gebhart/patrepeval huggingface dataset:
Molecular dynamics simulation on a network of workstations using a machine-independent parallel programming language. (1991)

Molecular dynamics simulations investigate local and global motion in molecules. Several parallel computing approaches have been taken to attack the most computationally expensive phase of molecular simulations, the evaluation of long range interactions. This paper develops a straightforward but effective algorithm for molecular dynamics simulations using the machine-independent parallel programming language, Linda. The algorithm was run both on a shared memory parallel computer and on a network of high performance Unix workstations. Performance benchmarks were performed on both systems using two proteins. This algorithm offers a portable cost-effective alternative for molecular dynamics simulations. In view of the increasing numbers of networked workstations, this approach could help make molecular dynamics simulations more easily accessible to the research community.
288 Gb/s 850 nm VCSEL-based Interconnect over 100 m MMF based on Feature-enhanced Recurrent Neural Network (2022)

We experimentally demonstrate an ultra-high speed record of single-lane 288 Gb/s PAM-8 signal transmission over 100 m MMF attributed to the proposed design-optimized 850 nm VCSEL and feature-enhanced RNN equalization.
A 65nm CMOS 2.4GHz 31.5dBm power amplifier with a distributed LC power-combining network and improved linearization for WLAN applications (2010)

A 2.4 GHz CMOS power amplifier with a distributed LC power-combining network and improved linearization for high-power WLAN applications is presented. With a 3.3 V supply the PA produces a saturated power of 31.5 dBm with peak PAE of 25 %. By utilizing multiple linearization techniques, an EVM of -25 dB is achieved at 25.5 dBm for the 2.4 GHz band. The PA occupies 2.7mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> in 65 nm CMOS.
Corrigenda (1991)

J. H. Bateson, A. M. Robins, R. Southgate, I. Collins, M. E. Fox, A. B. Holmes, S. F. Williams, R. Baker, I. J. Forbes and M. Thompson, J. Chem. Soc., Perkin Trans. 1, 1991, 967 DOI: 10.1039/P19910000967
A compressive sensing spectral model for fNIRS haemodynamic response de-noising (2015)

In the biomedical scenario, near-infrared spectroscopy (NIRS) is employed as a non-invasive brain imaging technique. In particular, functional near-infrared spectroscopy (fNIRS) measures the brain response, also known as haemodynamic response (HR), to pre-defined stimuli. Processing of fNIRS data requires a great effort to extrapolate the informative component from a noisy mixture of physiological and spurious contributions. In this paper a novel fNIRS de-noising algorithm is presented and validated over both synthetic ideal and synthetic realistic data. The short-separation channel signal is divided into nonoverlapping short sequences. For each of them, a specific noise model is identified and subtracted from the corresponding standard channel data. The algorithm relies on a combination of a super-resolution technique based on Compressive Sensing theory and spectral analysis performed via Taylor-Fourier transform. Preliminary experimental results show a significant reduction of spurious components in all the considered conditions. No significant distortions are introduced in the recovered HR, ensuring reliable clinical interpretation of the acquired trace.
Comparison of Optical Rhinometry and Active Anterior Rhinomanometry Using Nasal Provocation Testing (2007)

The subjects' ratings of nasal congestion correlated to a higher degree with the results from ORM than with those from RMM. In addition, ORM was rated as more comfortable than RMM. Overall, ORM appeared to be a valid technique for the assessment of changes in nasal congestion.
Reactive oxygen species mediate detrusor overactivity via sensitization of afferent pathway in the bladder of anaesthetized rats (2007)

These results indicate that oxidative stress induced by H(2)O(2) activates capsaicin-sensitive C-fibre afferent pathways, at least in part, mediated via stimulation of the cyclooxygenase pathway, thereby inducing detrusor overactivity. Thus, rats treated with intravesical H(2)O(2) appear to be a suitable model for the study of detrusor overactivity.
Novel siRNA-loaded Bubble Liposomes with Ultrasound Exposure for RNA Interference (2011)

Recently, we have developed novel polyethyleneglycol (PEG) modified liposomes (Bubble liposomes; BLs) entrapping an ultrasound (US) imaging gas, which can work as a gene delivery tool with US exposure. We have shown that the combination of BLs and US was also useful for the delivery of siRNA. However, for use in intravenous administration, there is room for improvement in the colocalization of BLs and siRNA in blood vessels and the stability of siRNA. In this study, we have attempted to prepare novel siRNA‐loaded BLs (si‐BLs) using cationic lipid, 1,2‐dioleoyl‐3‐trimethylammonium‐propane (DOTAP). As a result, siRNA loaded onto the surface of BLs could be observed. Furthermore, siRNA‐loaded BLs were stable even in the presence of serum. The specific gene silencing effect caused by transfection with si‐BLs and US could be also observed. Thus, si‐BLs with US‐exposure may be a useful novel transfection method for siRNA delivery to a target tissue or organ via systemic injection.
Spatial-Controlled Coating of Pro-Angiogenic Proteins on 3D Porous Hydrogels Guides Endothelial Cell Behavior (2022)

In tissue engineering, the composition and the structural arrangement of molecular components within the extracellular matrix (ECM) determine the physical and biochemical features of a scaffold, which consequently modulate cell behavior and function. The microenvironment of the ECM plays a fundamental role in regulating angiogenesis. Numerous strategies in tissue engineering have attempted to control the spatial cues mimicking in vivo angiogenesis by using simplified systems. The aim of this study was to develop 3D porous crosslinked hydrogels with different spatial presentation of pro-angiogenic molecules to guide endothelial cell (EC) behavior. Hydrogels with pores and preformed microchannels were made with pharmaceutical-grade pullulan and dextran and functionalized with novel pro-angiogenic protein polymers (Caf1-YIGSR and Caf1-VEGF). Hydrogel functionalization was achieved by electrostatic interactions via incorporation of diethylaminoethyl (DEAE)-dextran. Spatial-controlled coating of hydrogels was realized through a combination of freeze-drying and physical absorption with Caf1 molecules. Cells in functionalized scaffolds survived, adhered, and proliferated over seven days. When incorporated alone, Caf1-YIGSR mainly induced cell adhesion and proliferation, whereas Caf1-VEGF promoted cell migration and sprouting. Most importantly, directed cell migration required the presence of both proteins in the microchannel and in the pores, highlighting the need for an adhesive substrate provided by Caf1-YIGSR for Caf1-VEGF to be effective. This study demonstrates the ability to guide EC behavior through spatial control of pro-angiogenic cues for the study of pro-angiogenic signals in 3D and to develop pro-angiogenic implantable materials.
A barometric pressure sensor based on the air-gap scale effect in a cantilever (2013)

The most common structure for a conventional barometric pressure sensor consists of a vacuum-sealed cavity and a diaphragm. However, we hypothesize that a simple structure with an unsealed cavity and an ultra-thin cantilever can provide more sensitive measurements. We produced a 300-nm-thick cantilever with a small spring constant, which made the cantilever sensitive to low pressures. We demonstrated that miniaturizing the air-gap of the cantilever enables the sensor to measure barometric pressure changes at a low pressure change rate with a high resolution, which was 1 Pa at 0.05 Hz, and for a gap size of 1.7 μm.
The quest for resilient (static) forwarding tables (2016)

Fast Reroute (FRR) and other forms of immediate failover have long been used to recover from certain classes of failures without invoking the network control plane. While the set of such techniques is growing, the level of resiliency to failures that this approach can provide is not adequately understood. We embark upon a systematic algorithmic study of the resiliency of immediate failover in a variety of models (with/without packet marking/duplication, etc.). We leverage our findings to devise new schemes for immediate failover and show, both theoretically and experimentally, that these outperform existing approaches.
Determination of carbohydrates by capillary zone electrophoresis with amperometric detection at a copper microelectrode (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDetermination of carbohydrates by capillary zone electrophoresis with amperometric detection at a copper microelectrodeLuis A. Colon, Rajeev. Dadoo, and Richard N. ZareCite this: Anal. Chem. 1993, 65, 4, 476–481Publication Date (Print):February 15, 1993Publication History Published online1 May 2002Published inissue 15 February 1993https://doi.org/10.1021/ac00052a027RIGHTS & PERMISSIONSArticle Views653Altmetric-Citations224LEARN 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 (763 KB) Get e-Alerts Get e-Alerts
On oscillating flows in randomly heterogeneous porous media (2009)

The emergence of structure in reactive geofluid systems is of current interest. In geofluid systems, the fluids are supported by a porous medium whose physical and chemical properties may vary in space and time, sometimes sharply, and which may also evolve in reaction with the local fluids. Geofluids may also experience pressure and temperature conditions within the porous medium that drive their momentum relations beyond the normal Darcy regime. Furthermore, natural geofluid systems may experience forcings that are periodic in nature, or at least episodic. The combination of transient forcing, near-critical fluid dynamics and heterogeneous porous media yields a rich array of emergent geofluid phenomena that are only now beginning to be understood. One of the barriers to forward analysis in these geofluid systems is the problem of data scarcity. It is most often the case that fluid properties are reasonably well known, but that data on porous medium properties are measured with much less precision and spatial density. It is common to seek to perform an estimation of the porous medium properties by an inverse approach, that is, by expressing porous medium properties in terms of observed fluid characteristics. In this paper, we move toward such an inversion for the case of a generalized geofluid momentum equation in the context of time-periodic boundary conditions. We show that the generalized momentum equation results in frequency-domain responses that are governed by a second-order equation which is amenable to numerical solution. A stochastic perturbation approach demonstrates that frequency-domain responses of the fluids migrating in heterogeneous domains have spatial spectral densities that can be expressed in terms of the spectral densities of porous media properties.
Streptococcus pyogenes pili promote pharyngeal cell adhesion and biofilm formation (2007)

Group A Streptococcus (GAS, Streptococcus pyogenes) is a Gram-positive human pathogen responsible for several acute diseases and autoimmune sequelae that account for half a million deaths worldwide every year. GAS infections require the capacity of the pathogen to adhere to host tissues and assemble in cell aggregates. Furthermore, a role for biofilms in GAS pathogenesis has recently been proposed. Here we investigated the role of GAS pili in biofilm formation. We demonstrated that GAS pilus-negative mutants, in which the genes encoding either the pilus backbone structural protein or the sortase C1 have been deleted, showed an impaired capacity to attach to a pharyngeal cell line. The same mutants were much less efficient in forming cellular aggregates in liquid culture and microcolonies on human cells. Furthermore, mutant strains were incapable of producing the typical three-dimensional layer with bacterial microcolonies embedded in a carbohydrate polymeric matrix. Complemented mutants had an adhesion and aggregation phenotype similar to the wild-type strain. Finally, in vivo expression of pili was indirectly confirmed by demonstrating that most of the sera from human patients affected by GAS-mediated pharyngitis recognized recombinant pili proteins. These data support the role of pili in GAS adherence and colonization and suggest a general role of pili in all pathogenic streptococci.
Thin tunnel oxide grown on silicon substrate pretreated by CF4 plasma (2001)

High tunneling current and large resistance against stress were the main issue of tunnel oxide for scaling down the operation voltage of EEPROMs. In this letter, thin-tunnel oxides grown on a CF/sub 4/ pretreated silicon substrate were prepared and investigated for the first time. The fabricated oxide has about three orders of tunneling current higher than that of control one; furthermore, the stress induced anomalous and low electric field leakage currents were greatly suppressed. The improvement could be contributed to F-incorporation in oxide. This type of oxide is suitable for fabricating low-voltage EEPROMs and less process complexity was added.
Phase Noise Reduction of a Kerr Comb via All-Optical Synchronization to an Optical Parametric Oscillator (2022)

We demonstrate on a silicon-nitride chip all-optical synchronization between an optical parametric oscillator and a soliton Kerr comb, resulting in a near-complete suppression of excess phase noise associated with thermo-refractive noise in soliton comb lines.
Mechanism of hologram formation on glass surface by recording technique with corona discharge (2014)

Surface relief grating of azobenzene polymer formed on a soda-lime-silica glass plate was treated by corona discharge for the formation of a hologram on the glass plate. The Na concentration distribution near the glass surface was investigated using a time-of-flight secondary ion mass spectrometry (TOF-SIMS) depth analysis with buckminsterfullerene (C60) ion sputtering and an image processing. The periodical Na deficient region identical to the azobenzene grating pattern existed near the glass surface, which suggested that the Na ions below the grating groove preferentially migrated to the cathode side during the corona discharge treatment. Generally, the refractive index of the Na poor region becomes lower than that of the pristine soda-lime silica glass. Therefore, the origin of the hologram on the glass surface should be the three-dimensional distribution of refractive index at the glass surface.
Attention sélective en visualisation d'images fixes et animées affichées sur écran : modèles et évaluation de performances - application (2005)

Cette étude traite de la modélisation de l'attention visuelle pré-attentive (ou plus communément appelé Bottom-Up) sur images fixes couleurs et sur séquence d'images animées. Il s'agit donc de déterminer de façon automatique et en utilisant uniquement des caractéristiques visuelles de bas niveaux les zones attirant le regard. Nous proposons d'abord de construire un espace psycho-visuel dans lequel les signaux achromatique et chromatiques sont normalisés en fonction de leur propre seuil différentiel de visibilité. L'intérêt est ici d'exprimer les différentes caractéristiques visuelles avec la même unité, c'est à dire en terme de visibilité. Ensuite, plusieurs transformations sont effectuées pour déterminer la saillance spatiale achromatique et chromatiques, toutes basées sur une modélisation d'inspiration biologique des mécanismes perceptifs humains (suppression de la redondance locale, interactions facilitatrices de type iso-orienté et co-linéaire...). Une méthode de fusion est proposée permettrant de déduire la carte de saillance spatiale finale. L'évaluation des performances de la modélisation est réalisée en comparant nos résultats avec des résultats provenant de tests oculométriques sur un panel d'observateurs. Pour cela, trois métriques sont utilisées: le coefficient de corrélation linéaire, la divergence de Kullback-Leibler et une méthode de classification. Comparativement au modèle de L. Itti considéré comme le modèle de référence, et quelle que soit la métrique utilisée, notre modèle fournit en moyenne de meilleurs résultats. L'extension à la dimension temporelle a été réalisée permettant de détecter les zones saillantes dans les vidéo. A partir des données achromatiques de l'espace psycho-visuel, la saillance temporelle est déduite des contrastes locaux de mouvement de la séquence d'images. La fusion de la saillance spatiale et de la saillance temporelle conduit à la carte de saillance finale. A partir de nouveaux tests oculométriques, une nouvelle évaluation est alors effectuée. En moyenne, le modèle spatio-temporel de saillance détecte 77% des zones saillantes. Finalement, deux applications utilisant les cartes de saillance sont décrites. La première concerne le codage vidéo H.264 pour laquelle l'objectif est de privilégier la qualité sur les zones visuellement importantes. La seconde traite de la création d'images ou de séquences d'images miniatures permettant d'augmenter le confort visuel lorsque l'écran d'affichage est de faible taille.
Eliminating a global regulator of carbon catabolite repression enhances the conversion of aromatic lignin monomers to muconate in Pseudomonas putida KT2440 (2017)

Carbon catabolite repression refers to the preference of microbes to metabolize certain growth substrates over others in response to a variety of regulatory mechanisms. Such preferences are important for the fitness of organisms in their natural environments, but may hinder their performance as domesticated microbial cell factories. In a <i>Pseudomonas putida</i> KT2440 strain engineered to convert lignin-derived aromatic monomers such as <i>p</i>-coumarate and ferulate to muconate, a precursor to bio-based nylon and other chemicals, metabolic intermediates including 4-hydroxybenzoate and vanillate accumulate and subsequently reduce productivity. We hypothesized that these metabolic bottlenecks may be, at least in part, the effect of carbon catabolite repression caused by glucose or acetate, more preferred substrates that must be provided to the strain for supplementary energy and cell growth. Using mass spectrometry-based proteomics, we have identified the 4-hydroxybenzoate hydroxylase, PobA, and the vanillate demethylase, VanAB, as targets of the Catabolite Repression Control (Crc) protein, a global regulator of carbon catabolite repression. By deleting the gene encoding Crc from this strain, the accumulation of 4-hydroxybenzoate and vanillate are reduced and, as a result, muconate production is enhanced. In cultures grown on glucose, the yield of muconate produced from <i>p</i>-coumarate after 36 h was increased nearly 70% with deletion of the gene encoding Crc (94.6 ± 0.6% vs. 56.0 ± 3.0% (mol/mol)) while the yield from ferulate after 72 h was more than doubled (28.3 ± 3.3% vs. 12.0 ± 2.3% (mol/mol)). The effect of eliminating Crc was similar in cultures grown on acetate, with the yield from <i>p</i>-coumarate just slightly higher in the Crc deletion strain after 24 h (47.7 ± 0.6% vs. 40.7 ± 3.6% (mol/mol)) and the yield from ferulate increased more than 60% after 72 h (16.9 ± 1.4% vs. 10.3 ± 0.1% (mol/mol)). These results are an example of the benefit that reducing carbon catabolite repression can have on conversion of complex feedstocks by microbial cell factories, a concept we posit could be broadly considered as a strategy in metabolic engineering for conversion of renewable feedstocks to value-added chemicals.
Repeat-Screening Colonoscopy 5 Years After Normal Baseline-Screening Colonoscopy in Average-Risk Chinese: A Prospective Study (2009)

The risk of advanced neoplasia is sufficiently low 5 years after a normal screening colonoscopy in Chinese subjects.
ChemInform Abstract: Synthesis, Molecular Modeling and Preliminary Biological Evaluation of 1‐Amino‐3‐phosphono‐3‐cyclopentene‐1‐carboxylic Acid and 1‐Amino‐3‐phosphono‐2‐cyclopentene‐1‐carboxylic Acid, Two Novel Agonists of Metabotropic Glutamate Receptors of Group III. (2000)

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.
Polyphenols from Broussonetia papyrifera Displaying Potent α-Glucosidase Inhibition (2009)

The organic extract of the roots of Broussonetia papyrifera showed extremely high alpha-glucosidase inhibitory activity with an IC50 of around 10 microg/mL. Due to its potency, subsequent bioactivity-guided fractionation of the chloroform extract led to 12 polyphenols, 1-12, 4 of which were identified as chalcones (1-4), another 4 as flavans (5-8), 2 as flavonols (9 and 10), and 2 others as the novel species benzofluorenones (11 and 12). Broussofluorenone A (11) and broussofluorenone B (12) emerged as new compounds possessing the very rare 5,11-dioxabenzo[b]fluoren-10-one skeleton. These compounds (1-12) were evaluated for alpha-glucosidase inhibitory activity to identify their inhibitory potencies and kinetic behavior. The most potent inhibitor, 10 (IC50=2.1 microM, Ki=2.3 microM), has an inhibitory activity slightly higher than that of the potent alpha-glucosidase inhibitor deoxynojirimycin (IC50=3.5 microM). The novel alpha-glucosidase inhibitors 11 (IC50=27.6 microM) and 12 (IC50=33.3 microM) are similar in activity to sugar-derived alpha-glucosidase inhibitors such as voglibose (IC50=23.4 microM). Interestingly, major constituents (1, 2, 6, 7, 9, and 10) of B. papyrifera displayed significant inhibitory activity with IC50 values of 5.3, 11.1, 12.0, 26.3, 3.6, and 2.1 microM, respectively. In kinetic studies, chalcones (1-4) exhibited noncompetitive inhibition characteristics, whereas the others (5-12) showed mixed behavior.