gebhart/patrepeval huggingface dataset:
Know-how Sharing Using a Knowledge Sharing System KIDS A Knowledge Management Practice at a Research Laboratory (2000)

We developed a knowledge and information on demand system, KIDS, which structures free-form text as knowledge to provide the user with knowledge fit for his natural language query. For a period of four years, we carried out knowledge sharing experiments using the system at a research center that includes around 1,000 researchers engaged in various fields such as computer science, display devices, advanced LSIs and mechanical systems. In the experiment we focused on sharing the knowledge processed by individuals; technical papers, patents and the like were excluded from the scope of the experiments because a document management system has already been implemented. An individual&amp;apos;s knowledge includes a knack or tips useful in the performance of research. The result shows the feasibility of integrating organized domain knowledge and personal free-form know-how. We discuss key factors for success in knowledge sharing such as text structurization, building a knowledge sharing culture, knowledge quality maintenance. 1
Coevolving JAK2V617F+relapsed AML and donor T cells with PD-1 blockade after stem cell transplantation: an index case (2021)

Relapse of myeloproliferative neoplasms (MPNs) after allogeneic hematopoietic stem cell transplantation (HSCT) is associated with poor outcomes, as therapeutic approaches to reinstate effective graft-versus-leukemia (GVL) responses remain suboptimal. Immune escape through overexpression of PD-L1 in JAK2V617F-mutated MPN provides a rationale for therapeutic PD-1 blockade, and indeed, clinical activity of nivolumab in relapsed MPN post-HSCT has been observed. Elucidation of the features of response following PD-1 blockade in such patients could inform novel therapeutic concepts that enhance GVL. Here, we report an integrated high-dimensional analysis using single-cell RNA sequencing, T-cell receptor sequencing, cellular indexing of transcriptomes and epitopes by sequencing (CITE-seq), and assay for transposase-accessible chromatin using sequencing (scATAC-seq), together with mass cytometry, in peripheral blood mononuclear cells collected at 6 timepoints before, during, and after transient response to PD-1 blockade from an index case of relapsed MPN following HSCT. Before nivolumab infusion, acute myeloid leukemia (AML) blasts demonstrated high expression of chemokines, and T cells were characterized by expression of interferon-response genes. This baseline inflammatory signature disappeared after nivolumab infusion. Clinical response was characterized by transient expansion of a polyclonal CD4+ T-cell population and contraction of an AML subpopulation that exhibited megakaryocytic features and elevated PD-L1 expression. At relapse, the proportion of the AML subpopulation with progenitor-like features progressively increased, suggesting coevolution of AML blasts and donor-derived T cells. We thus demonstrate how single-cell technologies can provide complementary insight into cellular mechanisms underlying response to PD-1 blockade, motivating future longitudinal high-dimensional single-cell studies of GVL responses in relapsed myeloid disease.
Contribution of Round vs. Rectangular Expandable Cage Endcaps to Spinal Stability in a Cadaveric Corpectomy Model (2015)

These results suggest anterior-only fixation may be adequate when using an expandable cage in a sub-total corpectomy application and choice of endcap type may be driven by other factors such as subsidence resistance.
Directional Ranging for Enhanced Performance of Aided Pedestrian Inertial Navigation (2019)

We present a ranging-based aiding method for pedestrian inertial navigation, utilizing not only ranging readouts, but also orientation of the ranging sensors. Both numerical and experimental results demonstrated improvements in navigation accuracy using the method. Kalman Filter (KF) was implemented to merge inertial navigation with Zero-Velocity-Update (ZUPT) algorithm and foot- to- foot directional ranging information. The improvement of navigation accuracy was achieved purely algorithmically without any increase in complexity of the hardware. We demonstrated experimentally that the navigation errors can be improved by about two times using the method.
Coupling of RNAi-Mediated Target Downregulation with Gene Replacement (2003)

Short interfering RNA (siRNA)-mediated knockdown of deleterious endogenous transcripts has potential applications for the treatment of hereditary diseases. In situations where the mutant and wildtype transcripts cannot be discriminated from one another by siRNAs, it may be necessary to simultaneously carry out gene replacement with a modified form of the target RNA that is resistant to siRNA activity. To test this possibility, we have taken advantage of a potent siRNA that knocks down EGFP mRNA. In this system, wild-type EGFP expression is suppressed by the siRNA, whereas an EGFP construct with codon modifications in the target region that is otherwise fully functional is not downregulated. When expression of the wild-type message is inhibited, EGFP expression can be simultaneously restored by transfecting these cells with the codon-modified version of EGFP. These studies provide a detailed methodology and system for testing this strategy with RNA interference (RNAi).
Dispersion mechanism of surface magnetoplasmons in periodic layered structures (2009)

We investigate the dispersion mechanism of surface magnetoplasmons for periodic layered structures in the Voigt configuration. An analytical dispersion relation that retains a similar form with ordinary surface plasmons is obtained. The splitting of surface plasma frequency is accompanied with unequal field strengths of surface modes at the two interfaces and is characterized by a simple dynamic model that recasts the role of magnetic force on to the effective mass. The underlying mechanism is illustrated with the transverse currents induced by the cyclotron motion of electrons, which appears as the typical feature of the dynamic Hall effect. In particular, the acoustical and optical branches exhibit an anticrossing scheme for small filling fractions, due to the like symmetry of modes in the two branches. As the parallel wave number changes, the two interaction branches experience a transition of mode pattern from symmetry to antisymmetry, or vice versa.
Correction to “Organic Acids Tunably Catalyze Carbonic Acid Decomposition” (2014)

ADVERTISEMENT RETURN TO ISSUEPREVAddition/CorrectionNEXTORIGINAL ARTICLEThis notice is a correctionCorrection to "Organic Acids Tunably Catalyze Carbonic Acid Decomposition"Manoj Kumar, Daryle H. Busch, Bala Subramaniam, and Ward H. Thompson*Cite this: J. Phys. Chem. A 2014, 118, 43, 10155–10156Publication Date (Web):October 20, 2014Publication History Published online20 October 2014Published inissue 30 October 2014https://pubs.acs.org/doi/10.1021/jp510017whttps://doi.org/10.1021/jp510017wcorrectionACS PublicationsCopyright © 2014 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views342Altmetric-Citations6LEARN 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 PDF (481 KB) Get e-Alertsclose Get e-Alerts
Self-assessment for optic disc segmentation (2013)

Optic disc segmentation from retinal fundus image is a fundamental but important step in many applications such as automated glaucoma diagnosis. Very often, one method might work well on many images but fail on some other images and it is difficult to have a single method or model to cover all scenarios. Therefore, it is important to combine results from several methods to minimize the risk of failure. For this purpose, this paper computes confidence scores for three methods and combine their results for an optimal one. The experimental results show that the combined result from three methods is better than the results by any individual method. It reduces the mean overlapping error by 7.4% relatively compared with best individual method. Simultaneously, the number of failed cases with large overlapping errors is also greatly reduced. This is important to enhance the clinical deployment of the automated disc segmentation.
Gas sensor with attenuated drift characteristic (2023)

A sensor with an attenuated drift characteristic, including a layer structure in which a sensing layer has a layer of diffusional barrier material on at least one of its faces. The sensor may for example be constituted as a hydrogen gas sensor including a palladium/yttrium layer structure formed on a micro-hotplate base, with a chromium barrier layer between the yttrium layer and the micro-hotplate, and with a tantalum barrier layer between the yttrium layer and an overlying palladium protective layer. The gas sensor is useful for detection of a target gas in environments susceptible to generation or incursion of such gas, and achieves substantial (e.g., >90%) reduction of signal drift from the gas sensor in extended operation, relative to a corresponding gas sensor lacking the diffusional barrier structure of the invention
Probing the In Situ Electrochemical Reduction of Hierarchical Oxide-Derived Inverse Opals during the Conversion of CO2 into Fuels (2021)

Presented by NETL at ACS Spring National Meeting &amp;amp; Expo, 03/19
Grain-Growth Mediated Hydrogen Sorption Kinetics and Compensation Effect in Single Pd Nanoparticles (2021)

Abstract Grains constitute the building blocks of polycrystalline materials and their boundaries determine bulk physical properties like electrical conductivity, diffusivity and ductility. However, the structure and evolution of grains in nanostructured materials and the role of grain boundaries in reaction or phase transformation kinetics are completely uncharted, despite likely importance in catalysis, batteries and hydrogen energy technology applications. To fill this gap, we investigate the kinetics of (de)hydriding phase transformations in individual Pd nanoparticles. We find dramatic evolution of single particle grain morphology upon cyclic exposure to hydrogen, which we identify as the reason for the observed rapidly slowing sorption kinetics, and as the origin of the observed kinetic compensation effect. This constitutes the first observation of the impact of grain growth on kinetic processes occurring inside nanostructured materials, provides a physically sound mechanistic explanation of kinetic compensation effects, and highlights the importance of single particle experiments for their systematic investigation.
Novel Steroidal Saponins in Oat Identified by Molecular Networking Analysis and Their Levels in Commercial Oat Products (2021)

Through the use of the Global Natural Product Social (GNPS) feature-based networking system, a series of newly identified steroidal saponins were discovered in oat. The structures of the three new major steroidal saponins, sativacosides A-C (<b>1</b>-<b>3</b>), were characterized by analyzing their high-resolution MS, 1D and 2D NMR spectra, and an additional eight new steroidal saponins were also tentatively identified (<b>4</b>-<b>11</b>) based on their tandem mass spectra and typical fragments. Using ultrahigh-performance liquid chromatography with tandem mass spectrometry techniques, a complete profile of the new sativacoside series was established, and the contents of sativacosides A-C were quantified in 18 different commercial oat products. The total levels of sativacosides A-C varied from 62.2 to 192.9 μg/g in these 18 products, in which oat bran (11 samples) and oatmeal (3 samples) had higher levels than cold oat cereal (4 samples).
Calculation of near-surface attenuation coefficients: the influence of wave focusing (1990)

The influence of small waves (&lt;2 to 10 cm in height) in in-ground tanks on the vertical attenuation coefficient for downwelling irradiance (Kd) calculated from either the mean irradiances over a 5 minute run or the average of point-to-point measurements made at 10 and 20 Hz is investigated. Waves of mean frequencies of about 1 Hz were introduced in the tanks that produced corresponding frequencies in the power spectrum of measured irradiances. Coherence was greater than 0.7 between spectra of irradiance and waves when small waves were introduced, but was less than 0.3 under ambient conditions. Both increases and decreases in Kd values were observed when comparing Kd calculated from the point-to-point values and that obtained using the mean irradiances. When large waves (5-10 cm) were introduced, the methods deviated by up to a factor of two, presumably due to the large fluctuations in the point-to-point Kd values relative to the fluctuations in irradiance averaged over the 5 minute run. There were changes of 30% in Kd, calculated from mean irradiances, as wave height was increased.
Intratumoral Injection of TLR4 Agonist (G100) Leads to Tumor Regression of A20 Lymphoma and Induces Abscopal Responses (2015)

Abstract Background: Toll-like receptors (TLRs) are components of the innate immune system that recognize pathogen-associated molecular patterns present on bacterial, fungal, or viral pathogens. Glucopyranosyl lipid A (GLA) is a synthetic TLR4 agonist that activates dendritic cells (DC) and enhances antigen-specific Th1 cell responses. Scientific question: Can an oil-in-water emulsion of GLA (G100) induce an anti-tumor effect due to modulation of the tumor microenvironment? Results: In our A20 murine lymphoma tumor model, intratumoral (i.t) administration of G100 resulted in tumor regression in approximately 50% of the mice in a dose dependent manner with an optimal dose of 10-20 μg/mouse. Surviving mice remained tumor-free at three months post G100 treatment and were resistant to a secondary tumor challenge with A20 cells, but not with CT26 colon cancer cells or 4T1 breast cancer cells. The effect was CD8+ T cell mediated as CD8+ depletion resulted in a significant loss of the effect. To examine the potential systemic effect of G100 i.t. treatment, Balb/c mice were implanted bilaterally with A20 tumors. Injection of G100 into the ipsilateral tumor three times a week resulted in an abscopal effect on the contralaterally implanted, untreated tumor, as evidenced by reduced tumor growth. Furthermore, the potential synergy between G100 and immunomodulatory antibodies was investigated: mice with bilateral A20 tumors received intratumoral G100 alone, systemic anti-PD-1 mAb alone, or a combination of both agents. Mice receiving combination therapy showed best overall survival, as measured by regression or reduced growth of both treated and untreated tumors. In addition, injection of low doses of anti-CTLA4 and anti-OX40 mAbs together with G100, directly into the tumor, was able to cure mice with established disease. Significance: Immunomodulatory antibodies are currently under clinical development for cancer treatment. We show here that combining these antibodies with a TLR4 agonist is sufficient to trigger a systemic anti-tumor response able to eradicate tumor at a distant site. This anti-tumor immune response was long lasting, specific and required CD8+ T cells as the effect was lost in CD8+ T cell depleted mice. Impact: We recently published positive results of intra-tumoral CpG (TLR9 agonist) in combination with immunomodulatory antibodies (Marabelle, Levy, et al. JCI, 2013). Both anti-CTLA4 and anti-PD1 antibodies have been FDA approved, and anti-PD-L1 and anti-OX40 antibodies are currently in advanced clinical trials. Our results suggest that G100 alone or in combination with immunomodulatory mAbs may be a promising new treatment for patients with injectable sites of lymphoma. Clinical studies investigating intratumoral G100 are underway. Disclosures Off Label Use: G100- a TLR4 agonist. Lu:Immune Design: Employment. Hewitt:Immune Design: Employment. Hsu:Immune Design: Employment. Meulen:Immune Design: Employment. Levy:Immune Design: Research Funding; Dynavax: Research Funding.
From immobilized cells to motile cells on a bed-of-nails: effects of vertical nanowire array density on cell behaviour (2015)

The field of vertical nanowire array-based applications in cell biology is growing rapidly and an increasing number of applications are being explored. These applications almost invariably rely on the physical properties of the nanowire arrays, creating a need for a better understanding of how their physical properties affect cell behaviour. Here, we investigate the effects of nanowire density on cell migration, division and morphology for murine fibroblasts. Our results show that few nanowires are sufficient to immobilize cells, while a high nanowire spatial density enables a "bed-of-nails" regime, where cells reside on top of the nanowires and are fully motile. The presence of nanowires decreases the cell proliferation rate, even in the "bed-of-nails" regime. We show that the cell morphology strongly depends on the nanowire density. Cells cultured on low (0.1 μm(-2)) and medium (1 μm(-2)) density substrates exhibit an increased number of multi-nucleated cells and micronuclei. These were not observed in cells cultured on high nanowire density substrates (4 μm(-2)). The results offer important guidelines to minimize cell-function perturbations on nanowire arrays. Moreover, these findings offer the possibility to tune cell proliferation and migration independently by adjusting the nanowire density, which may have applications in drug testing.
Crystal structure of trans, trans 1,4-dipheny 1-1 -aza-buta-1,3-diene, (C6H5)NCHCHCH(C6H5) (1997)

Article Crystal structure of trans, trans 1,4-dipheny 1-1 -aza-buta-1,3-diene, (C6H5)NCHCHCH(C6H5) was published on December 1, 1997 in the journal Zeitschrift für Kristallographie - New Crystal Structures (volume 212, issue 1).
The CD8 T Cell Coreceptor Exhibits Disproportionate Biological Activity at Extremely Low Binding Affinities (2003)

T lymphocytes recognize peptides presented in the context of major histocompatibility complex (MHC) molecules on the surface of antigen presenting cells. Recognition specificity is determined by the alphabeta T cell receptor (TCR). The T lymphocyte surface glycoproteins CD8 and CD4 enhance T cell antigen recognition by binding to MHC class I and class II molecules, respectively. Biophysical measurements have determined that equilibrium binding of the TCR with natural agonist peptide-MHC (pMHC) complexes occurs with KD values of 1-50 microm. The pMHCI/CD8 and pMHCII/CD4 interactions are significantly weaker than this (KD >100 microm), and the relative roles of TCR/pMHC and pMHC/coreceptor affinity in T cell activation remain controversial. Here, we engineer mutations in the MHCI heavy chain and beta2-microglobulin that further reduce or abolish the pMHCI/CD8 interaction to probe the significance of pMHC/coreceptor affinity in T cell activation. We demonstrate that the pMHCI/CD8 coreceptor interaction retains the vast majority of its biological activity at affinities that are reduced by over 15-fold (KD > 2 mm). In contrast to previous reports, we observe that the weak interaction between HLA A68 and CD8, which falls within this spectrum of reduced affinities, retains substantial functional activity. These findings are discussed in the context of current concepts of coreceptor dependence and the mechanism by which TCR coreceptors facilitate T cell activation.
Magnetic structure and diffracted magneto-optics of patterned amorphous multilayers (2010)

We present magneto-optical Kerr effect measurements of patterned arrays of ${\text{Co}}_{68}{\text{Fe}}_{24}{\text{Zr}}_{8}/{\text{Al}}_{2}{\text{O}}_{3}$ amorphous multilayers. The multilayers were patterned in two dimensions into two different arrangements of circular and ellipsoidal islands. Magnetization loops were recorded in a longitudinal geometry using both the specularly reflected beam as well as diffracted beams scattered off the patterned films. The magnetization of the patterned structures is significantly different from the magnetization of a continuous multilayer owing to the lateral confinement of the pattern and the introduction of additional dipolar coupling between the layers at the edges of the islands. By investigating the magnetic response at the different diffraction orders from the two different configurations of islands we are able to observe the magnetization at different length scales and determine the magnetic response of the circular and ellipsoidal islands individually.
Low-Complexity Adaptive Digital Pre-Distortion with Meta-Learning based Neural Networks (2022)

In this paper, we study a meta-learning based neural network (NN) model to enhance the energy-efficiency related to power amplification in wireless communication systems. Specifically, we introduce a low-complexity adaptive solution to perform digital pre-distortion (DPD) for power amplifiers (PAs) using neural networks. Thus, we design a dedicated NN architecture to derive pre-distortion functions using few neurons. Moreover, we develop a meta-learning training approach that allows better generalization and faster adaptation, over time-varying PAs, compared to classical DPD schemes. Thereby, we propose a new approach to realize an adaptive digital predisorter based on meta-learning. A dedicated architecture allows to achieve lowcomplexity while meta-learning permits adapting to most parameters change in the system using few data. Through the simulation results, we have shown that this approach can offer a metatrained DPD function that can provide satisfying performance for different PA models using only 3000 IQ symbols during training phase. Contrary to fixed DPD architectures, the performance of our meta-trained DPD can be improved through only few gradient steps and over few samples during online calibration, achieving excellent performance with moderate complexity.