gebhart/patrepeval huggingface dataset:
KINETIC STUDY OF ACAMPROSATE ABSORPTION IN RAT SMALL INTESTINE (2000)

Acamprosate (calcium bis acetyl-homotaurine), a homotaurine derivative, a structural analogue of gamma-aminobutyric acid (GABA) and an upper homologue of taurine, is a relatively new drug used to prevent relapse in weaned alcoholics. When administered orally as enteric-coated tablets at relatively high doses, this drug has a bioavailability of about 11%; however, the intestinal absorption mechanism has not been studied in depth. The present study was therefore planned to characterize the intestinal transport of acamprosate in the rat and the effect of chronic alcohol treatment on this process, quantifying its kinetic parameters and investigating possible inhibitors. Using an in vitro technique, acamprosate absorption was measured in the rat intestine from three different groups: alcohol group [fed a liquid diet containing 5% (w/v) ethanol for 4 weeks], isocaloric pair-fed control, and a solid diet group. Intestinal acamprosate absorption was found to occur mainly by passive diffusion with a diffusive permeability of 0.213+/-0.004 cm/h in control pair-fed animals, 0.206+/-0.001 cm/h in animals receiving chronic alcohol treatment, and 0.193+/-0.001 cm/h in the solid diet group. Inhibition studies showed that at a 10(-3) M acamprosate concentration, some compounds such as GABA, taurine, proline, and glycine at 40 mM each did not affect acamprosate transport. Nevertheless, when a lower concentration of the drug (10(-4) M) was assayed, a significant reduction of acamprosate transport in the presence of taurine or GABA 40 mM was found. These results suggest that acamprosate in the rat jejunum, could be transported, in part, by a carrier system. Further experiments using different concentrations of taurine (10, 20, and 80 mM) showed that the maximum inhibition (32%) is achieved at 20 mM of taurine. These latter results suggest that acamprosate and taurine share, at least, an intestinal carrier system in rat jejunum. From the above results, it can be concluded that there are probably two pathways involved in the intestinal absorption of acamprosate: passive diffusion and mediated transport, with the former being predominant. Moreover, neither chronic ethanol intake nor the type of diet seems to alter the intestinal absorption of the drug.
Carbon Dioxide Fixation in Roots and Nodules of Alnus glutinosa (1983)

Detached roots and nodules of the N(2)-fixing species, Albus glutinosa (European black alder), actively assimilate CO(2). The maximum rates of dark CO(2) fixation observed for detached nodules and roots were 15 and 3 micromoles CO(2) fixed per gram dry weight per hour, respectively. The net incorporation of CO(2) in these tissues was catalyzed by phosphoenolpyruvate carboxylase which produces organic acids, some of which are used in the synthesis of the amino acids, aspartate, glutamate, and citrulline and by carbamyl phosphate synthetase. The latter accounts for approximately 30 to 40% of the CO(2) fixed and provides carbamyl phosphate for the synthesis of citrulline. Results of labeling studies suggest that there are multiple pools of malate present in nodules. The major pool is apparently metabolically inactive and of unknown function while the smaller pool is rapidly utilized in the synthesis of amino acids. Dark CO(2) fixation and N(2) fixation in nodules decreased after treatment of nodulated plants with nitrate while the percentage of the total (14)C incorporated into organic acids increased. Phosphoenolpyruvate carboxylase and carbamyl phosphate synthetase play key roles in the synthesis of amino acids including citrulline and in the metabolism of N(2)-fixing nodules and roots of alder.
A Transport-Independent Bit Index Explicit Replication (BIER) Encapsulation Header (2016)

Bit Index Explicit Replication (BIER) is a new multicast forwarding
paradigm which doesn't require an explicit tree-building protocol
nor intermediate routers to maintain any multicast state. This
document proposes a transport-independent BIER encapsulation header
which is applicable regardless of the underlying transport technology.
Autocrine Regulation of Pulmonary Inflammation by Effector T-Cell Derived IL-10 during Infection with Respiratory Syncytial Virus (2011)

Respiratory syncytial virus (RSV) infection is the leading viral cause of severe lower respiratory tract illness in young infants. Clinical studies have documented that certain polymorphisms in the gene encoding the regulatory cytokine IL-10 are associated with the development of severe bronchiolitis in RSV infected infants. Here, we examined the role of IL-10 in a murine model of primary RSV infection and found that high levels of IL-10 are produced in the respiratory tract by anti-viral effector T cells at the onset of the adaptive immune response. We demonstrated that the function of the effector T cellderived IL-10 in vivo is to limit the excess pulmonary inflammation and thereby to maintain critical lung function. We further identify a novel mechanism by which effector T cell-derived IL-10 controls excess inflammation by feedback inhibition through engagement of the IL-10 receptor on the antiviral effector T cells. Our findings suggest a potentially critical role of effector T cell-derived IL-10 in controlling disease severity in clinical RSV infection.
Demonstration of Promoted Zinc Schlenk Equilibria, their Equilibrium Values and Derived Reactivity (2007)

The presence of promoted Schlenk equilibria for organozinc halide species has been explicitly demonstrated by 13C NMR studies. Thus, addition of methylaluminoxane (MeAlO)n, MAO, to RZnX (R=Et, Bn, ArCH2, (CH2)3CO2Et; X=Cl, Br) leads to the formation of ZnR2 and ZnX2MAO. For EtZnCl, equilibration of ZnEt2 and ZnX2MAO is rapid at -35 degrees C; a K value of 0.19 M-1 indicates the equilibrium favours ZnEt2 (0.75-3.0 equiv MAO). Use of RZnX/MAO mixtures allows copper-catalysed 1,4-addition to 2-cyclohexenone to be achieved, but a competing cascade reaction (two subsequent Michael additions and an intramolecular aldol reaction) leads to novel tetracyclic by-products (characterised crystallographically in one case). Activation of EtZnCl is also achieved by ZnMe2 addition and the presence of intermediate EtZnMe was observed by 13C NMR spectroscopy (at equilibrium, K approximately 1). Asymmetric conjugate addition in this system can be realised (up to 92% ee for additions to 2-cyclohexenone).
Scan-to-Scan Correlation of Weather Radar Signals to Identify Ground Clutter (2012)

The scan-to-scan correlation method to discriminate weather signals from ground clutter, described in this letter, takes advantage of the fact that the correlation time of radar echoes from hydrometeors is typically much shorter than that from ground objects. In this letter, the scan-to-scan correlation method is applied to data from the WSR-88D, and its results are compared with those produced by the WSR-88D's ground clutter detector. A subjective comparison with an operational clutter detection algorithm used on the network of weather radars shows that the scan-to-scan correlation method produces a similar clutter field but presents clutter locations with higher spatial resolution.
Tunable Fluorescence from Dye‐Modified DNA‐Assembled Plasmonic Nanocube Arrays (2019)

Colloidal crystal engineering with DNA on template-confined surfaces is used to prepare arrays of nanocube-based plasmonic antennas and deliberately place dyes with sub-nm precision into their hotspots, on the DNA bonds that confine the cubes to the underlying gold substrate. This combined top-down and bottom-up approach provides independent control over both the plasmonic gap and photonic lattice modes of the surface-confined particle assemblies and allows for the tuning of the interactions between the excited dyes and plasmonically active antennas. Furthermore, the gap mode of the antennas can be modified in situ by utilizing the solvent-dependent structure of the DNA bonds. This is studied by placing two dyes, with different emission wavelengths, under the nanocubes and recording their solvent-dependent emission. It is shown that dye emission not only depends upon the in-plane structure of the antennas but also the size of the gap, which is regulated with solvent. Importantly, this approach allows for the systematic understanding of the relationship between nanoscale architecture and plasmonically coupled dye emission, and points toward the use of colloidal crystal engineering with DNA to create stimuli responsive architectures, which can find use in chemical sensing and tunable light sources.
[Signal transduction in blood platelets]. (1991)

When a blood vessel is disrupted, subendothelial structures such as collagen come into contact with circulating blood platelets. These will adhere and recruit additional platelets to form a platelet aggregate which will close the leak, but which can, under certain circumstances, give rise to the formation of a thrombus. In this work our personal contribution to a better understanding of this process is given. We could demonstrate the presence of an antibody interfering with the platelet-collagen interaction in two patients with a bleeding problem. One of the antibodies is directed against glycoprotein (GP) Ia, a known collagen receptor, the other one recognizes a less well characterized protein of 85-90 kD. It therefore can be concluded that activation of blood platelets requires the simultaneous interaction of collagen with multiple receptors. Activation of platelets following binding of an agonist in many instances involves activation of phospholipase C via a GTP-binding protein or G-protein. We have further studied this by using a direct stimulator of G-proteins, AlF4-, which in platelets indeed activates phospholipase C, together with other systems. Furthermore, we could demonstrate that activation of phospholipase C in a GTP-dependent manner also occurs in platelet cytosol, indicating that the action of G-proteins is not restricted to membrane-linked phenomena. Activation of phospholipase C gives rise to the formation of inositol phosphates, of which mainly inositol 1, 4, 5 trisphosphate increases intracellular Ca(2+)-levels. Following this, the Ca(2+)-dependent phospholipase A2 releases arachidonic acid from the membranes. In platelets arachidonic acid is metabolised to another platelet activator: thromboxane A2. We have studied the effects of the inhibition of this aggregation-amplifying pathway by using specific inhibitors of the synthesis of thromboxane A2 and of thromboxane A2 receptor antagonists both in vitro and in vivo. One of the conclusions that were reached from these studies was that theoretically the combination of these two classes of drugs should yield a significant stronger antiplatelet effect than either class used alone. We could later on confirm this hypothesis, which stimulated some pharmaceutical companies to look for dual action compounds, of which we have studied two so far.(ABSTRACT TRUNCATED AT 400 WORDS)
Echographic Evaluation with Image Analysis of Normal Skin: Variations according to Age and Sex (1994)

In order to identify and characterize the sonographic variations between different age groups, 48 subjects, 24 aged 27-30, and 24 over 60, were studied with a 20-MHz B scanner on six skin sites. Images were evaluated by the instrument's standard programme and by a new image analysis software package enabling the characterization of steady structures or transitory functional aspects of skin reactions, by highlighting areas in which the echo amplitudes are included within selected values, and by calculating their extension. Three bands were selected as intervals of interest, respectively, highlighting hyporeflecting parts of the dermis, tissue reflecting with intermediate amplitude values and hyperreflecting epidermis and dermis. This method was employed to assess skin thickness, demonstrating its decrease in elderly skin, to characterize and quantify the hypoechogenic subepidermal band appearing in the elderly at volar and dorsal forearm skin, and to evaluate echogenicity of the upper and lower dermis. Our data show that there is a great regional variation in the behaviour of ultrasound reflection of elderly skin in respect to the skin of young subjects. However, a general trend can be identified, consisting in a shift from low-intensity ultrasound echoes, characteristic in the dermis of young subjects, to intermediate or high reflection amplitudes, which are more frequent in elderly skin. Thus, the echographic method provides two parameters for the evaluation of skin aging.(ABSTRACT TRUNCATED AT 250 WORDS)
Polarity and gradients in lepidopteran wing epidermis: II. The differential adhesiveness model: gradient of a non-diffusible cell surface parameter (1976)

ABSTRACT For explaining the Manduca wing gradient (Nardi &amp; Kafatos, 1976) a model which postulates a proximo-distal gradient in cellular adhesiveness is considered. The model is based on Steinberg’s (1963) differential adhesiveness hypothesis. Rosette formation in certain transposed and/or reoriented grafts can be adequately explained by this model. Several predictions, formulated by using the concept of surface free energy as a thermodynamic measure of adhesiveness, have been tested and proven correct. (1) Transposed grafts tend to assume circular forms, which are configurations of minimum free energy. (2) Because of the pressure difference expected across the interface of two cell populations with different surface free energies, cell densities increase in both distally and proximally transposed grafts. As a corollary to this rule, final size of a graft is a function of its distance from the original position. (3) Histological sections of host-graft boundaries suggest minimal cell contact at the interface. In proximal grafts placed in distal regions, cell density is far lower near the host-graft interface, as compared to the high interior density; the peripheries of distal grafts do not show this effect. (4) Juxtaposition of three different wing regions in all possible arrangements yields the expected two-dimensional configurations. (5) Differences in adhesiveness can be demonstrated by allowing two different wing grafts to interact in an essentially neutral environment (i.e. at a leg or antenna site). As the distance between two given graft regions increases, the extent of their final contact decreases. When applied to other insect systems, the model not only offers an alternative interpretation for results currently explained by diffusible substance models, but also accounts for certain features that were unexplained by other models.
VisTrails (2006)

Scientists are now faced with an incredible volume of data to analyze. To successfully analyze and validate various hypothesis, it is necessary to pose several queries, correlate disparate data, and create insightful visualizations of both the simulated processes and observed phenomena. Often, insight comes from comparing the results of multiple visualizations. Unfortunately, today this process is far from interactive and contains many error-prone and time-consuming tasks. As a result, the generation and maintenance of visualizations is a major bottleneck in the scientific process, hindering both the ability to mine scientific data and the actual use of the data. The VisTrails system represents our initial attempt to improve the scientific discovery process and reduce the time to insight. In VisTrails, we address the problem of visualization from a data management perspective: VisTrails manages the data and metadata of a visualization product. In this demonstration, we show the power and flexibility of our system by presenting actual scenarios in which scientific visualization is used and showing how our system improves usability, enables reproducibility, and greatly reduces the time required to create scientific visualizations.
Folding of the conserved domain but not of flanking regions in the integrin β2subunit requires association with the α subunit (1997)

We have used immunoprecipitation with mAbs to probe folding during biosynthesis of the beta2 integrin subunit of lymphocyte function-associated antigen 1 (LFA-1; CD11a/CD18) before and after association with the alphaL subunit. An evolutionarily conserved region is present in the beta2 subunit between amino acid residues 102 and 344. mAbs to one subregion before the conserved region, and two subregions after the conserved domain, immunoprecipitated both the unassociated beta'2 precursor and mature alphaL/beta2 complex, suggesting portions of these subregions are folded before association with alphaL. An activating mAb to the C-terminal cysteine-rich region, KIM127, preferentially bound to the unassociated beta subunit, suggesting that it may bind to an epitope that is in an alphabeta interface in unactivated LFA-1. By contrast, mAbs to five different epitopes in the conserved region did not react with unassociated beta'2 precursor, suggesting that this region folds after alphaL association and is intimately associated with the alphaL subunit in the alphaL/beta2 complex. mAbs to two different epitopes that involve the border between the conserved region and the C-terminal segment, were fully or partially reactive with the beta'2 precursor, suggesting that this region is partially folded before association with alphaL. The findings suggest that the conserved region is a distinct folding and hence structural unit, and is intimately associated with the alpha subunit.
Defense applications of neural networks (1989)

The capabilities of neural networks are discussed, and technologies and tools for implementing them are examined. Potential applications of neural networks to national defense are described. They are: analysis of data from high-data-rate sensors; sonar array processing; electronic intelligence gathering; battlefield surveillance, both radar and infrared; aircraft detection; and multisensor fusion.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Protein stapling via azide–alkyne ligation (2014)

Here we demonstrate a methodology, termed protein stapling, for the introduction of covalent constraints into recombinant proteins. Using the azide-alkyne click reaction as the stapling chemistry, we have improved the thermostability of a model leucine zipper protein. Additionally, stapling the core of the small, globular protein G resulted in improved binding to its target, immunoglobulin G.
A C-Type Natriuretic Peptide from The Venom of The Platypus (Ornithorhynchus anatinus) - Structure and Pharmacology. (1998)

A peptide which relaxes rat uterine smooth muscle and exhibits homology with the mammalian C-type natriuretic peptide (CNP) has previously been identified in platypus venom. In this study we describe detailed structural and pharmacological characteristics of this peptide, which has been labelled ONP-39 (Ornithorhynchus Natriuretic Peptide). Elucidation of its 39-residue primary sequence confirms the substantial homology it shares with mammalian CNPs. These peptides exhibit natriuretic, diuretic and hypotensive activities in vivo and relax smooth muscle in vitro but are poorly characterised in terms of physiological function. ONP-39 is equipotent with CNP in causing cGMP elevation in cultured vascular smooth muscle cells, suggesting that, like CNP, it acts through ANPB receptors. The direct elevation of cGMP in vascular smooth muscle by ONP-39 may underlie vasodilatory effects of platypus venom.
Measurement of the angular spectrum of ultrasonic transducers using an optical probe. (1991)

In the Raman–Nath region of ultrasonic light diffraction (i.e., at frequencies near 1 MHz and narrow sound beam width), a laser light beam can be configured to be a line receiver of the ultrasound. With care, both the phase and magnitude of the integral of the pressure along the line can be extracted as an electric signal from a fast-responding photodetector. By means of an optical lens, the photodetector can be effectively placed near or inside the sound field. At this close proximity, the measurement system is linear. Making measurements where the laser beam is placed at positions along a line from above to below the sound beam yields information that constitutes a ‘‘projection’’ of the soundfield. Taking the spatial Fourier transform then yields a slice of the angular spectrum. The experimental system is described and examples of the measured angular spectrum are shown.
Phylogenetic relationships of cantharelloid and clavarioid Homobasidiomycetes based on mitochondrial and nuclear rDNA sequences (1999)

Sequence data from mitochondrial and nuclear small subunit rDNA were used to estimate phylogenetic relationships of cantharelloid and clavarioid Homobasidiomycetes. Sixty-five diverse Homobasidiomycete species were investigated, including 23 cantharelloid and clavarioid species. Although nodes deep in the tree could not be resolved, four lineages containing cantharelloid and clavarioid fungi were identified, (i) Cantharellaceae (Cantharellus, Craterellus) is closely related to Hydnum, which is toothed, Stichoclavaria, which is a simple club, and Clavulina, which is coralloid. These taxa all have stichic nuclear division, which is a synapomorphy supporting this clade. (ii) Clavariadelphus is closely related to Gomphus and Ramaria. This relationship is supported by green reactions of sporocarps treated with iron salts, which is reflective of the presence of the compound pistillarin. The nearest relatives of these cantharelloid and clavarioid fungi are gastero-mycetes, including the earth star Geastrum, the stinkhorn Pseudocolus, and the “cannon-ball fungus” Sphaerobolus. (iii) The clavarioid fungi Clavaria, Clavulinopsis, Pterula, and Typhula appear to be derived from the lineage that contains most of the gilled fungi. (iv) Clavicorona is closely related to Auriscalpium, which is toothed, and Lentinellus, which is gilled. This lineage is united by amyloid spore ornamentation. Although these results suggest that there has been extensive convergence in fruiting body morphology, certain anatomical and biochemical features appear to be phylogenetically informative, notably stichic nuclear division, presence of pistillarin, and cyanophily or amyloidity of spore ornamentation.
Alkaline biocatalysis for the direct synthesis ofN-acetyl-D-neuraminic acid (Neu5Ac) fromN-acetyl-D-glucosamine (GlcNAc) (1999)

Integration between the alkaline epimerization of N-acetyl-D-glucosamine (GlcNAc) to N-Acetyl-D-mannosamine (ManNAc) and the N-acetyl-D-neuraminic acid (Neu5Ac) aldolase-catalyzed biotransformation has been assessed experimentally. GlcNAc epimerization took place above pH 9.0, and the initial rate of ManNAc formation increased exponentially to 10.37 mmol/L per hour at pH 12. However, above this pH, severe degradation of pyruvate occurred. A value of 31.3% molar conversion on Pyr was achieved in an integrated biotransformation. The "pseudo"-steady state at the end of the reaction was comparable to the equilibrium achieved with a combination of an epimerase and aldolase enzymes. The integrated reaction proved feasible, but at the expense of pyruvate and Neu5Ac aldolase degradation.