gebhart/patrepeval huggingface dataset:
Functional Signal Peptides Bind a Soluble N-terminal Fragment of SecA and Inhibit Its ATPase Activity (2001)

The selective recognition of pre-secretory proteins by SecA is essential to the process of protein export from Escherichia coli, yet very little is known about the requirements for recognition and the mode of binding of precursors to SecA. The major reason for this is the lack of a soluble system suitable for biophysical study of the SecA-precursor complex. Complicating the development of such a system is the likelihood that SecA interacts with the precursor in a high affinity, productive manner only when it is activated by binding to membrane and SecYEG. A critical aspect of the precursor/SecA interaction is that it is regulated by various SecA ligands (nucleotide, lipid, SecYEG) to facilitate the release of the precursor, most likely in a stepwise fashion, for translocation. Several recent reports show that functions of SecA can be studied using separated domains. Using this approach, we have isolated a proteolytically generated N-terminal fragment of SecA, which is stably folded, has high ATPase activity, and represents an activated version of SecA. We report here that this fragment, termed SecA64, binds signal peptides with significantly higher affinity than does SecA. Moreover, the ATPase activity of SecA64 is inhibited by signal peptides to an extent that correlates with the ability of these signal peptides to inhibit either SecA translocation ATPase or in vitro protein translocation, arguing that the interaction with SecA64 is functionally significant. Thus, SecA64 offers a soluble, well defined system to study the mode of recognition of signal peptides by SecA and the regulation of signal peptide release.
Defects in ProTaper S1 instruments after clinical use: fractographic examination (2005)

Abstract Aim To investigate the mode of failure of a brand of nickel‐titanium instruments separated during clinical use, by detailed examination of the fracture surface. Methodology A total of 122 ProTaper S1 instruments were discarded from an endodontic clinic at a stomatological school in China over a period of 17 months; 28 had fractured. These fractured instruments were ultrasonically cleaned, autoclaved and then examined under a scanning electron microscope. From the lateral view the fracture was classified into ‘torsional’ or ‘flexural’. The specimens were then re‐mounted and the presence of characteristics of shear failure and fatigue striations was recorded under high‐power view of the fracture surface. The difference in the mean lengths of fractured segment between the shear and fatigue groups was compared using Student's t ‐test. Results Twenty‐seven separated instruments were available for analysis. Under low‐power magnification, only two fell into the category of ‘torsional’ failure when examined laterally; the others appeared to be ‘flexural’. Close examination of the fracture surface revealed the presence of fatigue striations in 18 specimens. Nine instruments (including the two putative ‘torsional’ failures above) fell into the shear fracture group, in which fatigue striations were absent or characteristics of shear failure of the material were found. The mean length of fractured segments resulting from fatigue failure (4.3 ± 1.9 mm) was significantly greater than that for shear failure (2.5 ± 0.8 mm) ( P < 0.001, two‐sample t ‐test). Conclusions Examination of the fracture surface at high magnification is essential to reveal features that may indicate the possible origin of cracks and the mode of material failure. Macroscopic or lateral examination of separated instruments would fail to reveal the true mechanism of failure. Fatigue seems to be an important reason for the separation of rotary instruments during clinical use.
Electro-oxidation of Methanol on NiO-Promoted Pt / C and Pd / C Catalysts (2006)

Electro-oxidation of methanol on NiO-promoted and catalysts in alkaline media was studied. Such electrocatalysts are superior to pure Pt or Pd electrocatalysts. Electrochemical measurements revealed that the addition of NiO into or catalysts could significantly improve electrode performance for methanol oxidation in terms of reaction activity and poisoning resistance. The influence of the amount of NiO in the catalysts on electrode performance for methanol oxidation was tested. The electrode with a weight ratio of Pt or Pd to NiO of showed the highest electrocatalytic activity for methanol oxidation.
A Subsampling Radio Architecture for Ultrawideband Communications (2007)

An impulse radio architecture utilizing a simple analog front end along with digital complex signal processing is proposed to allow a low complexity implementation of a 3.1-10.6 GHz ultrawideband (UWB) radio. The proposed system transmits passband pulses using a pulser and antenna, and the receiver front-end downconverts the signal frequency via subsampling, thus, requiring substantially less hardware than the existing direct conversion approach. After the analog-to-digital converter (ADC), the signal is projected into complex signal domain to perform matched filtering to not only mitigate the timing sensitivity induced by analog circuit impairment, but also extract the fine time resolution provided by the wideband nature of a UWB signal. The performance and potential usages of these complex signal processing blocks are solved and compared with different complex signal transformations. Based on the proposed architecture, the system specifications and implementation issues are further analyzed and emulated by system-level simulations with measured signal and noise. The subsampling ADC is considered as the most challenging circuit block and has recently been proven with a low-power low-cost fully integrated CMOS solution. Finally, a radio prototype built with discrete components is used for proof of concept.
Using Agentsheets to create a voice dialog design environment (1992)

Article Free Access Share on Using Agentsheets to create a voice dialog design environment Authors: Alex Repenning Department of Computer Science and Institute of Cognitive Science, Campus Box 430, University of Colorado, Boulder CO Department of Computer Science and Institute of Cognitive Science, Campus Box 430, University of Colorado, Boulder COView Profile , Tamara Sumner Department of Computer Science and Institute of Cognitive Science, Campus Box 430, University of Colorado, Boulder CO Department of Computer Science and Institute of Cognitive Science, Campus Box 430, University of Colorado, Boulder COView Profile Authors Info & Claims SAC '92: Proceedings of the 1992 ACM/SIGAPP symposium on Applied computing: technological challenges of the 1990'sMarch 1992 Pages 1199–1207https://doi.org/10.1145/130069.130149Online:01 March 1992Publication History 22citation187DownloadsMetricsTotal Citations22Total Downloads187Last 12 Months5Last 6 weeks4 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Phase Transformation of Zeolite P to Y and Analcime Zeolites due to Changing the Time and Temperature (2013)

In the present study, the synthesis of template free zeolite P under hydrothermal condition was investigated. The effects of parameters such as Si/Al ratios (3–45), crystallization temperatures (80–160°C), and cry (40–60 h) on the synthesis of zeolite P were studied. The phase transformation of zeolite P to two types of high crystallinity Y and analcime zeolites due to change of temperature was observed. The effect of temperature on the achievement of two different zeolite types (Y and analcime) with a constant initial synthetic composition under organic free synthesis of zeolite P was studied. The zeolitic products were characterized by X-ray diffraction, scanning electron microscopy, and IR spectroscopy techniques.
Combining Glycomimetic and Multivalent Strategies toward Designing Potent Bacterial Lectin Inhibitors (2011)

As part of ongoing activities toward the design of potent and selective ligands against galactoside-binding proteins from animal, bacterial, and plant lectins, a systematic investigation involving the synthesis and binding evaluations of a series of original β-C-galactopyranoside mimetics is described. The multivalent presentation of partly optimized candidates on various dendritic scaffolds through Cu(I)-catalyzed azide-alkyne cycloaddition (CuAAc) has also been achieved. Biophysical investigations based on isothermal titration calorimetry (ITC) have indicated a dissociation constant in the low micromolar range for the best optimized monovalent conjugate (K(d)=37 μM). The results thus confirmed that stable C-galactosides could represent efficient synthetic glycomimetics of natural α-linked oligosaccharidic inhibitors of PA-IL lectin (Lec A) from the pathogenic Pseudomonas aeruginosa. Striking enhancements in the avidity of the glycoconjugates were also observed for tri-, hexa-, and nonavalent derivatives, among which the most potent exhibited dissociation constants below 500 nM, corresponding to a 400-fold increase in affinity compared with the β-D-Gal-O-Me used as reference. To deepen our understanding of the binding mode of the best glycomimetics involved in the recognition process, molecular modeling studies, docking calculations, and NMR diffusion measurements have been performed. Although favorable complementary interactions induced by the addition of the hydrophobic aglycon might explain the affinity enhancement, experimental determination of the size and the topology of the multivalent conjugates further supported the formation of aggregative complexes as a major multivalent binding mode. This work represents a systematic and comprehensive study towards a thorough understanding of the protein-carbohydrate interactions involved in Pseudomonas aeruginosa infection, and as such should prove useful for the development of stable and optimized anti-adhesive agents.
Design of Non-aqueous Liquid Electrolytes for Rechargeable Li-O2 Batteries (2011)

Liquid electrolytes for rechargeable Li-air batteries were chosen from viewpoints of the electrochemical stability against O2 radical, O2−. Mulliken atomic charges of electrolyte solvents and their reversibility of O2/O2− redox couple were first examined. In the carbonate-based electrolytes, the localization of positive charge in the molecules was confirmed, resulting in low reversibility of O2 radical. The electrolytes must be decomposed by the nucleophilic O2 radical. On the other hand, the nitrile-based and piperidinium-based electrolytes provided high O2 radical reversibility because all of the atomic charges in molecules and cations were either negative or almost zero. It was found that the electronic distribution of electrolyte solvents affected their electrochemical stability against O2 radical. Considering the electrochemical and chemical stability against Li metal, the piperidiniumbased ionic liquid was adopted as an electrolyte solvent in this study. The cell with piperidinium-based electrolyte achieved considerably low charging voltage of around 3.2 V and low voltage gap of about 0.75 V in the discharge-charge profiles, compared to conventional cells with carbonate-based electrolyte. It was, thus, concluded that the charging performances strongly influenced on the O2 radical stability of electrolyte solvent.
Accuracy of urea breath test in<i>Helicobacter pylori</i>infection: Meta-analysis (2015)

UBT has high diagnostic accuracy for detecting H. pylori infection in patients with dyspepsia. The reliability of diagnostic meta-analytic estimates however is limited by significant heterogeneity.
α and β Subunits of Cyanidium caldarium phycocyanin. Properties and amino acid sequences at the amino terminus (1975)

Phycocyanin was isolated and purified from the unicellular alga, Cyanidium caldarium. Subunits were prepared on a Bio-Rex-70 column developed stepwise with urea solutions (pH 1.9). The alpha subunit eluted in 8 M urea and the beta subunit eluted in 9 M urea. The alpha and beta subunits displayed absorption maxima at 660, 354, and 277 nm in 8 M and 9 M urea. The alpha:beta ratio of total absorbance under the 660-nm peak was 0.56 suggesting an alpha:beta phycocyanobilin chromophore ration of 1:2. On calibrated sodium dodecyl sulfate gels, the alphs subunit had an estimated molecular weight of 15,500 plus or minus 1100 and the beta subunit has an estimated molecular weight of 18,300 plus or minus 300. Minimum molecular weights based on one histidine residue per subunit were 16,300 for the alpha subunit and 18,750 for the beta subunit. Phycocyanin displayed a single visible absorption maximum at 625 nm and two positive circular dichroic bands at 632 and 610 nm. The alpha and beta subunits displayed single visible absorption maxima at 618 and 600 nm and single positive circular dichroic peaks at 620 and 585 nm, respectively. Two-dimensional maps of tryptic digests of the alpha and beta subunits revealed distinct patterns of peptides each of which was consistent with the lysine and arginine composition of these polypeptides. Maps of tryptic digests of phycocyanin contained 25 major peptides (a total of 27 lysine and arginine residues). Automated sequence analysis of separated subunits revealed a 70% homology within the first 27 residues at the amino terminus of the alpha and beta subunits of C. caldarium phycocyanin.
Role of iron in the pathogenesis of Vibrio vulnificus infections (1981)

Infections with Vibrio vulnificus resulting in septicemia and high mortality have been correlated with pre-existing liver disease and hemochromatosis. As these conditions are associated with impaired iron metabolism and as iron availability in the host has been implicated in the pathogenicity of a number of bacterial infections, the role of iron as a possible factor in the pathogenesis of V. vulnificus was examined. Injection of mice with iron resulted in a lowering of the 50% lethal dose from 10(6) to 1.1 cells and in a reduction in the time of death postinfection. Elevated serum iron levels were also produced by damaging livers with injections of CCl4. The inoculum size required to kill these mice was directly correlated with serum iron levels. Since the portal of infection of this organism may be ingestion of contaminated seafood, the effects of iron upon orally induced infection were also studied. The effects of adding iron, transferrin, or Desferal (an iron chelate) upon the growth of V. vulnificus in human and rabbit sera were also examined. Iron appeared to be the limiting factor in the ability of this organism to survive or grow in mammalian sera. These results, both in vitro and in vivo, provided strong evidence that iron may play a major role in the pathogenesis of V. vulnificus.
Intelligent Travel Advisor (2018)

We present a goal oriented virtual agent for task planning, inference and user personalization. The dialog system of the agent models the activities in the form of a task graph. Coordination and planning of these tasks are done through associated constraints and interdependencies. The system uses the interaction history of an individual and a basic user preference model to create a personalized travel planning experience, as an example. Sophisticated natural language understanding techniques are used to identify multiple intents from user, and partial user utterances. In this demonstration we show how the virtual agent can be used to help the user organize his/her day by performing a multitude of related activities including scheduling meetings, retrieving flight itineraries, making routing decisions by analyzing traffic patterns, retrieving hotel accommodation options and suggesting restaurants by integrating with multiple external systems as well as a decision support engine and knowledge graph.
Effects of Fracture Parameters in an Anisotropy Model on P-Wave Azimuthal Amplitude Responses (2006)

The study showed that the presence of vertically aligned fractures in reservoir rock could possibly be inferred through analysis of P-wave reflectivity variations with azimuth. The azimuthal amplitude responses measured at an interface separating overburden anisotropy and fractured rock rely on several parameters that can be decomposed into the background rock and the fracture contributions.
Development of second generation epigenetic agents (2011)

This review focuses on the progress in the development of the second generation of epigenetic modifiers able to modulate histone marks, and restore normal gene transcription.
Metal complexes of substituted dithiophosphinic acids. III. Vanadyl complexes (1972)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMetal complexes of substituted dithiophosphinic acids. III. Vanadyl complexesR. G. Cavell, E. D. Day, W. Byers, and P. M. WatkinsCite this: Inorg. Chem. 1972, 11, 7, 1591–1597Publication Date (Print):July 1, 1972Publication History Published online1 May 2002Published inissue 1 July 1972https://pubs.acs.org/doi/10.1021/ic50113a027https://doi.org/10.1021/ic50113a027research-articleACS PublicationsRequest reuse permissionsArticle Views80Altmetric-Citations27LEARN 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
Interleukin-8 Regulation of the Ras/Raf/Mitogen-activated Protein Kinase Pathway in Human Neutrophils (1996)

Interleukin-8 (IL-8), the prototypic member of the CXC subfamily of chemokines, induces in neutrophils chemotaxis, the respiratory burst, granule release, and increased cell adhesion. The IL-8 receptor is a seven-transmembrane spanning receptor coupled to specific heterotrimeric G proteins including Gi and G16. IL-8 stimulation of its receptor on neutrophils activates Ras GTP loading and the mitogen-activated protein kinase (MAPK) pathway including Raf-1 and B-Raf. The properties of IL-8 stimulation of the MAPK pathway differ from those observed for chemoattractants such as C5a. Even though Ras GTP loading is similar for IL-8 and C5a, the maximal activation of Raf-1 and B-Raf is approximately 2-fold and 3-7-fold, respectively, less for IL-8 than that observed for C5a. Raf-1 activation is rapid but transient, returning to near basal levels by 10 min. B-Raf activation is slower in onset and does not return to basal levels for nearly 30 min. IL-8 activation of MAPK follows a time course suggesting an involvement of both Raf-1 and B-Raf. Surprisingly, wortmannin, at low concentrations, inhibits Raf-1, B-Raf, and MAPK activation in response to IL-8 and C5a demonstrating a role for phosphatidylinositol 3-kinase in the activation of Raf kinases in G protein-coupled receptor systems in human neutrophils. Furthermore, wortmannin inhibits IL-8 stimulated granule release and neutrophil adherence. These findings demonstrate the control of Raf kinases, the MAPK pathway and specific neutrophil functions by phosphatidylinositol 3-kinase enzymes.
Prefronto-Cerebellar Transcranial Direct Current Stimulation Improves Sleep Quality in Euthymic Bipolar Patients: A Brief Report (2014)

This is the first study where a positive effect of tDCS on the quality of sleep in euthymic BD patients has been reported. As both prefrontal cortex and cerebellum may play a role in regulating sleep processes, concomitant cathodal (inhibitory) stimulation of cerebellum and anodal (excitatory) stimulation of DLPFC may have the potential to modulate prefrontal-thalamic-cerebellar circuits leading to improvements of sleep quality.
New oligodeoxynucleotide derivatives containing N-(methanesulfonyl)-phosphoramidate (mesyl phosphoramidate) internucleotide group (2017)

Novel oligonucleotide derivatives containing N-(methanesulfonyl)-phosphoramidate (mesyl phosphoramidate) group have been described. Solid-phase synthesis of these compounds using an automated DNA synthesizer has been performed for the first time, including the Staudinger reaction between methanesulfonyl azide (mesyl azide) and 3′,5′-dinucleoside 2-cyanoethyl phosphite within an oligonucleotide immobilized on the polymer support, which is a product of phosphoramidite coupling. The mesyl phosphoramidate group is stable to the conditions of oligonucleotide synthesis, in particular, during acidic detritylation and subsequent removal of protecting groups and cleavage of an oligonucleotide from the polymer support by concentrated aqueous ammonia or methylamine at 55°C. It has been shown that the stability of complementary duplexes of oligodeoxynucleotides containing the mesyl phosphoramidate group with a single-stranded DNA is not inferior to the stability of native DNA:DNA duplex. Furthermore, mesyl phosphoramidate oligonucleotides are able to form a complementary duplex with RNA, which is only slightly less stable than the equivalent DNA:RNA duplex. This raises the possibility of their application as potential antisense therapeutic agents.
Building the Bioeconomy: Alberta Invests in the Future (2011)

The Province of Alberta (Canada) is uniquely positioned to combine the strengths of its large energy industry (hydrocarbons) with its wealth of agriculture and forestry resources. Alberta has invested almost $300 million CAD to support bioeconomy initiatives in the areas of feedstock improvement, biomass conversion and product development. The talk will describe several examples of Alberta investment in technology innovation and commercialization that have resulted in new bio­opportunities in transport fuels, heat, electricity, chemicals, materials and food. New technologies and economies of scale are creating exciting opportunities for how the agriculture, forestry and energy sectors use its resources and integrate its efforts to produce the sustainable products and services that will be needed in this century.
All-solid highly nonlinear singlemode fibers with a tailored dispersion profile (2010)

We investigate a novel approach to obtain highly nonlinear fibers with a tailored group velocity dispersion around a desired wavelength region of interest. Rather than exploiting longitudinal holes to control the average refractive index of the cladding and hence the fiber's waveguide dispersion, as in holey fibers, we propose using an all-solid cladding with a suitably chosen refractive index difference relative to the core. We demonstrate numerically that this solution allows a large freedom in the manipulation of the overall fiber dispersive properties, while enabling, in practice, a much more accurate control of the fiber's structural properties during fabrication. Effectively single mode guidance over a broad wavelength range can be achieved through the use of a second outer cladding forming a W-type index profile. We derive simple design rules for dispersion controlled fibers, based on which an algorithm for the automatic dispersion optimization is proposed, implemented and used to design various nonlinear fibers for all-optical processing and supercontinuum generation. Fabrication of a lead silicate fiber with flattened dispersion at telecoms wavelengths confirms the potential of these new fibers.