gebhart/patrepeval huggingface dataset:
Structural determination of oligosaccharides derived from lipooligosaccharide of Neisseria gonorrhoeae F62 by chemical, enzymic, and two-dimensional NMR methods (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStructural determination of oligosaccharides derived from lipooligosaccharide of Neisseria gonorrhoeae F62 by chemical, enzymic, and two-dimensional NMR methodsRyohei Yamasaki, Bradley E. Bacon, Wade Nasholds, Herman Schneider, and J. M. GriffissCite this: Biochemistry 1991, 30, 43, 10566–10575Publication Date (Print):October 1, 1991Publication History Published online1 May 2002Published inissue 1 October 1991https://pubs.acs.org/doi/10.1021/bi00107a028https://doi.org/10.1021/bi00107a028research-articleACS PublicationsRequest reuse permissionsArticle Views201Altmetric-Citations79LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Huntington’s disease (2002)

Results suggest that NMDA receptor supersensitivity may contribute to the clinical expression of choreiform dyskinesias in HD and that selective antagonists at that site can safely confer palliative benefit.
Effects of N-glycosylation on in vitro activity of Bowes melanoma and human colon fibroblast-derived tissue plasminogen activator (1989)

Tissue-type plasminogen activator (t-PA), when isolated from human colon fibroblast (hcf) cells, is N-glycosylated differently than when isolated from the Bowes melanoma (m) cell line (Parekh et al., 1988). Both hcf- and m-t-PA can be separated into type I t-PA (with three occupied N-glycosylation sequons, at Asn-117, -184, and -448) and type II t-PA (with two occupied sequons, at Asn-117 and -448). Oligosaccharide analysis of each of these types of t-PA indicates that hcf-t-PA and m-t-PA have no glycoforms in common, despite having the same primary amino acid sequence. We have therefore compared in vitro the enzymatic activities and fibrin binding of type I and type II hcf- and m-t-PA with those of aglycosyl t-PA isolated from tunicamycin-treated cells. Plasminogen activation kinetics were determined by using an indirect amidolytic assay with Glu-plasminogen and a chromogenic plasmin substrate. In the absence of stimulator, there was little difference in activity between type I and type II t-PA, but the activity of aglycosyl t-PA was 2-4-fold higher than that of the corresponding glycosylated t-PA. In the presence of a fibrinogen fragment stimulator, the Kcat value of type II t-PA was approximately 5-fold that of type I t-PA from the same cell line, while the Km values for activation of Glu-plasminogen were similar (0.13-0.18 microM). The stimulated activity of glycosyl t-PA was similar to that of type II t-PA.(ABSTRACT TRUNCATED AT 250 WORDS)
A polymer of caffeyl alcohol in plant seeds (2012)

Lignins are complex phenylpropanoid polymers mostly associated with plant secondary cell walls. Lignins arise primarily via oxidative polymerization of the three monolignols, p-coumaryl, coniferyl, and sinapyl alcohols. Of the two hydroxycinnamyl alcohols that represent incompletely methylated biosynthetic products (and are not usually considered to be monolignols), 5-hydroxyconiferyl alcohol is now well established as incorporating into angiosperm lignins, but incorporation of caffeyl alcohol has not been shown. We report here the presence of a homopolymer of caffeyl alcohol in the seed coats of both monocot and dicot plants. This polymer (C-lignin) is deposited to high concentrations in the seed coat during the early stages of seed development in the vanilla orchid (Vanilla planifolia), and in several members of the Cactaceae. The lignin in other parts of the Vanilla plant is conventionally biosynthesized from coniferyl and sinapyl alcohols. Some species of cacti contain only C-lignin in their seeds, whereas others contain only classical guaiacyl/syringyl lignin (derived from coniferyl and sinapyl alcohols). NMR spectroscopic analysis revealed that the Vanilla seed-coat polymer was massively comprised of benzodioxane units and was structurally similar to the polymer synthesized in vitro by peroxidase-catalyzed polymerization of caffeyl alcohol. CD spectroscopy did not detect any optical activity in the seed polymer. These data support the contention that the C-lignin polymer is produced in vivo via combinatorial oxidative radical coupling that is under simple chemical control, a mechanism analogous to that theorized for classical lignin biosynthesis.
Isolation and characterization of endothelial cells from the epididymal fat pad of the rat (1983)

Endothelial cells from rat epididymal fat pad capillaries were isolated from rats immediately after weaning. The cells were obtained after an initial brief incubation with collagenase under conditions of minimal breakage of cells. Adipocytes were removed by flotation and endothelial cells were then obtained as cell aggregates by fractional filtration procedures whereby intact tissue as well as free cells were removed. These aggregates were then dispersed and cultured in supplemented medium 199 whereby a monolayer of cells with a growth pattern, numerous pinocytotic vesicles, and intercellular junctions typical of endothelial cells were obtained. Minor contaminations of precursor cells to adipocytes were absent after one subculture. Here greater than 95% of the cells showed the presence of Factor VIII. Further subcultures produced nonhomogenous cells and decreasing rates of replication. The endothelial cells showed a very low rate of triglyceride synthesis and release, and collected no visible lipid upon prolonged cultures in the presence of an abundance of triglyceride substrate. They bound lipoprotein lipase from rat adipocytes, whereby the lipase was stabilized. This binding was released by heparin, and the cells did not synthesize the enzyme.
Lamivudine Therapy of WHV-Infected Woodchucks (1998)

Hepatitis B viruses establish a chronic, productive, and noncytopathic infection of hepatocytes. Viral products are produced by transcription from multiple copies (5-50) of covalently closed circular (ccc) viral DNA. This cccDNA does not replicate, but can be replaced by DNA precursors that are synthesized in the cytoplasm. The present study was carried out to determine if long-term treatment with an inhibitor of viral DNA synthesis would lead to loss of virus products, including cccDNA, from the liver of woodchucks chronically infected with woodchuck hepatitis virus. Viral DNA synthesis was inhibited with the nucleoside analog, lamivudine (2'-deoxy-3'-thiacytidine). Lamivudine treatment produced a slow but progressive decline in viral titers in serum, to about 0.3% or less of the initial level. However, even after maintenance of drug therapy for 3-12 months, > 95% of the hepatocytes in most animals were still infected. Significant declines in the percentage of infected hepatocytes and of intrahepatic cccDNA levels were observed in only three woodchucks, two in the group receiving lamivudine and one in the placebo control group. Moreover, virus titers eventually rose in woodchucks receiving lamivudine, suggesting that drug-resistant viruses began to spread through the liver starting at least as early as 9-12 months of treatment. Three types of mutation that may be associated with drug resistance were found at this time, in a region upstream of the YMDD motif in the active site of the viral reverse transcriptase. The YMDD motif itself remained unchanged. Not unexpectedly, the lamivudine therapy did not have a impact on development of liver cancer.
Effect of a cancer cachectic factor on protein synthesis/degradation in murine C2C12 myoblasts: modulation by eicosapentaenoic acid. (1999)

The effect of a proteolysis inducing factor (PIF) on protein synthesis and degradation and the modulation of this effect by the polyunsaturated fatty acid, eicosapentaenoic acid (EPA), have been examined using a surrogate model system, C2C12 myoblasts in vitro. After 90 min of incubation, PIF produced a significant inhibition of protein synthesis in a dose-dependent manner, with maximal inhibition at a concentration of 4 nM. The effect was attenuated both by treatment with a monoclonal antibody to PIF and by treatment with insulin at physiological concentrations (1 nM) and below (0.1 nM), but not by EPA (50 microM). The inhibitory effect on protein synthesis was transitory and was not seen after prolonged incubation with PIF. An increased rate of protein degradation was observed in C2C12 myoblasts after addition of PIF, which was also maximal at a concentration of PIF of 4 nM. Higher concentrations of PIF did not produce an increase in protein degradation. Unlike the effect on protein synthesis, the enhanced protein degradation was completely abolished by pretreatment with 50 microM EPA, suggesting that the two effects are mediated by different mechanisms. PIF produced an increased release of [3H]arachidonic acid from prelabeled myoblasts with a dose-response curve parallel to that of protein degradation and with a maximum at 4 nM PIF. Release of [3H] arachidonic acid was completely blocked in cells pretreated with 50 microM EPA, suggesting that the effect was related to protein degradation. The [3H]arachidonic acid was rapidly metabolized to prostaglandins E2 and F2alpha and to 5-, 12-, and 15-hydroxyeicosatetraenoic acids (HETEs). Production of all eicosanoids was attenuated in cells pretreated with EPA. Of all of the metabolites, only 15-HETE produced a significant increase in protein degradation in C2C12 myoblasts with a maximal effect at 30 nM and with a bell-shaped dose-response curve similar to that produced by PIF. These results suggest that PIF enhances protein degradation as a result of an increased production of 15-HETE.
Recursive identification of gesture inputs using hidden Markov models (2002)

Human-machine interfaces play a role of growing importance as computer technology continues to evolve. Motivated by the desire to provide users with an intuitive gesture input system, we describe the design of a recursive filter applied to the vision-based gesture interpretation problem. The gestures are modeled as a hidden Markov model with the state representing the gesture sequences, and the observations being the current static hand pose. At each time step the recursive filter updates its estimate of what gesture is occurring based on the current extracted pose information. The result is a robust system which provides the user with continual feedback during compound gestures.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Glycosynthases:  Mutant Glycosidases for Oligosaccharide Synthesis (1998)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTGlycosynthases: Mutant Glycosidases for Oligosaccharide SynthesisLloyd F. Mackenzie, Qingping Wang, R. Antony J. Warren, and Stephen G. WithersView Author Information Protein Engineering Network of Centres of Excellence and Departments of Chemistry and Microbiology, University of British Columbia Vancouver, B.C., Canada, V6T 1Z1 Cite this: J. Am. Chem. Soc. 1998, 120, 22, 5583–5584Publication Date (Web):May 23, 1998Publication History Received13 March 1998Published online23 May 1998Published inissue 1 June 1998https://pubs.acs.org/doi/10.1021/ja980833dhttps://doi.org/10.1021/ja980833drapid-communicationACS PublicationsCopyright © 1998 American Chemical SocietyRequest reuse permissionsArticle Views3982Altmetric-Citations450LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose SUBJECTS:Anions,Carbohydrates,Free radicals,Oligosaccharides,Peptides and proteins Get e-Alerts
Effect of Surface Zone Deproteinisation on the Access of Mineral Ions into Subsurface Carious Lesions of Human Enamel (1990)

It has been proposed that the so-called intact surface zone of carious lesions of enamel could restrict the ingress of mineral ions and hinder remineralisation. The present study was intended to determine the role of organic (proteinaceous) material in restricting the movement of mineral ions into carious lesions in vitro. Natural carious lesion surfaces were divided into two halves. The experimental half was de-proteinised using hypochlorite, the control half remained untreated. The whole tooth was exposed to 45Ca in solution, and 45Ca uptake into experimental and control tissue was measured by image analysis of autoradiographs prepared from lesion sections. The results indicated that uptake was improved by removal of organic material.
Macroeconomic forecasting with mixed frequency data: Forecasting US output growth (2007)

Many macroeconomic series such as US real output growth are sampled quarterly, although potentially useful predictors are often observed at a higher frequency. We look at whether a mixed data-frequency sampling (MIDAS) approach can improve forecasts of output growth. The MIDAS approach is compared to other ways of making use of monthly data to predict quarterly output growth. The MIDAS specification used in the comparison employs a novel way of including an autoregressive term. We find that the use of monthly data on the current quarter leads to significant improvement in forecasting current and next quarter output growth, and that MIDAS is an effective way of exploiting monthly data compared to alternative methods. We also exploit the best method to use the monthly vintages of the indicators for real-time forecasting.
DAISY: An Efficient Dense Descriptor Applied to Wide-Baseline Stereo (2009)

In this paper, we introduce a local image descriptor, DAISY, which is very efficient to compute densely. We also present an EM-based algorithm to compute dense depth and occlusion maps from wide-baseline image pairs using this descriptor. This yields much better results in wide-baseline situations than the pixel and correlation-based algorithms that are commonly used in narrow-baseline stereo. Also, using a descriptor makes our algorithm robust against many photometric and geometric transformations. Our descriptor is inspired from earlier ones such as SIFT and GLOH but can be computed much faster for our purposes. Unlike SURF, which can also be computed efficiently at every pixel, it does not introduce artifacts that degrade the matching performance when used densely. It is important to note that our approach is the first algorithm that attempts to estimate dense depth maps from wide-baseline image pairs, and we show that it is a good one at that with many experiments for depth estimation accuracy, occlusion detection, and comparing it against other descriptors on laser-scanned ground truth scenes. We also tested our approach on a variety of indoor and outdoor scenes with different photometric and geometric transformations and our experiments support our claim to being robust against these.
Two‐Dimensional Gel Electrophoresis (1998)

Two-dimensional gel electrophoresis combines two different electrophoretic separating techniques in perpendicular directions to provide a much greater separation of complex protein mixtures than either of the individual procedures. Variations of the most common two-dimensional technique are described in this unit, namely isoelectrofocusing (IEF) and SDS-PAGE. This unit also includes support protocols describing pI standards and pH profile measurements, casting Immobiline gels, preparation of tissue culture cells and solid tissues for isoelectricfocusing, preparation of molecular weight standards for two-dimensional gels, and two-dimensional protein databases.
Astragalosides from Egyptian Astragalus spinosus Vahl. (1993)

Four cycloartane triterpene oligoglycosides were isolated from the n-butanol extract of the aerial parts of Astragalus spinosus Vahl. (Leguminosae). They were identified as astragaloside I (1), isoastragaloside I (2), astragaloside IV (4) and cycloastragenol 6-O-glucoside (5) on the basis of comparing their m.p.'s, 1H NMR and 13C NMR spectra and chromatographic patterns with the data given in the literature. The results of AIDS antiviral and antitumor screening of the major component, astragaloside II (3), are dealt with.
Multicenter prospective analysis of newly diagnosed hepatocellular carcinoma with respect to the percentage of Lens culinaris agglutinin‐reactive α‐fetoprotein1 (2001)

Serum AFP concentration does not reveal a malignancy of HCC, however, the AFP-L3-positive HCC has biologically malignant characteristics, especially portal vein invasion and lower tumor classification, and is an advanced tumor regardless of small tumor size and lower serum AFP concentration. As AFP-L3 shows the tumor characteristics, its presence should be an important factor in the determination of therapy and prognosis of patients.
Stacked Deconvolutional Network for Semantic Segmentation (2017)

Recent progress in semantic segmentation has been driven by improving the spatial resolution under Fully Convolutional Networks (FCNs). To address this problem, we propose a Stacked Deconvolutional Network (SDN) for semantic segmentation. In SDN, multiple shallow deconvolutional networks, which are called as SDN units, are stacked one by one to integrate contextual information and guarantee the fine recovery of localization information. Meanwhile, inter-unit and intra-unit connections are designed to assist network training and enhance feature fusion since the connections improve the flow of information and gradient propagation throughout the network. Besides, hierarchical supervision is applied during the upsampling process of each SDN unit, which guarantees the discrimination of feature representations and benefits the network optimization. We carry out comprehensive experiments and achieve the new state-of-the-art results on three datasets, including PASCAL VOC 2012, CamVid, GATECH. In particular, our best model without CRF post-processing achieves an intersection-over-union score of 86.6% in the test set.
The Wettability of Fluoropolymer Surfaces:  Influence of Surface Dipoles (2008)

The wettabilities of fluorinated polymers were evaluated using a series of contacting probe liquids ranging in nature from nonpolar aprotic to polar aprotic to polar protic. Fully fluorinated polymers were wet less than partially fluorinated polymers, highlighting the weak dispersive interactions of fluorocarbons. For partially fluorinated polymers, the interactions between the distributed dipoles along the polymer backbone and the dipoles of the contacting liquids were evaluated using both polar and nonpolar probe liquids. The results demonstrate that the surface dipoles of the fluoropolymers generated by substituting fluorine atoms with hydrogen or chlorine atoms can strongly interact with polar contacting liquids. The wettabilities of the partially fluorinated polymers were enhanced by increasing the density of dipoles across the surfaces and by introducing differentially distributed dipoles.
Nucleolin stabilizes G-quadruplex structures folded by the LTR promoter and silences HIV-1 viral transcription (2015)

Folding of the LTR promoter into dynamic G-quadruplex conformations has been shown to suppress its transcriptional activity in HIV-1. Here we sought to identify the proteins that control the folding of this region of proviral genome by inducing/stabilizing G-quadruplex structures. The implementation of electrophorethic mobility shift assay and pull-down experiments coupled with mass spectrometric analysis revealed that the cellular protein nucleolin is able to specifically recognize G-quadruplex structures present in the LTR promoter. Nucleolin recognized with high affinity and specificity the majority, but not all the possible G-quadruplexes folded by this sequence. In addition, it displayed greater binding preference towards DNA than RNA G-quadruplexes, thus indicating two levels of selectivity based on the sequence and nature of the target. The interaction translated into stabilization of the LTR G-quadruplexes and increased promoter silencing activity; in contrast, disruption of nucleolin binding in cells by both siRNAs and a nucleolin binding aptamer greatly increased LTR promoter activity. These data indicate that nucleolin possesses a specific and regulated activity toward the HIV-1 LTR promoter, which is mediated by G-quadruplexes. These observations provide new essential insights into viral transcription and a possible low mutagenic target for antiretroviral therapy.
Hochkonvergente Synthese der Blutgruppen‐determinante Lewisy in konjugatbildender Form (1994)

Mal als Glycosyldonor, mal als Glycosylacceptor werden Glycale in der Synthese von Lewis y verwendet. Dieses und das im folgenden Beitrag beschriebene Oligosaccharid bestehen aus einer Erkennungseinheit (Determinante), einem Spacer und einer für die Anbindung an ein Protein geeigneten Gruppe. Aus ihnen erhältliche neuartige Glycoproteine werden als Tumor‐Antigen‐Faktoren und als Inhibitoren bei der Bindung von Bakterien zu Zellen diskutiert.
Organic phosphorus compounds. 2. Synthesis and coronary vasodilator activity of (benzothiazolylbenzyl)phosphonate derivatives (1989)

Structural modification and the coronary vasodilator activity of the calcium antagonist fostedil (KB-944) are described. Elimination of the bezothiazole ring or replacement of the benzothiazole ring of fostedil with other hetero rings leads to a decrease in vasodilator activity. Change of the distance from the aromatic ring to the phosphorus of fostedil causes a decrease in the activity. The present study indicates that the presence of an aromatic ring substituted thiazole ring and the presence of phosphonate at an appropriate distance from the thiazole ring are important for the coronary vasodilator action of fostedil.
Angiogenesis Is Induced in a Rabbit Model of Hindlimb Ischemia by Naked DNA Encoding an HIF-1α/VP16 Hybrid Transcription Factor (2000)

The HIF-1alpha/VP16 hybrid transcription factor is able to promote significant improvement in perfusion of an ischemic limb. These results confirm the feasibility of a novel approach for therapeutic angiogenesis in which neovascularization may be achieved indirectly by use of a transcriptional regulatory strategy.