gebhart/patrepeval huggingface dataset:
Genomic Insights Into Energy Metabolism of Carboxydocella thermautotrophica Coupling Hydrogenogenic CO Oxidation With the Reduction of Fe(III) Minerals (2018)

The genus <i>Carboxydocella</i> forms a deeply branching family in the class <i>Clostridia</i> and is currently represented by three physiologically diverse species of thermophilic prokaryotes. The type strain of the type species, <i>Carboxydocella thermautotrophica</i> 41<sup>T</sup>, is an obligate chemolithoautotroph growing exclusively by hydrogenogenic CO oxidation. Another strain, isolated from a hot spring at Uzon caldera, Kamchatka in the course of this work, is capable of coupling carboxydotrophy and dissimilatory reduction of Fe(III) from oxic and phyllosilicate minerals. The processes of carboxydotrophy and Fe(III) reduction appeared to be interdependent in this strain. The genomes of both isolates were sequenced, assembled into single chromosome sequences (for strain 41<sup>T</sup> a plasmid sequence was also assembled) and analyzed. Genome analysis revealed that each of the two strains possessed six genes encoding diverse Ni,Fe-containing CO dehydrogenases (maximum reported in complete prokaryotic genomes), indicating crucial role of carbon monoxide in <i>C. thermautotrophica</i> metabolism. Both strains possessed a set of 30 multiheme <i>c</i>-type cytochromes, but only the newly isolated Fe-reducing strain 019 had one extra gene of a 17-heme cytochrome, which is proposed to represent a novel determinant of dissimilatory iron reduction in prokaryotes. Mössbauer studies revealed that strain 019 induced reductive transformation of the abundant ferric/ferrous-mica mineral glauconite to siderite during carboxydotrophic growth. Reconstruction of the <i>C. thermautotrophica</i> strains energy metabolism is the first comprehensive genome analysis of a representative of the deep phylogenetic branch Clostridia Incertae Sedis, family V. Our data provide insights into energy metabolism of <i>C. thermautotrophica</i> with an emphasis on its ecological implications.
3-D AVO migration/inversion of field data (1998)

This article describes the methodology for AVO migration/inversion and presents the results of its first field application. 3-D AVO migration/inversion can be applied in areas with lateral velocity variations and dipping events in which conventional AVO analysis is not valid. The method has been tested on both synthetic and field data in 1-D, 2-D, and 3-D cases and its accuracy verified.
Performance and Degradation Mechanisms of Thermal Barrier Coatings for Turbine Blades: a Review of Onera Activities (2011)

Thermal barrier coatings are used to protect blades and vanes in the hot sections of gas turbines. They consist of a thick porous ceramic layer deposited on a alumina forming metallic bond coat in contact with the nickel- based superalloy substrate. They are designed to prolong the components lifetimes or to increase gas temperature, and therefore efficiency. In service, the structure and composition of the various layers evolve, due to sintering of the ceramic layer, oxidation of the bond coat, and interdiffusion phenomena with the substrate. As a result, the properties of each layer are affected, as is the interfacial toughness. These evolutions, combined with applied external stresses, may lead to bond coat rumpling, crack formation at the bond coat/ceramic interface and the ceramic layer may eventually spall off. In addition to these intrinsic degradation modes, interactions with the environment can accelerate the system degradation. This paper reviews the aging phenomena occurring in thermal barrier coatings at high temperatures and describes their degradation mechanisms, with illustrations from service experience and laboratory tests.
A 1.6 Mbps digital-QAM system for DSL transmission (1995)

An all digital-QAM system is studied here for high-speed data transmission on digital subscriber loops. All elements of the system have been fully investigated and their effects on overall system performance documented. In particular, the following issues have been explicitly addressed: utility of an adaptive error-prediction (noise-prediction) filter; equalizer size and convergence; blind equalization; choice of constellation size and center frequency; combined timing/carrier recovery; and the oversampling requirements of a numerically-controlled-oscillator (NCO) for potential use in the timing and carrier recovery loop. The paper relies on simulation results to investigate and quantify the overall interactions of the various blocks. Throughout the paper emphasis has been placed on reducing the complexity of the system for implementation on an integrated circuit (IC). It is expected that the information provided here will serve as a good starting point for an IC designer to start the implementation of a transceiver ASIC
Investigation of digital filtering for stacked, phased ultrasound transducers (2003)

High bandwidth transducers are of interest in all applications of ultrasound imaging. A stacked, phased multi-layer transducer was previously described that extended the bandwidth to multiple octaves. However, the frequency response of this transducer design is characterized by multiple peaks and troughs that will result in a 'ringy' waveform. However, Digital Signal Processing (DSP) and related devices are ubiquitous. Modern ultrasound systems digitize received signals and incorporate digital filters. In this paper the utility of digital filtering for improving transducer frequency response was tested in MATLAB. A Finite Element Analysis (FEA) model was developed in PZFlex to simulate a transducer array element. Our FEA and Matlab simulation results indicate that a matched filter in transducer receive path can remove the 'bumps' in the spectrum and reduce the -20dB pulse length by approximately 14%. An inverse filter employed in the transmitting path can also improve the characteristics of the transmitted signal - reducing the pulse length by 35%. A Pseudo-inverse procedure was used to design these FIR filters with a desired length. Furthermore, a design parameter iteration simulation demonstrates that this digital filtering technique can work effectively even when there is variation in the material properties and transducer element dimensions. Major parameters considered included: electro-mechanical coupling coefficient (+/-10%), dielectric permittivity (+/-10%) and transducer element thickness (+/-5%). The results demonstrate that digital filtering can play an important role in compensating for transducer spectral response imperfections. Thus, we can obtain reduced pulse length and improved imaging resolution with high bandwidth multi-layer transducers. The approach also has value for compensating for spectral imperfections in conventional single layer transducers.
Clarification Questions with Feedback (2012)

In this paper, we investigate how people construct clarification questions. Our goal is to develop similar strategies for handling errors in automatic spoken dialogue systems in order to make error recovery strategies more efficient. Using a crowd-sourcing tool [7], we collect a dataset of user responses to clarification questions when presented with sentences in which some words are missing. We find that, in over 60% of cases, users choose to continue the conversation without asking a clarification question. However, when users do ask a question, our findings support earlier research showing that users are more likely to ask a targeted clarification question than a generic question. Using the dataset we have collected, we are exploring machine learning approaches for determining which system responses are most appropriate in different contexts and developing strategies for constructing clarification questions.
Oxide TFT Rectifier Achieving 13.56-MHz Wireless Operation (2012)

We have fabricated a full-wave rectifier using fully depleted amorphous In-Ga-Zn-O thin-film transistors (TFTs). The rectifier is composed of four TFTs, and it rectified 13.56-MHz wireless input from a 200-mW commercial RFID reader/writer. We also have analyzed an output voltage and an operation frequency of the fabricated rectifier.
ChemInform Abstract: β‐ and γ‐Lactams by Nickel Powder Mediated 4‐exo or 5‐endo Radical Cyclizations. A Concise Construction of the Mesembrine Skeleton. (1998)

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.
Degradation ofO,O-Dimethyl Phosphorodithioate by Activated Sludge (1980)

O,O-Dimethyl phosphorodithioate (DMDTP) is the raw material for such organophosphorus pesticides as malathion, dimethoate and cidial, and is abundant in wastewater of pesticide manufacturers. The activated sludge was acclimated to DMDTP by the fill-and-draw method. The acclimated, activated sludge degraded 500 mg/liter of DMDTP in 7 hr and as a result, produced 260 mg/liter of inorganic orthophosphate and 510 mg/liter of sulfate. The pH of the mixed liquor was adjusted to degrade DMDTP, and the optimum pH was from 6.5 to 7.0. The activated sludge acclimated to DMDTP degraded dimethyl phosphorothioate, dimethyl phosphate, diethyl phosphorodithioate and diethyl phosphate.
Identification of peptide binding residues in the extracellular domains of the AT1 receptor. (1994)

To locate essential determinants for angiotensin II binding, we have performed a systematic mutational analysis of the exterior domain of the AT1 receptor. Receptor mutants, deficient in peptide binding, were analyzed using radiolabeled nonpeptide ligand as an important tool. Two independent strategies for mutagenesis were employed: conservative segment exchange and point mutagenesis of evolutionarily conserved residues. Results from the conservative segment exchange in which 6-17 residues were replaced with chemically similar, yet different, amino acid sequences of the same length suggested that important peptide ligand binding epitopes are located in the N-terminal extension of the AT1 receptor, in particular adjacent to the top of transmembrane segment I (TM-I), and in the third extracellular loop, close to the top of TM-VII. The substitution of residues from either of these regions resulted in a 5,000-20,000-fold decrease in affinity for the peptide agonist angiotensin II (AII) and the peptide antagonist [Sar1,Leu8]AII without affecting the binding of nonpeptide antagonists. Alanine substitution of evolutionarily conserved residues demonstrated that peptide binding was dependent on several residues in the N-terminal extension, near the top of TM-I, a tyrosine residue located in extracellular loop 1, close to TM-II, and 2 aspartate residues positioned in extracellular loop 3 on the same face of an alpha-helical extension of TM-VII. In all cases the binding of nonpeptide antagonist was unaffected by these substitutions. It is concluded that important epitopes involved in angiotensin II binding are located around the top of transmembrane segments I, II, and VII which conceivably are in close spatial proximity in the folded receptor structure.
CCDC 1001627: Experimental Crystal Structure Determination (2015)

An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
Effects of Fluorocarbon Surfactant Chain Structure on Stability of Water-in-Carbon Dioxide Microemulsions. Links between Aqueous Surface Tension and Microemulsion Stability (2002)

Formation and stability of water-in-carbon dioxide microemulsions are described with eight related fluorinated analogues of the anionic surfactant Aerosol-OT. The aim was to identify a structure−performance relationship in CO2 with surfactants of high surface chemical purity that can also be synthesized from readily available reagents. The most effective CO2-philes from this group were sodium bis(1H,1H-perfluoropentyl)-2-sulfosuccinate (di-CF4), sodium bis(1H,1H,2H,2H-perfluorohexyl)-2-sulfosuccinate (di-CF4H), and sodium bis(1H,1H-perfluoroheptyl)-2-sulfosuccinate (di-CF6). All three of these compounds stabilized microemulsions at CO2 bottle pressure (57 bar) at 15 °C, with a w value ([water]/[surf]) of 10. A close correlation is demonstrated between limiting aqueous phase surface tension of a given surfactant at its critical micelle concentration, γcmc, and its performance in water−CO2 microemulsions, as measured by the phase transition pressure Ptrans. This finding has important implications for the rational design of CO2-philic surfactants.
The Error Structure of Impedance Spectra for Systems with a Large Ohmic Resistance with Respect to the Polarization Impedance (1996)

International audience
Dual targeting of the antagonistic pathways mediated by Sirt1 and TXNIP as a putative approach to enhance the efficacy of anti-aging interventions (2009)

The organism's ability to regulate oxidative stress and metabolism is well recognized as a major determinant of longevity. While much research interest in this area is directed towards the study of genes that inhibit oxidative stress and/or improve metabolism, contribution to the aging process of genes with antagonistic effects on these two pathways is still less understood. The present study investigated the respective roles of the histone deacetylase Sirt1 and the thioredoxin binding protein TXNIP, two genes with opposite effects on oxidative stress and metabolism, in mediating the action of putative anti-aging interventions. Experiments were carried out in vitro and in vivo to determine the effect of proven, limited calorie availability, and unproven, resveratrol and dehydroepiandrosterone (DHEA), on the expression of Sirt1 and TXNIP. The results indicated that limited calorie availability consistently inhibited TXNIP in cancer and in normal cells including stem cells, however, it only slightly induced Sirt1expression in cancer cells. In contrast, resveratrol had a biphasic effect, and DHEA inhibited the expression of these two genes in a tissue specific manner, both in vitro and in vivo. Whereas all the three approaches tested inhibited TXNIP through the glycolytic pathway, DHEA acted by inhibiting G6PD and resveratrol through the activation of AMPK. In light of previous reports that Sirt1 induces AMPK-mediated signaling pathway, our findings point to the possibility of a negative relationship between Sirt1 and TXNIP that, if validated, can be exploited to improve the efficacy of putative anti-aging interventions.
High-performance dense wavelength division multiplexer based on blazed grating and ion-exchanged glass waveguide technique (2003)

Data bit rate, 1dB pass band and device dimensions are the key properties of dense wavelength division multiplexer (DWDM) devices. For blazed grating based DWDM structure, analysis shows that the bit rate is limited by the pulse broadening introduced by the grating. To reduce the pulse broadening, the output fiber array channel-to-channel pitch must be reduced. By decreasing the output channel pitch, 1dB pass band can be increased and the device dimensions can be shrunk. In this paper, we propose an ion-exchanged glass waveguide chip to be inserted into the WDM device in order to reduce the output channel spacing. To fabricate the low loss fiber compatible waveguides, two-step K<sup>+</sup>-Na<sup>+</sup> and Ag<sup>+</sup>-Na<sup>+</sup> ion-exchange process using BK7 glass as the substrate has been investigated. The optimal process conditions have been found. The waveguides fabricated by this two-step process have a propagation loss of 0.3dB/cm, a coupling loss to single mode fiber of 0.4dB and a polarization dependent loss of 0.1dB for 5cm long waveguides. The design of a 48 channel DWDM with this glass waveguide chip is given.
Proline rich 11 (PRR11) overexpression amplifies PI3K signaling and promotes antiestrogen resistance in breast cancer (2020)

The 17q23 amplicon is associated with poor outcome in ER<sup>+</sup> breast cancers, but the causal genes to endocrine resistance in this amplicon are unclear. Here, we interrogate transcriptome data from primary breast tumors and find that among genes in 17q23, PRR11 is a key gene associated with a poor response to therapeutic estrogen suppression. PRR11 promotes estrogen-independent proliferation and confers endocrine resistance in ER<sup>+</sup> breast cancers. Mechanistically, the proline-rich motif-mediated interaction of PRR11 with the p85α regulatory subunit of PI3K suppresses p85 homodimerization, thus enhancing insulin-stimulated binding of p110-p85α heterodimers to IRS1 and activation of PI3K. PRR11-amplified breast cancer cells rely on PIK3CA and are highly sensitive to PI3K inhibitors, suggesting that PRR11 amplification confers PI3K dependence. Finally, genetic and pharmacological inhibition of PI3K suppresses PRR11-mediated, estrogen-independent growth. These data suggest ER<sup>+</sup>/PRR11-amplified breast cancers as a novel subgroup of tumors that may benefit from treatment with PI3K inhibitors and antiestrogens.
Griffithsin tandemers: flexible and potent lectin inhibitors of the human immunodeficiency virus (2015)

The engineered tandemer constructs of mGRFT may provide novel and powerful agents for prevention of infection by HIV and other enveloped viruses.
Rôle et limites de la statistique dans l’évaluation des risques sanitaires liés aux OGM (2013)

Les plantes genetiquement modifiees (PGM) sont des varietes de plantes modifiees genetiquement par l’ajout d’un gene leur conferant, par exemple, une resistance a des insectes nuisibles comme la pyrale du mais, ou une resistance a un herbicide comme le glyphosate. La culture et l’importation des OGM font l’objet d’un cadre reglementaire europeen. Toute demande d’autorisation de mise sur le marche qu’un industriel soumet doit etre accompagnee d’elements scientifiques permettant de caracteriser le produit et de prouver qu’il repond aux exigences de la reglementation europeenne, souveraine en la matiere. Plus precisement, le petitionnaire doit produire differentes etudes afin de demontrer que son nouveau produit presente des proprietes semblables a une plante non genetiquement modifiee, en termes de composition, de proprietes agronomiques, d’alimentarite, de toxicite, d’allergenicite ou encore de risque environnemental. Depuis 2003, l’Autorite europeenne de securite des aliments (EFSA) chargee de ce dossier, offre la possibilite aux Etats membres d’evaluer les dossiers. En France, l’Agence nationale de securite sanitaire de l’alimentation, de l’environnement et du travail (Anses) et le Haut Conseil des Biotechnologies (HCB) interviennent dans ce cadre. L’Anses se prononce essentiellement sur les aspects de securite sanitaire des OGM tandis que le HCB emet principalement des avis sur les aspects environnementaux et de composition des OGM.
Development of a resin based silica monolithic column encapsulation (2015)

A robust technique for the encapsulation of silica-monolithic columns into microfluidic devices. This new approach overcomes the deleterious wall-effects of previous approaches and enables direct fluidic connection to the monolith using standard fittings.
A phase I/II study of live biotherapeutic MRx0518 in combination with pembrolizumab in patients who have progressed on prior anti-PD-1 therapy. (2019)

TPS2670 Background: The gut microbiome has emerged as a new therapeutic target to augment the efficacy of immune checkpoint blockade. MRx0518 is a novel, gut microbiome-derived, oral live biotherapeutic, designed to induce a broad immunostimulatory response to re-engage PD-1 inhibitor activity. Preclinical studies showed that MRx0518 reduced tumour growth in models of kidney, lung and breast cancer. MRx0518 increased CD4 and CD8 T cell and NK cell infiltration into the tumour and decreased Tregs. Upregulation of tumour TLR5 was observed and linked to the bacterial flagellin moiety, which was shown to strongly induce NFκB, cytokine responses and IFNγ+ CD4 and CD8 T cells. The study, one of the first oncology trials conducted with live biotherapeutics, is a single center, open label, safety and preliminary efficacy study of MRx0518 in combination with pembrolizumab in patients with solid tumors who have progressed on PD-1 inhibitors. Methods: Trial consists of 2 parts. In Part A, 12 patients receive pembrolizumab 200 mg every 3 weeks plus 1 capsule (bid) of MRx0518 with a DLT period of 1 cycle (21 days). In Part B, up to 30 patients per cohort (NSCLC, Urothelial, Renal and Melanoma) will receive pembrolizumab 200 mg every 3 weeks plus 1 capsule (bid) of MRx0518 for up to 35 cycles or until disease progression per RECIST 1.1. The primary end points are safety and tolerability of MRx0518 in combination with pembrolizumab (Parts A and B) and clinical benefit of MRx0518 in combination with pembrolizumab (Part B). Secondary end points are objective response rate, duration of response, disease control rate, and progression-free survival. Exploratory end points include biomarkers of treatment effect, effect on microbiota and overall survival. Recruitment is ongoing. Clinical trial information: NCT03637803.
Graphene for Stretchable Electronics (2012)

This chapter contains sections titled: Introduction Production of Graphene Films Fabrication of Graphene Films on Substrates Applications in Flexible and Stretchable Electronics Concluding Remarks References
A Photonic Comb Filter With Independently and Digitally Tunable Bandwidth and Frequency Spacing (2011)

A photonic comb filter with digitally tunable bandwidth and frequency spacing is proposed. Using cascaded differential-group-delay (DGD) element and polarization switch based filters, we demonstrate independent tunability of both parameters with >; 12-dB first-sidelobe reduction for a 6-bit configuration. Limitations of such an approach are also discussed.
[Functional interaction between the tumor necrosis factor and interleukin 2 during induction of lymphokine activated killer cytotoxic activity]. (1988)

TNF has a differential effect on the induction of LAK activity which is dependent on the IL-2 concentrations used for LGL stimulation. TNF was found to synergize with low concentrations of IL-2 which are normally ineffective in inducing LAK activity. When IL-2 was used at concentrations optimal for LAK generation, TNF did not further enhance the differentiation of LGL into LAK effectors. When anti-TNF was included in the 51Cr-release assay, no effect on the cytolytic activity was observed. We also demonstrate that IL-2 induced an increase of specific TNF binding to LGL.
Sequential polarization imaging using multi-view fusion (2017)

Multi-channel imaging like RGB is common today, however, a custom configuration of other modalities, such as wavelengths or polarization, is expensive and often unavailable. We propose a novel configurable multi-modal imaging system that solves this problem by using off-the-shelf components and proper fusion algorithms. The paper shows the application of polarization imaging for machine vision inspection. Sequential images acquired with different cameras and polarization angles are first registered and then fused together. With standard components, we demonstrate a superior image quality to existing specialized cameras while being significantly cheaper, available, and easily configurable.