae arginase (CAR1) gene is regulated by induction and nitrogen catabolite repression (NCR). Arginine was demonstrated to be the native inducer. CAR1 sensitivity to NCR has long been accepted to be accomplished through a negative control mechanism, and cis-acting sites for it have been hypothesized. In search of this negatively acting site, we discovered that CAR1 sensitivity to NCR derives from regulated inducer (arginine) exclusion. The route of catabolic entry of arginine into the cell, the general amino acid permease (GAP1), is sensitive to NCR. However, CAR1 expression in the presence of sufficient intracellular arginine is NCR insensitive.
Analogs of the 5-HT1A serotonin antagonist 1-(2-methoxyphenyl)-4-[4-(2-phthalimido)butyl]piperazine with reduced .alpha.1-adrenergic affinity (1991)

1-(2-Methoxyphenyl)-4-[4-(2-phthalimido)butyl]piperazine (NAN-190; 1a) is a putative postsynaptic 5-HT1A serotonin antagonist. This high affinity ligand (Ki = 0.6 nM), although selective for 5-HT1A versus other 5-HT receptors, binds with nearly equal affinity at alpha 1-adrenergic receptors (Ki = 0.8 nm). Structure-affinity relationship studies were conducted in order to achieve an improved selectivity. Replacement of the phthalimide moiety by substituted benzamides led to retention of 5-HT1A affinity but to no improvement in selectivity, whereas replacement by alkyl amides proved beneficial, leading to an improvement in affinity and selectivity. Branching alpha to the amide carbonyl group and increased bulkiness of the alkyl moiety further improved 5-HT1A affinity and selectivity. 4-[4-(1-Adamantanecarboxamido)butyl]-1- (2-methoxyphenyl)piperazine (2j) was found to bind at 5-HT1A sites with high affinity (Ki = 0.4 nM) and with a 160-fold selectivity over alpha 1-adrenergic sites. Preliminary studies show that this agent retains antagonist activity as determined in a 5-HT1A-coupled adenylyl cyclase assay. Further functional studies are warranted to fully characterize this agent.
Design and characterization of a digital control system for the flow through a microporous membrane (1996)

In many scientific and industrial applications the permeating flow through a membrane separating two fluid phases must be kept constant, either because the flow is feeding another system which requires a constant in-flow, or because membrane fouling is being studied and it is necessary to know what must be done to maintain the flow. We describe a digital proportional-integral controller which makes it possible to maintain a constant permeating flow through a Nuclepore membrane with 8 μm mean pore radius.
Chemo-Enzymatic Reaction Sequence for the Synthesis of Dihydroxyacetone Phosphate (DHAP) Stock Material (2012)

Abstract A chemoenzymatic synthesis of benzylated dihydroxyacetone phosphate precursor is described, starting from glycerol.
Fluorescent Lamp Phosphors (1998)

Fluorescent lamp phosphors convert the ultraviolet emission of a rare-gas/mercury discharge plasma into visible (white) light. The phosphor is responsible for nearly all the visible light produced by the lamp with the visible mercury lines contributing only a few percent to the total lamp light output. This article reviews fluorescent lamp phosphors that are used in general purpose illumination.
The Endogenous Chromophore of Retinal G Protein-coupled Receptor Opsin from the Pigment Epithelium (1999)

The recent identification of nonvisual opsins has revealed an expanding family of vertebrate opsin genes. The retinal pigment epithelium (RPE) and Müller cells contain a blue and UV light-absorbing opsin, the RPE retinal G protein-coupled receptor (RGR, or RGR opsin). The spectral properties of RGR purified from bovine RPE suggest that RGR is conjugated in vivo to a retinal chromophore through a covalent Schiff base bond. In this study, the isomeric structure of the endogenous chromophore of RGR was identified by the hydroxylamine derivatization method. The retinaloximes derived from RGR in the dark consisted predominantly of the all-trans isomer. Irradiation of RGR with 470-nm monochromatic or near-UV light resulted in stereospecific isomerization of the bound all-trans-retinal to an 11-cis configuration. The stereospecificity of photoisomerization of the all-trans-retinal chromophore of RGR was lost by denaturation of the protein in SDS. Under the in vitro conditions, the photosensitivity of RGR is at least 34% that of bovine rhodopsin. These results provide evidence that RGR is bound in vivo primarily to all-trans-retinal and is capable of operating as a stereospecific photoisomerase that generates 11-cis-retinal in the pigment epithelium.