gebhart/patrepeval huggingface dataset:
ADAM10 and ADAM17 proteases mediate proinflammatory cytokine-induced and constitutive cleavage of endomucin from the endothelial surface (2020)

Contact between inflammatory cells and endothelial cells (ECs) is a crucial step in vascular inflammation. Recently, we demonstrated that the cell-surface level of endomucin (EMCN), a heavily <i>O</i>-glycosylated single-transmembrane sialomucin, interferes with the interactions between inflammatory cells and ECs. We have also shown that, in response to an inflammatory stimulus, EMCN is cleared from the cell surface by an unknown mechanism. In this study, using adenovirus-mediated overexpression of a tagged EMCN in human umbilical vein ECs, we found that treatment with tumor necrosis factor α (TNF-α) or the strong oxidant pervanadate leads to loss of cell-surface EMCN and increases the levels of the C-terminal fragment of EMCN 3- to 4-fold. Furthermore, treatment with the broad-spectrum matrix metalloproteinase inhibitor batimastat (BB94) or inhibition of ADAM metallopeptidase domain 10 (ADAM10) and ADAM17 with two small-molecule inhibitors, GW280264X and GI254023X, or with siRNA significantly reduced basal and TNFα-induced cell-surface EMCN cleavage. Release of the C-terminal fragment of EMCN by TNF-α treatment was blocked by chemical inhibition of ADAM10 alone or in combination with ADAM17. These results indicate that cell-surface EMCN undergoes constitutive cleavage and that TNF-α treatment dramatically increases this cleavage, which is mediated predominantly by ADAM10 and ADAM17. As endothelial cell-surface EMCN attenuates leukocyte-EC interactions during inflammation, we propose that EMCN is a potential therapeutic target to manage vascular inflammation.
Decay Properties of N = 77 odd-Z Isotones (2007)

The systematics of the πh11/2⊗νh11/2 and πh11/2⊗νs1/2 isomeric configurations were studied for the odd‐Z N = 77 isotones near the proton dripline. The spin and parity of Iπ = 8+ and 5− were deduced for the isomers in 140Eu and 142Tb. No evidence for the expected 1+ ground‐state was found in the 144Ho decay data. The proton emission from 146Tm was restudied and the spin and parity values of Iπ = 10+ and 5− were established for 146mTm and 146gsTm, respectively. The interpretation of the observed decay properties and structure of the proton‐emitting states was made by accounting for deformation and proton and neutron coupling to the core excitations.
Facies mosaic in a fiord: Carboniferous-Permian Talchir Formation, India (1988)

Facies analysis of the basal 37m of the Carboniferous-Permian Talchir Formation is a glacier-fed bedrock trough in Dudhi nala, Bihar, India, provides insight into the pattern of sedimentation of course gravels in a fiord. Rapid transitions between 11 recognized facies, together with their complex organization, random variability in bed thickness, and differences in clast, shape, size, and composition indicate coalescence of fans developed from numerous point sources bordering the elongated trough. Converging slide masses and lodgment tillites on the slopes flanking the trough give way to sediment gravity flow deposits composed of an array of conglomerates (matrix and clast supported with normal, inverse of absence of grading), attendant turbidite sands, and prodelta mud. The rheology of the in-trough flows ranged from plastic laminar to fluidal turbulent in response to flow from slope to floor of the trough. Rapid calving of icebergs during the onset of deglaciation established a wave regime at the mouth of the trough and deposited cross-stratified sandstone replete with dripstones. The impact of large dripstones landing triggered turbidity currents. Continued rise in water level led to eventual preservation of the fan complex under onlapping wave-built shoal facies that grade into a sequence of upward-thinning hummocky cross-stratified sandstonemore » beds virtually devoid of dripstones.« less
Engineering a lightweight suffix array construction algorithm: (Extended abstract) (2002)

In this paper we consider the problem of computing the suffix array of a text T [1, n]. This problem consists in sorting the suffixes of T in lexicographic order. The suffix array [16] (or pat array [9]) is a simple, easy to code, and elegant data structure used for several fundamental string matching problems involving both linguistic texts and biological data [4, 11]. Recently, the interest in this data structure has been revitalized by its use as a building block for three novel applications: (1) the Burrows-Wheeler compression algorithm [3], which is a provably [17] and practically [20] effective compression tool; (2) the construction of succinct [10, 19] and compressed [7, 8] indexes; the latter can store both the input text and its full-text index using roughly the same space used by traditional compressors for the text alone; and (3) algorithms for clustering and ranking the answers to user queries in web-search engines [22]. In all these applications the construction of the suffix array is the computational bottleneck both in time and space. This motivated our interest in designing yet another suffix array construction algorithm which is fast and &amp;quot;lightweight&amp;quot; in the sense that it uses small space...
Phytoplankton-Fluorescence-Lifetime Vertical Profiler (2004)

A battery-operated optoelectronic instrument is designed to be lowered into the ocean to measure the intensity and lifetime of fluorescence of chlorophyll A in marine phytoplankton as a function of depth from 0 to 300 m. Fluorescence lifetimes are especially useful as robust measures of photosynthetic productivity of phytoplankton and of physical and chemical mechanisms that affect photosynthesis. The knowledge of photosynthesis in phytoplankton gained by use of this and related instruments is expected to contribute to understanding of global processes that control the time-varying fluxes of carbon and associated biogenic elements in the ocean. The concentration of chlorophyll in the ocean presents a major detection challenge because in order to obtain accurate values of photosynthetic parameters, the intensity of light used to excite fluorescence must be kept very low so as not to disturb the photosynthetic system. Several innovations in fluorometric instrumentation were made in order to make it possible to reach the required low detection limit. These innovations include a highly efficient optical assembly with an integrated flow-through sample interface, and a high-gain, low-noise electronic detection subsystem. The instrument also incorporates means for self-calibration during operation, and electronic hardware and software for control, acquisition and analysis of data, and communications. The electronic circuitry is highly miniaturized and designed to minimize power demand. The instrument is housed in a package that can withstand the water pressure at the maximum depth of 300 m. A light-emitting diode excites fluorescence in the sample flow cell, which is placed at one focal point of an ellipsoidal reflector. A photomultiplier tube is placed at the other focal point. This optical arrangement enables highly efficient collection of fluorescence emitted over all polar directions. Fluorescence lifetime is measured indirectly, by use of a technique based on the same principle as the one described in Fluorometer for Analysis of Photosynthesis in Phytoplankton (SSC-00110), NASA Tech Briefs, Vol. 24, No. 1 (November 2000), page 79. The excitation is modulated at a frequency of 70 MHz, and the phase shift between the excitation light and the emitted fluorescence is measured by a detection method in which the 70 MHz signal is down-converted to a 400 Hz signal. The fluorescence lifetime can be computed from the known relationship among the fluorescence lifetime, phase shift, and modulation frequency
Epitaxy‐free monocrystalline silicon thin film: first steps beyond proof‐of‐concept solar cells (2010)

Abstract The “Epifree” process involves the lift‐off of a high‐quality monocrystalline film formed by reorganization upon annealing of cylindrical macropore arrays in silicon, and can thus provide high‐quality silicon films without resorting to costly epitaxy. The challenge of this new process lies in etching controlled and regular pores in silicon in a cost‐efficient way, and in developing a process compatible with the difficulty of handling a micron‐thin material. Proof‐of‐concept cells have previously been achieved and this paper presents the latest progress, with a first development of thicker films and the inclusion of rear‐side passivation. The energy‐conversion efficiency of 1‐µm‐thin Epifree cells was improved from 2.6 to 4.1% by depositing a stack of amorphous silicon (a‐Si) layers as rear‐side passivation. The increase in V oc was, however, limited and bound to a drop in J sc . The choice of a‐Si was revealed to be unsuitable because of the thinness of the film and the presence of a full aluminum rear contact. The thinness of the film leads to a decrease in rear‐side reflectivity by the a‐Si absorption, and the aluminum, although not leading to crystallization, partly migrates inside the a‐Si stack upon anodic bonding as shown by TEM. These factors indicate that an alternative surface passivation should be developed. In parallel to process developments, the material was thickened by modifying the macropore array dimensions, leading to a 2.4‐µm‐thick material over 1 cm × 1 cm areas. The efficiency of the next cells is expected to increase with this thicker material. Copyright © 2010 John Wiley &amp; Sons, Ltd.
Synthesis and antimicrobial activity of some thenoyl amides (1970)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis and antimicrobial activity of some thenoyl amidesM. Likar, P. Schauer, M. Japelj, M. Globokar, M. Oklobdzija, A. Povse, and V. SunjicCite this: J. Med. Chem. 1970, 13, 1, 159–161Publication Date (Print):January 1, 1970Publication History Published online1 May 2002Published inissue 1 January 1970https://doi.org/10.1021/jm00295a053Request reuse permissionsArticle Views135Altmetric-Citations13LEARN 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 InReddit PDF (320 KB) Get e-Alertsclose Get e-Alerts
The PediaFlow Pediatric Ventricular Assist Device (2008)

This paper describes a design process for a new pediatric ventricular assist device (VAD), the PediaFlow. The VAD is a magnetically levitated turbodynamic pump design for chronic support of infants and small children. The design entailed the consideration of multiple pump topologies, from which an axial mixed-flow configuration was chosen for further optimization via computation fluid dynamics. The magnetic design includes permanent-magnet (PM) passive bearings for radial support of the rotor, an actively controlled thrust actuator for axial support, and a brushless DC motor for rotation. These components are closely coupled both geometrically and magnetically, and were therefore optimized in parallel, using electromagnetic, rotordynamic and fluid models. Multiple design objectives were considered including efficiency, size, and margin between critical speed to operating speed. The former depends upon the radial and yaw stiffnesses of the PM bearings. Analytical expressions for the stiffnesses were derived and verified through FEA. A toroidally-wound motor was designed for high efficiency and minimal additional negative radial stiffness. The design process relies heavily on optimization at the component-level and system-level. The results of this preliminary design optimization yielded a pump design with an overall stability margin of 15 percent, based on a pressure rise of 100 mmHg at 0.5 lpm running at 16,000 RPM.
Duration of Antigen Expression In Vivo following DNA Immunization Modifies the Magnitude, Contraction, and Secondary Responses of CD8+ T Lymphocytes (2007)

The duration of Ag expression in vivo has been reported to have a minimal impact on both the magnitude and kinetics of contraction of a pathogen-induced CD8(+) T cell response. In this study, we controlled the duration of Ag expression by excising the ear pinnae following intradermal ear pinnae DNA immunization. This resulted in decreased magnitude, accelerated contraction and differentiation, and surprisingly greater secondary CD8(+) T cell responses. Furthermore, we found delayed and prolonged Ag presentation in the immunized mice; however, this presentation was considerably decreased when the depot Ag was eliminated. These findings suggest that the magnitude and the contraction phase of the CD8(+) T cell response following intradermal DNA immunization is regulated by the duration rather than the initial exposure to Ag.
An i-vector based approach to training data clustering for improved speech recognition (2011)

We present a new approach to clustering training data for improved speech recognition. Given a training corpus, a so-called i-vector is extracted from each training utterance. A hierarchical divisive clustering algorithm is then used to cluster the training i-vectors into multiple clusters. For each cluster, an acoustic model (AM) is trained accordingly. Such trained multiple AMs can then be used in recognition stage to improve recognition accuracy. The proposed approach is very efficient therefore can deal with very large scale training corpus on current mainstream computing platforms. We report experimental results on a voice search task with 7,500 hours of speech training data.
Morphology and proton diffusion in a coarse-grained model of sulfonated poly(phenylenes) (2019)

A coarse-grained model previously used to simulate Nafion using dissipative particle dynamics (DPD) is modified to describe sulfonated Diels-Alder poly(phenylene) (SDAPP) polymers. The model includes a proton-hopping mechanism similar to the Grotthuss mechanism. The intramolecular parameters for SDAPP are derived from atomistic molecular dynamics (MD) simulation using the iterative Boltzmann inversion. The polymer radii of gyration, domain morphologies, and cluster distributions obtained from our DPD model are in good agreement with previous atomistic MD simulations. As found in the atomistic simulations, the DPD simulations predict that the SDAPP nanophase separates into hydrophobic polymer domains and hydrophilic domains that percolate through the system at sufficiently high sulfonation and hydration levels. Increasing sulfonation and/or hydration leads to larger proton and water diffusion constants, in agreement with experimental measurements in SDAPP. In the DPD simulations, the proton hopping (Grotthuss) mechanism becomes important as sulfonation and hydration increase, in qualitative agreement with experiment. The turning on of the hopping mechanism also roughly correlates with the point at which the DPD simulations exhibit clear percolated, hydrophilic domains, demonstrating the important effects of morphology on proton transport.
Persistent microbial dysbiosis in preterm premature rupture of membranes from onset until delivery (2015)

Background. Preterm Premature Rupture of Membranes (PPROM) is a major leading cause of preterm births. While the cause for PPROM remains unidentified, it is anticipated to be due to subclinical infection, since a large proportion of PPROM patients display signs of chorioamnionitis. Since subclinical infections can be facilitated by dysbiosis, our goal was to characterize the vaginal microbiome and amniotic fluid discharge upon PPROM, through latency antibiotic treatment, and until delivery, to detect the presence of pathogens, microbiota alteration, and microbial response to treatment. Methods. Enrolled subjects (15) underwent routine institutional antenatal care for PPROM, including the administration of latency antibiotics. Serial vaginal swabs were obtained from diagnosis of PPROM through delivery and the sequencing of the V3-V5 region of the 16S rRNA gene was performed for all collected samples. Results. The results show that Lactobacilli species were markedly decreased when compared to vaginal swabs collected from uncomplicated pregnancy subjects with a matched gestational time. Prevotella and Peptoniphilus were the most prevalent taxa in PPROM subjects at presentation. The vaginal microbiome of the PPROM subjects varied substantially intra- and inter-subjects. Several taxa were found to be significantly reduced during and after the antibiotic treatment: Weeksella, Lachnospira, Achromobacter, and Pediococcus. In contrast, Peptostreptococcus and Tissierellaceae ph2 displayed a significant increase after the antibiotic treatment. However, the relative abundance of Lactobacillus, Prevotella, and Peptoniphilus was not substantially impacted during the hospitalization of the PPROM subjects. The deficiency of Lactobacillus, and constancy of known pathogenic species, such as Prevotella and Peptoniphilus during and after antibiotics, highlights the persistent dysbiosis and warrants further investigation into mitigating approaches. Discussion. PPROM is responsible for one third of all preterm births. It is thought that subclinical infection is a crucial factor in the pathophysiology of PPROM because 25-40% of patients present signs of chorioamnionitis on amniocentesis. Here we sought to directly assess the bacterial content of the vagina and leaking amniotic fluid of subjects at presentation, throughout treatment and up until delivery, in order to search for common pathogens, microbiota changes, and microbial response to latency antibiotic treatment. We have found that the vaginal microbiome of PPROM subjects is highly variable and displays significant changes to treatment. However, the unchanging deficiency of Lactobacillus, and persistence of known pathogenic species, such as Prevotella and Peptoniphilus from presentation, through antibiotic treatment and up until delivery, highlights the persistent dysbiosis and warrants further investigation into mitigating approaches.
Novel TCAD-Oriented Definition of the off-State Breakdown Voltage in Schottky-Gate FETs: A 4H–SiC MESFET Case Study (2008)

Physics-based breakdown voltage optimization in Schottky-barrier power RF and microwave field-effect transistors as well as in high-speed power-switching diodes is today an important topic in technology computer-aided design (TCAD). off-state breakdown threshold criteria based on the magnitude of the Schottky-barrier leakage current can be directly applied to TCAD; however, the results obtained are not accurate due to the large uncertainty in the Schottky-barrier parameters and models arising above all in advanced wide-gap semiconductors and to the need of performing high-temperature simulations to improve the numerical convergence of the model. In this paper, we suggest a novel off-state breakdown criterion, based on monitoring the magnitude (at the drain edge of the gate) of the electric field component parallel to the current density. The new condition is shown to be consistent with more conventional definitions and to exhibit a significantly reduced sensitivity with respect to physical parameter variations.
Microstructure Evolution of Directionally Solidified Mar-M247 LC Superalloy and Its Dependence on Solidification Variables (1999)

Article Microstructure Evolution of Directionally Solidified Mar-M247 LC Superalloy and Its Dependence on Solidification Variables was published on February 1, 1999 in the journal High Temperature Materials and Processes (volume 18, issue 3).
ChemInform Abstract: SYNTHESIS OF 4,5‐DIHYDROAZEPINE‐3,6‐DICARBOXYLATE DERIVATIVES BY STEREOSELECTIVE RING EXPANSION‐NUCLEOPHILIC ADDITION TO 4‐α‐CHLOROALKYL‐1,4‐DIHYDROPYRIDINE‐3,5‐DICARBOXYLATES (1985)

Abstract Bei der Behandlung mit Organo‐Meltallverbindungen (II) erhält man aus den Dihydropyridinen (I) über diskutierte und z.Tl. isolierbare Zwischenstufen wie (IV) oder (V) die Dihydroazepin‐dicarboxylate: (III).
A direct plasma etch approach to high aspect ratio polymer micromachining with applications in bioMEMS and CMOS-MEMS (2003)

A novel etching approach to high aspect ratio polymer micromachining is introduced. A switching chemistry utilizing oxygen as an etchant gas with a C/sub 4/F/sub 8/ passivation step has produced high aspect ratio polymer structures. Polymer layers have been bound to a mechanical silicon support, patterned and etched. The silicon is subsequently undercut creating suspended polymer membranes. The polymer microstructures have also been aligned with CMOS MEMS structures in a process compatible with post CMOS micromachining. All steps in the polymer micromachining and post CMOS release are compatible with standard MEMS processing equipment. This approach holds great promise for creating devices with CMOS electronics as sensors and actuators and aligned polymer microstructures serving as integrated fluidic conduits for bioMEMS and micro total analysis systems.
Large-Signal Modeling of GaN HEMTs Using Hybrid GA-ANN, PSO-SVR, and GPR-Based Approaches (2020)

This article presents an extensive study and demonstration of efficient electrothermal large-signal GaN HEMT modeling approaches based on combined techniques of Genetic Algorithm (GA) with Artificial Neural Networks (ANN), and Particle Swarm optimization (PSO) with Support Vector Regression (SVR). Another promising Gaussian Process Regression (GPR) based large-signal modeling approach is also explored and presented. The GA-ANN addresses the typical problem of local minima associated with the backpropagation (BP) based ANN. The GA successfully aids in the determination of optimal initial values for BP-ANN and enables it to find a unique optimal solution after subsequent of iterations with higher rate of convergence. This is also achieved using PSO-SVR with lower optimization variables. The developed modeling techniques are demonstrated and used to simulate the gate and drain currents of a 2-mm GaN device. All the models are relatively simple, practical, and easy to implement. The gate and drain currents models are embedded in an equivalent large-signal circuit's model and built in Advanced Design System (ADS) software. The implemented model is validated by large-signal measurements and very good fitting results have been obtained. The model also showed an accurate simulation for a nonlinear power amplifier with very good computational speed and convergence.
Inter-fraction robustness of intensity-modulated proton therapy in the post-operative treatment of oropharyngeal and oral cavity squamous cell carcinomas (2019)

This is the first paper to evaluate inter-fraction MFO plan robustness in post-operative head and neck treatment.
Simplifying EPID dosimetry for IMRT treatment verification (2011)

It can be concluded that calculating instead of measuring the transmission leads to differences in the isocenter dose generally smaller than 2% (2.6% for 6 MV photon beams for in vivo dose) and yielded only slightly higher gamma-evaluation parameter values in planes through the isocenter. Hence, the new model is suitable for clinical implementation and measurement of open images can be omitted.