gebhart/patrepeval huggingface dataset:
Ribosome frameshifting at hungry codons: sequence rules, directional specificity and possible relationship to mobile element behaviour (1993)

Conference Article| November 01 1993 Ribosome frameshifting at hungry codons: sequence rules, directional specificity and possible relationship to mobile element behaviour Jonathan Gallant; Jonathan Gallant * *To whom correspondence should be addressed. Search for other works by this author on: This Site PubMed Google Scholar Dale Lindsley Dale Lindsley 1University of Washington, Department of Genetics, SK-50, Seattle, Washington 98195, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1993) 21 (4): 817–821. https://doi.org/10.1042/bst0210817 Article history Received: July 30 1993 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn Email Cite Icon Cite Get Permissions Citation Jonathan Gallant, Dale Lindsley; Ribosome frameshifting at hungry codons: sequence rules, directional specificity and possible relationship to mobile element behaviour. Biochem Soc Trans 1 November 1993; 21 (4): 817–821. doi: https://doi.org/10.1042/bst0210817 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search Keywords: A-site, amino-acyl site, P-site, peptidyl site This content is only available as a PDF. © 1993 Biochemical Society1993 Article PDF first page preview Close Modal You do not currently have access to this content.
Antibody‐based approaches in Alzheimer’s research: safety, pharmacokinetics, metabolism, and analytical tools (2007)

High morbidity, enormous socioeconomic costs, and lack of specific treatments emphasize the importance of research on protective therapies against Alzheimer's disease. The efficacy of anti-amyloid immunization strategies has been demonstrated preclinically, prompting the design of clinical studies. However, the detailed mechanisms of action of therapeutic antibodies, especially their influence on the complex amyloid beta peptide (Abeta) metabolism and various Abeta-equilibria present both within and outside the CNS, are far from being clear. Furthermore, physiological Abeta metabolism is poorly understood and the analytical tools to characterize and quantify treatment effects on Abeta metabolism are suboptimal. Thus, the design of immunization strategies with optimized benefit-to-risk ratios for patients is subjected to significant obstacles. Indeed, an active immunization trial with Abeta was discontinued because of severe adverse effects. Anti-Abeta immunization protocols designed to attain high blood levels of antibodies bear the potential to induce brain inflammation and/or hemorrhage, thus directing the biomedical research towards development of more predictable therapies for minimizing the risk of adverse effects. The focus of this review is to summarize current knowledge of Abeta metabolism under physiological and antibody-based therapeutic conditions and to introduce a promising approach, namely the passive immunization using antibody fragments, which are characterized by entirely different pharmacokinetic and pharmacodynamic properties compared with conventional monoclonal antibodies.
Induction of Phytoalexin (Resveratrol) Synthesis in Grapevine Leaves Treated with Aluminum Chloride (AlCl3) (1996)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTInduction of Phytoalexin (Resveratrol) Synthesis in Grapevine Leaves Treated with Aluminum Chloride (AlCl3)M. Adrian, P. Jeandet, R. Bessis, and J. M. JoubertView Author Information Laboratoire des Sciences de la Vigne, Institut Jules Guyot, Université de Bourgogne, B.P. 138, 21004 Dijon Cedex, France, and Laboratoires GOEMAR S.A., Z.A.C. La Madeleine, B.P. 55, 35403 Saint-Malo Cedex, FranceCite this: J. Agric. Food Chem. 1996, 44, 8, 1979–1981Publication Date (Web):August 15, 1996Publication History Received6 December 1995Published online15 August 1996Published inissue 1 January 1996https://pubs.acs.org/doi/10.1021/jf950807ohttps://doi.org/10.1021/jf950807orapid-communicationACS PublicationsCopyright © 1996 American Chemical SocietyRequest reuse permissionsArticle Views1114Altmetric-Citations73LEARN 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:Aluminum,Anions,Fluorescence,Phytochemistry,Salts Get e-Alerts
AGEs (advanced glycation end products): an advanced method for an advanced problem (2019)

Advanced glycation end products (AGEs) are heterogeneous, sugar-derived protein modifications [Fig.1] that have received attention in various research fields, such as food preparation, the normal aging process and pathophysiological conditions in the human body. [1]
Optimizing a Battery Energy Storage System for Frequency Control Application in an Isolated Power System (2009)

This paper presents a method for optimal sizing and operation of a battery energy storage system (BESS) used for spinning reserve in a small isolated power system. Numerical simulations are performed on a load-frequency control (LFC) dynamic simulator of the isolated network. A novel control algorithm using adjustable state of charge limits is implemented and tested on a BESS dynamic model. An optimal sizing procedure of the BESS is developed for an isolated power system in order to achieve highest expected profitability of the device. The BESS can increase significantly the power system stability, the grid security, and the planning flexibility for a small isolated power system with low grid inertia. Meanwhile, it fulfills the frequency control requirements with a high expected economic profitability.
The Role of LOX and LOXL2 in the Pathogenesis of an Experimental Model of Choroidal Neovascularization (2015)

This study suggests that LOX and LOXL2 may play an important role in the pathogenesis of AMD. Targeting LOXL2 could have a broader efficacy than targeting LOX, by reducing angiogenesis and inflammation, as well as fibrosis.
Chemical process synthesis of beta-amino acids and esters. (1999)

The importance of beta-amino acids and esters for the synthesis of potential therapeutic agents and biologically active compounds is well known and the subject of this special issue. This review outlines some of the recent approaches reported for the synthesis of both racemic and enantiomeric beta-amino acids and esters with emphasis on those used for large scale production. This compilation is written from a chemical process perspective focusing on the practical application of these processes for large scale synthesis. A survey of procedures described in patent publications as well as current advances from chemical process research groups and results from our laboratory are included with emphasis on asymmetric Michael-type additions, addition of metal enolates to imines/sulfinimines, classical and enzymatic resolutions, and reduction of enantiomeric enamines.
Operative Versorgung spinaler Metastasen in Häusern der Regelversorgung (2020)

Zusammenfassung Die operative Versorgung spinaler Metastasen, in der Regel in Form einer Instrumentation und Dekompression des Spinalkanals und ggfs. eines Tumordebulkings, sind die mit Abstand häufigsten tumorbedingten Eingriffe in der Wirbelsäulenchirurgie. Aufgrund des hohen Patientenaufkommens ist daher eine flächendeckende Versorgung der Patienten erforderlich. Bezüglich der Behandlungsqualität sind zentrumsspezifische und operateursspezifische Eingriffshäufigkeit die entscheidenden Kriterien. Entsprechende Kliniken und Operateure sind sowohl in Häusern der Grund- und Regelversorgung als auch in Häusern der Maximalversorgung zu finden.
Determination of deep levels' parameters in epi-GaAs by a transient acoustoelectric technique (1998)

A new acoustoelectric method is developed in order to study solid state layered structures. The method is based on the transient transverse acoustoelectric voltage (TAV) measurements. The decay of the TAV signal is read when a surface acoustic wave (SAW) producing the signal is switched off. The shape of the transient voltage and its spectral dependence on the wavelength of a light irradiation are studied. A theoretical model is presented to explain the transient TAV data. The results demonstrate that the transient acoustoelectric technique is an effective means of characterizing trapping centres in the bulk and at surfaces or interfaces of epitaxial semiconductor structures.
Scatterplots for Unordered Pairs (1996)

Abstract This department publishes articles of interest to statistical practitioners. Innovative applications of known methodology may be suitable, but sizable case studies should be submitted to other journals. Brief descriptions and illustrations of new developments that are potentially useful in statistical practice are appropriate. Acceptable articles should appeal to a substantial number of practitioners. Intraclass correlation coefficients (ICC's) measure the strength of the similarity among measurements within a class (or family) relative to the total variability. Classically, this index of association has been most often treated as a ratio of variance components, namely the fraction that the family-to-family variability represents of the total variability. For the special case of twins, or any other set of unordered pairs, there has been no authoritative prescription as to which scatterplot one should use to graphically represent the ICC. We propose that the set of all permutations within pairs of exchangeable measurements forms a legitimate basis for selecting a representative scatterplot. The recommended plot is the one whose interclass coefficient is closest to an ICC. For the product-moment correlation this implies that one selects a plot with r equal to the analysis of variance (ANOVA) estimator. We prove that Fisher's “symmetrical table” yields a coefficient that is smaller than all of the positive correlations in the permutation set.
Fuzzy logic enhanced digital PIV processing software (2003)

Digital Particle image Velocimetry (DPIV) is an instantaneous, planar velocity measurement technique that is ideally suited for studying transient flow phenomena in high speed turbomachinery. DPIV is being actively used at the NASA Glenn Research Center to study both stable and unstable operating conditions in a high speed centrifugal compressor. Commercial PIV systems are readily available which provide near real time feedback of the PIV image data quality. These commercial systems are well designed to facilitate the expedient acquisition of PIV image data. However, as with any general purpose system, these commercial PIV systems do not meet all of the data processing needs required for PIV image data reduction in our compressor research program. An in-house PIV PROCessing (PIVPROC) code has been developed for reducing PIV data. The PIVPROC software incorporates fuzzy logic data validation for maximum information recovery from PIV image data. PIVPROC enables combined cross-correlation/particle tracking wherein the highest possible spatial resolution velocity measurements are obtained.
Impact of Adenosine Triphosphate Detection and Feedback on Hospital Room Cleaning (2014)

Objective. To assess the effect of adenosine triphosphate (ATP) device measurement of hospital room cleaning and feedback of pooled results to environmental service workers (EVS) to improve cleaning efficacy. Design. Nonrandomized controlled trial conducted over 20 months. Setting. Three hospitals of varying size. Participants. EVS workers, randomly selected on the basis of convenience sample of rooms. Interventions. Environmental cleanliness composite scores were combined with layered educational interventions and used to provide feedback to EVS workers on specific hospital units. Trends in cleaning efficacy were observed after the interventions. Results. Cleaning efficacy improved significantly with each intervention ( P &lt; .01) and decreased during the washout period. Conclusions. The ATP detection device combined with educational feedback for EVS workers resulted in significant improvement in cleaning efficacy of the hospital room environment.
A β-Hydroxyethyl Carbanion Equivalent (1997)

ADVERTISEMENT RETURN TO ISSUEPREVNoteNEXTA β-Hydroxyethyl Carbanion EquivalentAndrew M. Klos, Geoffrey R. Heintzelman, and Steven M. WeinrebView Author Information Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802Cite this: J. Org. Chem. 1997, 62, 11, 3758–3761Publication Date (Web):May 30, 1997Publication History Received7 February 1997Published online30 May 1997Published inissue 1 May 1997https://pubs.acs.org/doi/10.1021/jo970226thttps://doi.org/10.1021/jo970226tbrief-reportACS PublicationsCopyright © 1997 American Chemical SocietyRequest reuse permissionsArticle Views730Altmetric-Citations15LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Adducts,Aldehydes,Group 14 compounds,Ketones,Reagents Get e-Alerts
Enzymically Amplified Voltammetric Sensor for Microliter Sample Volumes of Salicylate (1995)

A new voltammetric sensing strategy for salicylate employing two enzymes and applicable to microliter sample volumes is demonstrated. The method involves the use of the enzyme salicylate hydroxylase to convert salicylate to catechol, which is oxidized at a carbon electrode. The product of this oxidation reaction, o-quinone, is then reduced by a second enzyme, glucose oxidase, to regenerate catechol. Reoxidation of catechol results in a signal that is amplified due to repeated cycling of catechol molecules between the oxidized and reduced states. This chemistry is implemented in two configurations. (i) A paper disk into which both enzymes have been absorbed is mounted on a coplanar three-electrode assembly for aqueous experiments. Determination of salicylate in a nonprescription dermatological product is demonstrated. (ii) A small solution volume confined directly on the coplanar electrodes is used for determination of salicylate in whole blood. The advantages of the use of two enzymes and of monitoring steady-state catalytic currents are discussed.
Synthesis and characterisation of new acetylide-functionalised oligothiophenes and their dinuclear platinum complexes (1997)

A series of rigid-rod alkynes with extended π conjugation through oligothiophene linkage units in the backbone, 2,5-bis(trimethylsilylethynyl)thiophene Ia, 2,5-diethynylthiophene Ib, 5,5′-bis(trimethylsilylethynyl)-2,2′-bithiophene IIa, 5,5′-diethynyl-2,2′-bithiophene IIb, 5,5″-bis(trimethylsilylethynyl)-2,2′∶5′,2″-terthiophene IIIa and 5,5″-diethynyl-2,2′∶5′,2″-terthiophene IIIb, has been prepared. Treatment of the complex trans-[PtPh(Cl)(PR3)2] (R = Et or Bun) with half an equivalent of the diterminal alkynyl oligothiophene chromophores Ib–IIIb in CH2Cl2–NHPri2, in the presence of CuI, at room temperature, afforded the platinum dimers trans-[(Et3P)2PhPt– CCR′CC–PtPh(PEt3)2] (R′ = thiophenediyl 1a, bithiophenediyl 2 or terthiophenediyl 3) and trans-[(Bun3P)2PhPt–CCR′CC–PtPh(PBun3)2] 1b (R′ = thiophenediyl) in good yields. All the new compounds have been characterised by analytical and spectroscopic methods, and the single-crystal structures of IIa, 1a and 2 have been established.
Correction to: Optimizing conditions for labeling of mesenchymal stromal cells (MSCs) with gold nanoparticles: a prerequisite for in vivo tracking of MSCs (2019)

The authors apologized for the unfortunate error in figure during publication of the article and they also explained that some of the solid grey graphs in Fig. 5 are intentionally based on the same data. For 8 different surface makers (CD14, CD73, CD34, CD105, CD19, CD90, CD45, HA-DR) in accordance to the guidelines of the manufacturer a panel of 4 different isotype controls were used, corresponding to 4 different fluorescence channels.
Improving web server performance by caching dynamic data (1997)

Dynamic Web pages can seriously reduce the performance of Web servers. One technique for improving performance is to cache dynamic Web pages. We have developed the Dynamic Web cache which is particularly well-suited for dynamic pages. Our cache has improved performance significantly at several commercial Web sites. This paper analyzes the design and performance of the Dynamic Web cache. It also presents a model for analyzing overall system performance in the presence of caching. Our cache can satisfy several hundred requests per second. On systems which invoke server programs via CGI, the DynamicWeb cache results in near-optimal performance, where optimal performance is that which would be achieved by a hypothetical cache which consumed no CPU cycles. On a system we tested which invoked server programs via ICAPI which has significantly less overhead than CGI, the Dynamic Web cache resulted in near-optimal performance for many cases and 58% of optimal performance in the worst case. The Dynamic Web cache ...
Application of human erythrocytes to a radioimmune assay of immune complexes in serum. (1979)

An immune adherence receptor exists on the surface of primate erythrocytes, and has been characterized as a receptor for the activated third component of complement (C3b). We have applied human red blood cells (RBCs, blood group O) to a sensitive determination of complement-fixing, soluble immune complexes in serum. The method involved the binding of immune complexes with RBCs in the presence of complement and the detection of cell-bound IgG molecules by radiolabelled anti-human IgG antibodies. Since the binding of RBCs with monomeric IgG was minimal, cell-bound IgG molecules were taken as representing immune complexes. When aggregated human gammaglobulin (AHG) was used as a model of immune complexes, as little as 5 μg dissolved in 1 ml of normal human serum were detected. The binding of RBCs with AHG was inhibited in EDTA solution where the classical complement pathway could not be activated. The RBC radioimmune assay was successfully applied to the determination of soluble immune complexes in pathological serum samples obtained from the patients with systemic lupus erythematosus and those with fulminant Type B hepatitis. False-positive results by autoantibodies against RBCs could be excluded by performing a Coombs test and by comparing the binding in the presence of complement with that in EDTA solution. The ubiquitous availability of RBCs coupled with a high sensitivity would allow the RBC radioimmune assay to be added to the battery of previous methods to determine immune complexes in the serum.
Aberrant DNA methylation patterns in microsatellite stable human colorectal cancers define a new marker panel for the CpG island methylator phenotype (2021)

A distinct group of colorectal carcinomas (CRCs) referred to as the "CpG island methylator phenotype" (CIMP) shows an extremely high incidence of de novo DNA methylation and may share common pathological, clinical or molecular features. However, there is limited consensus about which CpG islands (CGIs) define a CIMP, particularly in microsatellite stable (MSS) carcinomas. To study this phenotype in a systematic manner, we analyzed genome-wide CGI DNA methylation profiles of 19 MSS CRC using methyl-CpG immunoprecipitation (MCIp) and hybridization on 244K CGI oligonucleotide microarrays, determined KRAS and BRAF mutation status and compared disease-related DNA methylation changes to chromosomal instability as detected by microarray-based comparative genomic hybridization. Results were validated using mass spectrometry analysis of bisulfite-converted DNA at a subset of 76 individual CGIs in 120 CRC and 43 matched normal tissue samples. Both genome-wide profiling and CpG methylation fine mapping segregated a group of CRC showing pronounced and frequent de novo DNA methylation of a distinct group of CGIs that only partially overlapped with previously established classifiers. The CIMP group defined in our study revealed significant association with colon localization, either KRAS or BRAF mutation, and mostly minor chromosomal losses but no association with known histopathological features. Our data provide a basis for defining novel marker panels that may enable a more reliable classification of CIMP in all CRCs, independently of the MS status.
Privacy-preserving genomic computation through program specialization (2009)

In this paper, we present a new approach to performing important classes of genomic computations (e.g., search for homologous genes) that makes a significant step towards privacy protection in this domain. Our approach leverages a key property of the human genome, namely that the vast majority of it is shared across humans (and hence public), and consequently relatively little of it is sensitive. Based on this observation, we propose a privacy-protection framework that partitions a genomic computation, distributing the part on sensitive data to the data provider and the part on the pubic data to the user of the data. Such a partition is achieved through program specialization that enables a biocomputing program to perform a concrete execution on public data and a symbolic execution on sensitive data. As a result, the program is simplified into an efficient query program that takes only sensitive genetic data as inputs. We prove the effectiveness of our techniques on a set of dynamic programming algorithms common in genomic computing. We develop a program transformation tool that automatically instruments a legacy program for specialization operations. We also demonstrate that our techniques can greatly facilitate secure multi-party computations on large biocomputing problems.