gebhart/patrepeval huggingface dataset:
Sortases and pilin elements involved in pilus assembly of <i>Corynebacterium diphtheriae</i> (2004)

Corynebacterium diphtheriae SpaA pili are composed of three pilin subunits, SpaA, SpaB and SpaC. SpaA, the major pilin protein, is distributed uniformly along the pilus shaft, whereas SpaB is observed at regular intervals, and SpaC seems to be positioned at the pilus tip. Pilus assembly in C. diphtheriae requires the pilin motif and the C-terminal sorting signal of SpaA, and is proposed to occur by a mechanism of ordered cross-linking, whereby pilin-specific sortase enzymes cleave precursor proteins at sorting signals and involve the side-chain amino groups of pilin motif sequences to generate covalent linkages between pilin subunits. We show here that two elements of SpaA pilin precursor, the pilin motif and the sorting signal, are together sufficient to promote the polymerization of an otherwise secreted protein by a process requiring the function of the sortase A gene (srtA). Five other sortase genes are dispensable for SpaA pilus assembly. Further, the incorporation of SpaB into SpaA pili requires a glutamic acid residue within the E box motif of SpaA, a feature that is found to be conserved in other Gram-positive pathogens that encode sortase and pilin subunit genes with sorting signals and pilin motifs. When the main fimbrial subunit of Actinomyces naeslundii type I fimbriae, FimA, is expressed in corynebacteria, C. diphtheriae strain NCTC13129 polymerized FimA to form short fibres. Although C. diphtheriae does not depend on other actinomycetal genes for FimA polymerization, this process involves the pilin motif and the sorting signal of FimA as well as corynebacterial sortase D (SrtD). Thus, pilus assembly in Gram-positive bacteria seems to occur by a universal mechanism of ordered cross-linking of precursor proteins, the multiple conserved features of which are recognized by designated sortase enzymes.
Guest Editorial (2010)

Welcome to this special issue of Simulation:&#13;\nTransactions of the Society for Modeling and&#13;\nSimulation International, which is dedicated to software&#13;\ntools, techniques and architectures for computer simulation.&#13;\nThe theme for this issue originated from the core&#13;\nareas of SIMUTools, a young conference organized by&#13;\nthe Institute for Computer Sciences, Social Informatics,&#13;\nand Telecommunications Engineering (ICST). In its&#13;\nfirst three editions, from 2008 to 2010, SIMUTools&#13;\nattracted an energetic community of scientists and&#13;\npractitioners from academia and industry. If you&#13;\nhaven’t yet attended the conference or its several colocated&#13;\nworkshops, we encourage you to join as a&#13;\nsubmitting author or participant. Some of the&#13;\narticles in this issue are extended versions of the bestrated&#13;\npublications from SIMUTools 2009, in Rome,&#13;\nItaly, which we had the privilege of serving as&#13;\nprogram chairs.
Angular-dependent magnetoresistance in Cr1/3NbS2 single crystals (2022)

We present a comprehensive study of angular-dependent magnetoresistance (MR) in the layered chiral helimagnet Cr1/3NbS2 (CNS), which realizes a magnetic soliton lattice. It was found that, at temperatures below Curie temperature, CNS showed a negative magnetoresistance related to the emergence of a chiral soliton lattice state when a magnetic field was applied parallel to the ab-plane (H ‖ ab-plane). When the magnetic field was applied parallel to the c-axis (H ‖ c-axis), however, the negative MR disappeared and a positive MR appeared around zero field at low temperatures. Detailed analysis and modeling indicate that the positive MR is due to the weak anti-localization effect arising from the strong spin–orbit coupling of CNS.
Low-cost multiple-camera multiple-processor multispectral system (2002)

Multispectral sensing is a technique for acquiring measurements of surface radiance in a series of several electromagnetic bands, ranging from the visible spectrum (.4 mm) through the thermal infrared region (3 - 14 mm). Multispectral sensing, by virtue of its many spectral bands can provide the capability of characterizing and identifying natural and man-made targets in terms of both their spatial characteristics and often more importantly, their material properties. The research described in this paper combines spectroscopic tools and techniques, based on physical models of the absorption and scattering spectral phenomenology in the scene, with signal processing techniques, Innovative methods of directly fusing terrain representations and data from separate sensors during spectral feature extraction were also explored. The resulting algorithms were then programmed on a four-processor PCI-bus-based digital signal processing (DSP) board. The DSP board performed end-to-end processing of the multispectral imaging task, including; camera calibration, image acquisition from the four digital imaging cameras, and image processing.
Retinal Microvascular Abnormalities and Risk of Lacunar Stroke (2010)

A narrower central retinal arteriole equivalent, wider central retinal venule equivalent, focal arteriolar narrowing, and arteriovenous nicking were predictive of lacunar stroke. Retinal imaging is useful in understanding the pathophysiology and mechanisms of cerebral small-vessel disease.
Modeling the sensor/actuator response of a finite disk transducer flush mounted on a plate subject to fluid loading (1993)

It is important to model the sensor and actuator function of a finite disk-shaped piezoelectric transducer in the environment that it will function in. This will involve taking into account the structure on which it is mounted, modeled here as a flat, solid, elastic plate and fluid loading to which the structure may be subject to. In addition, material damping in the plate and the transducer must be taken into account. The sensor response involves computation of the voltage induced in the transducer by an incident acoustic wave in the fluid or a force to which the plate may be subjected to. The actuator response involved computation of the acoustic field radiated into the fluid when the transducer is subject to a known voltage. A hybrid numerical method involving finite element modeling in the plate and transducer region and a plane wave representation in the fluid region will be used. [Work supported by ONR.]
A theoretical and experimental approach to the geophone‐ground coupling problem based on acoustic reciprocity (1995)

PreviousNext No AccessSEG Technical Program Expanded Abstracts 1995A theoretical and experimental approach to the geophone‐ground coupling problem based on acoustic reciprocityAuthors: Johan VosBart B. CremersGuy G. DrijkoningenJacob T. FokkemaJohan VosUniversity of Leuven, Belgium, Bart B. CremersDelft University of Technology, The Netherlands, Guy G. DrijkoningenDelft University of Technology, The Netherlands, and Jacob T. FokkemaDelft University of Technology, The Netherlandshttps://doi.org/10.1190/1.1887644 SectionsAboutPDF/ePub ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinked InReddit Permalink: https://doi.org/10.1190/1.1887644FiguresReferencesRelatedDetailsCited byAzimuth-dependent ocean bottom cable receiver coupling to the seafloorMarcus Landschulze and Rolf Mjelde23 October 2014 | GEOPHYSICS, Vol. 79, No. 6Estimation of OBC coupling to the seafloor using 4C seismic dataMarcus Landschulze, Rolf Mjelde, and Leon Løvheim25 October 2012A Theoretical Study on the 3‐Degree Freedom Geophone Coupling System for Areas with Limestone Outcrops31 May 2013 | Chinese Journal of Geophysics, Vol. 53, No. 3Wavenumber correction for the recording group effects in the seismic dataAshwani Dev and George A. McMechan15 December 2008 SEG Technical Program Expanded Abstracts 1995 ISSN (print):1052-3812 ISSN (online):1949-4645 Copyright: 1995 Pages: 1566 publication data© 1995 Copyright © 1995 Society of Exploration GeophysicistsPublisher:Society of Exploration Geophysicists HistoryPublished Online: 10 Feb 2005 CITATION INFORMATION Johan Vos, Bart B. Cremers, Guy G. Drijkoningen, and Jacob T. Fokkema, (1995), "A theoretical and experimental approach to the geophone‐ground coupling problem based on acoustic reciprocity," SEG Technical Program Expanded Abstracts : 1003-1006. https://doi.org/10.1190/1.1887644 Plain-Language Summary PDF DownloadLoading ...
ChemInform Abstract: BIS HETEROANNULATION. 7. TOTAL SYNTHESES OF (.+‐.)‐GNIDIDIONE AND (.+‐.)‐ISOGNIDIDIONE (1984)

Abstract Ausgehend von der Reaktion zwischen dem Aldehyd (II) und den Lithiopropenen (III) wird (±)‐Gnididion (VIa), Inhaltsstoff von Gnidia latifolia, zusammen mit seinem Isomeren (VIb) nach dem aufgeführten Syntheseweg dargestellt.
A simple and effective model for cross‐flow microfiltration and ultrafiltration (2002)

Abstract A semi‐theoretical unsteady‐state model for the flux in cross‐flow microfiltration and ultrafiltration has been developed. The model predicts fouling behaviour for a wide range of particle sizes and foulant concentrations. The developed model uses only two coefficients, k 1 and k 2 , incorporating both the influences of the cake formation and the shear cleaning of the membrane, to describe flux decline. These two parameters were found to be almost independent of the operating conditions. The model provides both a fundamental understanding of the key physical phenomena governing flux decline and a rational basis for the design of an improved and modified cross flow filters.
Inhibitory effect of curromycin A and B on human immunodeficiency virus replication. (1994)

Two triene-/Mactone antibiotics1} recently isolated from the culture of Streptomyces sp. MJ213-62F4 resembling Streptomyces melanosporofaciens were identical with curromycins A and B2), respectively, produced by a genetically modified strain of Streptomyces hygroscopicus. In the present communication, we report their effect on humanimmunodeficiency virus replication in both acute and chronic infection. The experiment analyzing effects on primary infection was performed according to the following.
Management of Tracheal Neoplasms (1996)

Patients with tracheal involvement from primary or secondary neoplasms usually present with relatively nonspecific symptoms of cough, wheeze, and shortness of breath. Prompt diagnosis often requires a high index of suspicion. Tomography or computed tomography of the chest will often confirm the presence of a tracheal lesion. A detailed rigid bronchoscopic assessment by an experienced thoracic surgeon is essential for establishing the extent of tracheal involvement. Although advanced tumor stage often precludes surgical resection, the application of current operative techniques allows a significant number of tracheal tumors to be completely excised and primarily reconstructed. Adjuvant radiotherapy is often employed with surgical resection to improve local control and enhance the potential for cure.
On the pre-log of the asymptotic capacity of stationary frequency-flat multi-antenna channels (2007)

We continue previous work [1] in which we analyzed the Mutual Information of Frequency-Flat MIMO Channels with a Block Fading model. Absence of Channel State Information at Transmitter or Receiver (no CSIT/CSIR) was considered there. It was shown that implicitly a (semi-blind) channel estimate needs to be constructed that, in decision-feedback style, depends on the past (detected) inputs and outputs (training part) and on the future outputs (blind part). On the other hand, for peak-power limited SISO frequency- flat channels with stationary Gaussian fading, it has been shown by Lapidoth [2] that at high SNR, the capacity is determined by a pre-log factor that is equal to the bandwidth of frequencies where the channel Doppler spectrum is zero (the complementary part of the Doppler bandwidth). In this paper we extend Lapidoth's result to MIMO channels with bandlimited stationary fading. At high SNR, the absence of CSIR decreases the pre-log with a factor equal to 1 minus the average number of parameters per symbol period that parameterize the channel. This reduction term is proportional to the Doppler bandwidth and the number of transmit antennas. We introduce channel parameterizations that naturally induce a split in the transmitted symbols between "learning" symbols (that carry loglog(SNR) information) and "data" symbols (that carry log(SNR) information). The capacity pre-log factor is the proportion of "data" symbols.
iTeleScope: Intelligent Video Telemetry and Classification in Real-Time using Software Defined Networking (2018)

Video continues to dominate network traffic, yet operators today have poor visibility into the number, duration, and resolutions of the video streams traversing their domain. Current approaches are inaccurate, expensive, or unscalable, as they rely on statistical sampling, middle-box hardware, or packet inspection software. We present {\em iTelescope}, the first intelligent, inexpensive, and scalable SDN-based solution for identifying and classifying video flows in real-time. Our solution is novel in combining dynamic flow rules with telemetry and machine learning, and is built on commodity OpenFlow switches and open-source software. We develop a fully functional system, train it in the lab using multiple machine learning algorithms, and validate its performance to show over 95\% accuracy in identifying and classifying video streams from many providers including Youtube and Netflix. Lastly, we conduct tests to demonstrate its scalability to tens of thousands of concurrent streams, and deploy it live on a campus network serving several hundred real users. Our system gives unprecedented fine-grained real-time visibility of video streaming performance to operators of enterprise and carrier networks at very low cost.
ADMM decoding of non-binary LDPC codes in F&lt;inf&gt;2m&lt;/inf&gt; (2014)

In this paper, we develop an efficient algorithm for linear programming (LP) decoding of non-binary low-density parity-check (LDPC) codes. We build our algorithm on the decomposition method based on the alternating direction method of multipliers (ADMM). Although expressing the LP decoding problem using ADMM is not hard, a sub-routine of ADMM - projection onto a polytope formed from embeddings of the non-binary single parity-check code - is not straightforward. In this work, we focus on non-binary codes in fields of characteristic two. This allows us to use operations in F <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> to relax the polytope under consideration into a form that is computational friendly. We introduce a rotation step that normalizes the geometry under consideration. We then apply ADMM a second time to solve the projection problem, which is a quadratic program (QP). Our decoding algorithm scales linearly with block length, linearly with check degree, and quadratically with field size.
Determination of Rehydration Ability (2012)

This chapter contains sections titled: Determination of wettability Determination of dispersibility Determination of solubility Bibliography
A machine-learning approach for the inverse scattering problem in quantum reaction dynamics (2017)

Any quantum reactive scattering calculation requires an accurate potential energy surface (PES). Here, we propose a machine-learning approach, which makes feasible a feedback loop, allowing for the gradual improvement of PES based on results of rigorous quantum dynamics calculations. We show that such feedback loops produce accurate global PES with only 30 $ab$ $initio$ energies for the three-dimensional H + H$_2$ $\rightarrow$ H$_2$ + H reaction and 290 $ab$ $inito$ energies for the six-dimensional OH + H$_2$ $\rightarrow$ H$_2$O + H reaction. These surfaces are obtained automatically by a Bayesian optimization algorithm and do not require fitting the $ab$ $initio$ energies with analytical functions. By construction, these potentials reproduce accurately the reaction probabilities in a wide range of energies.
Morphological Observation of Y and T Junctions in Nanostructured Boron Nitride Thin Films (2008)

Formations of Y and T nano junctions have been observed in boron nitride films deposited on silicon substrates by plasma chemical reaction of diborane (B2H6 diluted in hydrogen) and ammonia (NH3) gases using dual frequency (microwave/radio) plasma enhanced chemical vapor deposition technique without any intentional heating of the substrates. It has been observed that these nano junctions form at a critical feed gas ratio of ammonia and diborane. We have investigated the effect of gas feed ratio R (=NH3/B2H6) in the plasma reaction chamber, keeping all other deposition parameters constant, on the morphology of boron nitride films. The deposited films are characterized by SEM, AFM, TEM and Laser Raman. For gas feed ratio, R < 100, octahedron and cubic morphologies have been observed in BN films and on increasing R to >100, size of the crystallites reduces to nanometer level. In some of our BN samples deposited at a critical value of gas ratio (R = 400), uniform Y and T junctions having bamboo like morphologies, in nanometer level, have been observed, which we wish to emphasis here as an interesting and newer observation in boron nitride films deposited by the dual frequency PECVD technique. This change in morphology exhibited by varying gas feed ratio is mainly due to excess nitrogen ions in the plasma.
Investigating multiscale interfaces and interphases using advanced spectroscopy for electrochemical energy storage (Conference Presentation) (2022)

The growing need for higher power and energy density batteries requires a fundamental understanding of the solid electrode-liquid electrolyte interface (SLI). Details governing the salt solvation and desolvation mechanisms are critical for the interfacial charge transfer process across the solid-liquid interface. I will show in this talk that gap-mode SERS is ideal to probe salt solvation structure in the immediate vicinity (< 20 nm) of the solid-liquid interface. SERS lacks the nanoscale resolution in the sample plane. To compensate for this, TERS is used to probe the decomposition product or solid-electrolyte interphase (SEI) at 10 nm nanoscale resolution.
Concrete Logic (2002)

Abstract This essay explores logical and physical readings of Spinoza’s Ethics. It argues that Spinoza made logic more like physics, rather than making physics into logic. A dichotomy between the metaphysical and physical is inappropriate in thinking about his work. One way to understand his approach is through quasi-Kantian terms, of making physics possible, although his work has left the question of what exists to those pursuing research to find out.
Stem Cells in <i>Cell Transplantation</i> (2006)

This commentary documents the increased number of stem cell-related research reports recently published in the cell transplantation field in the journal Cell Transplantation. The journal covers a wide range of issues in cell-based therapy and regenerative medicine and is attracting clinical and preclinical articles from around the world. It thereby complements and extends the basic coverage of stem cell physiology reported in Stem Cells and Development. Sections in Cell Transplantation cover neuroscience, diabetes, hepatocytes, bone, muscle, cartilage, skin, vessels, and other tissues, as well as tissue engineering that employs novel methods with stem cells. Clearly, the continued use of biomedical engineering will depend heavily on stem cells, and these two journals are well positioned to provide comprehensive coverage of these developments.
Solubility of Oxymatrine in Supercritical Carbon Dioxide (2008)

The solubility of oxymatrine in supercritical carbon dioxide over the pressures ranging from (11 to 21) MPa and at the temperatures of (308.15, 318.15, and 328.15) K was measured using a continuous flow-type apparatus. The measured solubilities were correlated using a semiempirical model proposed by Bartle.
Unsupervised shape transformer for image translation and cross-domain retrieval (2018)

We address the problem of unsupervised geometric image-to-image translation. Rather than transferring the style of an image as a whole, our goal is to translate the geometry of an object as depicted in different domains while preserving its appearance characteristics. Our model is trained in an unsupervised fashion, i.e. without the need of paired images during training. It performs all steps of the shape transfer within a single model and without additional post-processing stages. Extensive experiments on the VITON, CMU-Multi-PIE and our own FashionStyle datasets show the effectiveness of the method. In addition, we show that despite their low-dimensionality, the features learned by our model are useful to the item retrieval task.
Trace Metal Distribution and Correlation to Breast Cancer Progression and Metastasis Based on Synchrotron Radiation X-ray Fluorescence Imaging (2012)

Many trace metals are known to have important roles in the state of health and disease of individuals. Breast cancer, with highly invasive character, has been suggested to increased iron accumulation in the tumor. To investigate the role of iron in breast cancer progression and metastasis, 4T1 mammary carcinoma bearing mice was used to establish the human metastatic breast cancer model. Based on the methods of synchrotron radiation X-ray flourescence imaging (SXRF) with multi-elemental high sensitively and high spatial resolution, the distribution of iron, copper and zinc of 4T1 tumor at different growth stages on the 10th, 14th and 21st day after tumor inoculation was detected. Correspondingly, LCN2 and MMPs expressions in the corresponding tumor tissues were detected using immunohistochemistry analysis. The results showed that there was a significantly increased iron distribution during the tumor growth by SRXF. Accordingly, MMP2, MMP9 and LCN2 expression also increased significantly with the tumor growth. Our results suggested there might exist positive correlations of iron accumulation, LCN2 and MMP9 expression in tumor tissues during 4T1 tumor progression to metastasis.
[Allergic contact eczema due to 'tea tree' oil]. (1994)

In four patients, three women aged 45, 29 and 52 years and a man aged 45 years, allergic contact dermatitis due to 'tea tree' oil was diagnosed. The case of the man was published before. 'Tea tree' oils are essential oils distilled from the leaves of myrtaceous trees and shrubs occurring in Australia and South-East Asia. The 'tea tree' oil available in the Netherlands is distilled from the Melaleuca alternifolia and mainly contains eucalyptol. Eucalyptol is probably the most important allergen.
Electron-beam-controlled discharge excitation of a CO-C2H2 energy transfer laser (1977)

Laser emission in the 8-μm ν2-ν5 band of C2H2 has been observed in electron-beam-controlled discharges in CO-C2H2 mixtures. Line tunability within the P and Q branches has been demonstrated using a grating-controlled cavity. Spectroscopic measurements of the free-running C2H2 laser emission at pressures up to 4 atm indicate significant pressure-broadened line overlap of the closely spaced (&amp;lt;0.2 cm−1) Q-branch lines.