gebhart/patrepeval huggingface dataset:
Rhesus macaque θ-defensin isoforms: expression, antimicrobial activities, and demonstration of a prominent role in neutrophil granule microbicidal activities (2010)

Mammalian defensins are cationic, antimicrobial peptides that play a central role in innate immunity. The peptides are composed of three structural subfamilies: α-, β-, and θ-defensins. θ-defensins are macrocyclic octadecapeptides expressed only in Old World monkeys and orangutans and are produced by the pair-wise, head-to-tail splicing of nonapeptides derived from their respective precursors. The existence of three active θ-defensin genes predicts that six different RTDs (1-6) are produced in this species. In this study, we isolated and quantified RTDs 1-6 from the neutrophils of 10 rhesus monkeys. RTD-1 was the most abundant θ-defensin, constituting ~50% of the RTD content; total RTD content varied by as much as threefold between animals. All peptides tested were microbicidal at ∼1 μM concentrations. The contribution of θ-defensins to macaque neutrophil antimicrobial activity was assessed by analyzing the microbicidal properties of neutrophil granule extracts after neutralizing θ-defensin content with a specific antibody. θ-defensin neutralization markedly reduced microbicidal activities of the corresponding extracts. Macaque neutrophil granule extracts had significantly greater microbicidal activity than those of human neutrophils, which lack θ-defensins. Supplementation of human granule extracts with RTD-1 markedly increased the microbicidal activity of these preparations, further demonstrating a prominent microbicidal role for θ-defensins.
Plasma Urate Level Is Directly Regulated by a Voltage-driven Urate Efflux Transporter URATv1 (SLC2A9) in Humans (2008)

Hyperuricemia is a significant factor in a variety of diseases, including gout and cardiovascular diseases. Although renal excretion largely determines plasma urate concentration, the molecular mechanism of renal urate handling remains elusive. Previously, we identified a major urate reabsorptive transporter, URAT1 (SLC22A12), on the apical side of the renal proximal tubular cells. However, it is not known how urate taken up by URAT1 exits from the tubular cell to the systemic circulation. Here, we report that a sugar transport facilitator family member protein GLUT9 (SLC2A9) functions as an efflux transporter of urate from the tubular cell. GLUT9-expressed Xenopus oocytes mediated saturable urate transport (K(m): 365+/-42 microm). The transport was Na(+)-independent and enhanced at high concentrations of extracellular potassium favoring negative to positive potential direction. Substrate specificity and pyrazinoate sensitivity of GLUT9 was distinct from those of URAT1. The in vivo role of GLUT9 is supported by the fact that a renal hypouricemia patient without any mutations in SLC22A12 was found to have a missense mutation in SLC2A9, which reduced urate transport activity in vitro. Based on these data, we propose a novel model of transcellular urate transport in the kidney; urate [corrected] is taken up via apically located URAT1 and exits the cell via basolaterally located GLUT9, which we suggest be renamed URATv1 (voltage-driven urate transporter 1).
Role\nof Two-Dimensional Ising Superconductivity in\nthe Nonequilibrium Quasiparticle Spin-to-Charge Conversion Efficiency (2021)

Nonequilibrium studies of two-dimensional (2D) superconductors (SCs) with Ising spin–orbit coupling are prerequisite for their successful application to equilibrium spin-triplet Cooper pairs and, potentially, Majorana Fermions. By taking advantage of the recent discoveries of 2D SCs and their compatibility with any other materials, we fabricate here nonlocal magnon devices to examine how such 2D Ising superconductivity affects the conversion efficiency of magnon spin to quasiparticle charge in superconducting flakes of 2H-NbSe2 transferred onto ferrimagnetic insulating Y3Fe5O12. Comparison with a reference device based on a conventionally paired superconductor shows that the Y3Fe5O12-induced in-plane (IP) exchange spin-splitting in the NbSe2 flake is hindered by its inherent out-of-plane (OOP) spin–orbit field, which, in turn, limits the transition-state enhancement of the spin-to-charge conversion efficiency. Our out-of-equilibrium study highlights the significance of symmetry matching between underlying Cooper pairs and exchange-induced spin-splitting for the giant transition-state spin-to-charge conversion and may have implications toward proximity-engineered spin-polarized triplet pairing via tuning the relative strength of IP exchange and OOP spin–orbit fields in ferromagnetic insulator/2D Ising SC bilayers.
Embodiments, visualizations, and immersion with enactive affective systems (2014)

Our proposal in Bioart and Biomedical Engineering for a ective esthetics focuses on the expanded sensorium and investigates problems regarding enactive systems. These systems enhance the sensorial experiences and amplify kinesthesia by adding the sensations that are formed in response to the physical world, which aesthetically constitutes the principle of synaesthesia. In this paper, we also present enactive systems inside the CAVE, con guring compelling experiences in data landscapes and human a ective narratives. The interaction occurs through the acquisition, data visualization and analysis of several synchronized physiological signals, to which the landscapes respond and provide immediate feedback, according to the detected participants' actions and the intertwined responses of the environment. The signals we use to analyze the human states include the electrocardiography (ECG) signal, the respiratory ow, the galvanic skin response (GSR) signal, plantar pressures, the pulse signal and others. Each signal is collected by using a speci cally designed dedicated electronic board, with reduced dimensions, so it does not interfere with normal movements, according to the principles of transparent technologies. Also, the electronic boards are implemented in a modular approach, so they are independent, and can be used in many di erent desired combinations, and at the same time provide synchronization between the collected data.
Atomistic EPDM Simulations with Silica Filler. (2021)

Abstract not provided.
Modeling the partitioning of amphiphilic molecules and co-solvents in biomembranes (2022)

Amphiphilic co-solvents can have a significant impact on the structure, organization and physical properties of lipid bilayers. Describing the mutual impact of partitioning and induced structure changes is therefore a crucial consideration for a range of topics such as anesthesia and other pharmacokinetic effects, as well as microbial solvent tolerance in the production of biofuels and other fermentation products, where molecules such as ethanol, butanol or acetic acid might be generated. Small-angle neutron scattering (SANS) is a key method for studying lipid and polymer bilayer structures, with many models for extracting bilayer structure (thickness, area per lipid etc .) from scattering data in use today. However, the molecular details of co-solvent partitioning are conflated with induced changes to bilayer structure, making interpretation and modeling of the scattering curves a challenge with the existing set of models. To address this, a model of a bilayer structure is presented which invokes a two-term partition constant accounting for the localization of the co-solvent within the bilayer. This model was validated using a series of SANS measurements of lipid vesicles in the presence of the co-solvent tetrahydrofuran (THF), showing several strategies of how to deploy the two-parameter partition constant model to describe scattering data and extract both structure and partitioning information from the data. Molecular dynamics simulations are then used to evaluate assumptions of the model, provide additional molecular scale details and illustrate its complementary nature to the data fitting procedure. This approach results in estimates of the partition coefficient for THF in 1,2-dimyristoyl- sn - glycero -3-phosphocholine at 35°C, along with an estimate of the fraction of THF residing in the hydrophobic core of the membrane. The authors envision that this model will be applicable to a wide range of other bilayer/amphiphile interactions and provide the associated code needed to implement this model as a fitting algorithm for scattering data in the SasView suite.
Periodic morphological modification developed on the surface of polyethersulfone by XeCl excimer laser photoablation (1989)

Periodic and stable micropatterns appeared on the surface of amorphous polyethersulfone etched with an excimer laser at 308 nm in ambient air and a vacuum. The control of such radiative conditions as fluence and incident angle enables us to modify the spacing and pattern of the microstructures. A topographical investigation with scanning electron microscopy and an experiment with x-ray photoelectron spectroscopy to determine its composition is reported.
High-resolution strain measurements in a polycrystalline superalloy during deformation at high temperature (2017)

International audience
Inhibitory Effect of Somatostatin-28 on Pancreatic Polypeptide, Glucagon and Insulin Secretion in Normal Man (1983)

We have compared the effects of equimolar doses of intravenous somatostatin-28 (SS-28) and somatostatin-14 (SS-14) (250 micrograms and 125 micrograms, respectively) on the secretion of pancreatic polypeptide (PP), glucagon and insulin evoked by a protein-rich meal in normal subjects. Both peptides reduced the fasting plasma levels of these hormones and completely abolished their responses to the alimentary stimulus; in addition, they caused an early decrease of plasma glucose followed by a hyperglycemic phase. As compared to SS-14, SS-28 elicited a longer-lasting inhibition of PP and insulin secretion and displayed greater hypo- and hyperglycemic effects. A somatostatin-like component, similar to SS-28, has been identified in pancreatic extracts as well as in peripheral plasma. Thus, it might be hypothesized that this peptide plays a role in the control of pancreatic hormone release.
Combined HIV-1 Envelope Systemic and Mucosal Immunization of Lactating Rhesus Monkeys Induces a Robust Immunoglobulin A Isotype B Cell Response in Breast Milk (2016)

ABSTRACT Maternal vaccination to induce anti-HIV immune factors in breast milk is a potential intervention to prevent postnatal HIV-1 mother-to-child transmission (MTCT). We previously demonstrated that immunization of lactating rhesus monkeys with a modified vaccinia Ankara (MVA) prime/intramuscular (i.m.) protein boost regimen induced functional IgG responses in milk, while MVA prime/intranasal (i.n.) boost induced robust milk Env-specific IgA responses. Yet, recent studies have suggested that prevention of postnatal MTCT may require both Env-specific IgA and functional IgG responses in milk. Thus, to investigate whether both responses could be elicited by a combined systemic/mucosal immunization strategy, animals previously immunized with the MVA prime/i.n. boost regimen received an i.n./i.m. combined C.1086 gp120 boost. Remarkably, high-magnitude Env-specific IgA responses were observed in milk, surpassing those in plasma. Furthermore, 29% of vaccine-elicited Env-specific B cells isolated from breast milk were IgA isotype, in stark contrast to the overwhelming predominance of IgG isotype Env-specific B cells in breast milk of chronically HIV-infected women. A clonal relationship was identified between Env-specific blood and breast milk B cells, suggesting trafficking of that cell population between the two compartments. Furthermore, IgA and IgG monoclonal antibodies isolated from Env-specific breast milk B cells demonstrated diverse Env epitope specificities and multiple effector functions, including tier 1 neutralization, antibody-dependent cellular cytotoxicity (ADCC), infected cell binding, and inhibition of viral attachment to epithelial cells. Thus, maternal i.n./i.m. combined immunization is a novel strategy to enhance protective Env-specific IgA in milk, which is subsequently transferred to the infant via breastfeeding. IMPORTANCE Efforts to increase the availability of antiretroviral therapy to pregnant and breastfeeding women in resource-limited areas have proven remarkably successful at reducing HIV vertical transmission rates. However, more than 200,000 children are infected annually due to failures in therapy implementation, monitoring, and adherence, nearly half by postnatal HIV exposure via maternal breast milk. Intriguingly, in the absence of antiretroviral therapy, only 10% of breastfed infants born to HIV-infected mothers acquire the virus, suggesting the existence of naturally protective immune factors in milk. Enhancement of these protective immune factors through maternal vaccination will be a critical strategy to reduce the global pediatric AIDS epidemic. We have previously demonstrated that a high magnitude of HIV Env-specific IgA in milk correlates with reduced risk of infant HIV acquisition. In this study, we describe a novel HIV vaccine regimen that induces potent IgA responses in milk and therefore could potentially protect against breast milk HIV MTCT.
Increased Efflux of Amyloid-β Peptides through the Blood-Brain Barrier by Muscarinic Acetylcholine Receptor Inhibition Reduces Pathological Phenotypes in Mouse Models of Brain Amyloidosis (2013)

The formation and accumulation of toxic amyloid-β peptides (Aβ) in the brain may drive the pathogenesis of Alzheimer's disease. Accordingly, disease-modifying therapies for Alzheimer's disease and related disorders could result from treatments regulating Aβ homeostasis. Examples are the inhibition of production, misfolding, and accumulation of Aβ or the enhancement of its clearance. Here we show that oral treatment with ACI-91 (Pirenzepine) dose-dependently reduced brain Aβ burden in AβPPPS1, hAβPPSL, and AβPP/PS1 transgenic mice. A possible mechanism of action of ACI-91 may occur through selective inhibition of muscarinic acetylcholine receptors (AChR) on endothelial cells of brain microvessels and enhanced Aβ peptide clearance across the blood-brain barrier. One month treatment with ACI-91 increased the clearance of intrathecally-injected Aβ in plaque-bearing mice. ACI-91 also accelerated the clearance of brain-injected Aβ in blood and peripheral tissues by favoring its urinal excretion. A single oral dose of ACI-91 reduced the half-life of interstitial Aβ peptide in pre-plaque mhAβPP/PS1d mice. By extending our studies to an in vitro model, we showed that muscarinic AChR inhibition by ACI-91 and Darifenacin augmented the capacity of differentiated endothelial monolayers for active transport of Aβ peptide. Finally, ACI-91 was found to consistently affect, in vitro and in vivo, the expression of endothelial cell genes involved in Aβ transport across the Blood Brain Brain (BBB). Thus increased Aβ clearance through the BBB may contribute to reduced Aβ burden and associated phenotypes. Inhibition of muscarinic AChR restricted to the periphery may present a therapeutic advantage as it avoids adverse central cholinergic effects.
Computational Predictions of Heat Transfer and Film-Cooling for a Turbine Blade With Non-Axisymmetric Endwall Contouring (2010)

Three-dimensional contouring of the compressor and turbine endwalls in a gas turbine engine has been shown to be an effective method of reducing aerodynamic losses by mitigating the strength of the complex vortical structures generated at the endwall. Reductions in endwall heat transfer in the turbine have been also previously measured and reported in the literature. In this study, computational fluid dynamics simulations of a turbine blade with and without non-axisymmetric endwall contouring were compared to experimental measurements of the exit flowfield, endwall heat transfer and endwall film-cooling. Secondary kinetic energy at the cascade exit was closely predicted with a simulation using the SST k-ω turbulence model. Endwall heat transfer was overpredicted in the passage for both the SST k-ω and realizable k-ε turbulence models, but heat transfer augmentation for a non-axisymmetric contour relative to a flat endwall showed fair agreement to the experiment. Measured and predicted film-cooling results indicated that the non-axisymmetric contouring limits the spread of film-cooling flow over the endwall depending upon the interaction of the film with the contour geometry.
Ornithine Decarboxylase Activity and Polyamine Content during Zoospore Germination and Hormone-induced Sexual Differentiation of Achlya ambisexualis (1982)

The activity of ornithine decarboxylase (EC 4.1.1.17) and the intracellular pools of putrescine and spermidine were determined during zoospore germination and hormoneinduced sexual morphogenesis in Achlya ambisexualis. The specific activity of ornithine decarboxylase increased approximately 6-fold during zoospore germination and outgrowth in an enriched medium. Ornithine decarboxylase activity exhibited a rapid and transient 5·2-fold increase during hormone-induced differentiation of mycelium cultured in enriched media. In contrast, the enzyme activity did not increase following hormone treatment of mycelium cultured in a minimal medium, yet mycelial differentiation occurred normally. Fluctuations in intracellular concentrations of putrescine and spermidine, in general, correlated with changes in ornithine decarboxylase activity during hormone-induced differentiation and zoospore germination.
Abstract TMIM-077: MYXOMA VIRUS ENHANCES TREATMENT BENEFIT OF CHEMOTHERAPY AND DENDRITIC CELL IMMUNOTHERAPY IN OVARIAN CANCER PRECLINICAL MODEL (2019)

Abstract Myxoma virus (MYXV) is a poxvirus with oncolytic and immunotherapeutic potential in many cancer models, including ovarian cancer (OC). Moreover, MYXV synergizes with chemotherapy including cisplatin for OC treatment. In this study, we used a p53-/- ID8 mouse model that closely portrays human high-grade serous OC to test MYXV virotherapy. We combined MYXV regime with cisplatin treatment and an innovative Th17-inducing dendritic cell (Th17-DC) vaccine currently being tested in clinical trials with OC patients. For DC immunotherapy, bone marrow-derived DC were pulsed with peptides from Sp17, a cancer testis antigen highly expressed in human OC and the ID8 mouse model. For MYXV virotherapy, we examined both wild-type and a replication-defective MYXV that is engineered without an essential viral immunomodulator called M062 (M062R-null MYXV). We found that inoculation with replication-competent MYXV improves survival when administered before cisplatin therapy. Interestingly, when the replication-defective M062R-null MYXV was used, improved survival was observed with virotherapy after the cisplatin treatment. We further found that M062R-null MYXV treatment provided long-lasting survival in combination with cisplatin and Th17-DC immunotherapy. Related studies showed that M062R-null MYXV infection in murine and primary human OC cells stimulated robust type I IFN expression and pro-inflammatory cytokines. Moreover, M062R-null MYXV activates type I IFN in macrophages and expression of inflammatory cytokines (e.g., CXCL-10 and IL-6). In conclusion, we propose that MYXV virotherapy provokes a type I interferon response and inflammatory cytokines that modulate the tumor microenvironment and enhance protective immune responses to Th17-DC vaccination for OC treatment. Citation Format: Steven J Conrad, Bernice Nounamo, Martin Cannon, Jia Liu. MYXOMA VIRUS ENHANCES TREATMENT BENEFIT OF CHEMOTHERAPY AND DENDRITIC CELL IMMUNOTHERAPY IN OVARIAN CANCER PRECLINICAL MODEL [abstract]. In: Proceedings of the 12th Biennial Ovarian Cancer Research Symposium; Sep 13-15, 2018; Seattle, WA. Philadelphia (PA): AACR; Clin Cancer Res 2019;25(22 Suppl):Abstract nr TMIM-077.
Microwave Assisted Modification and Coating of Carbon Materials (2006)

In this work, a fluidized bed process for microwave plasma assisted CVD of metals, metal carbides and metal nitrides on carbon and graphite materials is presented. Boron coated graphite produced in this reactor was found to show increased specific capacity and electrical conductivity compared to uncoated graphite when used as anode in lithium ion-battery. Parameters for uniform coating of carbon fibers with aluminum based ceramics were found for decomposition of trimethylaluminum precursor in a microwave plasma.
Structural Characterization of a Manganese Oxide Barrier Layer Formed by Chemical Vapor Deposition for Advanced Interconnects Application on SiOC Dielectric Substrates (2012)

We investigated the microstructure and growth behavior of a manganese oxide layer deposited on SiOC substrates for the purpose of providing a new method to form a thin diffusion barrier layer for advanced LSI interconnections. The Mn oxide layer was formed by chemical vapor deposition (CVD), using bis(ethylcyclopentadienyl)Mn as a precursor and H2 as a carrier gas at 300 °C for 30 min. The Mn oxide layer could be formed on plasma-treated SiOC, but not on as-received SiOC. By using thermal desorption spectroscopy (TDS), moisture absorption in SiOC was evidenced after plasma treatment, using various gases of O2, N2, and Ar. Two adsorbed moisture components, physisorbed (α) and chemisorbed (β, γ), were observed which were responsible for the formation of crystalline MnOx and amorphous MnSixOy, respectively. The position of the Mn oxide layer was also investigated by measuring the variation of the SiOC thickness. The Mn oxide layer was formed within the SiOC substrate. The result indicates that the Mn oxide barrier layer would have no influence on the line resistance value, but influences on the dielectric capacitance value.
Semantic pooling for complex event detection (2013)

Complex event detection is very challenging in open source such as You-Tube videos, which usually comprise very diverse visual contents involving various object, scene and action concepts. Not all of them, however, are relevant to the event. In other words, a video may contain a lot of "junk" information which is harmful for recognition. Hence, we propose a semantic pooling approach to tackle this issue. Unlike the conventional pooling over the entire video or specific spatial regions of a video, we employ a discriminative approach to acquire abstract semantic "regions" for pooling. For this purpose, we first associate low-level visual words with semantic concepts via their co-occurrence relationship. We then pool the low-level features separately according to their semantic information. The proposed semantic pooling strategy also provides a new mechanism for incorporating semantic concepts for low-level feature based event recognition. We evaluate our approach on TRECVID MED [1] dataset and the results show that semantic pooling consistently improves the performance compared with conventional pooling strategies.
Sildenafil Citrate-Restored eNOS and PDE5 Regulation in Sickle Cell Mouse Penis Prevents Priapism Via Control of Oxidative/Nitrosative Stress (2013)

Sildenafil citrate revolutionized the practice of sexual medicine upon its federal regulatory agency approval approximately 15 years ago as the prototypical phosphodiesterase type 5 inhibitor indicated for the treatment of male erectile dysfunction. We now provide scientific support for its alternative use in the management of priapism, a clinical disorder of prolonged and uncontrolled penile erection. Sildenafil administered continuously to sickle cell mice, which show a priapism phenotype, reverses oxidative/nitrosative stress effects in the penis, mainly via reversion of uncoupled endothelial nitric oxide synthase to the functional coupled state of the enzyme, which in turn corrects aberrant signaling and function of the nitric oxide/cyclic GMP/protein kinase G/phosphodiesterase type 5 cascade. Priapism tendencies in these mice are reverted partially toward normal neurostimulated erection frequencies and durations after sildenafil treatment in association with normalized cyclic GMP concentration, protein kinase G activity and phosphodiesterase type 5 activity in the penis. Thus, sildenafil exerts pleiotropic effects in the penis that extend to diverse erection disorders.