gebhart/patrepeval huggingface dataset:
Assessment of Different CFD Modeling and Solving Approaches for a Supersonic Steam Ejector Simulation (2022)

The effects of different modeling and solving approaches on the simulation of a steam ejector have been investigated with the computational fluid dynamics (CFD) technique. The four most frequently used and recommended turbulence models (standard k-ε, RNG k-ε, realizable k-ε and SST k-ω), two near-wall treatments (standard wall function and enhanced wall treatment), two solvers (pressure- and density-based solvers) and two spatial discretization schemes ( the second-order upwind scheme and the quadratic upstream interpolation for convective kinematics (QUICK) of the convection term have been tested and compared for a supersonic steam ejector under the same conditions as experimental data. In total, more than 185 cases of 17 different modeling and solving approaches have been carried out in this work. The simulation results from the pressure-based solver (PBS) are slightly closer to the experimental data than those from the density-based solver (DBS) and are thus utilized in the subsequent simulations. When a high-density mesh with y+ &lt; 1 is used, the SST k-ω model can obtain the best predictions of the maximum entrainment ratio (ER) and an adequate prediction of the critical back pressure (CBP), while the realizable k-ε model with the enhanced wall treatment can obtain the best prediction of the CBP and an adequate prediction of the ER. When the standard wall function is used with the three k-ε models, the realizable k-ε model can obtain the best predictions of the maximum ER, and the three k-ε models can gain the same CBP value. For a steam ejector with recirculation inside the diffuser, the realizable k-ε model or the enhanced wall treatment is recommended for adoption in the modeling approach. When the spatial discretization scheme of the convection term changes from a second-order upwind scheme to a QUICK scheme, the effect can be ignored for the maximum ER calculation, while only the CBP value from the standard k-ε model with the standard wall function is reduced by 2.13%. The calculation deviation of the ER between the two schemes increases with the back pressure at the unchoked flow region, especially when the standard k-ε model is adopted. The realizable k-ε model with the two wall treatments and the SST k-ω model is recommended, while the standard k-ε is more sensitive to the near-wall treatment and the spatial discretization scheme and is not recommended for an ejector simulation.
Fluorescence from Multiple Chromophore Hydrogen-Bonding States in the Far-Red Protein TagRFP675 (2016)

Far-red fluorescent proteins are critical for in vivo imaging applications, but the relative importance of structure versus dynamics in generating large Stokes-shifted emission is unclear. The unusually red-shifted emission of TagRFP675, a derivative of mKate, has been attributed to the multiple hydrogen bonds with the chromophore N-acylimine carbonyl. We characterized TagRFP675 and point mutants designed to perturb these hydrogen bonds with spectrally resolved transient grating and time-resolved fluorescence (TRF) spectroscopies supported by molecular dynamics simulations. TRF results for TagRFP675 and the mKate/M41Q variant show picosecond time scale red-shifts followed by nanosecond time blue-shifts. Global analysis of the TRF spectra reveals spectrally distinct emitting states that do not interconvert during the S1 lifetime. These dynamics originate from photoexcitation of a mixed ground-state population of acylimine hydrogen bond conformers. Strategically tuning the chromophore environment in TagRFP675 might stabilize the most red-shifted conformation and result in a variant with a larger Stokes shift.
Dermal responses to Ostertagia ostertagi in Ostertagia ostertagi- and Cooperia punctata-inoculated calves (1985)

SUMMARY Calves harboring patent Ostertagia ostertagi or Cooperia punctata were given intradermal injections of O ostertagi 3rd-stage larval antigen. The initial injections were followed 30 days later by a 2nd series of injections. Skin thickness was measured at injection sites for 72 hours after injection. Selected injection sites including saline solution control sites were biopsied at 30 minutes, at 3, 24, 48, and 72 hours, and at 30 days after injection. After the 1st series of injections, there was a clear distinction in dermal reactions between O ostertagi -inoculated calves and C punctata -inoculated calves; after 24 hours, reactions were not seen in the C punctata -inoculated calves. Marked dermal reactions occurred in the O ostertagi -inoculated calves. The reactions at 30 minutes and 3 hours were characterized by slight-to-extensive infiltration of neutrophils and dermal edema. The 24-hour cellular reaction was principally due to neutrophil and eosinophil infiltration with edema and necrosis. Reactions at 48 to 72 hours were due to eosinophils and perivascular accumulations of macrophages and lymphocytes. Necrosis, neutrophils, and edema were present in foci where fragments of nematodes were located. On reinjection, a clear distinction in dermal reactions between calves was not seen based on the type of nematode infection. Thirty days after dermal inoculation, large nodules developed at the site of the initial antigen injection. The nodules were characterized by marked intradermal proliferation of lymphocytes in a follicular pattern with occasional macrophages and rare multinucleated giant cells.
Glycogen Synthase Kinase-3β regulates antigen/SCF-mediated cytokine production and SCF-mediated chemotaxis in human mast cells (93.6) (2009)

Abstract Glycogen Synthase Kinase-3β (GSK3β) is a serine threonine kinase downstream of PI3K, which has been implicated in cellular responses including tumorigenesis; cell growth, migration and survival; and cytokine generation. In this study we investigated the role of GSK3β in antigen/SCF-mediated mast cell responses. Short hairpin RNA (shRNA), introduced by lentiviral transfection, was used to knockdown GSK3β in human mast cells. Cytokine production and activation of transcription factors were measured by ELISA and immunoblot analysis. SCF-mediated mast cell chemotaxis was assessed with a transwell migration assay. GSK3β knockdown significantly decreased antigen/SCF-mediated GM-CSF and IL-8 production and SCF-mediated mast cell chemotaxis compared to control treated cells. The decrease in chemotaxis and cytokine production was associated with a pronounced reduction in antigen/SCF-mediated phosphorylation of JNK and the transcription factors c-jun and ATF2. These data are consistent with the conclusion that GSK3β is an essential component of the signalling cascade that regulates antigen/SCF-mediated transcriptional activity and chemotaxis in human mast cells. Thus, targeting GSK3β?may provide one means for down-regulation of these mast cell responses when associated with the allergic inflammatory reaction. Supported by the Division of Intramural Research, NIH, USA.
Demonstration of the First Sub-GHz Comb-Based RF-Photonic Flat-Top Filter (2019)

We demonstrate the first sub-GHz flat-top RF-photonic filter based on a wide-band 25 GHz-pitched parametric comb. A narrow filter was constructed by fourth order dispersion compensation of the fiber for the first time. The filter performance was tested by digital modulated RF data retrieval.
Preparation and Characterization of Structured Hydrogel Microparticles Based on Cross-Linked Hyperbranched Polyglycerol (2007)

The aim of this work was to obtain well-defined HyPG-MA (methacrylated hyperbranched polyglycerol) microparticles with uniform sizes. Therefore, three different preparation methods were evaluated. First, we assessed a micromolding technique using rigid SU-8 (a photoresist based on epoxies) grids. Independent of the surface treatment of the SU-8 grid or the type of polymer used, approximately 50% of the microgels remained attached to the SU-8 grid or broke into smaller particles during the release process in which drying of the gels was followed by a sonication process. Although 90% methacrylate conversion could be obtained, this method has some additional drawbacks as the obtained dried microgels did not rehydrate completely after the drying step. Second, a soft micromolding technique was evaluated using elastomeric PDMS (poly(dimethyl siloxane)) grids. The use of these flexible grids resulted in a high yield (80-90% yield; >90% methacrylate conversion) of microgels with a well-defined size and shape (squares 100 microm x 100 microm x 50 microm or hexagons with Ø 30 microm and a thickness of 20 microm) without the occurrence of water evaporation. However, a number of particles showed a less-defined shape as not all grids could be filled well. The microgels showed restricted swelling, implying that these gels are dimensionally stable. Third, an alternative method referred to as photolithography was evaluated. This method was suitable to tailor accurately the size and shape of HyPG-MA microgels and additionally gained 100% yield. Well-defined HyPG-MA microgels in the size range of 200-1400 microm (thickness of 6, 20, or 50 microm), with a methacrylate conversion of >90%, could easily be prepared by adding an inhibitor (e.g., 1% (w/v) of vitamin C) to the polymer solution to inhibit dark polymerization. Microgels in the size range of 30-100 microm (>90% conversion) could only be obtained when applying the photomask in direct contact with the polymer solution and using a higher (i.e., 2% (w/v)) concentration of vitamin C. Additionally, the microgels showed limited swelling, indicating that rather dimensionally stable particles were obtained. In conclusion, this paper shows that photolithography and soft micromolding, as compared to rigid micromolding, are the most appropriate techniques to fabricate structured HyPG-MA microgels with a tailorable and well-defined size and shape. These microgels have great potential in tissue engineering and drug delivery applications.
Purification, Toxicity and Functional Characterization of a New Proteinaceous Mussel Biotoxin from Bizerte Lagoon (2020)

The marine environment is known to be occupied by microorganisms. The potential toxicity of some of these marine microorganisms, that are capable of producing unknown biotoxins, has always been underestimated. Indeed, these biotoxins may be a threat to human health through the consumption of contaminated seafood and fish. For more than ten years, recurrent but atypical toxicity has been detected in mussels from Bizerte lagoon (North of Tunisia) during routine tests. In this study, we have isolated and characterized a new proteinaceous marine biotoxin, named Mussel Toxic Peptide (MTP). Using HPLC, electrophoresis and LC/MS studies, we showed that MTP has a protein characteristic UV-spectrum, can be visualized by protein specific reagents such as Coomassie, and has a molecular mass of 6.4 kDa. Patch-clamp experiments performed on cultured N18 neuroblastoma cells revealed that MTP (0.9-18 µM) markedly inhibited voltage-gated Na current, but was about 23 times less active in blocking voltage-gated K current at equimolar concentrations. To the best of our knowledge, this is the first time that a proteinaceous marine biotoxin with relatively high molecular mass is isolated and involved in the contamination of mussels harvested from shellfish farming areas.
Human Milk Proteins: Composition and Physiological Significance (2019)

Human milk (HM) contains hundreds of proteins with very diverse functions that likely contribute to the short- and long-term beneficial effects of breastfeeding. These functions include serving as a source of amino acids, improving the bioavailability of micronutrients, including vitamins, minerals, and trace elements, providing immunologic defense, stimulating intestinal growth and maturation, shaping the microbiome, and enhancing learning and memory. Human milk proteins can be broadly classified into 3 categories: caseins, whey proteins, and mucins, which are present in the milk fat globule membrane. HM is whey predominant; however, the whey/casein ratio of HM changes from 90/10 in colostrum to 60/40 in mature HM. The whey proteins present in significant quantities in the whey fraction are α-lactalbumin, lactoferrin, IgA, osteopontin, and lysozyme. Additionally, bioactive peptides are formed during digestion of casein and whey, and glycans from glycoproteins are bifidogenic, adding further complexity to the functional properties of HM proteins. Recent advances in dairy technology have enabled isolation of bioactive milk proteins from bovine milk in sufficient quantities for clinical studies and, in some cases, addition to commercially available infant formula. Herein, the current evidence on HM protein composition and bioactivity of HM proteins is reviewed.
Stella-II: demonstration of monoenergetic laser acceleration (2004)

Monoenergetic laser acceleration of trapped microbunches has been demonstrated for the first time. An inverse free electron laser (IFEL) is used to create microbunches, which are then accelerated by a second IFEL using a tapered undulator. An adjustable magnetic field chicane is located between the two IFELs and is used to control the phase of the microbunches with respect to the laser field in the second IFEL. The IFELs are driven by a single laser beam from a high peak power CO/sub 2/ laser. During the experiment, the trapped portion of the microbunch electrons had an energy gain of < 16% with an energy width of /spl sim/ 0.86% (full width at half- maximum).
Bringing the interaction of silver nanoparticles with bacteria to light (2021)

In past decades, the exploitation of silver nanoparticles in novel antibacterial and detection devices has risen to prominence, owing to the well-known specific interaction of silver with bacteria. The vast majority of the investigations focus on the investigation over the mechanism of action underpinning bacterial eradication, while few efforts have been devoted to the study of the modification of silver optical properties upon interaction with bacteria. Specifically, given the characteristic localized surface plasmon resonance of silver nanostructures, which is sensitive to changes in the charge carrier density or in the dielectric environment, these systems can offer a handle in the detection of bacteria pathogens. In this review, we present the state of art of the research activity on the interaction of silver nanoparticles with bacteria, with strong emphasis on the modification of their optical properties. This may indeed lead to easy color reading of bacterial tests and pave the way to the development of nanotechnologic silver-based bacterial detection systems and drug-screening platforms.
Data from Mutational Landscape and Antiproliferative Functions of ELF Transcription Factors in Human Cancer (2023)

&lt;div&gt;Abstract&lt;p&gt;ELF4 (also known as MEF) is a member of the ETS family of transcription factors. An oncogenic role for ELF4 has been demonstrated in hematopoietic malignancies, but its function in epithelial tumors remains unclear. Here, we show that ELF4 can function as a tumor suppressor and is somatically inactivated in a wide range of human tumors. We identified a missense mutation affecting the transactivation potential of ELF4 in oral squamous cell carcinoma cells. Restoration of the transactivation activity through introduction of wild-type ELF4 significantly inhibited cell proliferation &lt;i&gt;in vitro&lt;/i&gt; and tumor xenograft growth. Furthermore, we found that ELF1 and ELF2, closely related transcription factors to ELF4, also exerted antiproliferative effects in multiple cancer cell lines. Mutations in ELF1 and ELF2, as in ELF4, were widespread across human cancers, but were almost all mutually exclusive. Moreover, chromatin immunoprecipitation coupled with high-throughput sequencing revealed ELF4-binding sites in genomic regions adjacent to genes related to cell-cycle regulation and apoptosis. Finally, we provide mechanistic evidence that the antiproliferative effects of ELF4 were mediated through the induction of HRK, an activator of apoptosis, and DLX3, an inhibitor of cell growth. Collectively, our findings reveal a novel subtype of human cancer characterized by inactivating mutations in the ELF subfamily of proteins, and warrant further investigation of the specific settings where ELF restoration may be therapeutically beneficial. &lt;i&gt;Cancer Res; 76(7); 1814–24. ©2016 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Serotype Distribution, Population Structure, and Antimicrobial Resistance of Group B Streptococcus Strains Recovered from Colonized Pregnant Women (2016)

Using serotyping, multilocus sequence typing, and whole-genome sequencing (WGS) of selected strains, we studied the population structure of 102 group B Streptococcus (GBS) isolates prospectively sampled in 2014 from vaginal/rectal swabs of healthy pregnant women in metropolitan Toronto, Canada. We also determined the susceptibilities of each of the colonizing isolates to penicillin, erythromycin, clindamycin, tetracycline, and other antimicrobial agents. Overall, we observed a high rate of tetracycline resistance (89%) among colonizing GBS isolates. We found resistance to erythromycin in 36% of the strains, and 33% were constitutively or inducibly resistant to clindamycin. The most frequently identified serotypes were III (25%), Ia (23%), and V (19%). Serotype IV accounted for 6% of the colonizing isolates, a rate consistent with that observed among patients with invasive GBS infections in metropolitan Toronto. The majority of serotype IV isolates belonged to sequence type (ST)459, a tetracycline-, erythromycin-, and clindamycin-resistant ST first identified in Minnesota, which is considered to be the main driver of serotype IV GBS expansion in North America. WGS revealed that ST459 isolates from Canada are clonally related to colonizing and invasive ST459 organisms circulating in regions of the United States. We also used WGS to study recombination in selected colonizing strains from metropolitan Toronto, which revealed multiple episodes of capsular switching. Present and future circulating GBS organisms and their genetic diversity may influence GBS vaccine development.
Novel methods for phase noise reduction and harmonic suppression in a planar oscillator circuit based on split ring resonators (2006)

In this paper, we describe a novel microwave oscillator incorporating a CPW-based split ring resonator (SRR) as a resonant component of the circuit. The high-quality (Q) factor and spurious-free SRR contribute to phase noise reduction as well as the harmonic tuning of the oscillator circuit in a very small chip area. The fabricated 5.5-GHz oscillator showed an output power of 2.774 dBm with a second harmonic suppression of −43.04 dB and phase noise of − 100.8dBc/Hz at 100 kHz offset. The proposed oscillator is believed to be the first application of a metamaterial to the performance enhancement of a microwave active device.
Improving the predictions of injection molding simulation software (2011)

Abstract Injection molding is one of the most widespread processes for plastic manufacturing. Software packages are often used in several steps of the production cycle, from mold design to the determination of processing conditions. In this work a method is reported to improve the predictions of the description of pressure profiles made by injection molding simulation software. The method is applied to two polymeric materials (a PolyStyrene and a PolyCarbonate) injection molded into line‐gated rectangular cavities adopting different molding conditions and cavity thickness. The method, that is independent of the software adopted, in this article is illustrated adopting the commercial code Moldflow®. It is shown that the predictions of the description of pressure curves inside the cavity can be significantly improved by introducing the effect of pressure on viscosity and the effect of cavity deformation during molding. The former effect is taken into account by finding an appropriate value for the parameter which takes into account the effect of pressure in the equation which describes material rheology. The latter effect can be introduced by defining and implementing an apparent material compressibility. POLYM. ENG. SCI., 2011. © 2011 Society of Plastics Engineers
Efficient Computation of Conditionals in the Dempster–Shafer Belief Theoretic Framework (2020)

The Dempster-Shafer (DS) belief theory constitutes a powerful framework for modeling and reasoning with a wide variety of uncertainties due to its greater expressiveness and flexibility. As in the Bayesian probability theory, the DS theoretic (DST) conditional plays a pivotal role in DST strategies for evidence updating and fusion. However, a major limitation in employing the DST framework in practical implementations is the absence of an efficient and feasible computational framework to overcome the prohibitive computational burden DST operations entail. The work in this article addresses the pressing need for efficient DST conditional computation via the novel computational model DS-Conditional-All. It requires significantly less time and space complexity for computing the Dempster's conditional and the Fagin-Halpern conditional, the two most widely utilized DST conditional strategies. It also provides deeper insight into the DST conditional itself, and thus acts as a valuable tool for visualizing and analyzing the conditional computation. We provide a thorough analysis and experimental validation of the utility, efficiency, and implementation of the proposed data structure and algorithms. A new computational library, which we refer to as DS-Conditional-One and DS-Conditional-All (DS-COCA), is developed and harnessed in the simulations.
3D surface-related multiple elimination: Acquisition and processing solutions (2005)

The removal of free-surface multiples from seismic reflection data remains an essential processing step before the application of prestack migration. Slowly decaying water layer multiples arising from a strong impedance contrast at the sea floor severely degrade the quality of the seismogram. In addition, peg-leg multiples generated from structurally complex 3D geologic bodies create a complex set of reverberations that can easily obscure weak primary reflections. In other areas, diffracted multiples from shallow point diffractors generate a “cloud” of multiple energy masking underlying primaries.