gebhart/patrepeval huggingface dataset:
IRAK-mediated Translocation of TRAF6 and TAB2 in the Interleukin-1-induced Activation of NFκB (2001)

The interleukin-1 (IL-1) receptor-associated kinase (IRAK) is required for the IL-1-induced activation of nuclear factor kappaB and c-Jun N-terminal kinase. The goal of this study was to understand how IRAK activates the intermediate proteins TRAF6, TAK1, TAB1, and TAB2. When IRAK is phosphorylated in response to IL-1, it binds to the membrane where it forms a complex with TRAF6; TRAF6 then dissociates and translocates to the cytosol. The membrane-bound IRAK similarly mediates the IL-1-induced translocation of TAB2 from the membrane to the cytosol. Different regions of IRAK are required for the translocation of TAB2 and TRAF6, suggesting that IRAK mediates the translocation of each protein separately. The translocation of TAB2 and TRAF6 is needed to form a TRAF6-TAK1-TAB1-TAB2 complex in the cytosol and thus activate TAK1. Our results show that IRAK is required for the IL-1-induced phosphorylation of TAK1, TAB1, and TAB2. The phosphorylation of these three proteins correlates strongly with the activation of nuclear factor kappaB but is not necessary to activate c-Jun N-terminal kinase.
Isolation, characterization and chromosomal assignment of the human WNT7A gene (1996)

The Wnt genes compose a large gene family encoding a group of secreted signaling molecules that have been implicated in oncogenesis and a number of developmental processes. We have isolated a full-length human cDNA clone that we consider to be a novel member of the Wnt gene family. The gene (WNT7A) encodes a deduced 349-amino-acid peptide with 98% identity in amino acid sequence to murine Wnt7a. Expression of this gene is restricted to certain tissues: placenta, kidney, testis, uterus, fetal lung, and fetal and adult brain. Furthermore, we have isolated a genomic clone of WNT7A and mapped it to chromosome 3p25 by fluorescent in situ hybridization.
Cationic liposomes for gene delivery (2005)

Cationic liposome-DNA complexes (lipoplexes) constitute a potentially viable alternative to viral vectors for the delivery of therapeutic genes. This review will focus on various parameters governing lipoplex biological activity, from their mode of formation to in vivo behaviour. Particular emphasis is given to the mechanism of interaction of lipoplexes with cells, in an attempt to dissect the different barriers that need to be surpassed for efficient gene expression to occur. Aspects related to new trends in the formulation of lipid-based gene delivery systems aiming at overcoming some of their limitations will be covered. Finally, examples illustrating the potential of cationic liposomes in clinical applications will be provided.
Improved quantitation of minimal residual disease in multiple myeloma using real-time polymerase chain reaction and plasmid-DNA complementarity determining region III standards. (1998)

The complementarity determining region III of the rearranged immunoglobulin heavy chain gene has been the target for tumor-specific PCR assays for the detection and follow-up of B-cell malignancies. Previously, these assays have relied on gel-based end point data collection methods (i.e., band densitometry) and, thus, have provided at best a semiquantitative assessment of tumor levels. We show the development of a novel, real-time TaqMan PCR assay to quantitate residual multiple myeloma cells in clinical samples after high-dose chemotherapy and autologous stem cell transplantation. We provide evidence that real-time PCR is reproducible, sensitive, and quantitative. In a 40-replicate PCR experiment targeting the beta-actin gene, the coefficient of variation for threshold cycle data was 1.6%, whereas it increased to 13.6% and 31%, respectively, for end point fluorescence and gel densitometry. Moreover, in an experiment directly comparing standard curves obtained from band densitometry and threshold cycle data, the standard curve constructed from threshold cycle data had a multiple R2 value of 1.00 and demonstrated a dynamic range >4 logs, compared with the 2-log linear range of gel densitometry. Finally, we show that when a complementarity determining region III-specific PCR primer is used in conjunction with a consensus primer for the immunoglobulin heavy chain joining gene, plasmid DNA can be used as a readily available and effective substitute for clonal plasma-cell genomic DNA when preparing standards. By applying real-time PCR to the analysis of clinical samples, we are able to quantitate levels of tumor involvement with unparalleled reproducibility and statistical confidence. Real-time PCR technology may well provide the accuracy and reliability necessary for minimal residual disease detection to have real prognostic significance.
A New Tool for Oligonulceotide Import into Cells (2009)

The field of gene therapy potentially offers physicians an entirely new set of armaments with which to battle disease. The approach, radical in concept but powerful in its potential effect, generically aims to correct defective genes responsible for disease development by inserting the normal gene into a nonspecific location in the genome or by swapping out the abnormal gene through homologous recombination. Perhaps more tangible, near-term approaches are those that look to either repair the abnormal gene via selective reverse mutation or “knockdown” the expression of the mutated gene. Delivery of oligonucleotides, whether as entire genes or shorter antisense strands, remains one of the most significant challenges in the field. The linchpin to success is the ability to efficiently and selectively insert oligonucleotides into the desired cells. Current efforts in the application of oligonucleotide delivery in this and other arenas are restricted by the relatively low efficiency of methods used for oligonucleotide transfer. In addition, potential hazards exist with any method that introduces foreign biological material into the body—toxicity issues as well as the potential for mounting an immune response against a specific gene delivery vehicle complicate the challenge.

It is against this backdrop that a series of papers out of the Mirkin group at Northwestern University is significant(1)(2)(3)(4). Few disagree with the power that …
Dynamic Aspects of Small Intestinal Rupture With Special Consideration of Anastomotic Strength (1966)

THE INTRINSIC resistance of the gut to rupture from intraluminal pressure increase is of importance to surgeons from several points of view, particularly when considered in relation to the strength of healing anastomoses. The pattern of events in the healing process in general is well documented in reviews.<sup>1,2,3</sup>Healing of intestinal anastomoses has been studied in some detail and tends to follow a characteristic pattern. Sandblom<sup>3</sup>and Harvey and Howes<sup>4</sup>reported that the healing intestinal wound has an initial lag period during which it has no intrinsic strength. Each day thereafter there was a rapid increase in strength up to the tenth day, at which time the wound was as strong as normal bowel. Harvey's<sup>5</sup>data indicate a strength of 50% to 60% of eventual maximum on the seventh day. Only Sandblom gives credit to Chlumsky<sup>6</sup>for his pioneering work on the strength of
Mutations in a Protein Tyrosine Phosphatase Gene ( PTP2 ) and a Protein Serine/Threonine Phosphatase Gene ( PTC1 ) Cause a Synthetic Growth Defect in Saccharomyces cerevisiae (1993)

Two protein tyrosine phosphatase genes, PTP1 and PTP2, are known in Saccharomyces cerevisiae. However, the functions of these tyrosine phosphatases are unknown, because mutations in either or both phosphatase genes have no clear phenotypic effects. In this report, we demonstrate that although ptp2 has no obvious phenotype by itself, it has a profound effect on cell growth when combined with mutations in a novel protein phosphatase gene. Using a colony color sectoring assay, we isolated 25 mutants in which the expression of PTP1 or PTP2 is required for growth. Complementation tests of the mutants showed that they have a mutation in one of three genes. Cloning and sequence determination of one of these gene, PTC1, indicated that it encodes a homolog of the mammalian protein serine/threonine phosphatase 2C (PP2C). The amino acid sequence of the PTC1 product is approximately 35% identical to PP2C. Disruption of PTC1 indicated that the PTC1 function is nonessential. In contrast, ptc1 ptp2 double mutants showed a marked growth defect. To examine whether PTC1 encodes an active protein phosphatase, a glutathione S-transferase (GST)-PTC1 fusion gene was constructed and expressed in Escherichia coli. Purified GST-PTC1 fusion protein hydrolyzed a serine phosphorylated substrate in the presence of the divalent cation Mg2+ or Mn2+. GST-PTC1 also had weak (approximately 0.5% of its serine phosphatase activity) protein tyrosine phosphatase activity.
Mass Spectrometric Analysis of the Endogenous Type I Interleukin-1 (IL-1) Receptor Signaling Complex Formed after IL-1 Binding Identifies IL-1RAcP, MyD88, and IRAK-4 as the Stable Components (2007)

We investigated the composition of the endogenous ligand-bound type I interleukin-1 (IL-1) receptor (IL-1RI) signaling complex using immunoprecipitation and tandem mass spectrometry. Three proteins with approximate molecular masses of 60 (p60), 36 (p36), and 90 kDa (p90) became phosphorylated after treatment with IL-1. Phosphorylation in vitro of p60 has been reported previously, but its identity was unknown. We showed using tandem mass spectrometry that p60 is identical to interleukin-1 receptor-associated kinase (IRAK)-4. MS also enabled detection of IL-1, IL-1RI, IL-1 receptor accessory protein (IL-1RAcP), and myeloid differentiation primary response protein 88 (MyD88) in the complex. The p60 protein (IRAK-4) was the earliest component of the complex to be phosphorylated. Phosphorylated IRAK-4 from the receptor complex migrated more slowly in SDS-PAGE than its unphosphorylated form as did recombinant IRAK-4 autophosphorylated in vitro. Phosphorylation was restricted to serine and threonine residues. IRAK-4, p36, IL-1RAcP, and MyD88 bound to the liganded receptor within 15 s of activation by IL-1 and remained associated upon prolonged activation, suggesting that the signaling complex is very stable. The p90 phosphoprotein was only transiently associated with the receptor. This behavior and its size were consistent with it being IRAK-1. Our work revealed that liganding of IL-1RI causes its strong and stable association with IL-1RAcP, MyD88, and the previously unidentified protein p60 (IRAK-4). The only component of the IL-1RI signaling complex that dissociated is IRAK-1. Our study is therefore the first detailed description of the endogenous IL-1RI complex.
α-Type-1 Polarized Dendritic Cells (2004)

Using the principle of functional polarization of dendritic cells (DCs), we have developed a novel protocol to generate human DCs combining the three features critical for the induction of type-1 immunity: (a) fully mature status; (b) responsiveness to secondary lymphoid organ chemokines; and (c) high interleukin-12p70 (IL-12p70)-producing ability. We show that IFN-alpha and polyinosinic:polycytidylic acid (p-I:C) synergize with the "classical" type-1-polarizing cytokine cocktail [tumor necrosis factor alpha (TNFalpha)/IL-1beta/IFNgamma], allowing for serum-free generation of fully mature type-1-polarized DCs (DC1). Such "alpha-type-1-polarized DC(s)" (alphaDC1) show high migratory responses to the CCR7 ligand, 6C-kine but produce much higher levels of IL-12p70 as compared to TNFalpha/IL-1beta/IL-6/prostaglandin E2 (PGE2)-matured DCs (sDC), the current "gold standard" in DC-based cancer vaccination. A single round of in vitro sensitization with alphaDC1 (versus sDCs) induces up to 40-fold higher numbers of long-lived CTLs against melanoma-associated antigens: MART-1, gp100, and tyrosinase. Serum-free generation of alphaDC1 allows, for the first time, the clinical application of DCs that combine the key three features important for their efficacy as anticancer vaccines.
Synthesis and Chemiluminescence of Coelenterazine (Oplophorus Luciferin) Analogues (1990)

Abstract In the case of chemiluminescence of coelenterazine, effects of conformation rigidity of and hydrogen bonding with the emitter, coelenteramide, on the chemiluminescence efficiency have been examined with several coelenterazine analogues synthesized. Conformational rigidity has a light enhancing effect, whereas decreasing light yield was observed by hydrogen-bond formation with the emitter.
Redistribution of Glycolipid Raft Domain Components Induces Insulin-Mimetic Signaling in Rat Adipocytes (2001)

Caveolae and caveolin-containing detergent-insoluble glycolipid-enriched rafts (DIG) have been implicated to function as plasma membrane microcompartments or domains for the preassembly of signaling complexes, keeping them in the basal inactive state. So far, only limited in vivo evidence is available for the regulation of the interaction between caveolae-DIG and signaling components in response to extracellular stimuli. Here, we demonstrate that in isolated rat adipocytes, synthetic intracellular caveolin binding domain (CBD) peptide derived from caveolin-associated pp59(Lyn) (10 to 100 microM) or exogenous phosphoinositolglycan derived from glycosyl-phosphatidylinositol (GPI) membrane protein anchor (PIG; 1 to 10 microM) triggers the concentration-dependent release of caveolar components and the GPI-anchored protein Gce1, as well as the nonreceptor tyrosine kinases pp59(Lyn) and pp125(Fak), from interaction with caveolin (up to 45 to 85%). This dissociation, which parallels redistribution of the components from DIG to non-DIG areas of the adipocyte plasma membrane (up to 30 to 75%), is accompanied by tyrosine phosphorylation and activation of pp59(Lyn) and pp125(Fak) (up to 8- and 11-fold) but not of the insulin receptor. This correlates well to increased tyrosine phosphorylation of caveolin and the insulin receptor substrate protein 1 (up to 6- and 15-fold), as well as elevated phosphatidylinositol-3' kinase activity and glucose transport (to up to 7- and 13-fold). Insulin-mimetic signaling by both CBD peptide and PIG as well as redistribution induced by CBD peptide, but not by PIG, was blocked by synthetic intracellular caveolin scaffolding domain (CSD) peptide. These data suggest that in adipocytes a subset of signaling components is concentrated at caveolae-DIG via the interaction between their CBD and the CSD of caveolin. These inhibitory interactions are relieved by PIG. Thus, caveolae-DIG may operate as signalosomes for insulin-independent positive cross talk to metabolic insulin signaling downstream of the insulin receptor based on redistribution and accompanying activation of nonreceptor tyrosine kinases.
THE TZIGANES: LISZT AND LENAU (2011)

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Simultaneous and real-time measurement of slope and curvature fringes in thin structures using shearing interferometery (2004)

A real-time lateral shearing interferometry that uses a pair of Ronchi gratings to perform wavefront shearing operations is described for measuring slope and curvature fringes simultaneously in thin structures. It involves simultaneous imaging of diffracted wavefronts using Fourier filtering. Two sets of fringe patterns, one representing slopes and the other curvatures, occur simultaneously at spatially distinct locations on the image plane, thereby eliminating the need for additional postprocessing of the recordings. In this work, the principles involved in the measurement of slopes and curvatures using this technique are explained. The method is then demonstrated on thin structures subjected to well-defined loading conditions, such as a clamped circular silicon wafer subjected to central displacement. Measurements have been successfully compared with analytical solutions.
Signal Peptidases (2002)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSignal PeptidasesMark Paetzel, Andrew Karla, Natalie C. J. Strynadka, and Ross E. DalbeyView Author Information Department of Chemistry, The Ohio State University, Columbus, Ohio 43210, and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver VGT IZ3, British Columbia, Canada Cite this: Chem. Rev. 2002, 102, 12, 4549–4580Publication Date (Web):November 8, 2002Publication History Received9 April 2002Published online8 November 2002Published inissue 1 December 2002https://pubs.acs.org/doi/10.1021/cr010166yhttps://doi.org/10.1021/cr010166yresearch-articleACS PublicationsCopyright © 2002 American Chemical SocietyRequest reuse permissionsArticle Views6014Altmetric-Citations396LEARN 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:Bacteria,Crystal cleavage,Membranes,Monomers,Peptides and proteins Get e-Alerts
Adaptive optics scanning laser ophthalmoscope for stabilized retinal imaging (2006)

A retinal imaging instrument that integrates adaptive optics (AO), scanning laser ophthalmoscopy (SLO), and retinal tracking components was built and tested. The system uses a Hartmann-Shack wave-front sensor (HS-WS) and MEMS-based deformable mirror (DM) for AO-correction of high-resolution, confocal SLO images. The system includes a wide-field line-scanning laser ophthalmoscope for easy orientation of the high-magnification SLO raster. The AO system corrected ocular aberrations to <0.1 mum RMS wave-front error. An active retinal tracking with custom processing board sensed and corrected eye motion with a bandwidth exceeding 1 kHz. We demonstrate tracking accuracy down to 6 mum RMS for some subjects (typically performance: 10-15 mum RMS). The system has the potential to become an important tool to clinicians and researchers for vision studies and the early detection and treatment of retinal diseases.
High-quality texture reconstruction from multiple scans (2001)

The creation of three-dimensional digital content by scanning real objects has become common practice in graphics applications for which visual quality is paramount, such as animation, e-commerce, and virtual museums. While a lot of attention has been devoted recently to the problem of accurately capturing the geometry of scanned objects, the acquisition of high-quality textures is equally important, but not as widely studied. In this paper, we focus on methods to construct accurate digital models of scanned objects by integrating high-quality texture and normal maps with geometric data. These methods are designed for use with inexpensive, electronic camera-based systems in which low-resolution range images and high-resolution intensity images are acquired. The resulting models are well-suited for interactive rendering on the latest-generation graphics hardware with support for bump mapping. Our contributions include new techniques for processing range, reflectance, and surface normal data, for image-based registration of scans, and for reconstructing high-quality textures for the output digital object.
Wireless power harvesting with planar rectennas for 2.45 GHz RFIDs (2010)

This paper presents a rectenna (rectifier + antenna) design to harvest electrical energy for powering RFIDs from ambient electromagnetic radiation at the 2.45 GHz ISM band (WiFi, Bluetooth, RFID, etc.). The rectenna structure is formed by a miniaturize 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">nd</sup> iteration Koch fractal patch antenna and two stage Dickson charge pump voltage-doubler rectifier circuit. The proposed rectenna achieves a small size with relatively high realized gain (4 dBi) and good RF to DC conversion efficiency (up to 70%). As a result, the proposed rectenna harvests enough energy from a commercial RFID interrogator 3.1 meters away (4W EIRP at 2.45 GHz ISM band) to power up a 1.6 V LED, enough voltage to enable some RFID chips.
The interaction of class B G protein-coupled receptors with their hormones. (1998)

In common with many G protein-coupled receptors, dysfunction in members of the Class B or glucagon-like receptors can elicit a wide spectrum of disease related activities. Consequently, they are potential targets in many different areas of pharmacological research. Unlike the class A or rhodopsin-like receptors, for which at least some structural similarity to bacteriorhodopsin has been detected, absolutely no structural information is available for the Class B G protein-coupled receptors. We present a computational study that exploits the experimental work performed by evolution to indicate residues that are potentially involved in ligand binding in the Class B G protein-coupled receptors. We perform an analysis of mutations that occurred in a correlated fashion between the receptors and their peptidic ligands. The inference that the residues detected in this manner are involved in a direct interaction between the receptor and the ligand is in good agreement with the mutation studies that have already been published.
Layer 6 Cortico-thalamic Pyramidal Cells Preferentially Innervate Interneurons and Generate Facilitating EPSPs (2005)

The properties of the connections made by the axons of pyramidal cells with cortico-thalamic (CT)-like morphology with a range of postsynaptic layer 6 targets were studied with dual intracellular recordings in slices of adult rat and cat neocortex. The cells were filled with biocytin and identified morphologically and, where appropriate, immunofluorescently. CT-like pyramids contacted interneurons with a very high probability (up to 1:2) but contacted other layer 6 pyramidal cells only rarely (approximately 1:80). The excitatory postsynaptic potentials (EPSPs) that they elicited both in pyramidal cells and in a variety of types of interneurons (including those immunopositive for parvalbumin and for somatostatin) facilitated, the second EPSP being larger than the first over a range of interspike intervals. Facilitation was not, however, maximal at the shortest intervals; in fact, depression was apparent at some connections at short interspike intervals. Facilitation in the majority of connections peaked at intervals of 25-35 ms and then declined slowly. Nor did these connections display the augmentation typical of many other strongly facilitating connections. Third EPSPs were smaller on average than second EPSPs, and fourth and subsequent EPSPs could be depressed (relative to first EPSPs). The properties of the outputs of these CT-like pyramidal cells are therefore quite distinct from those of other pyramidal cells, both within layer 6 and in other layers, possibly reflecting their unique role as both first order thalamo-cortical recipient and cortico-thalamic output neurons.