gebhart/patrepeval huggingface dataset:
Identification and typing of Francisella tularensis with a highly automated genotyping assay (2012)

A PCR assay was developed to genotypically characterize Francisella tularensis and F. novicida. An integrated and partially redundant set of markers was selected to provide positive identification of these species, identify subspecies of F. tularensis and genotype 14 variable number tandem repeat (VNTR) markers. Assay performance was evaluated with 117 Francisella samples. Sample DNA was amplified, and the masses of the PCR products were determined with electrospray ionization/time of flight mass spectrometry (ESI-MS). The base compositions of the PCR amplicons were derived from these high-accuracy mass measurements and contrasted with databased information associated with each of the 25 assay markers. Species and subspecies determinations for all samples were fully concordant with results from established typing methods, and VNTR markers provided additional discrimination among samples. Sequence variants were observed with a number of assay markers, but these did not interfere with sample characterization, and served to increase the genetic diversity detected by the assay.
A Flavo‐Thiazolio‐Cyclophane as a Functional Model for Pyruvate Oxidase (1996)

The cyclophane 1 is the first functional model for the enzyme pyruvate oxidase in which flavin and thiazolium prosthetic groups are arranged close to a well-defined binding site. It catalyzes the oxidation of 2-naphthaldehyde to methyl 2-naphthoate in MeOH/Et3N with high efficiency and complete reaction selectivity.
Lossless ROADM by Exploiting low gain SOAs in fronthaul network (2019)

SOA gain blocks are enabling components to realize lossless mini-ROADMs based fronthaul optical access ring networks. The impact of cascaded SOAs on WDM (12X25Gb/s) signal quality is investigated through simulation modelling and experimental validation.
MR elastography of the ex vivo bovine globe (2010)

These results show that it is possible to estimate the intrinsic elastic properties of the corneoscleral shell in an ex vivo bovine globe, suggesting that MRE may provide a useful means to assess the mechanical properties of the eye and its anatomy. Further development of the technique and modeling process will enhance its potential, and further investigations are needed to determine its clinical potential.
Performance Analysis of Combining Space-Time Block Coding and Scheduling over Arbitrary Nakagami Fading Channels (2014)

In this paper, we investigate a combining space-time block coding (STBC) and opportunistic scheduling referred to as a joint diversity in a multiple-input multiple-output (MIMO) system. We study the performance analysis of the joint diversity over the arbitrary Nakagami fading channels including a fading index of real and integer values. The exact symbol error rate (SER) expressions of the joint diversity are derived for phase shift keying (PSK) and quadrature amplitude modulation (QAM) including quantification of both the diversity order and signal to noise ratio (SNR) gain. From analysis results, we show that the number of users and fading index improve the diversity order of the joint diversity for SER regardless of modulation types. On the other hand, the number of users and fading index degrade the SNR gain of the joint diversity for SER with both modulations. Further, this paper derives the exact average post-processing SNR, the exact outage probability and the exact ergodic capacity including the tight outage capacity of the joint diversity over the arbitrary Nakagami fading channels including the fading index of real and integer values. From analysis results, we show that both average post-processing SNR and ergodic capacity of the joint diversity is degraded as the fading index increases, while the outage capacity is improved.
Optical characterization of alcohol-infiltrated one-dimensional silicon photonic crystals (2009)

In this work, experimental results on the optical characterization of alcohol-infiltrated silicon/air one-dimensional photonic crystals (1D-PhCs), fabricated by electrochemical micromachining of silicon, are presented. The spectral reflectivity of high-order hybrid 1D-PhCs with a spatial period of 8 microm was measured, in the wavelength range 1.0-1.7 microm, when alcohols (ethanol and isopropanol) substitute air inside the trenches. A reliable redshift is observed in the presence of alcohols, with respect to air, which allows one to discriminate the refractive index difference between the alcohols. Experimental data are in good agreement with numerical results calculated by using the characteristic matrix method, modified to take into account surface roughness of silicon walls.
Time Gated Luminescence Imaging of Immunolabeled Human Tissues (2017)

Multiplexed immunofluorescence imaging of formalin-fixed, paraffin-embedded tissues is a powerful tool for investigating proteomic profiles and diagnosing disease. However, conventional immunofluorescence with organic dyes is limited in the number of colors that can be simultaneously visualized, is made less sensitive by tissue autofluorescence background, and is usually incompatible with commonly used hematoxylin and eosin staining. Herein, we demonstrate the comparative advantages of using time-gated luminescence microscopy in combination with an emissive Tb(III) complex, Lumi4-Tb, for tissue imaging in terms of sensitivity, multiplexing potential, and compatibility with common immunohistochemistry protocols. We show that time-gated detection of millisecond-scale Tb(III) emission increases signal-to-noise ratio relative to conventional steady-state detection of organic dye fluorescence and permits visualization of low-abundance tissue markers such as Bcl-6 or MSH-6. In addition, temporal separation of long- and short-lifetime (∼nanosecond) signals adds a second dimension for multiplexing and also permits detection of intermolecular Tb(III)-to-dye Förster resonance energy transfer. Furthermore, we demonstrate that the Lumi4-Tb complex is compatible with tyramide signal amplification and, unlike conventional organic dyes, can be reliably used on tissue stained with hematoxylin and eosin. Our results indicate that time-gated luminescence microscopy using Tb(III) labels can provide a sensitive and robust method to perform multiplexed immunofluorescence on archived or clinical tissue specimens.
Consistency of Reported Outcomes After Arthroscopic Management of Femoroacetabular Impingement (2013)

Level IV, systematic review of Level II, III, and IV studies.
Measurement of PMD tolerance in 40-Gb/s polarization-multiplexed RZ-DQPSK (2008)

We experimentally investigate the first-order polarization-mode dispersion (PMD) tolerance of two polarization-multiplexed (POLMUX) RZ-DQPSK signals at overall 40 Gb/s. The polarization demultiplexing is enabled by an automatic endless polarization stabilizer. Time-interleaving the two orthogonally polarized RZ-DQPSK signals minimizes the crosstalk due to the non-ideal polarization stabilization, while it represents the worstcase for the PMD-induced crosstalk. Bit-error rate measurements are performed both in back-to-back and after 25-km standard single-mode fiber. The PMD tolerance is evaluated as a function of the instantaneous differential group delay, introduced by a first-order PMD emulator. 40-Gb/s POLMUX RZ-DQPSK is more sensitive to PMD than single-polarization 20-Gb/s DQPSK, while it is more PMD-tolerant than 40-Gb/s NRZ-OOK. Besides, its chromatic dispersion robustness is similar to the single-polarization 20-Gb/s DQPSK. The combination of POLMUX and DQPSK is therefore very promising in view of transmission systems at high bit-rate.
Design, Fabrication, and Characterization of Dense Compressible Microinterconnects (2017)

This paper presents gold passivated NiW compressible microinterconnects (CMIs) with 75 μm height and 150 μm in-line pitch. The CMIs are batch fabricated using CMOS-compatible processes. The fabricated CMIs have a measured compliance of up to 13.12 mm/N and demonstrate 45 μm elastic vertical range of motion. Moreover, the CMIs are shown to return to their original geometrical profile after several deflections and consequently are able to maintain contact with their corresponding pads at all times. The measured four-point resistance of a CMI, which includes contact resistance, is as low as 176.3 mΩ.
Multi-Stage Influence Function (2020)

Multi-stage training and knowledge transfer, from a large-scale pretraining task to various finetuning tasks, have revolutionized natural language processing and computer vision resulting in state-of-the-art performance improvements. In this paper, we develop a multi-stage influence function score to track predictions from a finetuned model all the way back to the pretraining data. With this score, we can identify the pretraining examples in the pretraining task that contribute most to a prediction in the finetuning task. The proposed multi-stage influence function generalizes the original influence function for a single model in (Koh & Liang, 2017), thereby enabling influence computation through both pretrained and finetuned models. We study two different scenarios with the pretrained embeddings fixed or updated in the finetuning tasks. We test our proposed method in various experiments to show its effectiveness and potential applications.
Predictive Modeling of Electrocatalyst Structure Based on Structure-to-Property Correlations of X-ray Photoelectron Spectroscopic and Electrochemical Measurements (2008)

Chemical structure and catalytic activity of nonplatinum porphyrin-based electrocatalyst for oxygen reduction is characterized by combination of X-ray photoelectron spectroscopy (XPS) and rotating disk electrode. The goal of the study is to show how modifications in the molecular structure affect catalytic characteristics and how to use these structural modifications in a purposeful manner to increase catalytic activity. Initial correlation of structure to electrochemical performance is achieved through the application of principal component analysis (PCA) to curve-fits of high-resolution XPS spectra combined with results of electrochemical measurements. Furthermore, a predictive model that describes this correlation is build using the combination of genetic algorithm (GA) and multiple linear regression (MLR). Based on structure-to-property correlations, two types of active sites responsible for the catalytic activity, i.e., Co associated with pyropolymer and Co particles covered by oxide layer, are determined, and a dual-site for oxygen reduction on cobalt porphyrins is hypothesized, allowing for designing a catalyst structure with optimal performance characteristics.
Stereospecific total syntheses of the natural antitumor agent, (.alpha.S, 5S)-.alpha.-amino-3-chloro-4,5-dihydro-5-isoxazoleacetic acid, and its unnatural C-5 epimer (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStereospecific total syntheses of the natural antitumor agent, (.alpha.S, 5S)-.alpha.-amino-3-chloro-4,5-dihydro-5-isoxazoleacetic acid, and its unnatural C-5 epimerRichard B. Silverman and Mark W. HolladayCite this: J. Am. Chem. Soc. 1981, 103, 24, 7357–7358Publication Date (Print):December 1, 1981Publication History Published online1 May 2002Published inissue 1 December 1981https://pubs.acs.org/doi/10.1021/ja00414a064https://doi.org/10.1021/ja00414a064research-articleACS PublicationsRequest reuse permissionsArticle Views288Altmetric-Citations22LEARN 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 InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Effects of acetate on luminal acidification processes in the S3 segment of the rabbit proximal tubule (1989)

We determined that, in the nominal absence of HCO-3, acetate (Ac-) doubles luminal acidification in the S3 segment of the rabbit proximal tubule. This stimulation had two components, one that was dependent on Na+ and luminal Ac- and a second that was independent of Na+ but dependent on basolateral Ac-. In the presence of 25 mM HCO-3, Ac- did not stimulate acid secretion (i.e., HCO-3 reabsorption), but actually inhibited it. The inhibition was 35% with bilateral Ac- and 15% with basolateral Ac-. The effects of Ac- were reversible both in the absence and presence of HCO-3, and are present at concentrations as low as 1 mM. We conclude that acetate (i.e., monocarboxylates) has a significant effect on luminal acidification processes both in the presence and absence of HCO-3.
Bilirubin oxidase-based cathode for microbial fuel cell (MFC) applications: The effects of bacterial/pollutants' presence on enzyme stability (2013)

The trends of open circuit potential (OCP), current density achieved at 0.25V and the polarization behavior of bilirubin oxidase (BOx) based cathode was examined over a period of 12 days. A single chamber was used as the half electrochemical cell. The electrolyte used was phosphate buffer solution (PBS, 100 mM) with or without the addition of activated sludge. The AS was used as bacterial/pollutants source to evaluate the enzymatic degradation due to bacterial contamination. The cathodes were poised at 0.3V for the first two days, 0.2V during the following two days, and 0.1V in the remaining time of the tests. At the beginning, the OCPs were slightly higher than 0.5 V for the PBS solution and the PBS/AS solution. Over time the OCPs decreased and after 12 days, the cathode facing PBS had an OCP of 0.415 V while the one in the PBS/AS solution had a low OCP (0.3 V), which was the typical OCP achieved by the material only without enzymes addition, underlining the probable complete deactivation/poisoning of the enzymes.
Fabrication of field‐effect transistor devices with fullerene related materials (2006)

Abstract Field‐effect transistor (FET) devices have been fabricated with thin films of fullerodendrons (I), (II) and (III) by using solution process. The n ‐channel normally‐off FET properties have been observed in the fullerodendron (I) and (II) FET devices with SiO 2 /Si substrate. The values of field‐effect mobility, μ , of the fullerodendron (I) and (II) FETs were determined to be 4.5 × 10 –4 and 1.4 × 10 –3 cm 2 V –1 s –1 , respectively, at 300 K. On the other hand, the n ‐channel normally‐on FET properties have been observed in the fullerodendron (II) FET devices with three types of polymer gate insulators on poly(ehylene terephthalate) substrates. (© 2006 WILEY‐VCH Verlag GmbH &amp; Co. KGaA, Weinheim)
Ultrasound-Microbubble-Mediated NF-κB Decoy Transfection Attenuates Neointimal Formation after Arterial Injury in Mice (2005)

We revealed that ultrasound-microbubble delivery of the decoy is effective for transfection into target organs. We also indicated that NF-kappaB decoy transfection using this method has potential for the suppression of neointimal formation. Ultrasound-mediated transfection of the decoy can be beneficial for the clinical treatment of restenosis after coronary intervention and other cardiovascular diseases.
Line-Focus and Point-Focus Space Photovoltaic Concentrators Using Robust Fresnel Lenses, 4-Junction Cells, & Graphene Radiators (2017)

At the past two PVSCs, our team presented recent advances in our line-focus space photovoltaic concentrator technology. In the past year, under Phase II and Phase II E SBIR programs and other programs funded by NASA, our team has extended the technology to point-focus concentrators as well, and has made much additional progress in the development of this new family of space photovoltaic concentrators. Both versions use flat, robust Fresnel lenses, high-efficiency 4-junction cells, and innovative graphene radiators. This paper presents the latest advances in this technology.
Effective Treatment of Retinal Neovascular Leakage with Fusogenic Porous Silicon Nanoparticles Delivering VEGF-siRNA (2022)

<b>Aim:</b> To evaluate an intravitreally injected nanoparticle platform designed to deliver VEGF-A siRNA to inhibit retinal neovascular leakage as a new treatment for proliferative diabetic retinopathy and diabetic macular edema. <b>Materials & methods:</b> Fusogenic lipid-coated porous silicon nanoparticles loaded with VEGF-A siRNA, and pendant neovascular integrin-homing iRGD, were evaluated for efficacy by intravitreal injection in a rabbit model of retinal neovascularization. <b>Results:</b> For 12 weeks post-treatment, a reduction in vascular leakage was observed for treated diseased eyes versus control eyes (p = 0.0137), with a corresponding reduction in vitreous VEGF-A. <b>Conclusion:</b> Fusogenic lipid-coated porous silicon nanoparticles siRNA delivery provides persistent knockdown of VEGF-A and reduced leakage in a rabbit model of retinal neovascularization as a potential new intraocular therapeutic.
Surface Plasmon Resonances of Free‐Standing Gold Nanowires Fabricated by Nanoskiving (2006)

Down to the wire: A top-down technique that combines photolithography, thin-film metal deposition, and thin-film sectioning has been developed to fabricate patterned arrays of gold nanowires of uniform, controllable length, width, and height. A systematic study of the dependence of the surface plasmon resonance (see picture) on the geometry of these wires is presented. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2002/2006/z600394_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Caffeine-11C, Ephedrine-11C and Methylephedrine-11C: Synthesis and Distribution in Mice (1978)

Caffeine, ephedrine and methylephedrine were labeled with carbon-11 by the action of methyliodide-11C on theophylline, norephedrine and ephedrine, respectively. Caffeine-11C was prepared in 44 min with a radiochemical yield of 40%, ephedrine-11C in 45 min with a 11% radiochemical yield and methylephedrine-11C in 36 min with a 43% radiochemical yield. When injected in mice intravenously, these products show a high uptake in the liver, the kidney and the blood for caffeine-11C and in the liver and the kidney for ephedrine-11C and methylephedrine-11C. The brain uptake for these products was found to be 2.4 to 3.9% of the injected dose per gram at 5 min after injection. These studies in mice have demonstrated that these products are potentially useful agents for the dynamic studies of the brain.
Adenohypophyseal response to hypophysiotropic hormones in male obese Zucker rats (1985)

Description of the recessive, homozygote obese Zucker rat (fafa) includes disorders of growth and reproduction. The aim of this study was to compare responsiveness of adenohypophyseal cells, obtained from male fafa rats and from their lean siblings, to growth hormone-releasing factor (GRF) and to luteinizing hormone-releasing hormone (LHRH). Pituitary cells were cultured for 4 days and were then challenged with either GRF-29 (the NH2-terminal 29 amino acid GRF peptide that expresses full biological activity of its parent 44 amino acid molecule) or [D-Trp6]LHRH (LHRH-A, an LHRH agonist). Medium was assayed for growth hormone (GH), luteinizing hormone (LH), and follicle-stimulating hormone (FSH) by radioimmunoassay. Dose-response curves were compared using the computer program ALLFIT. The median effective GRF-29 concentration (EC50) computed for hypophyseal cells cultured from lean animals (0.30 +/- 0.01 fM; means +/- SE of 4 experiments) was less (P less than 0.01) than that calculated for cells obtained from fafa rats (15.8 +/- 6.7 fM). In contrast, cells derived from lean littermates required a larger (EC50) concentration of LHRH-A than did gonadotrophs cultured from obese rats [58.2 +/- 1.2 vs. 10.7 +/- 1.2 pM (P less than 0.01) and 59.4 +/- 10.4 vs. 15.7 +/- 7.6 pM (P less than 0.05)] to secrete LH and FSH, respectively. Our data describe an attenuated pituitary response to GRF-29 and an enhanced response to LHRH-A in the fafa.
1P1-T03 Multipurpose Optimization of Camera Position for Robot Vision and Applying to Grasping Operation(Robot Vision) (2014)

Autonomous robots that replace humans are currently in high demand in the manufacturing sector worldwide. However, these robots cannot be used in unknown environments because most of them are controlled by sequence controls. To solve this problem, cameras are needed as vision sensors that can recognize the outside environment. It would enable industrial robots to more effectively perform the handling tasks by combining the image recognition technique with the feedback and sequence control techniques. In this search, we aim at improving the camera calibration accuracies in order to accurately calculate the shape and position of an object from the image information obtained by two cameras. Then, we focus on the positions of two cameras. We have proposed the positions of two cameras in the past to improve these calibration accuracies. However, we require wide floor ranges for the two cameras in the past reserch. By reducing the floor area of an industrial robot, it is expected to improve productively and investment costs. Therefore, improvement of the position of cameras of the past study is needed. So, in this reserch, we newly propose the positions of two cameras in a small area by taking into consideration calibration accuracies. First of all, we examine the influences of the positions of two cameras for calibration accuracies. Next, we determine the optimal camera position from a simulation based on the modeling image noise obtained through experimentation. After that, we verify the effectiveness of the positions of two cameras by sorting operation accompanied by identification task and robotic grasping task.
Copy number alterations in ten AA-exposed Taiwanese ccRCCs from Aristolochic Acid in the Etiology of Renal Cell Carcinoma (2023)

&lt;p&gt;Circus plots of Taiwanese ccRCCs.&lt;/p&gt;
Frequency-dependent parameterized macromodeling of integrated inductors (2016)

Integrated inductors are one of the most important passive elements in radio frequency design, due to their wide usage in wireless communication circuits. Typically, electromagnetic simulators are used in order to estimate the inductors performance with high accuracy as a function of the inductor geometrical and electrical parameters. Such simulations offer high-accuracy, but are computationally expensive and extremely time consuming. In this paper, a frequency-dependent parameterized macromodeling technique is adopted in order to overcome this problem. The proposed approach offers a high degree of automation, since it is based on sequential sampling algorithms, high efficiency and flexibility: a continuous frequency-domain model is given for each value of the chosen inductors parameters in the design space.