gebhart/patrepeval huggingface dataset:
Stable Transfection of a Glypican-1 Antisense Construct Decreases Tumorigenicity in PANC-1 Pancreatic Carcinoma Cells (1999)

Glypican-1 belongs to a family of glycosylphosphatidylinositol (GPI)-anchored heparan sulfate proteoglycans (HSPGs) that affect cell growth, invasion, and adhesion. Cell-surface HSPGs are believed to act as co-receptors for heparin-binding mitogenic growth factors. It was reported that glypican-1 is strongly expressed in human pancreatic cancer, and that it may play an essential role in regulating growth-factor responsiveness in pancreatic carcinoma cells. In this study we investigated the effects of decreased glypican-1 expression in PANC-1 pancreatic cancer cells. To this end, PANC-1 cells were stable transfected with a full-length glypican-1 antisense construct. The glypican- antisense transfected clones displayed markedly reduced glypican- protein levels and a marked attenuation of the mitogenic responses to heparin-binding growth factors that are commonly overexpressed in pancreatic cancer: fibroblast growth factor-2 (FGF2), heparin-binding epidermal growth factor (EGF)-like growth factor (HB-EGF), and hepatocyte growth factor (HGF). In addition, glypican-1 antisense-expressing PANC-1 cells exhibited a significantly reduced ability to form tumors in nude mice in comparison with parental and sham-transfected PANC-1 cells. These data suggest that glypican-1 plays an important role in the responses of pancreatic cancer cells to heparin-binding growth factors, and documents for the first time that its expression may enhance tumorigenic potential in vivo.
Sequential DEXAS: a method for obtaining DNA sequences from genomic DNA and blood in one reaction (2003)

Sequential DEXAS (direct exponential amplification and sequencing), a one step amplification and sequencing procedure that allows accurate, inexpensive and rapid DNA sequence determination directly from genomic DNA, is described. This method relies on the simultaneous use of two DNA polymerases that differ both in their ability to incorporate dideoxynucleotides and in the time at which they are activated during the reaction. One enzyme, which incorporates deoxynucleotides and performs amplification of the target DNA sequence, is supplied in an active state whereas the other enzyme, which incorporates dideoxynucleotides and performs the sequencing reaction, is supplied in an inactive state but becomes activated by a temperature step during the thermocycling. Thus, in the initial stage of the reaction, target amplification occurs, while in the second stage the sequencing reaction takes place. We show that Sequential DEXAS yields high quality sequencing results directly from genomic DNA as well as directly from human blood without any prior isolation or purification of DNA.
Intra-Domain Routing Topology Bandwidth Management Architecture (2006)

In this paper, we define architecture of a system for managing network resources in a hierarchical OSPF routing domain supporting DiffServ, wherein resources in terms of bandwidth are dynamically allocated among data flows, each traversing the domain from an ingress edge router to an egress edge router. Specifically, we consider a bandwidth management system in a hierarchical routing domain, wherein each level of the hierarchy comprises a number of areas defined for that level. We propose two alternative approaches for bandwidth management in such a routing domain. In the first approach, the admission control function is centralized at a domain-level bandwidth management agent. In the second approach, bandwidth management functions are distributed among a number of bandwidth managers, and edge-to-edge session admission control is executed on an area-by-area basis.
JEAP, a Novel Component of Tight Junctions in Exocrine Cells (2002)

Tight junctions (TJs) consist of transmembrane proteins and many peripheral membrane proteins. To further characterize the molecular organization of TJs, we attempted here to screen for novel TJ proteins by the fluorescence localization-based expression cloning method. We identified a novel peripheral membrane protein at TJs and named it junction-enriched and -associated protein (JEAP). JEAP consists of 882 amino acids with a calculated molecular weight of 98,444. JEAP contained a polyglutamic acid repeat at the N-terminal region, a coiled-coil domain at the middle region, and a consensus motif for binding to PDZ domains at the C-terminal region. Exogenously expressed JEAP co-localized with ZO-1 and occludin at TJs in polarized Madin-Darby canine kidney cells, but not with claudin-1, JAM, or ZO-1 in L cells. Endogenous JEAP localized at TJs of exocrine cells including pancreas, submandibular gland, lacrimal gland, parotid gland, and sublingual gland, but not at TJs of epithelial cells of small intestine or endothelial cells of blood vessels. The present results indicate that JEAP is a novel component of TJs, which is specifically expressed in exocrine cells.
Discovery of a Potent, CNS‐Penetrant Orexin Receptor Antagonist Based on an <i>N</i>,<i>N</i>‐Disubstituted‐1,4‐diazepane Scaffold that Promotes Sleep in Rats (2009)

Silent Night: Antagonism of the orexin (or hypocretin) system has recently been identified as a novel mechanism for the treatment of insomnia. Herein, we describe discovery of a dual (OX(1)R/OX(2)R) orexin receptor antagonist featuring a 1,4-diazepane central constraint that blocks orexin signaling in vivo. In telemetry-implanted rats, oral administration of this antagonist produced a decrease in wakefulness, while increasing REM and non-REM sleep.
Computational Study of Submerged Air Inlet Performance Improvement Using Vortex Generators (2007)

International audience
Steady State Modeling of a Rotating Heat Pipe With a Composite Wick Structure (2004)

A steady state heat pipe model, capable of calculating temperature and pressure distributions in the working fluid of a rotating heat pipe, is described here. The model can predict the performance of rotating heat pipes with a round cross-section, containing an annular gap composite wick structure. In addition to straight heat pipes, with a longitudinal axis that may or may not coincide with the axis of rotation, the model also allows for simulation of bent heat pipes. Using this model, results are generated for a bent heat pipe proposed for use in cooling rotating machinery. For the bent heat pipe, the condenser and adiabatic sections coincide with the axis of rotation, while the evaporator consists of an off-axis eccentrically rotating component, and a bend that allows for portion of the evaporator to be nearly perpendicular to the axis of rotation. The presence of the composite wick allows for heat pipe operation in both the rotating and stationary operating modes. Model results for the stationary operating mode compare favorably to the steady state heat pipe analysis code HTPIPE [1]. These comparisons for the stationary operating limit are significant, since HTPIPE has been benchmarked against experimental heat pipe data for nearly 30 years. As the rotational speed is increased, the rotation induced forces are used to drive the liquid flow to the evaporator. At high rotation rates, the liquid recedes from the wick, and forms a thin layer against the inside wall of the heat pipe. The results show that when a stable liquid layer is formed against the wall of the pipe, the shear stress opposes the rotation induced forces acting on the liquid, and limits the magnitude of the pressure and temperature rises in the working fluid (from the values predicted using a hydrostatic approximation).
Development of Dental Magnetic Attachment with Rare Earth Magnet (1991)

A dental magnetic attachment is a denture retainer with a permanent magnet. It has been suggested that such attachment possesses many advantages compared with conventional mechanical attachments, which often pose problems of retentive force durability as well as of esthetics. However, magnetic attachments have not been put into practical use because of the insufficient magnetic attractive force and because of corrosion of the magnet in the oral cavity. An advanced type of dental magnetic attachment has been developed with a sandwich-structuer magnetic circuit, in which a rare earth magnet is surrounded by a pair of yokes. The attachment generates a high attractive force of more than 4.9 N despite its small size. The magnet is sealed with a stainless steel cap, laser-welded to the yoke for perfect protection from corrosion.
Novel Full Color Flat Panel Display Technology Employing High Performance, Crystalline Organic Semiconductor Light Emitting Diodes (1998)

Abstract : During the course of this program, several breakthroughs in the development of full color flat panel displays based on organic light emitting devices (OLEDs) were made. In particular, we demonstrated the first transparent OLED, flexible OLED based on molecular organic materials, and full color stacked OLED. These three devices, along with several other similar structures, including high efficiency devices employing shaped substrates and inverted, integratable OLEDs, provide a range of tools which change the possibilities for realizing very high resolution, high efficiency, and light weight OLED based displays for a wide range of DOD and commercial applications. In other advances, we developed a model linking current transport and eletroluminescence in molecular OLEDs, and have worked closely with several industrial partners to rapidly transfer technology from the conceptual, laboratory phase into commercial applications.
Improving YBCO Coated Conductors for Applications (Postprint) (2012)

Abstract : Superconducting power devices made of high temperature superconductors (HTS) can enable megawatt-class power systems which are lighter in weight and smaller in size than their conventional counterparts. The YBCO coated conductor is expected to be the premiere HTS conductor in making these systems. With advances in YBCO deposition techniques and the establishment of reel-toreel processing, new research should address enhancement of the YBCO coated conductor's performance. These improvements in the YBCO conductor must include maintaining high critical current densities in fields of a few tesla and minimizing ac losses. This paper first discusses a current sharing scheme in the multifilamentary YBCO conductor to circumvent filamentary breakage. Also, a method for providing magnetic flux pinning to increase the current capacity of the YBCO conductor is outlined using minute additions of rare earth dopants.
Effect of Urea Links in the Backbone of Polyimide Aerogels (2021)

Flexible, conformal polyimide (PI) aerogels with low density, good mechanical properties, and high surface areas have attracted much attention for many potential applications such as lightweight antenna substrates, insulating materials for launch vehicles, inflatable structures, aircraft, or space suits. Development and improvements to the fabrication of polyimide aerogel thin films have been reported over the last decade to meet the needs of many of these applications. However, most starting materials are expensive. In this research, we utilized commercially available, low-cost monomers including 4,4′-bis(4-aminophenoxy)propane (BAPP) and 3,3′,4,4′-benzophenone tetracarboxylic dianhydride (BTDA), and 4,4-methylene diphenyl diisocyanate (MDI) in fabricating polyimide (PI) and poly(imide-urea) (PIU), which were then cross-linked with 1,3,5-tris(4-aminophenoxy)benzene (TAB). It was found that the addition of MDI into the PI chains not only maintained the flexibility of the aerogel films but also enhanced the film casting, allowing the production on pilot scale. With the capability of producing robust films at affordable cost, the application of the PIU aerogel films can be expanded to terrestrial goods such as winter clothing, or pipe wrapping, etc. In addition, the presence of only a small addition of the urea links in the polyimide chains in PIU aerogels led to lower shrinkage when compared to the corresponding PI aerogels, leading to lower density.
A Practical GDFE Precoder for Multiuser MIMO Systems (2012)

Generalized decision feedback equalizer (GDFE) achieves MIMO broadcast channel (BC) capacity but suffers from huge computational complexity and feedback overhead making it unsuitable for practical systems. Much of the complexity is due to the computation of the covariance matrix corresponding to the least favorable noise. Additionally GDFE implementation requires the base stations (BS) to feedback filter coefficients to the users thus increasing overhead. In this paper, we address both the aspects - computational complexity and feedback overhead. We first propose an alternative framework for realizing the GDFE precoder, which avoids the explicit computation of the least favorable noise. We show that, while maintaining capacity optimality of the GDFE precoder, the proposed algorithm has significantly lower complexity. Next, we propose another algorithm which does not require the feedback of filter coefficients from BS to users with minimal loss in achievable capacity. Thus our algorithms are a step towards adopting GDFE precoders in future wireless systems.
Hen Fluorescein-Labeled Gonococcal Lipopolysaccharide Antibody in the Delayed Fluorescent Antibody Technique for the Confirmation of <i>Neisseria gonorrhoeae</i> (1979)

A fluorescent antibody reagent (termed anti-LPS conjugate) was prepared from sera obtained from hens immunized with gonococcal R-type lipopolysaccharide. The reagent was absorbed with Formalin-treated cells of Neisseria meningitidis. The anti-LPS conjugate gave uniform brilliant staining of Neisseria gonorrhoeae with little background fluorescence, thus making interpretation and reading of fluorescence simple. The conjugate did not significantly stain cultures of N. meningitidis, Neisseria lactamica, nonpathogenic Neisseria species, or other gram-negative bacteria. Several preparations of the conjugate provided the same specificity and reproducibility of staining. The anti-LPS conjugate was compared with Difco Laboratories fluorescent antibody conjugate for staining of N. gonorrhoeae. Both conjugates stained cells of the light and dark variants of gonococcal colony types 1 and 2, as well as cells of colony types 3 and 4. When used for the confirmation of N. gonorrhoeae, the anti-LPS and Difco conjugates stained 426 of 431 (98.8%) and 210 of 213 (98.6%) of the gonococcal cultures, respectively. Absorption of the anti-LPS conjugate with R-type lipopolysaccharide removed the staining of gonococci. However, absorption of Difco conjugate with R-type lipopolysaccharide did not remove the staining of gonococci, suggesting that the majority of fluorescein-labeled antibody present in the Difco conjugate is directed to gonococcal cell surface components other than lipopolysaccharide. The results of this study indicate that fluorescein-labeled gonococcal lipopolysaccharide antibody should be a reliable fluorescent antibody reagent for the confirmation of N. gonorrhoeae.
miR-15a regulation of endothelial radiation sensitivity in colorectal cancer. (2018)

709 Background: Radiation dose escalation causes significant changes within the tumor microenvironment (TME) to enhance tumor cell death including altered microRNA (miR) levels. Among endothelial miRs, we identified miR-15a exhibits dose dependent differential regulation. miR-15a targets a key determinant of endothelial cell (EC) radiosensitivity, acid sphingomyelinase (SMPD1), an enzyme that drives rapid EC apoptosis via enhanced ceramide production. In colorectal cancer (CRC) (n = 182 patients), high miR-15a is associated with worse 5-year progression free and overall survival. miR-15a also affects immune function by promoting a pro-inflammatory TME milieu. We hypothesized miR-15a inhibition will increase tumor cell death through preservation of EC SMPD1, enhancing endothelial apoptosis and inflammatory cytokine upregulation. Methods: Using TaqMan Human miR panels, miRs were profiled in human umbilical vein ECs (HUVECs) after single 2 vs 20 Gy treatment. miR-target prediction programs identified miRs targeting SMPD1. In vitro gain and loss of function studies were performed with miR transfections in HUVECs and CT26 CRC cells. CXCL10 expression was measured by qRT-PCR. Caspase 1 activation was measured by a luminescence based assay. A CT26 syngeneic CRC flank murine model was used for in vivo miR-15a inhibitor assessment administered via tail vein injection unencapsulated or encapsulated in vascular-targeted 7C1 nanoparticles. Results: Among miRs targeting SMPD1, miR-15a exhibited the greatest differential change in HUVECs 6h post-IR between low and high dose radiation. Lower dose was associated with higher miR-15a and vice versa. Further, miR-15a levels inversely correlated with SMPD1. Exogenous miR-15a significantly decreased SMPD1 mRNA and protein. miR-15a inhibition decreased proliferation in both HUVECs and CT26 cells and increased apoptosis when combined with radiation. miR-15a inhibition increased endothelial CXCL10 expression and caspase-1 activation. Both systemic and vascular-targeted miR-15a inhibitor significantly diminished tumor growth in vivo. Conclusions: Our data suggests inhibition of vascular miR-15a is sufficient to decrease tumor growth likely due to rescue of endothelial SMPD1.
Nature of white opaque substance in gastric epithelial neoplasia as visualized by magnifying endoscopy with narrow‐band imaging (2012)

WOS may be LD that have been accumulated in the superficial part of the gastric neoplasia of a certain intestinal phenotype.
Concept of a Miniaturized Ion Mobility Spectrometer and a Numerical Model for Fast System Design and Optimization (2007)

Ion mobility spectrometry (IMS) is a widely used method for detecting low ppb-level concentrations of hazardous compounds, such as chemical warfare agents, explosives and pollutants in air. Simple instrumentation combined with high sensitivity and high selectivity are major advantages of this technique. This paper presents both a novel concept of a miniaturized IMS that is capable of identifying hazardous compounds in air at low ppb-levels and a numerical model based on finite element analysis for fast system design The model described here considers for the fist time all significant physical effects on the ion transport in an IMS, such as diffusion, coulomb repulsion, electric fields and gas flows. The simulations perfectly match the observations made with our experimental setup. This allowed rapid system optimization towards the highest performance possible under the given physical and economic constraints.
A digital calibration technique for wide-band CT MASH ΣΔ ADCs with relaxed filter requirements (2016)

This paper proposes a simple digital automatic calibration method for wide-band continuous-time (CT) MASH ΣΔ ADCs. The main contribution of this method is the calibration of the errors due to the limited DC gain and 2nd pole of the loop filter integrators. The digital noise cancellation filters are calibrated by successive estimation of the DC gains and the 2nd pole, and updating the coefficients of the FIR filters. Extensive system-level and transistor-level simulations demonstrate the effectiveness and robustness of the proposed method. For an exemplary MASH ΣΔ ADC with BW of 600 MHz and SQNR of 75 dB, it can relax the DC gain requirement by 15 dB, and the 2nd pole requirement by three time, making it an enabling technique for power-efficient GHz-range ΣΔ ADC applications.
Accuracy and performance of passive transmission line macromodels based on optimal matrix rational approximations (2002)

This paper describes the implementation of a macromodeling technique for lossy transmission lines with frequency-dependent data in the API framework of IBM's PowerSpice circuit solver. The technique is based on finding passive, low-pass, optimal matrix rational approximations of the line admittance matrix. This implementation is used to compare the accuracy and performance of these new passive transmission line macromodels with those of the generalized method of characteristics on the one hand and the matrix Pade approximation on the other.
Robotic Tracking of Coherent Structures in Flows (2014)

Lagrangian coherent structures (LCSs) are separatrices that delineate dynamically distinct regions in general dynamical systems and can be viewed as the extensions of stable and unstable manifolds to general time-dependent systems. Identifying LCS in dynamical systems is useful for many applications, including oceanography and weather prediction. In this paper, we present a collaborative robotic control strategy that is designed to track stable and unstable manifolds in dynamical systems, including ocean flows. The technique does not require global information about the dynamics, and is based on local sensing, prediction, and correction. The collaborative control strategy is implemented with a team of three robots to track coherent structures and manifolds on static flows, a time-dependent model of a wind-driven double-gyre flow often seen in the ocean, experimental data that are generated by a flow tank, and actual ocean data. We present simulation results and discuss theoretical guarantees of the collaborative tracking strategy.
Design of the SABAT System for Underwater Detection of Dangerous Substances (2016)

We present status of simulations used to design a novel device for the detection of hazardous substances in the aquatic environment using neutron activation. Unlike the other considered methods based on this technique, we propose to use guides for neutron and gamma quanta which speeds up and simplifies identification. First preliminary results show that both the neutron guide and the $\gamma$-ray guide increase the performance of underwater threats detection.
αET: Alpha Emission Tomography (2014)

Current techniques available for imaging of alpha particles, such as alpha autoradiography, are only able to produce planar (2D) images of 3D tissue samples containing radioactive substances. We introduce a new imaging technique, which we call Alpha Emission Tomography (αET), for the reconstruction of the volumetric (3D) distribution of radiotracers that emits alpha particles. Our imaging system is able to measure position and energy of each detected alpha particle. The list of measured positions and energies is fed to an iterative algorithm for 3D reconstruction. We predict that αET will become a valuable imaging technique for molecular biology.
Controlling the Output Length of Neural Machine Translation (2019)

The recent advances introduced by neural machine translation (NMT) are rapidly expanding the application fields of machine translation, as well as reshaping the quality level to be targeted. In particular, if translations have to fit some given layout, quality should not only be measured in terms of adequacy and fluency, but also length. Exemplary cases are the translation of document files, subtitles, and scripts for dubbing, where the output length should ideally be as close as possible to the length of the input text. This paper addresses for the first time, to the best of our knowledge, the problem of controlling the output length in NMT. We investigate two methods for biasing the output length with a transformer architecture: i) conditioning the output to a given target-source length-ratio class and ii) enriching the transformer positional embedding with length information. Our experiments show that both methods can induce the network to generate shorter translations, as well as acquiring interpretable linguistic skills.