gebhart/patrepeval huggingface dataset:
Sequential phosphorylation of Tau by glycogen synthase kinase‐3β and protein kinase A at Thr212 and Ser214 generates the Alzheimer‐specific epitope of antibody AT100 and requires a paired‐helical‐filament‐like conformation (1998)

AT100 is a monoclonal antibody highly specific for phosphorylated Tau in Alzheimer paired helical filaments. Here we show that the epitope is generated by a complex sequence of sequential phosphorylation, first of Ser199, Ser202 and Thr205 (around the epitope of antibody AT8), next of Thr212 by glycogen synthase kinase (GSK)-3beta (a proline-directed kinase), then of Ser214 by protein kinase A (PKA). Conversely, if Ser214 is phosphorylated first it protects Thr212 and the Ser-Pro motifs around the AT8 site against phosphorylation, and the AT100 epitope is not formed. The generation of the AT100 epitope requires a conformation of tau induced by polyanions such as heparin, RNA or poly(Glu), conditions which also favor the formation of paired helical filaments. The Alzheimer-like phosphorylation can be induced by brain extracts. In the extract, the kinases responsible for generating the AT100 epitope are GSK-3beta and PKA, which can be inhibited by their specific inhibitors LiCl and RII, respectively. A cellular model displaying the reaction with AT100 is presented by Sf9 insect cells transfected with Tau. Knowledge of the events and kinases generating the AT100 epitope in cells might allow us to study the degeneration of the cytoskeleton in Alzheimer's disease.
Succinate production in dual-phase Escherichia coli fermentations depends on the time of transition from aerobic to anaerobic conditions (2002)

We examined succinic acid production in Escherichia coli AFP111 using dual-phase fermentations, which comprise an initial aerobic growth phase followed by an anaerobic production phase. AFP111 has mutations in the pfl, ldhA, and ptsG genes, and we additionally transformed this strain with the pyc gene (AFP111/pTrc99A-pyc) to provide metabolic flexibility at the pyruvate node. Aerobic fermentations with these two strains were completed to catalog physiological states during aerobic growth that might influence succinate generation in the anaerobic phase. Activities of six key enzymes were also determined for these aerobic fermentations. From these results, six transition times based on physiological states were selected for studying dual-phase fermentations. The final succinate yield and productivity depend greatly on the physiological state of the cells at the time of transition. Using the best transition time, fermentations achieved a final succinic acid concentration of 99.2 g/l with an overall yield of 110% and productivity of 1.3 g/l h.
The Warren Buffett Way: Investment Strategies of the World's Greatest Investor (1994)

Describes the career, and investment techniques and philosophy of Warren Buffett who began with an investment of
Opportunistic Infection in Previously Healthy Women (1982)

Opportunistic infections and unusual tumors have been reported in an unprecedented outbreak of community-acquired cellular immune deficiency among homosexual and drug-abusing men. We report five women with the same syndrome. The women were residents of metropolitan New York City closely associated with drug abuse either by personal use (our patients) or close sexual contact with an abuser (one patient). One patient was bisexual. All five patients developed Pneumocystis carinii pneumonia as well as combinations of other opportunistic infections including oral candida, disseminated mycobacteria, and ulcerative herpes simplex infections. All patients had marked depression of cellular immune function. Three patients died. The appearance of this syndrome in women has important implications with regard to the epidemiology and etiology of this emerging syndrome.
Dimethylenedihydroheteroaromatic Compounds and Heterocyclophanes by 1,6-Hofmann Elimination Reactions (1960)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDimethylenedihydroheteroaromatic Compounds and Heterocyclophanes by 1,6-Hofmann Elimination ReactionsH. E. Winberg, F. S. Fawcett, W. E. Mochel, and C. W. TheobaldCite this: J. Am. Chem. Soc. 1960, 82, 6, 1428–1435Publication Date (Print):March 1, 1960Publication History Published online1 May 2002Published inissue 1 March 1960https://pubs.acs.org/doi/10.1021/ja01491a037https://doi.org/10.1021/ja01491a037research-articleACS PublicationsRequest reuse permissionsArticle Views983Altmetric-Citations140LEARN 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
The Epstein-Barr Virus Thymidine Kinase Does Not Phosphorylate Ganciclovir or Acyclovir and Demonstrates a Narrow Substrate Specificity Compared to the Herpes Simplex Virus Type 1 Thymidine Kinase (1998)

The Epstein-Barr virus (EBV) thymidine kinase (TK) was expressed in mammalian 143B TK- cells to investigate its substrate specificity. The herpes simplex virus type 1 (HSV-1) TK was similarly expressed for comparison. Both viral TKs conferred a TK+ phenotype on 143B TK- cells. The nucleoside analog ganciclovir (GCV) did not affect the growth of 143B EBV TK or 143B TK- cells but effectively killed 143B HSV-1 TK cells. Furthermore, lysates of 143B EBV TK cells could not phosphorylate GCV, which was confirmed by high-performance liquid chromatography. EBV TK, HSV-1 TK, and EBV TK N-, a truncated EBV TK missing 243 N-terminal amino acids, were purified as fusion proteins expressed in bacteria, and all had TK activity. In addition, EBV TK was observed to have a thymidylate kinase activity but could not phosphorylate GCV, acyclovir, or 2'-deoxycytidine. In competition assays, only nucleoside analogs of thymidine significantly inhibited thymidine phosphorylation by EBV TK, with the following rank order: 5-bromodeoxyuridine > zidovudine > stavudine > sorivudine. These results demonstrate that EBV TK substrate specificity is narrower than those of alphaherpesvirus TKs and that thymidine analogs may be the most suitable nucleoside antivirals to target the enzyme. Clinical implications for gammaherpesviruses are discussed.
Gangliosides Elicit a T-Cell Independent Antibody Response (1993)

Antibodies to glycolipids have recently been found to be elevated in a substantial proportion of patients with motor neuron diseases, various neuropathies and classical ALS. Several features of these antibody responses suggest that they may be produced by a T-cell independent B lymphocyte response: (1) antibodies are predominantly of IgM class; (2) antibodies against gangliosides are directed against the carbohydrate component of the gangliosides; and (3) antiganglioside antibodies are difficult to suppress. In this study we have asked whether gangliosides can induce T-independent responses, in T-cell deficient and T-cell competent mice. Homozygous nude mice (nu/nu), which lack T-cells, and heterozygous controls (nu/+) with intact T-cells, were immunized and rechallenged with the ganglioside GM1 in liposomes. Antibodies were measured by an ELISA method. Both nude mice and controls produced high titers of IgM class antibodies to the ganglioside GM1. The antibody titers peaked by 7 days after each immunization and declined by 14 days. The maximum titer rose progressively after each immunization. No significant amount of IgG antibody to GM1 was produced by either nu/nu or nu/+ mice, even after repeated immunization. These results suggest that gangliosides elicit prominent T-cell-independent antibody responses. The implications of these findings for neurologic disorders associated with anti-ganglioside antibodies are discussed.
Phosphonate coupling molecules for the control of surface/interface properties and the synthesis of nanomaterials (2013)

Phosphonic acids are increasingly being used for controlling surface and interface properties in hybrid or composite materials, (opto)electronic devices and in the synthesis of nanomaterials. In this perspective article, a concise survey of phosphonate coupling molecules is first presented, including details on their coordination chemistry, their use in the surface modification of inorganic substrates with self-assembled monolayers, and the analytical techniques available to characterize their environment in nanomaterials. Then, some of their recent applications in the development of organic electronic devices, photovoltaic cells, biomaterials, biosensors, supported catalysts and sorbents, corrosion inhibitors, and nanostructured composite materials, are presented. In the last part of the article, a brief overview of recent progress in the use of phosphonate ligands for the preparation of molecular nanomaterials like metal organic frameworks and functionalized polyoxometalates is given.
Identification and Characterization of a cis -Acting Replication Element ( cre ) Adjacent to the Internal Ribosome Entry Site of Foot-and-Mouth Disease Virus (2002)

Over the last few years, an essential RNA structure known as the cis-acting replicative element (cre) has been identified within the protein-coding region of several picornaviruses. The cre, a stem-loop structure containing a conserved AAACA motif, functions as a template for addition of U residues to the protein primer 3B. By surveying the genomes of representatives of several serotypes of foot-and-mouth disease virus (FMDV), we discovered a putative cre in the 5' untranslated region of the genome (contiguous with the internal ribosome entry site [IRES]). To confirm the role of this putative cre in replication, we tested the importance of the AAACA motif and base pairing in the stem in FMDV genome replication. To this end, cre mutations were cloned into an FMDV replicon and into synthetic viral genomes. Analyses of the properties of these replicons and genomes revealed the following. (i) Mutations in the AAACA motif severely reduced replication, and all viruses recovered from genomes containing mutated AAACA sequences had reverted to the wild-type sequence. (ii) Mutations in the stem region showed that the ability to form this base-paired structure was important for replication. Although the cre was contiguous with the IRES, the mutations we created did not significantly reduce IRES-mediated translation in vivo. Finally, the position of the cre at the 5' end of the genome was shown not to be critical for replication, since functional replicons and viruses lacking the 5' cre could be obtained if a wild-type cre was added to the genome following the 3D(pol) coding region. Taken together, these results support the importance of the cre in replication and demonstrate that the activity of this essential element does not require localization within the polyprotein-encoding region of the genome.
RNA folding: Pseudoknots, loops and bulges (1989)

The three-dimensional structures adopted by RNA molecules are crucial to their biological functions. The nucleotides of an RNA molecule interact to form characteristic secondary-structure motifs. Tertiary interactions orient these secondary-structure elements with respect to each other to form the functional RNA. Here we describe the basic structural elements with special emphasis on a novel tertiary motif, the pseudoknot.
Density of interface states, electron traps, and hole traps as a function of the nitrogen density in SiO2 on SiC (2009)

Nitridation of the SiO2/SiC interface yields a reduction in interface state density, immunity to electron injection, as well as increased hole trapping. It is shown that the accumulation of nitrogen at the oxide/semiconductor interface is solely responsible for these three effects. The evolution of the density of interface states, electron traps, and hole traps is measured in metal-oxide-semiconductor capacitors as a function of the nitrogen content which is varied by adjusting the gate oxide NO annealing time. A rate equation is derived to model the change in the interface state density, observed at various energy levels, in terms of nitrogen binding cross-sections. While the generation of acceptor interface states upon electron injection is suppressed after minimum N incorporation, the density of oxide hole traps appears to scale linearly with the amount of nitrogen. The origin and the properties of the N-induced hole traps resembles those of the defects responsible for enhanced negative bias temperature instability observed in nitrided silicon devices. It is proposed that the binding of nitrogen is not exclusively driven by the passivation of defects at the semiconductor surface but also results in the formation of a silicon oxynitride layer redefining the interface.
Highly Efficient Blue‐Emitting Cyclometalated Platinum(II) Complexes by Judicious Molecular Design (2013)

Deep-blue emitters based on cyclometalated platinum(II) complexes were synthesized, characterized, and used in organic light-emitting devices. The complexes with tetradentate ligands exhibited improved photophysical properties over iridium analogues, and one such compound achieved a peak external quantum efficiency (EQE) of 23.7 %. As a service to our authors and readers, this journal provides supporting information supplied by the authors. Such materials are peer reviewed and may be re-organized for online delivery, but are not copy-edited or typeset. Technical support issues arising from supporting information (other than missing files) should be addressed to the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Nanocomposites of graphene/polymers: a review (2015)

Graphene-based nanofillers and their applications. Fabrication methods of graphene-based nanocomposites. Interaction and dispersion of graphene-based fillers in polymer matrices. Current trends and prospects of graphene-based nanocomposites.
Relationship between circulating vascular cell adhesion molecule-1 and microvascular complications in Type 2 diabetes mellitus (1998)

The soluble form of the vascular cell adhesion molecule-1 (VCAM-1) is detectable in human sera and is elevated in diabetic patients, with unknown clinical significance. In the present study, the relationship between serum soluble VCAM-1 and diabetic microvascular complications (retinopathy, nephropathy, and neuropathy) was evaluated in 95 Japanese patients with Type 2 diabetes mellitus (DM). Serum soluble VCAM-1 concentration was higher in patients with more advanced stages of retinopathy as well as nephropathy. There was a significant correlation between soluble VCAM-1 and log10 (urinary albumin excretion) in 69 patients with normal serum creatinine levels (r = 0.51, p < 0.0001) and a significant correlation between soluble VCAM-1 and log10 (serum creatinine) in all the patients (r = 0.83, p < 0.0001). Soluble VCAM-1 concentration was also elevated in patients with neuropathy. There was a significant correlation between soluble VCAM-1 concentration and the number of microvascular complications (r = 0.59, p < 0.0001). However, multivariate regression analysis revealed that only diabetic nephropathy, was associated with the soluble VCAM-1 concentration. The elevation of circulating VCAM-1 level in diabetic nephropathy may result from underlying systemic endothelial dysfunction, increased VCAM-1 production in damaged renal tubular or glomerular epithelial cells and/or decreased renal clearance of this molecule, depending on the stage of nephropathy.
Three-dimensional massively parallel electromagnetic inversion-I. Theory (1997)

An iterative solution to the non-linear 3-D electromagnetic inverse problem is obtained by successive linearized model updates using the method of conjugate gradients. Full wave equation modelling for controlled sources is employed to compute model sensitivities and predicted data in the frequency domain with an efficient 3-D finite-difference algorithm. Necessity dictates that the inverse be underdetermined, since realistic reconstructions require the solution for tens of thousands of parameters. In addition, large-scale 3-D forward modelling is required and this can easily involve the solution of over several million electric field unknowns per solve. A massively parallel computing platform has therefore been utilized to obtain reasonable execution times, and results are given for the 1840-node Intel Paragon. The solution is demonstrated with a synthetic example with added Gaussian noise, where the data were produced from an integral equation forward-modelling code, and is different from the finite difference code embedded in the inversion algorithm
Lumbosacral instrumented fusion: analysis of 124 consecutive cases. (1999)

One hundred twenty-four cases of lumbosacral fusion receiving transpedicular screw fixation were divided into two groups and reviewed retrospectively. The conditions treated include spondylolisthesis, scoliosis, tumor, trauma, and degenerative disc disease. There were 83 males and 41 females in this consecutive series averaging a 45.2-month follow-up. The primary or first-time arthrodesis rate was 91.9%. A learning curve effect as it relates to operative time but not pedicular screw placement was shown. Instrumentation-related and general medical and surgical complications were low. Infection rates were also low; superficial 2.4%, deep 1.6%. Nonunion or delayed union was salvaged in 10 cases, improving the overall fusion rate to 97.6%. The results of this study support the use of lumbosacral transpedicular screw fixation in select spinal conditions.
Phenotypic and functional similarities between 5‐azacytidine‐treated t cells and a t cell subset in patients with active systemic lupus erythematosus (1992)

5-azaC-treated normal T cells had increased CD11a (leukocyte function-associated antigen 1 alpha) expression relative to other membrane molecules. A T cell subset with similar CD11a expression was found in patients with active SLE. This subset contained cells that spontaneously lysed autologous macrophages, with a specificity similar to that of 5-azaC-treated cells.
Enhanced transduction efficiency of retroviral vectors coprecipitated with calcium phosphate. (1995)

Retroviral vectors are being used increasingly in clinical gene therapy protocols but low transduction frequencies are presenting a significant obstacle to progress. In this paper we report a simple method to enhance the efficiency of ex vivo retroviral gene transfer. Calcium chloride is added to the vector stock and calcium phosphate precipitates out of solution in complex with the retroviral vectors. When such coprecipitated vectors were used for gene transfer, the vector titres were increased at least five-fold and as much as 50-fold compared with the titres obtained in standard polybrene-enhanced infection protocols. Titre enhancement was not dependent on the starting concentration of vector, was equally effective for ecotropic and amphotropic vectors on a variety of mouse and human cells, and was not associated with any alteration in vector host range properties. The method may be of value to concentrate retroviral vectors and to enhance the efficiency of gene transfer in selected human gene therapy protocols.
ORE9, an F-Box Protein That Regulates Leaf Senescence in Arabidopsis (2001)

Senescence is a sequence of biochemical and physiological events that constitute the final stage of development. The identification of genes that alter senescence has practical value and is helpful in revealing pathways that influence senescence. However, the genetic mechanisms of senescence are largely unknown. The leaf of the oresara9 (ore9) mutant of Arabidopsis exhibits increased longevity during age-dependent natural senescence by delaying the onset of various senescence symptoms. It also displays delayed senescence symptoms during hormone-modulated senescence. Map-based cloning of ORE9 identified a 693-amino acid polypeptide containing an F-box motif and 18 leucine-rich repeats. The F-box motif of ORE9 interacts with ASK1 (Arabidopsis Skp1-like 1), a component of the plant SCF complex. These results suggest that ORE9 functions to limit leaf longevity by removing, through ubiquitin-dependent proteolysis, target proteins that are required to delay the leaf senescence program in Arabidopsis.
Relevance Feedback in Content-based Image Search (2001)

Abstract: Content-based image retrieval (CBIR) is a research area dedicated to address the retrieve and search multimedia documents for digital libraries. Relevance feedback is a powerful technique in CBIR and has been an active research topic for the past few years. In this paper, we review the current state-of-the-art of research on relevance feedbacks for CBIR and present the iFind system developed at Microsoft Research China equipped with a set of powerful relevance feedback algorithms. We also provide an outlook on the remaining research issues in CBIR, especially on applying learning and data mining technologies in search of multimedia data on the Web. 1. Introduction: The Challenges in Content-Based Image Retrieval Efficient image indexing and access tools are essential for efficient utilization of this massive digital resource and substantial research efforts have been devoted to address this issue. However, by and large, the earlier image database systems used in digital libraries [e.g. 1] have all taken keyword or text-based approaches for indexing and
Polyethylene wear in unicondylar knee prostheses (1992)

106 unicondylar knee replacement tibial components were retrieved and analyzed for the amount and type of polyethylene wear. Three different designs were retrieved which had essentially the same femorotibial conformity. Each design showed a characteristic failure pattern. The polyethylene of PCA tibial components showed serious delamination after only short durations, as a result of heat pressing. St Georg sledge prostheses showed some delamination after 4 years' duration due to sub-surface cracks which were initiated by fusion defects in the polyethylene; metal backing of the components did not affect delamination of this prosthesis. The Marmor designs showed the least wear, with shiny depressions and surface pitting; no delamination was observed in the Marmor prosthesis. Molecular weight determination by gel permeation chromatography and analysis of crystallinity using Fourier transformation infra-red spectroscopy demonstrated that St George polyethylene had higher molecular weight and crystallinity than Marmor polyethylene. In some of the components investigated, crystallinity and molecular weight of the polyethylene were reduced under the wear track when compared with the unworn polyethylene. Since fusion defects may cause delamination of polyethylene we urge manufacturers to reduce the number of such defects.
Diffraction from concave gratings in planar waveguides (1995)

Performance of planar waveguide devices employing concave gratings can be numerically modeled with diffraction theory. The details of the method are presented. Approximations are introduced to derive simple equations and numerical calculations are used to verify the approximations. These formulas clarify the sources of loss caused by concave gratings and their application for optimizing grating performance is demonstrated.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>