gebhart/patrepeval huggingface dataset:
Formation and Purification of a New Enzyme, Glycerol Oxidase and Stoichiometry of the Enzyme Reaction (1980)

Journal Article Formation and Purification of a New Enzyme, Glycerol Oxidase and Stoichiometry of the Enzyme Reaction Get access Takayuki Uwajima, Takayuki Uwajima Tokyo Research Laboratory, Kyowa Hakko Kogyo Co., Ltd., Machida-shi, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Hiroko Akita, Hiroko Akita Tokyo Research Laboratory, Kyowa Hakko Kogyo Co., Ltd., Machida-shi, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Kunio Ito, Kunio Ito Pharmaceutical Laboratory, Fuji Factory, Kyowa Hakko Kogyo Co., Ltd., Nagaizumi-cho, Shizuoka-ken Search for other works by this author on: Oxford Academic Google Scholar Akira Mihara, Akira Mihara Tokyo Research Laboratory, Kyowa Hakko Kogyo Co., Ltd., Machida-shi, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Kazuo Aisaka, Kazuo Aisaka Tokyo Research Laboratory, Kyowa Hakko Kogyo Co., Ltd., Machida-shi, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Osamu Terada Osamu Terada Tokyo Research Laboratory, Kyowa Hakko Kogyo Co., Ltd., Machida-shi, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Agricultural and Biological Chemistry, Volume 44, Issue 2, 1 February 1980, Pages 399–406, https://doi.org/10.1080/00021369.1980.10863949 Published: 01 February 1980 Article history Received: 27 September 1979 Published: 01 February 1980
Triazolopyrimidine-Based Dihydroorotate Dehydrogenase Inhibitors with Potent and Selective Activity against the Malaria Parasite <i>Plasmodium falciparum</i> (2008)

A Plasmodium falciparum dihydroorotate dehydrogenase ( PfDHODH) inhibitor that is potent ( KI = 15 nM) and species-selective (>5000-fold over the human enzyme) was identified by high-throughput screening. The substituted triazolopyrimidine and its structural analogues were produced by an inexpensive three-step synthesis, and the series showed good association between PfDHODH inhibition and parasite toxicity. This study has identified the first nanomolar PfDHODH inhibitor with potent antimalarial activity in whole cells (EC50 = 79 nM).
Mitosis: A Speculative Multithreaded Processor Based on Precomputation Slices (2008)

This paper presents the Mitosis framework, which is a combined hardware-software approach to speculative multithreading, even in the presence of frequent dependences among threads. Speculative multithreading increases single-threaded application performance by exploiting thread-level parallelism speculatively - that is, executing code in parallel even when the compiler or runtime system cannot guarantee the parallelism exists. The proposed approach is based on predicting/computing thread input values via software, through a piece of code that is added at the beginning of each thread (the pre-computation slice). A pre-computation slice is expected to compute the correct thread input values most of the time, but not necessarily always. This allows aggressive optimization techniques to be applied to the slice to make it very short. This paper focuses on the microarchitecture that supports this execution model. The primary novelty of the microarchitecture is the hardware support for the execution and validation of pre-computation slices. Additionally, this paper presents new architectures for the register file and the cache memory in order to support multiple versions of each variable and allow for efficient roll-back in case of misspeculation. We show that the proposed microarchitecture, together with the compiler support, achieves an average speedup of 2.2 for applications that conventional non-speculative approaches are not able to parallelize at all.
Intracloacal Salmonella typhimurium Infection of Broiler Chickens: Reduction of Colonization with Anaerobic Organisms and Dietary Lactose (1990)

The combined effect of treatments with dietary lactose plus anaerobic organisms on cecal colonization of broiler chicks by Salmonella typhimurium was evaluated. Chickens treated with a combination of anaerobic organisms and 7% dietary lactose were resistant to cecal colonization by S. typhimurium. The number of recoverable S. typhimurium cells per gram of cecal contents taken on days 10 and 15 after infection was significantly reduced. Treatment with anaerobes without the addition of lactose did not effectively control cecal colonization. Intracloacal inoculations with bacterial concentrations that varied by 10,000-fold resulted in roughly similar levels of colonization. The treatments resulted in reduced cecal pH and elevated levels of undissociated volatile fatty acids. Statistically significant correlations (P less than 0.01) were observed between the S. typhimurium concentrations in cecal material and the concentrations of undissociated fatty acids (r = -0.79, and between the bacterial counts and pH (r = 0.72).
Tunable Optical Waveguide Directional Coupler Filter (1978)

In future optical fiber communication systems it is likely that several optical carriers of different wavelength will be multiplexed onto a single fiber to increase its information carrying capacity. Recently wavelength multiplexors have been demonstrated which are compatible with multimode fibers. These multiplexors use graded index lenses and bulk frequency selective elements such as dielectric mirrors, 1 prisms, 2 and diffraction gratings. 3 In this paper we demonstrate a monolithic integrated optical wavelength multiplexing filter using coupled optical waveguides.
Non-Invasive Assessment of Viability in Human Embryos Fertilized in Vitro. (2016)

Human reproduction is a relatively inefficient process and therefore the number of infertile couples is high. Assisted reproductive technologies (ART) have facilitated the birth of over five million children worldwide. ART, however, superimposes its own relative inefficiency on the preexisting inefficiency of normal reproduction. The efficiency (expressed as pregnancy rate) is generally not more than 30%. Modern reproductive medicine is gradually moving from multiple embryo transfer to the transfer of a single embryo, mainly because of obvious and unwanted side effects of multiple embryo transfer (e.g. "epidemic" multiple pregnancies). This concept, however, requires a fast, professional selection of the most viable embryo during the first few days of ART. Thus the aim of a modern ART is the safe transfer of a healthy, viable, single embryo. Accurate and rapid methods of quantifying embryo viability are needed to reach this goal. Methodological advances have the potential to make an important contribution, and there has been a drive to develop alternative non-invasive methods to better meet clinical needs. Metabolic and genetic profiling of spent embryo culture (SEC) media should offer an exceptional opportunity for the assessment of embryo viability. The current review focuses on the latest non-invasive diagnostic approaches for pre-implantation viability assessment of in vitro fertilized embryos.
RF MEMS Fractal Capacitors With High Self-Resonant Frequencies (2011)

This letter demonstrates RF microelectromechanical systems (MEMS) fractal capacitors possessing the highest reported self-resonant frequencies (SRFs) in PolyMUMPS to date. Explicitly, measurement results show SRFs beyond 20 GHz. Furthermore, quality factors higher than 4 throughout a band of 1-15 GHz and reaching as high as 28 were achieved. Additional benefits that are readily attainable from implementing fractal capacitors in MEMS are discussed, including suppressing residual stress warping, eliminating the need for etching holes, and reducing parasitics. The latter benefits were acquired without any fabrication intervention.
Modeling and Simulation of the Dynamic Operating Behavior of a High Solar Share Gas Turbine System (2014)

Solar gas turbine (GT) systems provide the opportunity to utilize solar heat at a much higher temperature than solar thermal power plants based on steam turbine cycles. Therefore, GT technology has the potential to improve the efficiency of future solar thermal power plants. Nevertheless, to achieve mature technology for commercial application, further development steps are required. Knowledge of the operational behavior of the solar GT system is the basis for the development of the systems control architecture and safety concept. The paper addresses dynamic simulation of high solar share GT systems, which are characterized by primary input of solar heat to the GT. To analyze the dynamic operating behavior, a model with parallel arrangement of the combustion chamber and the solar receiver was set up. By using the heaviside step function, the system dynamics were translated into transfer functions which are used to develop controllers for the particular system configuration. Two operating conditions were simulated to test the controller performance. The first case is the slow increase and decrease of solar heat flow, as part of a regular operation. The second case is an assumed rapid change of solar heat flow, which can be caused by clouds. For all cases, time plots of critical system parameters are shown and analyzed. The simulation results show much more complex system behavior compared to conventional GT systems. This is due to the additional solar heat source, large volumes, and stored thermal energy as well as the time delay of energy transportation caused by the piping system.
Development of new methodologies for the mass spectrometry study of bioorganic macromolecules (2003)

In recent years, mass spectrometry has been increasingly used for the analysis of various macromolecules of biological, biomedical, and biochemical interest. This increase has been made possible by two key developments: the advent of electrospray ionization (ESI) and matrix-assisted laser desorption ionization (MALDI) sources. The two new techniques produce a significant increase in mass range and in sensitivity that led to the development of new applications and of new analyzer designs, software, and robotics. This review, apart from the description of the status of mass spectrometry in the analysis of bioorganic macromolecules, is mainly devoted to the illustration of the more recent promising techniques and on their possible future evolution.
Enhanced Channel Estimation and Codebook Design for Millimeter-Wave Communication (2018)

The existing channel estimation methods for millimeter-wave communications, e.g., hierarchical search and compressed sensing, either acquire only one single multipath component (MPC) or require considerably high training overhead. To realize fast yet accurate channel estimation, we propose a multipath decomposition and recovery approach in this paper. The proposed approach has two stages. In the first stage, instead of directly searching the real MPCs, we decompose each real MPC into several virtual MPCs and acquire the virtual MPCs by using the hierarchical search based on a normal-resolution codebook. Then, in the second stage, the real MPCs are recovered from the acquired virtual MPCs in the first stage, which turns out to be a sparse reconstruction problem, where the size of the dictionary matrix is greatly reduced by exploiting the results of the virtual multipath acquisition. Moreover, to make the proposed approach applicable for both analog and hybrid beamforming/combining devices with strict constant-modulus constraint, we particularly design a codebook for the hierarchical search by using an enhanced subarray technique, and the codebook is also applicable in other hierarchical search methods. Performance comparisons show that the proposed approach achieves a superior tradeoff between estimation performance and training penalty over the state-of-the-art alternatives.
Novel Antiviral Therapeutics to Control Foot-and-Mouth Disease (2012)

Foot-and-mouth disease virus (FMDV) causes a highly contagious disease of cloven-hoofed animals. Vaccines require ∼7 days to induce protection; thus, before this time, vaccinated animals are still susceptible to the disease. Our group has previously shown that swine inoculated with 1×10(11) focus forming units (FFU) of a replication-defective human adenovirus containing the gene for porcine interferon alpha (Adt-pIFN-α) are sterilely protected from FMDV serotypes A24, O1 Manisa, or Asia 1 when the animals are challenged 1 day postadministration, and protection can last for 3-5 days. Polyriboinosinic-polyribocytidylic acid stabilized with poly-l-lysine and carboxymethyl cellulose (poly ICLC) is a synthetic double-stranded RNA that is a viral mimic and activates multiple innate immune pathways through interaction with toll-like receptor 3 and MDA-5. It is a potent inducer of IFNs. In this study, we initially examined the effect of poly IC and IFN-α on FMDV replication and gene induction in cell culture. Poly ICLC alone or combined with Adt-pIFN-α was then evaluated for its therapeutic efficacy in swine against intradermal challenge with FMDV A24, 1 day post-treatment. Groups of swine were subcutaneously inoculated either with poly ICLC alone (4 or 8 mg) or in combination with different doses of Adt-pIFN-α (2.5×10(9), 1×10(9), or 2.5×10(8) FFU). While different degrees of protection were achieved in all the treated animals, a dose of 8 mg of poly ICLC alone or combined with 1×10(9) FFU of Adt-pIFN-α was sufficient to sterilely protect swine when challenged 24 h later with FMDV A24. IFN-stimulated gene (ISG) expression in peripheral blood mononuclear cells at 1 day post-treatment was broader and higher in protected animals than in nonprotected animals. These data indicate that poly ICLC is a potent stimulator of IFN and ISGs in swine and at an adequate dose is sufficient to induce complete protection against FMD.
Nonlinear polarization dynamics in a weakly birefringent all-normal dispersion photonic crystal fiber: toward a practical coherent fiber supercontinuum laser (2012)

Dispersion-flattened dispersion-decreased all-normal dispersion (DFDD-ANDi) photonic crystal fibers have been identified as promising candidates for high-spectral-power coherent supercontinuum (SC) generation. However, the effects of the unintentional birefringence of the fibers on the SC generation have been ignored. This birefringence is widely present in nonlinear non-polarization maintaining fibers with a typical core size of 2 µm, presumably due to the structural symmetry breaks introduced in the fiber drawing process. We find that an intrinsic form-birefringence on the order of 10(-5) profoundly affects the SC generation in a DFDD-ANDi photonic crystal fiber. Conventional simulations based on the scalar generalized nonlinear Schrödinger equation (GNLSE) fail to reproduce the prominent observed features of the SC generation in a short piece (9-cm) of this fiber. However, these features can be qualitatively or semi-quantitatively understood by the coupled GNLSE that takes into account the form-birefringence. The nonlinear polarization effects induced by the birefringence significantly distort the otherwise simple spectrotemporal field of the SC pulses. We therefore propose the fabrication of polarization-maintaining DFDD-ANDi fibers to avoid these adverse effects in pursuing a practical coherent fiber SC laser.
Functional Coupling of Oxygen Binding and Vasoactivity inS-Nitrosohemoglobin (2000)

S-Nitrosohemoglobin (SNO-Hb) is a vasodilator whose activity is allosterically modulated by oxygen ("thermodyamic linkage"). Blood vessel contractions are favored in the oxygenated structure, and vasorelaxant activity is "linked" to deoxygenation, as illustrated herein. We further show that transnitrosation reactions between SNO-Hb and ambient thiols transduce the NO-related bioactivity, whereas NO itself is inactive. One remaining problem is that the amounts of SNO-Hb present in vivo are so large as to be incompatible with life were all the S-nitrosothiols transformed into bioactive equivalents during each arterial-venous cycle. Experiments were therefore undertaken to address how SNO-Hb conserves its NO-related activity. Our studies show that 1) increased O(2) affinity of SNO-Hb (which otherwise retains allosteric responsivity) restricts the hypoxia-induced allosteric transition that exchanges NO groups with ambient thiols for vasorelaxation; 2) some NO groups released from Cys(beta93) upon transition to T structure are autocaptured by the hemes, even in the presence of glutathione; and 3) an O(2)-dependent equilibrium between SNO-Hb and iron nitrosylhemoglobin acts to conserve NO. Thus, by sequestering a significant fraction of NO liberated upon transition to T structure, Hb can conserve NO groups that would otherwise be released in an untimely or deleterious manner.
Stopping Internet Epidemics (2006)

As we become increasingly dependent on computers connected to the Internet, we must protect them from worm attacks. Worms can gain complete control of millions of hosts in a few minutes, and they can use the infected hosts for malicious activities such as distributed denial of service attacks, relaying spam, corrupting data, and disclosing confidential information. Since worms spread too fast for humans to respond, systems that strive to contain worm epidemics must be completely automatic. We propose Vigilante, a new end-to-end architecture to contain worms automatically that addresses the limitations of network-centric systems. Vigilante relies on collaborative worm detection at end hosts, but does not require hosts to trust each other. In Vigilante, hosts run instrumented software to detect worms. We introduce dynamic dataflow analysis, a broad-coverage detection algorithm, and we show how to integrate other detection mechanisms into the Vigilante architecture. Upon worm detection, hosts generate self-certifying alerts (SCAs), a new type of security alert that can be inexpensively verified by any vulnerable host. SCAs are then broadcast over a resilient overlay network that can propagate alerts with high probability, even when under active attack. Finally, hosts receiving an SCA generate protective filters with dynamic data and control flow analysis of the vulnerable software. Our results show that Vigilante can contain fast spreading worms that exploit unknown vulnerabilities without false positives. Vigilante does not require any changes to hardware, compilers, operating systems or to the source code of vulnerable programs, and therefore can be used to protect software as it exists today in binary form
Using certes to infer client response time at the web server (2004)

As businesses continue to grow their World Wide Web presence, it is becoming increasingly vital for them to have quantitative measures of the mean client perceived response times of their web services. We present Certes (CliEnt Response Time Estimated by the Server), an online server-based mechanism that allows web servers to estimate mean client perceived response time, as if measured at the client. Certes is based on a model of TCP that quantifies the effect that connection drops have on mean client perceived response time by using three simple server-side measurements: connection drop rate, connection accept rate and connection completion rate. The mechanism does not require modifications to HTTP servers or web pages, does not rely on probing or third party sampling, and does not require client-side modifications or scripting. Certes can be used to estimate response times for any web content, not just HTML. We have implemented Certes and compared its response time estimates with those obtained with detailed client instrumentation. Our results demonstrate that Certes provides accurate server-based estimates of mean client response times in HTTP 1.0/1.1 environments, even with rapidly changing workloads. Certes runs online in constant time with very low overhead. It can be used at websites and server farms to verify compliance with service level objectives.
A Hybrid Channel State Information Feedback Mechanism for Massive MIMO System (2016)

In this paper, CSI feedback for massive MIMO system with planar antenna array is studied. A hybrid channel state information feedback mechanism is proposed. The proposed mechanism is based on combination of beamformed CSI-RS and non-beamformed CSI-RS transmission. Each codeword in the codebook for feedback regarding the non-beamformed CSI-RS is associated with a beamformed CSI-RS. By utilizing this association, accurate CSI feedback could be achieved without incurring overwhelming CSI-RS overhead while retaining CSI-RS coverage. Evaluation results are provided to confirm the effectiveness of the proposed mechanism.
Effects of Peptide on NK Cell-Mediated MHC I Recognition (2014)

The inhibitory receptors for MHC class I have a central role in controlling natural killer (NK) cell activity. Soon after their discovery, it was found that these receptors have a degree of peptide selectivity. Such peptide selectivity has been demonstrated for all inhibitory killer cell immunoglobulin-like receptor (KIR) tested to date, certain activating KIR, and also members of the C-type lectin-like family of receptors. This selectivity is much broader than the peptide specificity of T cell receptors, with NK cell receptors recognizing peptide motifs, rather than individual peptides. Inhibitory receptors on NK cells can survey the peptide:MHC complexes expressed on the surface of target cells, therefore subsequent transduction of an inhibitory signal depends on the overall peptide content of these MHC class I complexes. Functionally, KIR-expressing NK cells have been shown to be unexpectedly sensitive to changes in the peptide content of MHC class I, as peptide:MHC class I complexes that weakly engage KIR can antagonize the inhibitory signals generated by engagement of stronger KIR-binding peptide:MHC class I complexes. This property provides KIR-expressing NK cells with the potential to recognize changes in the peptide:MHC class I repertoire, which may occur during viral infections and tumorigenesis. By contrast, in the presence of HLA class I leader peptides, virus-derived peptides can induce a synergistic inhibition of CD94:NKG2A-expressing NK cells through recruitment of CD94 in the absence of NKG2A. On the other hand, CD94:NKG2A-positive NK cells can be exquisitely sensitive to changes in the levels of MHC class I. Peptide antagonism and sensitivity to changes in MHC class I levels are properties that distinguish KIR and CD94:NKG2A. The subtle difference in the properties of NK cells expressing these receptors provides a rationale for having complementary inhibitory receptor systems for MHC class I.
Hospitalisation in Patients With Heart Failure With Preserved Ejection Fraction (2018)

Heart failure is highly prevalent with more than 50% of cases being patients with a preserved ejection fraction (HFPEF), a figure that is projected to increase due to the changing risk factor landscape, in particular the ageing population. Overall mortality is similar to patients with heart failure with reduced ejection fraction (HFREF), as are the rates of hospitalisation. Patients with HFPEF have more comorbid conditions with fewer therapeutic options available. In this review, we explore the epidemiology of hospitalisation of HFPEF, the impact of current treatment modalities, and the potential of future therapies.