gebhart/patrepeval huggingface dataset:
Cloning and characterization of the bundle‐forming pilin gene of enteropathogenic Escherichia coli and its distribution in Salmonella serotypes (1993)

bfp, the structural gene of the major repeating bundle-forming pilus (BFP) subunit, was cloned from the enteroadherent factor (EAF) plasmid of enteropathogenic Escherichia coli (EPEC) strain B171 (O111:NM). The bfp open reading frame encoded a 193-amino-acid protein; comparison of this sequence with the biochemically determined N-terminal amino acid sequence showed that the mature pilin protein is comprised of 180 amino acids, that this sequence is similar to other members of the type IV pilin family, and that it is preceded by a 13-amino-acid signal peptide. Expression of the cloned bfp structural gene in an EPEC strain that had been cured of the EAF plasmid yielded a 21,000 dalton protein that co-migrated with the BFP precursor protein. Thus, other genes, probably carried by the EAF plasmid, are required for the maturation of the bfp product and for the production of extracellular pilus filaments. Use of bfp as a hybridization probe showed that homologous sequences are present in all tested EPEC strains and in 13 of 16 tested Salmonella serotypes. Fifty per cent of these bfp probe-sensitive salmonellae exhibited the localized-adherence (LA) phenotype when incubated with tissue culture cell monolayers, a trait previously associated with EAF plasmid-containing EPEC strains. Scanning electron micrographs of a bfp probe-sensitive, LA-positive Salmonella dublin strain showed that it grows as adherent colonies on infected monolayers and that within these colonies, BFP-like fibres form inter-bacterial linkages. For EAF plasmid-containing EPEC strains and for several Salmonella serotypes, BFP expression may lead to the development of adherent colonies on epithelial surfaces early in the infective process.
Error Event Corrections Using List-NPML Decoding and Error Detection Codes (2013)

A List-Noise Predictive Maximum Likelihood (List-NPML) decoding algorithm based on a periodic error detection mechanism is proposed for magnetic recording systems to minimize the number of error events. The proposed detector keeps a list of candidate paths ( candidates per state of a trellis) based on the observation that most of the error events can be recovered by finding a set of most likely paths. A periodic decision making process is utilized for every bits based on error detection codes. With this approach, a tradeoff between performance and complexity is studied with various combinations of and . The proposed structure is robust to miscorrections and time-varying error events, eliminating the need for knowing the error event distributions prior to its operation. We also introduced a novel design of parity bits that meets the run length constraints of the channel and a trellis update architecture for improved performance. Simulation results show that the proposed List-NPMLD gives us significant BER performance and post-ECC gains at the expense of some increase in complexity.
Constrained independent component analysis approach to nonobtrusive pulse rate measurements (2012)

Nonobtrusive pulse rate measurement using a webcam is considered. We demonstrate how state-of-the-art algorithms based on independent component analysis suffer from a sorting problem which hinders their performance, and propose a novel algorithm based on constrained independent component analysis to improve performance. We present how the proposed algorithm extracts a photoplethysmography signal and resolves the sorting problem. In addition, we perform a comparative study between the proposed algorithm and state-of-the-art algorithms over 45 video streams using a finger probe oxymeter for reference measurements. The proposed algorithm provides improved accuracy: the root mean square error is decreased from 20.6 and 9.5 beats per minute (bpm) for existing algorithms to 3.5 bpm for the proposed algorithm. An error of 3.5 bpm is within the inaccuracy expected from the reference measurements. This implies that the proposed algorithm provided performance of equal accuracy to the finger probe oximeter.
Potential Failure Sites in a Flip-Chip Package With and Without Underfill (1997)

Abstract The thermal integrity of an electronic package depends on the strength of the interface between dissimilar materials. Due to high thermo-mechanical stress concentrations arising from large temperature excursions, electronic packages become prone to cracking at regions with geometric and/or material discontinuities. Thus, the accurate calculation of the thermo-mechanical stresses in regions of high stress concentrations is critical to achieving a reliable design. These high-stress-concentration regions pose a major concern, especially in the design of flip-chip packages. Understanding the mechanisms for relaxing the high stress concentrations through the use of appropriate material properties, bump and adhesive joint geometry, and filler size in a flip-chip package will aid in design improvements for ensuring the thermo-mechanical reliability of electronic packages. In this study, the effect of underfill on the level of stress concentrations is investigated and possible failure sites are identified by using a global/local finite element approach. The global elements capture the exact singular behavior of the stresses near the geometric and material discontinuities. Potential failure sites are established by applying concepts from fracture mechanics.
Development and Evaluation of Spherical Molecularly Imprinted Polymer Beads (2006)

The majority of studies on molecularly imprinted polymers has until now been carried out on irregularly shaped particles prepared by grinding of polymer monoliths. The preparation procedures are time- and labor-consuming and produce particles of wide size distributions. To answer the need for fast and straightforward routes to spherical molecularly imprinted polymer beads, we have developed a method comprising the formation of droplets of pre-polymerization solution directly in mineral oil by vigorous mixing followed by transformation of the droplets into solid spherical beads by photoinduced free-radical polymerization. No detergents or stabilizers were required for the droplet formation. Factors influencing the bead synthesis have been investigated and are detailed here. The beads were evaluated in parallel with corresponding irregularly shaped particles prepared from polymer monoliths. Conditions for the synthesis of propranolol-imprinted poly(methacrylic acid-co-trimethylolpropane trimethacrylate) beads in the size range of 1-100 microm in almost quantitative yield are described. The beads were applied as the recognition element in a 96-well plate format radioligand assay of propranolol in human serum.
The Two SAS-6 Homologs inTetrahymena thermophilaHave Distinct Functions in Basal Body Assembly (2009)

Cilia and flagella are structurally and functionally conserved organelles present in basal as well as higher eukaryotes. The assembly of cilia requires a microtubule based scaffold called a basal body. The ninefold symmetry characteristic of basal bodies and the structurally similar centriole is organized around a hub and spoke structure termed the cartwheel. To date, SAS-6 is one of the two clearly conserved components of the cartwheel. In some organisms, overexpression of SAS-6 causes the formation of supernumerary centrioles. We questioned whether the centriole assembly initiation capacity of SAS-6 is separate from or directly related to its structural role at the cartwheel. To address this question we used Tetrahymena thermophila, which expresses two SAS-6 homologues, TtSAS6a and TtSAS6b. Cells lacking either TtSAS6a or TtSAS6b are defective in new basal body assembly. TtSas6a localizes to all basal bodies equally, whereas TtSas6b is enriched at unciliated and assembling basal bodies. Interestingly, overexpression of TtSAS6b but not TtSAS6a, led to the assembly of clusters of new basal bodies in abnormal locations. Our data suggest a model where TtSAS6a and TtSAS6b have diverged such that TtSAS6a acts as a structural component of basal bodies, whereas TtSAS6b influences the location of new basal body assembly.
Hydroxylamin, Hydrazin und Diazen als einzähnige Liganden in Ruthenium‐ und Osmiumkomplexen (1994)

Der zweifelsfrei charakterisierte trans ‐HNNH‐Ligand in 1 (M = Os), bei dessen Röntgenstrukturanalyse die beiden H‐Atome lokalisiert und verfeinert werden konnten, ist das wichtigste Strukturmerkmal dieser erstaunlich stabilen Verbindung. 1 und der analoge Ru‐Komplex konnten durch Oxidation der entsprechenden einzähnigen Hydrazinkomplexe hergestellt werden. magnified image
ChemInform Abstract: 2′,6′‐Dimethylphenoxyacetyl: A New Achiral High Affinity P3—P2 Ligand for Peptidomimetic‐Based HIV Protease Inhibitors. (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.
MEET: A Monte Carlo Exploration-Exploitation Trade-Off for Buffer Sampling (2023)

Data selection is essential for any data-based optimization technique, such as Reinforcement Learning. State-of-the-art sampling strategies for the experience replay buffer improve the performance of the Reinforcement Learning agent. However, they do not incorporate uncertainty in the Q-Value estimation. Consequently, they cannot adapt the sampling strategies, including exploration and exploitation of transitions, to the complexity of the task. To address this, this paper proposes a new sampling strategy that leverages the exploration-exploitation trade-off. This is enabled by the uncertainty estimation of the Q-Value function, which guides the sampling to explore more significant transitions and, thus, learn a more efficient policy. Experiments on classical control environments demonstrate stable results across various environments. They show that the proposed method outperforms state-of-the-art sampling strategies for dense rewards w.r.t. convergence and peak performance by 26% on average.
Carrying Binding Label/Segment-ID in PCE-based Networks. (2019)

It is possible to associate a binding label to RSVP-TE signaled
Traffic Engineering Label Switching Path or binding Segment-ID (SID)
to Segment Routed Traffic Engineering path. Such a binding label/SID
can be used by an upstream node for steering traffic into the
appropriate TE path to enforce TE policies. This document proposes an
approach for reporting binding label/SID to Path Computation Element
(PCE) for supporting PCE-based Traffic Engineering policies.
Femtosecond phase-transition in hard x-ray excited bismuth (2019)

The evolution of bismuth crystal structure upon excitation of its A<sub>1g</sub> phonon has been intensely studied with short pulse optical lasers. Here we present the first-time observation of a hard x-ray induced ultrafast phase transition in a bismuth single crystal at high intensities (~10<sup>14</sup> W/cm<sup>2</sup>). The lattice evolution was followed using a recently demonstrated x-ray single-shot probing setup. The time evolution of the (111) Bragg peak intensity showed strong dependence on the excitation fluence. After exposure to a sufficiently intense x-ray pulse, the peak intensity dropped to zero within 300 fs, i.e. faster than one oscillation period of the A<sub>1g</sub> mode at room temperature. Our analysis indicates a nonthermal origin of a lattice disordering process, and excludes interpretations based on electron-ion equilibration process, or on thermodynamic heating process leading to plasma formation.
Enhanced Energy and Quantum Efficiencies of a Nanocrystalline Photoelectrochemical Cell Sensitized with a Donor−Acceptor Dyad Derived from Fluorescein (2004)

The dye-sensitized photovoltaic cells were prepared by using donor−acceptor dyads derived from fluorescein. The photovoltaic measurements were performed using a standard two-electrode system consisting of a working electrode and a Pt sputtered electrode in air-saturated methoxyacetonitrile containing 0.5 M iodide and 0.05 M I2. The xanthene dye-sensitized photovoltaic cells of the charge-separation type exhibit significant enhancement in the photoelectrochemical performance as compared with those of fluorescein without the charge-separation unit. The overall power conversion efficiency (η = 1.6%) has been attained by using a fluorescein derivative composed of an electron donor (diphenylanthracene) unit and an acceptor unit (difluoroxanthene), assembled on a ZnO−SnO2 composite film as an oxide semiconductor.
Morphology, Crystallization, and Melting of Single Crystals and Thin Films of Star‐branched Polyesters with Poly(ϵ‐caprolactone) Arms as Revealed by Atomic Force Microscopy (2008)

The morphology and thermal stability of different sectors in solution- and melt-grown crystals of star-branched polyesters with poly(Îµ-caprolactone) (PCL) arms, and of a reference linear PCL, have been studied by tapping-mode atomic-force microscopy (AFM). Real-time monitoring of melt-crystallization in thin films of star-branched and linear PCL has been performed using hot-stage AFM. A striated fold surface was observed in both solution- and melt-grown crystals of both star-branched and linear PCL. The presence of striations in the melt-grown crystals proved that this structure was genuine and not due to the collapse of tent-shaped crystals. The crystals of the star-branched polymers had smoother fold surfaces, which can be explained by the presence of dendritic cores close to the fold surfaces. The single crystals of linear PCL grown from solution showed earlier melting in the {100} sectors than in the {110} sectors, whereas no such sectorial dependence of the melting was found in the solution-grown crystals of the star-branched polymers. The proximity of the dendritic cores to the fold surface yields at least one amorphous PCL repeating unit next to the dendritic core and more nonadjacent and less sharp chain folding than in linear PCL single crystals; this evidently erased the difference in thermal stability between the {110} and {100} sectors. Melt-crystallization in thin polymer films at 53-55Â°C showed 4 times faster crystal growth along b than along a, and more irregular crystals with niches on the lateral faces in star-branched PCL than in linear PCL. Crystal growth rate was strictly constant with time. Multilayer crystals with central screw dislocation (growing with or without reorientation of the b-axis) and twisting were observed in both classes of polymers.
An Opportune and Relevant Design for Studying the Health Trajectories of Healthcare Workers (2020)

ABSTRACT We describe the rationale, design, and implementation of baseline enrollment for a longitudinal, observational cohort study of healthcare workers. The importance of workplace as a characteristic of interest in population-based studies has become increasingly apparent over time. Most adults spend a majority of their waking hours living in their workplace environment, which serves as a source of unique as well as shared exposures, stressors, and related determinants of health. A rapidly expanding segment of the working population includes those individuals who work in the fields of healthcare. The healthcare workforce, at large, represents an increasingly diverse subset of the population with broad exposures; some exposures are specific to the workplace and others are common to persons living in the community. Importantly, healthcare workers tend to have general interest and willingness to participate in research, in addition to stable employment and easy access to on-site clinical research assessment locations. Accordingly, from a population of individuals working at a large medical delivery network, we enrolled over 6300 healthcare workers into a cohort study involving survey data collection on medical history, work environment, and family and living situation; this information was linked to participant electronic health record data and collected biospecimens.
Final Technical Report: Imaging a Dry Storage Cask with Cosmic Ray Muons (2018)

The goal of this project is to build a scaled prototype system for monitoring used nuclear fuel (UNF) dry storage casks (DSCs) through cosmic ray muon imaging. Such a system will have the capability of verifying the content inside a DSC without opening it. Because of the growth of the nuclear power industry in the U.S. and the policy decision to ban reprocessing of commercial UNF, the used fuel inventory at commercial reactor sites has been increasing. Currently, UNF needs to be moved to independent spent fuel storage installations (ISFSIs), as its inventory approaches the limit on capacity of on-site wet storage. Thereafter, the fuel will be placed in shipping containers to be transferred to a final disposal site. The ISFSIs were initially licensed as temporary facilities for ~20-yr periods. Given the cancellation of the Yucca mountain project and no clear path forward, extended dry-cask storage (~100 yr.) at ISFSIs is very likely. From the point of view of nuclear material protection, accountability and control technologies (MPACT) campaign, it is important to ensure that special nuclear material (SNM) in UNF is not stolen or diverted from civilian facilities for other use during the extended storage.
Abstract 723: Beyond temsirolimus: Discovery of PKI-587 a highly efficacious dual PI3K/mTOR inhibitor (2010)

Abstract Temsirolimus, a rapamycin analog, is a selective mTor inhibitor that has been successfully used in the clinic for the treatment of renal cancer. mTOR integrates signals from multiple upstream growth and survival regulatory pathways including the LKB1/AMPK and PI3K (Phosphatidylinositol-3-kinase)/Akt pathways. Among these, Phosphatidylinositol-3-kinase (PI3-K) is a lipid kinase which phophorylates phosphatidylinositol diphosphate (PIP-2) to phosphatidylinositol triphosphate. This pathway regulates cell proliferation, growth, survival, and apoptosis. The aberrant activation of PI3K-α and its downstream effectors including Akt and mTOR, has been linked to the initiation and maintenance of numerous tumor phenotypes. During tumorigenesis, PI3K/Akt/mTOR pathway activation occurs through various mechanisms, including loss of PTEN (the phosphatase that regulates PI3K signaling), over-expression or activation of certain receptor tyrosine kinases (e.g. EGFR, HER-2), interaction with activated Ras, overexpression of the PI3K-α gene (PIKC3A), or mutations in PIKC3A that cause elevated PI3K kinase activity. Deregulated PI3K/Akt/mTOR pathway signaling has been implicated in poor prognosis and low survival rate in patients with various lymphatic tumors, glioblastomas, melanomas as well as breast, prostate, lung, colon, and ovarian cancers. Numerous pre-clinical and clinical studies indicate that PI3K-α plays a key role in the biology of human cancer. Hence, it is likely that a small molecule inhibitor of both PI3K and mTOR will have clinical utility. Our project team has identified small molecules that potently inhibit the PI3K/mTor pathway. The current clinical candidate, PKI-587 (whose structure will be disclosed) is a pan PI3K (class I)/mTOR inhibitor. PKI-587 decreases tumor cell survival and proliferation in vitro. Additionally, PKI-587 has shown compelling efficacy in multiple human tumor nude mouse xenograft models such as MDA 361 (Breast), U87 (Glioma), H1975, A549 (NSCLC) in nude mice when administered as a single agent. The design of this novel potent inhibitor, synthesis, structure-activity relationships, PK and in vivo efficacy data will be presented. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 723.
Theoretical Analysis of a Technique for the Characterization of Myocardium Contraction Based Upon Temporal Correlation of Ultrasonic Echoes (1987)

The temporal correlation properties of ultrasonic echoes from contracting myocardium are investigated theoretically. Myocar- dium is modeled as a dense suspension of moving particles, with time- varying scattering amplitudes. Single scattering is assumed. Echoes from different particles are added coherently. The variance of particle velocity is proposed as an indicator of contractile performance. It is shown how this parameter may be extracted from the average corre- lation of pairs of echoes arising from separate ultrasound pulses. An experiment is performed in which a manufactured target with known motion characteristics is interrogated using a commercial medical ul- trasound scanner. The experimental results are found to be in good agreement with theory. Finally, practical considerations for perform- ing and interpreting these measurements in human myocardium are discussed. EVERAL INVESTIGATIONS have demonstrated that it may be possible to evaluate cardiac contractile per- formance accurately with ultrasound. One technique in- volves the measurement of the frequency average of the intensity of ultrasonic echoes emanating from myocar- dium. Echo intensity has been found to vary throughout the cardiac cycle in normal canine myocardium, with the maximum level occurring at end-diastole and the mini- mum at end-systole ( l), (2). In addition, the magnitude of this effect has a regional dependence throughout the heart, with areas of greater contractile activity exhibiting greater amplitudes of variation (3). The extent of the cyclic variation of echo intensity has also been observed to drop significantly in canine myocardium making a tran- sition from normal to ischemic 141. Thus the magnitude of cyclic variation may be interpreted as a measure of contractile performance. A second technique entails quantitative analysis of video images of the heart produced by ultrasound scan-
Tension Effects on the Growth Kinetics of Fiber Bragg Gratings in Photosensitive Ge-SiO2 Fibers (1999)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text T. Tsai, T. Taunay, and E. J. Friebele, "Tension Effects on the Growth Kinetics of Fiber Bragg Gratings in Photosensitive Ge-SiO2 Fibers," in Bragg Gratings, Photosensitivity, and Poling in Glass Waveguides, T. Erdogan, E. Friebele, and R. Kashyap, eds., Vol. 33 of OSA Trends in Optics and Photonics Series (Optica Publishing Group, 1999), paper CC4. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
The HYLAN M Study: Efficacy of 0.15% High Molecular Weight Hyaluronan Fluid in the Treatment of Severe Dry Eye Disease in a Multicenter Randomized Trial (2020)

The aim of the HYLAN M study was to investigate if symptoms and/or signs of patients suffering from severe dry eye disease (DED) can be improved by substituting individually optimized artificial tear therapy by high molecular weight hyaluronan (HMWHA) eye drops. In this international, multicenter study, patients with symptoms of at least ocular surface disease index (OSDI) 33 and corneal fluorescein staining (CFS) of at least Oxford grade 3 were included. A total of 84 per-protocol patients were randomized in two study arms. The control group continued to use their individual optimum artificial tears over the study period of eight weeks; in the verum group, the artificial tears were substituted by eye drops containing 0.15% HMWHA. At the week 8 visit, the average OSDI of the verum group had improved by 13.5 as compared to the control group (<i>p</i> = 0.001). The best corrected visual acuity (BCVA) had improved by 0.04 logMAR (<i>p</i> = 0.033). CFS, tear film break-up time (TBUT), Schirmer I, lid wiper epitheliopathy (LWE), mucocutaneous junction (Yamaguchi score), and tear osmolarity were not significantly different between the verum and control groups (<i>p</i> > 0.050). We conclude that for most patients with severe DED, 0.15% HMWHA eye drops provide excellent improvement of symptoms without impairment of dry eye signs.