gebhart/patrepeval huggingface dataset:
A subset of membrane-associated proteins is ubiquitinated in response to mutations in the endoplasmic reticulum degradation machinery (2003)

Ubiquitination of membrane-associated proteins can direct their proteasome-mediated degradation or activation at the endoplasmic reticulum (ER), as well as their endocytosis and intracellular sorting. However, the full spectrum of ubiquitinated membrane proteins has not been determined. Here we combined proteomic analysis with yeast genetics to identify 211 ubiquitinated membrane-associated proteins in Saccharomyces cerevisiae and map >30 precise sites of ubiquitination. Major classes of identified ubiquitinated proteins include ER-resident membrane proteins, plasma membrane-localized permeases, receptors, and enzymes, and surprisingly, components of the actin cytoskeleton. By determining the differential abundance of ubiquitinated proteins in yeast mutated for NPL4 and UBC7, which are major components of ER-associated degradation (ERAD), we furthermore were able to classify 83 of these identified ubiquitinated membrane proteins as potential endogenous substrates of the ERAD pathway. These substrates are highly enriched for proteins that localize to or transit through the ER. Interestingly, we also identified novel membrane-bound transcription factors that may be subject to ubiquitin/proteasome-mediated cleavage and activation at the ER membrane.
Remediation of acidic waste waters using immobilised, acidophilic sulfate‐reducing bacteria (2001)

Abstract Acidic waste waters from industrial and mining activities constitute a wordwide environmental hazard. ‘Acid mine drainage’ (AMD) waters are often highly acidic (pH < 4), contain elevated concentrations of sulfate and dissolved metals, and are toxic to most life forms. Whilst bioremediation of acidic, metal‐contaminated waters using sulfate‐reducing bacteria (SRB) has been successfully demonstrated in pilot‐scale and full‐scale operations during the past decade, the sensitivity of characterised SRB to acidity limits their use in AMD remediation. In the current study, we have evaluated the potential use of novel acidophilic SRB for remediating acidic waste waters, in comparision with, and in conjuction with, neutrophilic SRB. Three SRB‐populations (a mixed population of acidophilic isolates, a neutrophilic culture and a mixed acidophilic/neutrophilic consortium) were immobilised on porous glass beads, packed into perspex columns and the three bioreactors percolated with synthetic medium for several months. Energy and carbon source utilisation, and tolerance to acid stress of the different consortia were evaluated. Acidophilic SRB were more efficient than the neutrophilic culture in coupling ethanol oxidation to sulfate reduction and all of the substrates tested were oxidised to acetic acid. The bioreactors containing acidophilic SRB reduced sulfate and generated alkalinity when challenged with influent at pH 3 and above, indicating that such bacteria have potential for bioremediating highly acidic waste waters. Average conversion rates of 0.25–0.30 g SO 4 2− reduced dm −3 day −1 were achieved with bioreactors containing acidophilic SRB, percolated with a pH 4 liquid medium. © 2001 Society of Chemical Industry
Effects of Pyrimidine and Purine Analog Combinations in the Duck Hepatitis B Virus Infection Model (2003)

To design new strategies of antiviral therapy for chronic hepatitis B, we have evaluated the antiviral activity of the combination of amdoxovir (DAPD), emtricitabine [(-)FTC], and clevudine (L-FMAU) in the duck hepatitis B virus (DHBV) model. Using their triphosphate (TP) derivatives in a cell-free system expressing a wild-type active DHBV reverse transcriptase (RT), the three dual combinations exhibited a greater additive inhibitory effect on viral minus-strand DNA synthesis than the single drugs, according to the Bliss independence model. Both dual combinations with DAPD TP were the most efficient while the triple combination increased the inhibitory effect on the DHBV RT activity in comparison with the dual association, however, without additive effect. Postinoculation treatment of experimentally infected primary duck hepatocytes showed that dual and triple combinations potently inhibited viral DNA synthesis during treatment but did not inhibit the reinitiation of viral DNA synthesis after treatment cessation. Preinoculation treatment with the same combinations exhibited antiviral effects on intracellular viral DNA replication, but it was unable to prevent the initial covalently closed circular DNA (cccDNA) formation. Short-term in vivo treatment in acutely infected ducklings showed that the dual combinations were more-potent inhibitors of virus production than the single treatments, with the L-FMAU and FTC combination being the most potent. A longer administration of L-FMAU and FTC for 4 weeks efficiently suppressed viremia and viral replication. However, no viral clearance from the liver was observed, suggesting that the enhanced antiviral effect of this combination was not sufficient for cccDNA suppression and HBV eradication from infected cells.
Action of DNA Polymerase I of <i>Escherichia coli</i> with DNA-RNA Hybrids as Templates (1972)

Experiments indicating the ability of the ribo strand of a DNA-RNA template to guide polydeoxynucleotide synthesis by highly purified DNA polymerase I of E. coli (EC 2.7.7.7) are presented. With poly(rA).poly(dT) as template, poly(dT) is formed with a high efficiency, but almost no poly(dA). The specific activity of the enzyme, when tested with this template under suitable conditions, is eight times greater than that found for the poly(dA-dT) template. Single-stranded DNA fractions, with no template activity for DNA polymerase, are converted to efficient templates after their transcription by RNA polymerase. A concerted polymerization reaction, in which the action of DNA polymerase is dependent on that of RNA polymerase, can also be demonstrated with synthetic polydeoxynucleotides and single-stranded fractions of denatured DNA as templates.
Analysis and design of Boost-LLC converter for high power density AC-DC adapter (2013)

This paper proposes the size reduction methods for two-stage Boost-LLC converter to achieve high power density in 60W AC-DC adapter. The two-stage converter has high component count, and the passive components such as inductor, transformer, and capacitor occupy the most of the area. In order to make the converter have small size, this paper proposes the size reduction methods of passive components: the design of low link voltage, the design of the resonant tank without additional inductor and with high resonant frequency, and the design of C-L-C filter replacing output capacitor. A 60W (16.8V/3.65A) prototype adapter is designed and implemented to verify the feasibility of the proposed methods. The converter achieves 14.5W/in <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sup> power density with the methods.
Expression of Recombinant Bovine<i>β</i>-Lactoglobulin in<i>Escherichia coli</i> (1990)

Bovine beta-lactoglobulin A was expressed in Escherichia coli in its mature form. The gene was constructed using a cDNA clone which coded for amino acid residues Leu-11 to Ile-162 and a synthetic oligonucleotide coding for the initial 10 amino acids preceded by a translational start. The met-beta-lactoglobulin was expressed using a tac promoter vector, pTTQ18, and accounted for approximately 15% of the total cellular protein. The recombinant met-beta-lactoglobulin migrated with the same molecular weight as native beta-lactoglobulin A on SDS-PAGE. The majority of the met-beta-lactoglobulin produced was found in an insoluble form but could be solubilized using guanidine-HCl. The renatured preparation was greater than 80% pure and migrated similarly to purified beta-lactoglobulin A under nondenaturing conditions.
Plastic packaging of semiconductor laser diodes (2002)

Two kinds of plastic molded laser modules, the coaxial type and the board type, are developed aiming at lower cost laser modules. Under various environmental and endurance tests, these modules show potential for high reliability. The performance of these modules seem comparable to that of hermetically sealed modules used in commercial transmission systems. They are potentially suitable for low cost optical sources in transmission systems.
Laboratory and field evaluation of polyurethane foam for lost circulation control (1989)

A two-part polyurethane foam has been tested in the laboratory and in the field to assess its utility in controlling lost circulation encountered when drilling geothermal wells. A field test was conducted in The Geysers in January, 1988, to evaluate the chemical formulation and downhole tool used to deploy the chemicals. Although the tool apparently functioned properly in the field test, the chemicals failed to expand sufficiently downhole, instead forming a dense polymer that may be ineffective in sealing loss zones. Subsequent laboratory tests conducted under simulated downhole conditions indicate that the foam chemical undergo sever mixing with water in the wellbore, which disturbs the kinetics of the chemical reaction more than was previously contemplated. The results indicate that without significant changes in the foam chemical formulation or delivery technique, the foam system will be ineffective in lost circulation control except under very favorable conditions. 4 refs., 6 figs., 2 tabs.
Multiple sclerosis is associated with enhanced B cell responses to the ganglioside GD I a (1999)

The occurrence and role of autoantibodies to gangliosides and other lipid-containing components of the central nervous system in Multiple Sclerosis (MS) are unsettled. Using sensitive ELISAs, we measured IgG and IgM antibody titers and absorbances to the three major gangliosides GD1a, GD1b and GM1, and to sulfatides, cardiolipin and myelin proteins in paired serum and cerebrospinal fluid (CSF) from patients with untreated MS, optic neuritis (ON), acute aseptic meningo-encephalitis (AM) and other neurological diseases (OND). Twenty-three per cent of 30 MS (P<0.04) and 18% of 32 ON patients (P<0.05) presented elevated IgG antibody titers to GD1a in serum compared to 9% of patients with OND. Six (40%) of the patients with malignant MS had elevated serum IgG antibody titers to GD1a compared to one (6%) of the patients with benign MS (P<0.04). In CSF, elevated IgG antibody titers to GD1a were measured in 13% of MS and 20% of ON patients compared to 4% of patients with OND (P<0. 03 and P<0.02, respectively). The augmented IgG response to GD1a in serum also separated MS from Guillain-Barré syndrome. Compared to OND increased IgM absorbances to sulfatides and cardiolipin were observed in CSF of patients with MS, but also in AM. Elevated IgG antibody titers to myelin proteins were found more often in MS patients' serum and MS, ON and AM patients' CSF compared to OND. The data implicate that among the multitude of enhanced B-cell responses occurring in MS and ON, that directed to GD1a is common and more discriminative, and should be evaluated in future MS treatment studies.
The Use of Substituent Constants in the Correlation of Demethylation Rates (1965)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThe Use of Substituent Constants in the Correlation of Demethylation RatesCorwin Hansch, A. Ruth Steward, and Junkichi IwasaCite this: J. Med. Chem. 1965, 8, 6, 868–870Publication Date (Print):November 1, 1965Publication History Published online1 May 2002Published inissue 1 November 1965https://pubs.acs.org/doi/10.1021/jm00330a035https://doi.org/10.1021/jm00330a035research-articleACS PublicationsRequest reuse permissionsArticle Views52Altmetric-Citations36LEARN 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
Analysis of Energy Consumption in Direct Transmission and Multi-hop Transmission for Wireless Sensor Networks (2007)

In this paper, we primary focus on prolonging the network lifetime of Wireless Sensor Networks (WSN), since the small, portable batteries integrated into the sensor chips can not be re-charged easily from an economical point of view. We first made a further analysis about the relationship between energy consumption and hop number. Then, an optimal hop number is deduced for minimizing the energy consumption during the multi-hop transmission. The importance of hop number to the energy consumption is usually neglected by many routing protocols. In fact, a considerable amount of energy can be saved if the relationship between hop number and energy consumption is carefully studied. After further analysis about the energy consumption of different transmission manner as well as design parameters, we presented our judging criterion of transmission manner. Also, an energy efficient routing scenario is presented with diagram so as to illustrate how the network lifetime can be prolonged.
Sustained Anti-Staphylococcal Effect of Lysostaphin in the Rabbit Aqueous Humor (2010)

Lysostaphin demonstrated the ability to remain in the aqueous humor for days while maintaining its bactericidal activity, an indication that a high molecular weight antimicrobial can provide prolonged prophylactic protection of the anterior chamber.
An example of simulation use in Army weapon system development (1999)

Article An example of simulation use in Army weapon system development Share on Author: Ann H. Kissell U.S. Army Aviation and Missile Command, AMSAM-RD-SS-SD, Redstone Arsenal, AL U.S. Army Aviation and Missile Command, AMSAM-RD-SS-SD, Redstone Arsenal, ALView Profile Authors Info & Claims WSC '99: Proceedings of the 31st conference on Winter simulation: Simulation---a bridge to the future - Volume 2December 1999 Pages 1079–1087https://doi.org/10.1145/324898.325000Online:01 December 1999Publication History 1citation629DownloadsMetricsTotal Citations1Total Downloads629Last 12 Months4Last 6 weeks2 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 SiteGet Access
Synthesis and Characterization of <i>n</i>-Alkylamine-Stabilized Palladium Nanoparticles for Electrochemical Oxidation of Methane (2009)

Palladium nanoparticles (PdNPs) have been synthesized using n-alkylamines (Cn−NH2) as stabilizing ligands. The NP size and distribution were controlled by varying the initial mole ratio of PdCl2/Cn−NH2 and carbon chain lengths of Cn−NH2 including hexylamine (C6−NH2), dodecylamine (C12−NH2), and octadecylamine (C18−NH2). The average PdNP sizes were 20 ± 2.0, 6.0 ± 0.8, 5.6 ± 0.8, 6.5 ± 0.9, and 5.2 ± 0.8 nm prepared with 1:7 PdCl2/C6−NH2, 1:7 PdCl2/C12−NH2, 1:7 PdCl2/C18−NH2, 1:5 PdCl2/C18−NH2, and 1:9 PdCl2/C18−NH2, respectively. The particle size decreased with the increase in the carbon chain length of Cn−NH2. The as-synthesized n-alkylamine stabilized PdNPs (Cn−NH2−PdNPs) were fully characterized by transmission electron microscopy, X-ray powder diffraction, UV−visible absorption spectroscopy, infrared (IR) spectroscopy, X-ray photoelectron spectroscopy (XPS), proton nuclear magnetic resonance (1H NMR) spectroscopy, thermogravimetric analysis, graphite furnace atomic absorption spectrometry, and mass spectrometry. The interaction of C18−NH2 with PdNPs was verified by IR, XPS, and 1H NMR spectra, demonstrating that the amine functionalities were successfully linked to the Pd core surfaces. The PdNPs are soluble and stable in apolar solvents such as benzene, chloroform, n-hexane, and toluene. The electrochemical reactions between CH4 and Cn−NH2−PdNPs on Pd electrodes were studied by cyclic voltammetry and chronoamperometry. These PdNPs reacted readily and produced good response to CH4 at ambient conditions. The sensitivity to CH4 depends on the PdNPs prepared from various n-alkyl chain lengths of Cn−NH2 and also the mole ratio of PdCl2/Cn−NH2. It was determined that PdNPs synthesized from 1:7 PdCl2/C18−NH2 displayed the best electrocatalytic oxidization of CH4. The C18−NH2−PdNP (5.6 nm) modified Pd electrode could be used repeatedly and had a stable and reproducible response to CH4.
Regulation of FOXO3a/β-Catenin/GSK-3β Signaling by 3,3′-Diindolylmethane Contributes to Inhibition of Cell Proliferation and Induction of Apoptosis in Prostate Cancer Cells (2007)

Previous studies from our laboratory have shown anti-proliferative and pro-apoptotic effects of 3,3'-diindolylmethane (DIM) through regulation of Akt and androgen receptor (AR) in prostate cancer cells. However, the mechanism by which DIM regulates Akt and AR signaling pathways has not been fully investigated. It has been known that FOXO3a and glycogen synthase kinase-3beta (GSK-3beta), two targets of activated Akt, interact with beta-catenin, regulating cell proliferation and apoptotic cell death. More importantly, FOXO3a, GSK-3beta, and beta-catenin are all AR coregulators and regulate the activity of AR, mediating the development and progression of prostate cancers. Here, we investigated the molecular effects of B-DIM, a formulated DIM with higher bioavailability, on Akt/FOXO3a/GSK-3beta/beta-catenin/AR signaling in hormone-sensitive LNCaP and hormone-insensitive C4-2B prostate cancer cells. We found that B-DIM significantly inhibited the phosphorylation of Akt and FOXO3a and increased the phosphorylation of beta-catenin, leading to the inhibition of cell growth and induction of apoptosis. We also found that B-DIM significantly inhibited beta-catenin nuclear translocation. By electrophoretic mobility shift and chromatin immunoprecipitation assays, we found that B-DIM inhibited FOXO3a binding to the promoter of AR and promoted FOXO3a binding to the p27(KIP1) promoter, resulting in the alteration of AR and p27(KIP1) expression, the inhibition of cell proliferation, and the induction of apoptosis in both androgen-sensitive and -insensitive prostate cancer cells. These results suggest that B-DIM-induced cell growth inhibition and apoptosis induction are partly mediated through the regulation of Akt/FOXO3a/GSK-3beta/beta-catenin/AR signaling. Therefore, B-DIM could be a promising non-toxic agent for possible treatment of hormone-sensitive but most importantly hormone-refractory prostate cancers.
Plastic Pipe Fittings and Joining Technology (2008)

Pipe joints require a high level of guaran-teed performance and as a consequence theindustry uses advanced technology in bothfitting manufacture and joint sealing.AMI has reviewed
Inferring qualitative relations in genetic networks and metabolic pathways (2000)

First, a Boolean network model with noise is proposed, together with an inference algorithm for it. Next, a qualitative network model is proposed, in which regulation rules are represented as qualitative rules and embedded in the network structure. Algorithms are also presented for inferring qualitative relations from time series data. Then, an algorithm for inferring S-systems (synergistic and saturable systems) from time series data is presented, where S-systems are based on a particular kind of nonlinear differential equation and have been applied to the analysis of various biological systems. Theoretical results are shown for Boolean networks with noises and simple qualitative networks. Computational results are shown for Boolean networks with noises and S-systems, where real data are not used because the proposed models are still conceptual and the quantity and quality of currently available data are not enough for the application of the proposed methods.
Energy-efficient instruction dispatch buffer design for superscalar processors (2002)

The instruction dispatch buffer (DB, also known as an issue queue) used in modem superscalar processors is a considerable source of energy dissipation. We consider design alternatives that result in significant reductions in the power dissipation of the DB (by as much as 60%) through the use of: (a) fast comparators that dissipate energy mainly on a tag match, (b) zero byte encoding of operands to imply the presence of bytes with all zeros and, (c) bitline segmentation. Our results are validated by the execution of SPEC 95 benchmarks on true hardware level, cycle-by-cycle simulator for a superscalar processor and SPICE measurements for actual layouts of the DB and its variants in a 0.5 micron CMOS process.
Inhibition of human immunodeficiency virus (HIV‐1) replication in SupT1 cells transduced with an HIV‐1 LTR‐driven PKR cDNA construct (1999)

Current strategies against the human immunodeficiency virus type 1 (HIV-1), including nucleoside analogues and protease inhibitors, have limited effectiveness as shown by the evolution of resistant retroviral strains and the presence of latent HIV-1 reservoirs. Therefore, it is necessary to look beyond anti-retroviral strategies and to rely on the body's immune system to inhibit HIV-1 replication. In this study, we approach the inhibition of HIV-1 replication by upregulation of the antiviral pathway that is natural to mammalian cells. Vectors were constructed which were capable of transferring the antiviral enzyme, p68 kinase (PKR), into target SupT1 lymphoblastoid cells under HIV-1 LTR transcriptional regulation via a retroviral-mediated shuttle system. We report a significant inhibition of HIV-1 replication in HIV-1 LTR-PKR cDNA transduced clones (105-10 : 239 and 106-4 : 560) expressing different PKR levels as measured by inhibition of HIV-1 induced syncytia formation and HIV-1 reverse transcriptase activity. Whereas the expression of PKR in parental vector transduced clone (N2-20P) is down-regulated 48 h after HIV-1 infection, the two transduced clones (one with PKR in the forward orientation and one in the reverse orientation) demonstrate increased PKR expression through 96 h post-infection, concomitant with an increase in eIF-2alpha phosphorylation and an increase in NF-kappaB activity at 72 h postinfection. These results demonstrate that the overexpression of PKR can inhibit HIV-1 replication and confirm the involvement of PKR in the IFN-associated antiviral pathway against HIV-1 infection. Finally, the treatment of the transduced clone 106-4 : 560 with AZT resulted in complete inhibition of HIV-1 replication.
Atrial Fibrillation Increases Production of Superoxide by the Left Atrium and Left Atrial Appendage (2005)

AF increased O2*- production in both the LA and LAA. Increased NAD(P)H oxidase and xanthine oxidase activities contributed to the observed increase in LAA O2*- production. This increase in O2*- and its reactive metabolites may contribute to the pathological consequences of AF such as thrombosis, inflammation, and tissue remodeling.