gebhart/patrepeval huggingface dataset:
Molecular Interface of S100A8 with Cytochrome b558 and NADPH Oxidase Activation (2012)

S100A8 and S100A9 are two calcium binding Myeloid Related Proteins, and important mediators of inflammatory diseases. They were recently introduced as partners for phagocyte NADPH oxidase regulation. However, the precise mechanism of their interaction remains elusive. We had for aim (i) to evaluate the impact of S100 proteins on NADPH oxidase activity; (ii) to characterize molecular interaction of either S100A8, S100A9, or S100A8/S100A9 heterocomplex with cytochrome b(558); and (iii) to determine the S100A8 consensus site involved in cytochrome b(558)/S100 interface. Recombinant full length or S100A9-A8 truncated chimera proteins and ExoS-S100 fusion proteins were expressed in E. coli and in P. aeruginosa respectively. Our results showed that S100A8 is the functional partner for NADPH oxidase activation contrary to S100A9, however, the loading with calcium and a combination with phosphorylated S100A9 are essential in vivo. Endogenous S100A9 and S100A8 colocalize in differentiated and PMA stimulated PLB985 cells, with Nox2/gp91(phox) and p22(phox). Recombinant S100A8, loaded with calcium and fused with the first 129 or 54 N-terminal amino acid residues of the P. aeruginosa ExoS toxin, induced a similar oxidase activation in vitro, to the one observed with S100A8 in the presence of S100A9 in vivo. This suggests that S100A8 is the essential component of the S100A9/S100A8 heterocomplex for oxidase activation. In this context, recombinant full-length rS100A9-A8 and rS100A9-A8 truncated 90 chimera proteins as opposed to rS100A9-A8 truncated 86 and rS100A9-A8 truncated 57 chimeras, activate the NADPH oxidase function of purified cytochrome b(558) suggesting that the C-terminal region of S100A8 is directly involved in the molecular interface with the hemoprotein. The data point to four strategic (87)HEES(90) amino acid residues of the S100A8 C-terminal sequence that are involved directly in the molecular interaction with cytochrome b(558) and then in the phagocyte NADPH oxidase activation.
Secure Inter-Container Communications Using XDP/eBPF (2022)

While the use of containerization technologies for virtual application deployment has grown at an astonishing rate, the question of the robustness of container networking has not been well scrutinized from a security perspective, even though inter-container networking is indispensable for microservices. Thus, this paper first analyzes container networks from a security perspective, discussing the implications based on their architectural limitations. Then, it presents Bastion+, a secure inter-container communication bridge. Bastion+ introduces ( <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$i$ </tex-math></inline-formula> ) a network security enforcement stack that provides fine-grained control per container application and securely isolates inter- container traffic in a point-to-point manner. Bastion+ also supports ( <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$ii$ </tex-math></inline-formula> ) selective security function chaining, enabling various security functions to be chained between containers for further security inspections (e.g., deep packet inspection) according to the container’s network context. Bastion+ incorporates ( <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$iii$ </tex-math></inline-formula> ) a security policy assistant that helps an administrator discover inter-container networking dependencies correctly. Our evaluation demonstrates how Bastion+ can effectively mitigate several adversarial attacks in container networks while improving the overall performance up to 25.4% within single-host containers and 17.7% for cross-host container communications.
Direct data-driven control of a Diesel engine airpath (2012)

In this paper, the direct data-driven design method introduced in [6] is applied to the airpath control problem in turbocharged Diesel engines. The method allows the employed fixed-order multivariable controller to be tuned without need of mathematically describing the system, thus avoiding the problem of dynamic undermodeling. Experimental results on a testbench facility and comparison with an existing decoupled technique validate the suitability of the proposed method for the engine application. Moreover, suited instrumental variables show to be effective when dealing with real experimental noise.
The genetics of atrial fibrillation (2010)

Although great strides have been made in exploring the genetics of atrial fibrillation, the paroxysmal and asymptomatic nature of the phenotype challenges investigators as they seek the mechanistic basis of the arrhythmia.
Virulence of Sphaerotheca fuliginea and Erysiphe cichoracearum on melon and genetic analysis of resistance of melon genotypes 'PI 124112' and 'PI 414723' (1999)

* INRA Documentation, Domaine St Paul, Site Agroparc, 84914 Avignon Cedex 9 Diffusion du document : INRA Documentation, Domaine St Paul, Site Agroparc, 84914 Avignon Cedex 9
TimeLine: Visualizing Integrated Patient Records (2007)

An increasing amount of data is now accrued in medical information systems; however, the organization of this data is still primarily driven by data source, and does not support the cognitive processes of physicians. As such, new methods to visualize patient medical records are becoming imperative in order to assist physicians with clinical tasks and medical decision-making. The TimeLine system is a problem-centric temporal visualization for medical data: information contained with medical records is reorganized around medical disease entities and conditions. Automatic construction of the TimeLine display from existing clinical repositories occurs in three steps: 1) data access, which uses an eXtensible Markup Language (XML) data representation to handle distributed, heterogeneous medical databases; 2) data mapping and reorganization, reformulating data into hierarchical, problemcentric views; and 3) data visualization, which renders the display to a target presentation platform. Leveraging past work, we describe the latter two components of the TimeLine system in this paper, and the issues surrounding the creation of medical problems lists and temporal visualization of medical data. A driving factor in the development of TimeLine was creating a foundation upon which new data types and the visualization metaphors could be readily incorporated.
Influence of Oxygen Defects on the Structure and Magnetic Properties of Sr<sub>1</sub><sub>-</sub><i><sub>x</sub></i>Bi<i><sub>x</sub></i>CoO<sub>3-</sub><i><sub>y</sub></i> (0.1 ≤ <i>x</i> ≤ 0.2) Supercell Perovskites (2006)

The synthesis and structural characterization of perovskite-related Sr1-xBixCoO3-y compounds in the compositional range 0.05 ≤ x ≤ 0.25 is reported. The as-prepared x = 0.10, 0.15, and 0.20 materials adopt I4/mmm supercell structures based on layers of CoO6 and CoO6-x oxygen-deficient layers alternating along the c axis. Analysis of neutron powder diffraction data reveals that the oxygen vacancies are located on two crystallographic sites in the xy plane, resulting in tetrahedral, square-pyramidal, and occasional octahedral cobalt environments. All three as-prepared phases are antiferromagnetically ordered at room temperature and display increasing cobalt moments with increasing Bi content, i.e., 2.14(3), 2.32(2), and 2.64(2) μB for x = 0.10, 0.15, and 0.2), respectively, at 10 K. Upon annealing under flowing oxygen, the samples undergo an exothermic phase transition to the cubic perovskite structure, indicating that the superstructure is metastable. The oxygen-annealed x = 0.15 sample exhibits a low-temperature spin glass phase consistent with competition between ferromagnetic and antiferromagnetic couplings. The relationship to the isostructural Ln1-xSrxCoO3-δ supercell perovskites, Ln = Y, Eu−Ho, is discussed.
Enhanced S cone syndrome: Evidence for an abnormally large number of S cones (1995)

The cellular basis of the hypersensitivity of the S (blue) cone system in patients with enhanced S cone syndrome was examined by analyzing ERGs from three patients. The patients had large alpha-waves in response to the blue and white flashes. These alpha-waves were shown to be driven nearly entirely by the S cones. Although these S cone alpha-waves were 4-6 times the size of the normal L/M cone alpha-wave, they are of the same form, and could be quantitatively described with the same model previously shown to fit cone alpha-waves. We propose that the retina of these patients has many more S cones than the normal retina and that these cones replace some of the normal L/M cones and many of the rods.
Shallow level trap formation in SiO2 induced by high field and thermal stresses (2008)

This work studies the effects of high electric field stress and thermal stress, separately or simultaneously, on the gate injection current of metal-oxide-semiconductor (MOS) capacitors with ultrathin SiO2 (2.5nm). After applying either Fowler–Nordheim stress (FNS) or thermal stress (TS), a slight increase in gate injection current of MOS(P) is occasionally observed. However, a more abrupt increase in gate injection current with higher occurrence probability is measured if both FNS and TS (FNTS) are applied together. Some percolation path might be formed among the oxide defects and cause the abrupt current rise. Interestingly, it is found that the soft breakdown time of FNTS devices is prolonged after being treated with subsequent de-ionized (DI) water immersion. Furthermore, the gate current density is recovered due to DI water immersion treatment. A shallow trap level of 0.168eV in SiO2 for FNTS devices is extracted according to Poole–Frenkel conduction model analysis. This shallow trap level induced by FNTS may vanish after water immersion. It is supposed that these shallow traps are responsible for the occurrence of the abrupt increase in gate current observed in FNTS devices.
Shadow Edge Lithography coupled with ALD growth of Alumina and Platinum Nanoislands Towards the Fabrication of Single Electron Transistors (2016)

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A New Pricing Model for Competitive Telecommunications Services Using Congestion Discounts (2005)

We propose a two-stage pricing approach that enables providers of telecommunications services to guarantee quality of service (QoS) to their customers. The scheme is intended to shift demand during congestion periods to periods of lower demand by offering price discounts as an incentive to users to delay service during the high-demand periods. The price-discount offers act as a congestion-avoidance scheme that also balances communication traffic across different time periods. To get the scheme to work, we provide methods to evaluate when to offer the discounting scheme, estimate what proportion of customers accept the discounts, and how much the price discounts should be. In addition to offering a novel pricing structure, we show the optimal solution to the problem can be computed in a sequential manner from one period to the next, greatly simplifying implementation. Furthermore, we develop the model under uncertainty to emphasize the key implementation features of simple computations that can be performed in real time using sampled information online. We use simulations to demonstrate the scheme’s usefulness in regulating peak period demand.
Chapter 21: State of the Art in Mixed-Integer Nonlinear Optimization (2017)

This chapter provides a comprehensive overview of solution techniques for mixed-integer nonlinear optimization (MINLO), an area that represents one of the most general modeling paradigms in optimization. The reader is assumed to be familiar with the topics covered in Parts I–V of this book, in particular, mixed-integer linear optimization (MILO) and global optimization.
A Monte Carlo EM Approach for Partially Observable Diffusion Processes: Theory and Applications to Neural Networks (2002)

We present a Monte Carlo approach for training partially observable diffusion processes. We apply the approach to diffusion networks, a stochastic version of continuous recurrent neural networks. The approach is aimed at learning probability distributions of continuous paths, not just expected values. Interestingly, the relevant activation statistics used by the learning rule presented here are inner products in the Hilbert space of square integrable functions. These inner products can be computed using Hebbian operations and do not require backpropagation of error signals. Moreover, standard kernel methods could potentially be applied to compute such inner products. We propose that the main reason that recurrent neural networks have not worked well in engineering applications (e.g., speech recognition) is that they implicitly rely on a very simplistic likelihood model. The diffusion network approach proposed here is much richer and may open new avenues for applications of recurrent neural networks. We present some analysis and simulations to support this view. Very encouraging results were obtained on a visual speech recognition task in which neural networks outperformed hidden Markov models.
Relationship between thermal convection intensity and aspect ratio of two triangular cavities inscribed in horizontal rectangular cavities (2006)

Purpose Sets out to discuss laminar free convection characteristics of air confined to a square cavity and a horizontal rectangular cavity (aspect ratio A=2) along with the viable isosceles triangular cavities and right-angle triangular cavities that may be inscribed inside the two original cavities. Design/methodology/approach The three distinct cavities shared the base wall as the heated wall, while the remaining sides and upper walls are cold. The finite volume method is used to perform the numerical computation of the transient conservation equations of mass, momentum and energy. The methodology takes into account the second-order-accurate quick scheme for the discretization of the convective term, whereas the pressure-velocity coupling is handled with the simple scheme. The working fluid is air, which is not assumed as a Boussinesqian gas, so that all influencing thermophysical properties of air are taken as temperature-dependent. The cavity problem is examined over a variety of height-based Grashof numbers ranging from 103 to 106. Findings Numerical results are reported for the velocity fields, the temperature field as well as the local and mean wall heat fluxes along the heated base wall. It was found that the airflow remains symmetric for the isosceles triangular cavity with aspect ratio A=1 even at high Grashof numbers. In contrast, for an isosceles triangular cavity with an aspect ratio A=2, a pitchfork bifurcation begins to form at a critical Grashof number of 2 × 105, breaking the airflow symmetry. The computed local and mean heat fluxes along the hot base wall are compared for the three configurations under study and the corresponding maximum heat transfer levels are clearly identified for the two aspect ratios A=1 and 2. Research limitations/implications As a continuity of this work, there are two avenues that future research could explore and indeed are presently being explored by the authors within these geometries. The first deals with heat transfer enhancement using mixture of gases. The second is to re-examine the problem under turbulent conditions. Originality/value The present study seeks to maximize the convection heat transport in cavities and minimize their sizes. The peculiarity of the derived cavities is their cross-section area being half of the cross-section area of the basic cavities.
Analyzing group communication for preventing data leakage via email (2010)

Modern business activities rely on extensive email exchange. Email “wrong recipients ” mistakes have become widespread, and the severe damage caused by such mistakes constitutes a disturbing problem both for organizations and for individuals. Various solutions attempt to analyze email exchange for preventing emails to be sent to wrong recipients. However there is still no satisfying solution: many email addressing mistakes are not detected and in many cases correct recipients are wrongly marked as potential addressing mistake. In this paper we present a new approach for preventing emails “slip-ups ” in organizations. The approach is based on analysis of emails exchange among members of the organization and identification of groups of members that exchange emails with common topics. Each member‟s topics are then used during the enforcement phase for detecting potential leakage. When a new email is composed and about to be sent, each email recipient is analyzed. A recipient is approved if the email‟s content belongs to at least one of the topics common to the sender and the recipient. We evaluated the new approach by comparing its detection performance to a baseline approach using the Enron Email dataset. Our evaluation results suggests that group communication analysis improves the performance of a baseline email classifier, which classifies a new email based only on emails exchanged in the past between the sender of the email and each of the recipients. 1
Insights into the Prognostic Value of Small Nucleolar RNA U81 and SNORA7B in Breast Cancer (2022)

Purpose: Small nucleolar RNAs (snoRNAs) has been closely associated with tumor development. However, its prognostic role and underlying molecular mechanisms in breast cancer (BC) remain unclear. This study aimed to identify prognostic snoRNAs by analyzing sequencing data from BC and para-cancer tissues, building a risk score model to predict breast cancer prognosis, and investigating the mechanisms by which they affect BC prognosis. Patients and Methods: We analyzed the expression levels of snoRNAs between breast cancer and para-cancer tissues in the SNORic and Cancer Genome Atlas (TCGA) databases. We constructed a risk score model based on the differentially expressed snoRNAs. Receiver operating characteristic (ROC) curves and nomograms were plotted to assess the prognostic value of the risk score model. In this model, we divided breast cancer patients into high- and low-risk groups and studied each group’s infiltration of immune cells. Pearson’s correlation was used to identify differentially expressed mRNAs that were significantly correlated with prognostic snoRNAs. Results: Small nucleolar RNAs, C/D box 81 (U81) and H/ACA box 7 B (SNORA7B), were identified as breast cancer prognosis-associated snoRNAs, and low-U81- or high-SNORA7B-expression groups had worse survival. A risk score model based on U81 and SNORA7B expression can predict BC survival. The infiltration of multiple immune cell types was significantly different between the high- and low-risk score groups. The high-risk score group may respond better to anti-immune checkpoint therapy. Many genes are related to U81 and SNORA7B, some of which are related to cell proliferation, metastasis, and changes in the extracellular matrix. Conclusion: U81 and SNORA7B may serve as potential prognostic biomarkers of BC. Risk scoring models based on the expression of two snoRNAs can screen patients with breast cancer who can benefit from immunotherapy. Keywords: TNBC, ncRNA, biomarker, prognosis
Lattice sequential decoder for coded MIMO channel: Performance and complexity analysis (2010)

In this paper, the performance limits and computational complexity of lattice sequential decoder for coded MIMO channel are analyzed. It is shown that using nested lattice codes, the optimal diversity-multiplexing tradeoff of the channel can be achieved in the presence of such very low complexity decoder. We show that the computational complexity distribution, at high signal-to-noise ratio, is dominated by the outage probability.
Line-narrowing of injection lasers due to Rayleigh backscattering from optical fibre ring interferometer (1988)

Linewidth reduction and frequency-hopping for a semiconductor laser due to Rayleigh backscattering from a fibre ring interferometer have been observed. The significant decrease of the frequency-hopping range caused by the resonant nature of such backscattering is shown.
Minor components in oils obtained from Amazonian palm fruits (2013)

This study deals with the characterization of minor compounds in oils obtained from the mesocarp of fruits of the main palm species from the State of Amapá, Brazil, i.e. bacaba (Oenocarpus bacaba), buriti (Mauritia flexuosa), inajá (Maximiliana maripa), pupunha (Bactris gasipaes) and tucumã (Astrocaryum vulgare). The concentration of minor glyceridic compounds, i.e. dimeric triacylglycerols (TAG), the oxidized TAG and diacylglycerols (DAG) related to oil quality, and the compounds of unsaponifiable matter, i.e. hydrocarbons, aliphatic alcohols, sterols and tocopherols have been determined. The results indicate that the extracted oils had good initial quality, with DAG as the major glyceridic compound. The contents of hydrocarbons (50-734 mg·kg–1) and aliphatic alcohols (80-490 mg·kg–1) were highly variable with inajá oil containing the highest contents. In the case of tocopherols, buriti (1567 mg·kg–1) and tucumã (483 mg·kg–1) oils had the highest contents and the presence of significant amounts of tocotrienols was only detected in inajá oil. Finally, high concentrations of sterols were found in all the samples, particularly in the oils from pupunha (4456 mg·kg–1) and tucumã (2708 mg·kg–1), with β-sitosterol being the major sterol in all the samples with percentages between 65 and 83%.
Antimicrobial prophylaxis in orthopaedic surgery: the role of teicoplanin (1998)

Orthopaedic joint replacement is generally considered 'clean' surgery characterized by a low incidence of infection. In recent years the use of a clean theatre environment, high local concentrations of antibiotic in the cement and systemic antibiotic prophylaxis have been recognized as important measures to reduce infection rates significantly, and this has been supported by clinical trials. Staphylococcus aureus and Staphylococcus epidermidis cause at least half of all orthopaedic surgical infections. Gram-negative bacilli are involved to a much lesser extent (10-30%). First- and second-generation cephalosporins are currently considered by most authors as standard prophylaxis in elective orthopaedic surgery. In the light of the increasing incidence of methicillin resistance in coagulase-positive and -negative staphylococci, it is becoming more important for antibiotics to act efficiently against such organisms if they are to be of value in prophylaxis in orthopaedic surgery. A combined, single-dose of vancomycin/gentamicin has been used successfully in an open, controlled study in patients undergoing total joint arthroplasty but, given the disadvantages associated with the use of vancomycin, teicoplanin may be an alternative choice in such procedures. This review analyses four comparative trials of the efficacy and safety of teicoplanin, two with cefamandole, one with cefuroxime and one with cephazolin, as prophylaxis in orthopaedic total joint replacement surgery.