gebhart/patrepeval huggingface dataset:
A 0.18 /spl mu/m CMOS 10-Gb/S multichannel transmitter with duty-cycle correction (2003)

This paper describes a multichannel transceiver targeting IEEE 802.3ae (10-Gb/s) Ethernet standard using 0.18 mm CMOS process. The transmitter sets features: 1) Multiphase clock to multiplex the data; 2) Duty-cycle correction (DCC) circuit to adjust the clock pulse width; 3) Current-mode linedriver to drive transmitter medium. Through simulation, the total jitter (peak-to-peak) is 45 ps, power dissipation is 140 mW, and total latency is 24 ns. Differential output voltage swing of transmitter is 1.6 V.
Eight-year (2002-2009) Summary of the Linezolid (Zyvox<sup>®</sup>Annual Appraisal of potency and Spectrum; ZAAPS) Program in European Countries (2011)

The linezolid surveillance network (ZAAPS program) has been monitoring linezolid activity and susceptibility rates for eight years (2002-2009) in european medical centers. Samples from 12-24 sites annually in 11 countries were monitored by a central laboratory design using reference MIC methods with international and regional interpretations (EUCAST). A total of 13,404 gram-positive pathogens were tested from 6 pathogen groups. Linezolid remained without documented resistance from 2002 through 2005, but beginning in 2006 resistant strains emerged at very low rates among Staphylococcus aureus (G2576T mutant in ireland, 2007), coagulase-negative staphylococci (CoNS; usually Staphylococcus epidermidis, France and Italy in 2006-2009) and enterococci (Enterococcus faecium in Germany [2006, 2008, 2009] and E. faecalis in Sweden [2008], United Kingdom [2008] and Germany [2009]); all but one strain having a target mutation. A mobile cfr was detected in an italian CoNS strain (2008 and 2009), and clonal spread was noted for linezolid-resistant strains (PFGE results). Overall the linezolid susceptibility rates were >99.9, 99.7 and 99.6% for S. aureus, CoNS and enterococci, respectively; and all streptococcal strains were susceptible (MIC(90), 1 mg/l). In conclusion, the ZAAPS program surveillance confirmed high, sustained levels of linezolid activity from 2002-2009 and without evidence of MIC creep or escalating resistance in gram-positive pathogens across monitored european nations.
Simulation and implementation of an analog VLSI pulse-coupled neural network for image segmentation (2004)

We present a massively parallel VLSI realization of a pulse-coupled neural network for image segmentation. The network comprises 128 /spl times/ 128 simple nonleaky integrate-and-fire (IAF) neurons with self-organizing inter-neural connections. The prototype implementation also contains analog memories for image storing and a digital readout circuit using an address-event-representation (AER) protocol. The chip has been designed in an Infineon 0.13 /spl mu/m standard CMOS technology.
Electrical properties of carbon nanotubes synthesis by double furnace thermal-CVD technique at different temperatures on porous silicon template (2013)

Multiwalled Carbon Nanotubes (MWCNs) were synthesized using double-furnace thermal chemical vapor deposition technique at 700 – 900 °C on porous silicon nanostructure (PSiNs). Palm oil used as a carbon natural source, ferrocene as a catalyst and nitrogen gas as a carrier gas. The precursor were vaporized at 475 °C carried by nitrogen gas which flow at constant rate 150 sccm/min. Carbon nanotubes characterized by using Raman Spectroscopy and field emission scanning electron microscopy (FESEM) to check its structure and crystallites before tested with I-V probe. Au contact used as a metal contact deposited on CNTs layer. Carbon nanotubes (CNTs) with uniform diameter were found grown on porous silicon for each temperature used. Based on micro-Raman spectroscopy result, the peak of carbon nanotubes (around 1 300 to 1 600 nm) was detected. The I-V characteristic of CNTs deposited had different profile when deposited at different temperature.
Artificial lymphatic drainage systems for vascularized microfluidic scaffolds (2012)

The formation of a stably perfused microvasculature continues to be a major challenge in tissue engineering. Previous work has suggested the importance of a sufficiently large transmural pressure in maintaining vascular stability and perfusion. Here we show that a system of empty channels that provides a drainage function analogous to that of lymphatic microvasculature in vivo can stabilize vascular adhesion and maintain perfusion rate in dense, hydraulically resistive fibrin scaffolds in vitro. In the absence of drainage, endothelial delamination increased as scaffold density increased from 6 to 30 mg/mL and scaffold hydraulic conductivity decreased by a factor of 20. Single drainage channels exerted only localized vascular stabilization, the extent of which depended on the distance between vessel and drainage as well as scaffold density. Computational modeling of these experiments yielded an estimate of 0.40-1.36 cm H2O for the minimum transmural pressure required for vascular stability. We further designed and constructed fibrin patches (0.8 × 0.9 cm(2)) that were perfused by a parallel array of vessels and drained by an orthogonal array of drainage channels; only with the drainage did the vessels display long-term stability and perfusion. This work underscores the importance of drainage in vascularization, especially when a dense, hydraulically resistive scaffold is used.
A TPR domain–containing N-terminal module of MPS1 is required for its kinetochore localization by Aurora B (2013)

The mitotic checkpoint ensures correct chromosome segregation by delaying cell cycle progression until all kinetochores have attached to the mitotic spindle. In this paper, we show that the mitotic checkpoint kinase MPS1 contains an N-terminal localization module, organized in an N-terminal extension (NTE) and a tetratricopeptide repeat (TPR) domain, for which we have determined the crystal structure. Although the module was necessary for kinetochore localization of MPS1 and essential for the mitotic checkpoint, the predominant kinetochore binding activity resided within the NTE. MPS1 localization further required HEC1 and Aurora B activity. We show that MPS1 localization to kinetochores depended on the calponin homology domain of HEC1 but not on Aurora B-dependent phosphorylation of the HEC1 tail. Rather, the TPR domain was the critical mediator of Aurora B control over MPS1 localization, as its deletion rendered MPS1 localization insensitive to Aurora B inhibition. These data are consistent with a model in which Aurora B activity relieves a TPR-dependent inhibitory constraint on MPS1 localization.
Sketch2code: Generating a website from a paper mockup (2019)

An early stage of developing user-facing applications is creating a wireframe to layout the interface. Once a wireframe has been created it is given to a developer to implement in code. Developing boiler plate user interface code is time consuming work but still requires an experienced developer. In this dissertation we present two approaches which automates this process, one using classical computer vision techniques, and another using a novel application of deep semantic segmentation networks. We release a dataset of websites which can be used to train and evaluate these approaches. Further, we have designed a novel evaluation framework which allows empirical evaluation by creating synthetic sketches. Our evaluation illustrates that our deep learning approach outperforms our classical computer vision approach and we conclude that deep learning is the most promising direction for future research.
A General Strategy for the Chemoenzymatic Synthesis of Asymmetrically Branched <i>N</i> -Glycans (2013)

A systematic, efficient means of producing diverse libraries of asymmetrically branched N-glycans is needed to investigate the specificities and biology of glycan-binding proteins. To that end, we describe a core pentasaccharide that at potential branching positions is modified by orthogonal protecting groups to allow selective attachment of specific saccharide moieties by chemical glycosylation. The appendages were selected so that the antenna of the resulting deprotected compounds could be selectively extended by glycosyltransferases to give libraries of asymmetrical multi-antennary glycans. The power of the methodology was demonstrated by the preparation of a series of complex oligosaccharides that were printed as microarrays and screened for binding to lectins and influenza-virus hemagglutinins, which showed that recognition is modulated by presentation of minimal epitopes in the context of complex N-glycans.
ChemInform Abstract: New Crystalline Hosts Based on Tartaric Acid. Synthesis, Inclusion Properties, and X‐Ray Structural Characterization of Interaction Modes with Alcohol Guests. (1993)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Mechanisms of <i>T</i><sub>2</sub>* anisotropy and gradient echo myelin water imaging (2016)

In MRI, structurally aligned molecular or micro-organization (e.g. axonal fibers) can be a source of substantial signal variations that depend on the structural orientation and the applied magnetic field. This signal anisotropy gives us a unique opportunity to explore information that exists at a resolution several orders of magnitude smaller than that of typical MRI. In this review, one of the signal anisotropies, T<sub>2</sub> * anisotropy in white matter, and a related imaging method, gradient echo myelin water imaging (GRE-MWI), are explored. The T<sub>2</sub> * anisotropy has been attributed to isotropic and anisotropic magnetic susceptibility of myelin and compartmentalized microstructure of white matter fibers (i.e. axonal, myelin, and extracellular space). The susceptibility and microstructure create magnetic frequency shifts that change with the relative orientation of the fiber and the main magnetic field, generating the T<sub>2</sub> * anisotropy. The resulting multi-component magnitude decay and nonlinear phase evolution have been utilized for GRE-MWI, assisting in resolving the signal fraction of the multiple compartments in white matter. The GRE-MWI method has been further improved by signal compensation techniques including physiological noise compensation schemes. The T<sub>2</sub> * anisotropy and GRE-MWI provide microstructural information on a voxel (e.g. fiber orientation and tissue composition), and may serve as sensitive biomarkers for microstructural changes in the brain. Copyright © 2016 John Wiley & Sons, Ltd.
Seven protein tyrosine phosphatases are differentially expressed in the developing rat brain (1995)

Regulation of protein function through tyrosine phosphorylation is critical in the control of many developmental processes, such as cellular proliferation and differentiation. Growing evidence suggests that tyrosine phosphorylation also regulates key events in neural development. Although a large body of data has demonstrated that protein tyrosine kinases play an important role in neural development, much less is known about their counterparts, protein tyrosine phosphatases (PTPases). Using polymerase chain reaction (PCR) with degenerate primers and a neonatal rat cortex cDNA library, we have identified seven PTPases expressed in the developing rat brain. Four of these are transmembrane PTPases: LAR, LRP, RPTP gamma, and CPTP1. Three are nonreceptor PTPases: PTP-1, P19-PTP, and SHP. Northern hybridization analysis demonstrates that only CPTP1 is preferentially expressed in neural tissues, whereas the others are found abundantly in nonneural tissues as well as in the brain. Within the embryonic and early postnatal brain, the seven PTPases have overlapping, yet unique, distributions. For example, LAR mRNA is highly expressed by both proliferating and postmitotic cells in the cerebral cortex at embryonic day 17 and in all layers of the cortex at postnatal day 4. In contrast, RPTP gamma mRNA is expressed by postmitotic neurons in the embryo and predominantly by neurons in the superficial layers of the postnatal cortex. Several of the PTPases examined here are expressed at very high levels in the embryonic cortical plate and postnatal neocortex, including the subplate and subventricular zone. The spatial and temporal regulation of PTPase gene expression suggests that these PTPases have important roles in signal transduction during early neuronal differentiation and neural development.
Assessment of Two Measurement Techniques of Cervical Spine and C1–C2 Rotation in the Outcome Research of Axis Fractures (2010)

The current study demonstrated that for the comparison of functional outcome after different therapies of C2 fractures clinical measurements do not serve for reliable data on total neck rotation and particularly atlantoaxial rotation and the percentage of C1-C2 rotation of total neck rotation. The use of dynamic CT-scans in the analysis of functional outcome after C2 fractures is strongly recommended.
Observer Architecture of Program Visualization (2007)

We propose Observer architecture for program visualization. The principles of Observer architecture are modular, model-driven visualization with one-directional coupling, hierarchical delegation, message-passing and archival by visualizers. The architecture is scalable. The resulting visualization can be distributed and modified independent of the model. The Observer architecture has been implemented in online tutors for programming called problets.
Rapid serotyping of human rotavirus strains by solid-phase immune electron microscopy (1984)

Nine cell culture-adapted, as well as 30 clinical, human rotavirus (HRV) strains from fecal extracts of children with primary HRV infection were typed by rapid solid-phase immune electron microscopy with protein A and absorbed DS-1 (HRV serotype 2), Wa (serotype 1), and VA70 (assumed serotype 3) rabbit immune sera. As a reference typing test for cell culture-adapted strains, the neutralization assay was used, whereas for noncultivatable strains typing was done for comparison, indirectly, based upon the differential neutralization reactivity of convalescent-phase serum samples from patients with primary HRV infection versus the three reference HRV serotypes. Typing results by solid-phase immune electron microscopy for all strains examined were in complete agreement with those obtained by the neutralization assay, both on cell culture-adapted strains with the three reference rabbit antisera and on three reference HRV strains with human convalescent-phase serum samples. Since adaptation to growth in cell cultures of clinical HRV strains from stool specimens is a time-consuming procedure and is often unsuccessful, solid-phase immune electron microscopy is preferred over the neutralization assay, giving results in about 16 h and also allowing typing of HRV strains from stool specimens low in virus particles. In addition, HRV strains reacting differently from the three reference serotypes may be easily selected by solid-phase immune electron microscopy for further characterization, as was the case for one strain in this study.
Crystal Structure of <i>Agaricus bisporus</i> Mushroom Tyrosinase: Identity of the Tetramer Subunits and Interaction with Tropolone (2011)

Tyrosinase catalyzes the conversion of phenolic compounds into their quinone derivatives, which are precursors for the formation of melanin, a ubiquitous pigment in living organisms. Because of its importance for browning reactions in the food industry, the tyrosinase from the mushroom Agaricus bisporus has been investigated in depth. In previous studies the tyrosinase enzyme complex was shown to be a H(2)L(2) tetramer, but no clues were obtained of the identities of the subunits, their mode of association, and the 3D structure of the complex. Here we unravel this tetramer at the molecular level. Its 2.3 Å resolution crystal structure is the first structure of the full fungal tyrosinase complex. The complex comprises two H subunits of ∼392 residues and two L subunits of ∼150 residues. The H subunit originates from the ppo3 gene and has a fold similar to other tyrosinases, but it is ∼100 residues larger. The L subunit appeared to be the product of orf239342 and has a lectin-like fold. The H subunit contains a binuclear copper-binding site in the deoxy-state, in which three histidine residues coordinate each copper ion. The side chains of these histidines have their orientation fixed by hydrogen bonds or, in the case of His85, by a thioether bridge with the side chain of Cys83. The specific tyrosinase inhibitor tropolone forms a pre-Michaelis complex with the enzyme. It binds near the binuclear copper site without directly coordinating the copper ions. The function of the ORF239342 subunits is not known. Carbohydrate binding sites identified in other lectins are not conserved in ORF239342, and the subunits are over 25 Å away from the active site, making a role in activity unlikely. The structures explain how calcium ions stabilize the tetrameric state of the enzyme.
Telecubes: mechanical design of a module for self-reconfigurable robotics (2003)

A Telecube is a cubic module that has six prismatic degrees of freedom whose sides can expand more than twice its original length and has the ability to magnetically (de)attach to other modules. Many of these modules can be connected together to form a modular self-reconfigurable robot. The paper presents the intended functions, discusses the physical requirements of the modules and describes two key mechanical components: a compact telescoping linear actuator and a switching permanent magnet device.
The cytoplasmic domain of P-selectin contains a sorting determinant that mediates rapid degradation in lysosomes (1994)

P-selectin is a cell adhesion molecule required transiently on the surface of activated platelets and endothelial cells as a receptor for leukocytes. It is stored in secretory granules in platelets, endothelial cells, and transfected neuroendocrine cells and is rapidly delivered to the plasma membrane upon exocytosis of the secretory granules. It is then rapidly internalized in endothelial cells and transfected cells. We find that in transfected neuroendocrine PC12 cells, the fraction of P-selectin that is not targeted to secretory granules is rapidly degraded. In transfected CHO fibroblasts, which lack secretory granules, P-selectin was degraded with a half time of 2.3 h in plated cells, while low density lipoprotein receptor (LDL-R) had a half life of 9 h. In cells cultured in ammonium chloride to inhibit lysosomal proteinases, P-selectin was protected from degradation and rapidly accumulated in vesicles enriched in lgp-B, a resident lysosomal membrane protein. The cytoplasmic domain of P-selectin was sufficient to confer rapid turnover on LDL-R. Deletion of 10 amino acids from the cytoplasmic domain of P-selectin extended the half life to 9.5 h and abrogated rapid lysosomal targeting in the presence of ammonium chloride, implicating this sequence as a necessary element of a novel lysosomal targeting signal. The rate limiting step in degradation occurred after internalization from the cell surface, indicating that sorting of P-selectin away from efficiently recycled proteins occurs in endosomes. We propose that this sorting event represents a constitutive equivalent of receptor down regulation, and may function to regulate the expression of P-selectin at the surface of activated endothelial cells.
EGFR Signaling Is Required for TGF-β1–Mediated COX-2 Induction in Human Bronchial Epithelial Cells (2007)

Cyclooxygenase-2 (COX-2) is a key enzyme in the production of prostaglandins and thromboxanes from free arachidonic acid. Increasing evidence suggests that COX-2 plays a role in tumorigenesis. A variety of stimuli induce COX-2 and it is overexpressed in many tumors, including non-small cell lung cancer (NSCLC). We studied the regulation of COX-2 expression in immortalized human bronchial epithelial cells (HBECs) by transforming growth factor-beta1 (TGF-beta1) and epidermal growth factor (EGF) because these two growth factors are present in both the pulmonary milieu of those at risk for lung cancer as well as in the tumor microenvironment. EGF significantly enhanced TGF-beta1-mediated induction of COX-2 and corresponding prostaglandin E2 (PGE2) production. TGF-beta1 and EGF induced COX-2 at the transcriptional and post-transcriptional levels. EGF receptor (EGFR) inhibition, neutralizing antibody against amphiregulin, or mitogen-activated protein kinase kinase (MEK) inhibition blocked TGF-beta1-mediated COX-2 induction. COX-2 induction by TGF-beta1 depended upon Smad3 signaling and required the activity of EGFR or its downstream mediators. Autocrine amphiregulin signaling maintains EGFR in a constitutively active state in HBECs, allowing for COX-2 induction by TGF-beta1. Thus, EGFR ligands, which are abundant in the pulmonary microenvironment of those at risk for lung cancer, potentiate and are required for COX-2 induction by TGF-beta1 in HBEC. These findings emphasize the central role of EGFR signaling in COX-2 induction by TGF-beta1 and suggest that inhibition of EGFR signaling should be investigated further for lung cancer prevention.
Sensitive quantum-dot infrared detector with barrier-limited photoelectron capture (2002)

A wide range of novel properties, unattainable in bulk materials, is now being realized through manipulation of the doping level and length scales associated with quantum-dot structures. One of most promising applications of these structures is a quantum dot infrared photodetector (QDIP). Due to the atom-like localized electronic states, QDIPs ideally have advantages over quantum wells such as sensitivity to the normal incidence radiation, higher photoconductive gain and low dark current. Initial experiments have already shown the advantages of QDIPs over quantum well structures. At the same time, the operating regimes of QDIPs are still very far from optimum. To design a sensitive QDIP with a comparatively high operating temperature, we investigate a structure with QDs surrounded by repulsive potential barriers.
Serum gastrin in patients with chronic renal failure (1980)

The realisation that circulating gastrin is heterogeneous necessitates a reappraisal of gastrin's role in the increased incidence of duodenal ulcer disease that occurs in chronic renal failure. Radioimmunoassays employing region-specific antisera have been used to examine renal and extrarenal factors controlling serum gastrin concentration in patients with chronic renal failure. The present study has shown that basal serum gastrin concentrations measured with a carboxyl-terminal specific antibody were significantly higher in eight patients with chronic renal failure treated by dietary restriction (388+/-196 pM) than in 14 patients with chronic renal failure treated by haemodialysis (28.7+/-4.6 pM). However, basal gastrin concentrations in both groups of patients were significantly higher than in 25 normal subjects (12.3+/-1.8 pM) and showed significant negative correlations with maximal gastric acid secretion (p < 0.01). Markedly raised basal gastrin concentrations were observed only in chronic renal failure patients who were also achlorhydric. Although the peak postprandial increment in big gastrin concentration in 11 chronic renal failure patients (34.0+/-7.5 pM) was significantly greater (p < 0.05) than in 25 normal subjects (19.5+/-4.6 pM), the little gastrin responses were not significantly different. In addition, clearance of exogenous little gastrin was similar in four chronic failure patients (clearance half time: 8.1+/-0.7 min) and four normal subjects (clearance half time: 6.5+/-1.2 min). These studies suggest that the human kidney is unimportant in the metabolism of little gastrin. As circulating little gastrin is six times more potent than big gastrin in stimulating acid secretion, these studies suggest that the raised gastrin concentrations observed in patients with chronic renal failure have little significance in terms of their increased incidence of duodenal ulcer disease.