gebhart/patrepeval huggingface dataset:
Identification of Matrix Metalloproteinase-1-Suppressive Peptides in Feather Keratin Hydrolysate (2018)

Inhibition of matrix metalloproteinases (MMPs), which degrade collagen and elastin in the dermis of normal skin, is a key strategy for anti-skin aging. In this study, we identified five low-molecular-weight (LMW, <1 kDa) MMP-1-suppressive peptides in feather keratin hydrolysate (FKH) obtained by anaerobic digestion with an extremophilic bacterium. FKH was first subjected to ultrafiltration, followed by size-exclusion chromatography and liquid chromatography/electrospray ionization tandem mass spectrometry analysis. Chemically synthesized peptides identical to the sequences identified suppressed MMP expression in human dermal fibroblasts (HDFs). To investigate the impact of the MMP-1-suppressive peptides on the signaling pathway, we performed antibody array phosphorylation profiling of HDFs. The results suggested that the peptide GGFDL regulates ultraviolet-B-induced MMP-1 expression by inhibiting mitogen-activated protein kinases and nuclear factor κB signaling pathways as well as histone modification. Thus, LMW feather keratin peptides could serve as novel bioactive compounds to protect the skin against intrinsic and extrinsic factors.
Resonant-cavity infrared detector with five-quantum-well absorber and 34% external quantum efficiency at 4 μm (2019)

We report resonant-cavity infrared detectors with 34% external quantum efficiency at room temperature at the resonant wavelength of 4.0 μm, even though the absorber consists of only five quantum wells with a total thickness of 50 nm. The full width at half maximum (FWHM) linewidth is 46 nm, and the peak absorption is enhanced by nearly a factor of 30 over that for a single pass through the absorber. In spite of an unfavorable Shockley-Read lifetime in the current material, the dark current density is at the level of state-of-the-art HgCdTe detectors as quantified by "Rule 07." The Johnson-noise limited detectivity (D*) at 21°C is 7 × 10<sup>9</sup> cm Hz<sup>½</sup>/W. We expect that future improvements in the device design and material quality will lead to higher quantum efficiency, as well as a significant reduction of the dark current density consistent with the very thin absorber.
Polite: A policy framework for building managed mobile apps (2012)

The proliferation of smart phones inside enterprises and the number of enterprise apps (applications) available for various smart phone platforms has been increasing. This trend is expected to continue as smart phones tend to become the device of choice to access both enterprise and personal data. Making enterprise sensitive data accessible on smart phones requires that adequate protection mechanisms be available on these devices to ensure that sensitive data is not compromised due to various reasons, such as employees losing phones to malicious apps (installed by the user) running on the phones. Most of the existing solutions either provide device level control or have an external agent monitoring the application's behavior, and has numerous limitations. In this paper we propose a framework, Polite, to build enterprise mobile apps that can be managed at run-time, which is less intrusive to the end user while providing stronger security guarantees to the enterprise. We describe several critical scenarios where controlling the run time behavior of apps on the phone is essential and how our architecture can provide security guarantees that are not possible with existing solutions. Performance results of our implementation indicate that our framework induces a minimal overhead of only 6% that may be acceptable for most enterprise mobile apps.
The juxtamembrane regions of the epidermal growth factor receptor and gp185erbB-2 determine the specificity of signal transduction. (1991)

The epidermal growth factor receptor (EGFR) and gp185erbB-2 are closely related tyrosine kinases. Despite extensive sequence and structural homology, these two receptors display quantitative and qualitative differences in their ability to couple with mitogenic signalling pathways. By using chimeric molecules between EGFR and erbB-2, we found that the determinants responsible for the specificity of mitogenic signal transduction are located in the amino-terminal half of the tyrosine kinase domain of either receptor. In the EGFR, mutational analysis within this subdomain revealed that deletion of residues 660 to 667 impaired receptor mitogenic activity without affecting its tyrosine kinase properties. This sequence is therefore likely to contribute to the specificity of substrate recognition by the EGFR kinase.
Athermal silicon optical add-drop multiplexers based on thermo-optic coefficient tuning of sol-gel material (2017)

Silicon photonics has gained interest for its potential to provide higher efficiency, bandwidth and reduced power consumption compared to electrical interconnects in datacenters and high performance computing environments. However, it is well known that silicon photonic devices suffer from temperature fluctuations due to silicon's high thermo-optic coefficient and therefore, temperature control in many applications is required. Here we present an athermal optical add-drop multiplexer fabricated from ring resonators. We used a sol-gel inorganic-organic hybrid material as an alternative to previously used materials such as polymers and titanium dioxide. In this work we studied the thermal curing parameters of the sol-gel and their effect on thermal wavelength shift of the rings. With this method, we were able to demonstrate a thermal shift down to -6.8 pm/°C for transverse electric (TE) polarization in ring resonators with waveguide widths of 325 nm when the sol-gel was cured at 130°C for 10.5 hours. We also achieved thermal shifts below 1 pm/°C for transverse magnetic (TM) polarization in the C band under different curing conditions. Curing time compared to curing temperature shows to be the most important factor to control sol-gel's thermo-optic value in order to obtain an athermal device in a wide temperature range.
Comparison of Techniques for Measurement of Brain Volume in Multiple Sclerosis Patients (P3.354) (2018)

To evaluate and compare techniques for measuring brain volume (BV) in individuals with multiple sclerosis (MS).
CIT‐9: A Fault‐Free Gmelinite Zeolite (2017)

Abstract A synthetic, fault‐free gmelinite (GME) zeolite is prepared using a specific organic structure‐directing agent (OSDA), cis‐3,5‐dimethylpiperidinium. The cis‐isomers align in the main 12‐membered ring (MR) channel of GME. Trans‐isomer OSDA leads to the small‐pore zeolite SSZ‐39 with the OSDA in its cages. Data from N 2 ‐physisorption and rotation electron diffraction provide evidence for the openness of the 12 MR channel in the GME 12×8×8 pore architecture and the absence of stacking faults, respectively. CIT‐9 is hydrothermally stable when K + ‐exchanged, while in the absence of exchange, the material transforms into an aluminous AFI‐zeolite. The process of this phase‐change was followed by in situ variable temperature powder X‐ray diffraction. CIT‐9 has the highest Si/Al ratio reported for GME, and along with its good porosity, opens the possibility of using GME in a variety of applications including catalysis.
A lipidated bi-epitope vaccine comprising of MHC-I and MHC-II binder peptides elicits protective CD4 T cell and CD8 T cell immunity against Mycobacterium tuberculosis (2018)

The BCG-L4.8 prime boost strategy imparts a better protection against TB than the BCG alone. This study emphatically denotes that L4.8 can be a promising future vaccine candidate for controlling active and latent TB.
Evaluation of Coal Compatibility Effect in Coke Strength by Surface Tension of Semi-coke (2017)

Coal compatibility in coke strength is known as the effect that good combination of coals gives high strength coke and bad one gives the opposite in comparison with the strength expected from their average properties. To understand the phenomena of compatibility, we studied a correlation between adhesive strength and surface properties of semi-cokes obtained by heat treatment of coals at 500°C. As a result, we found that when the difference in surface tension between two semi-cokes was large, the strength of coke produced from the mixture of the two raw coals became low. The same tendency was also observed in laboratory scale carbonization tests and this effect was rationalized by high interfacial tension between two semi-cokes in the case that the difference in the surface tension was large, and accordingly, adhesive strength of the interface became low. To apply these findings to a multi-component coal blending technique used for commercial coke production, we proposed a new blending factor, the interfacial tension of a heat-treated coal blend which was derived from surface tensions of semi-cokes from coals in a coal blend, so that deterioration of coke strength was confirmed in commercial oven operation by increasing interfacial tension while other average properties of the blend were kept constant. This new technology enables us to evaluate more precisely the coal compatibility and to select the good combination of coals, which can contribute to the production of high strength coke and effective usage of coking coal resources.
Meta-Sim: Learning to Generate Synthetic Datasets (2019)

Training models to high-end performance requires availability of large labeled datasets, which are expensive to get. The goal of our work is to automatically synthesize labeled datasets that are relevant for a downstream task. We propose Meta-Sim, which learns a generative model of synthetic scenes, and obtain images as well as its corresponding ground-truth via a graphics engine. We parametrize our dataset generator with a neural network, which learns to modify attributes of scene graphs obtained from probabilistic scene grammars, so as to minimize the distribution gap between its rendered outputs and target data. If the real dataset comes with a small labeled validation set, we additionally aim to optimize a meta-objective, i.e. downstream task performance. Experiments show that the proposed method can greatly improve content generation quality over a human-engineered probabilistic scene grammar, both qualitatively and quantitatively as measured by performance on a downstream task.
Flash μ-fluidics: a rapid prototyping method for fabricating microfluidic devices (2016)

We demonstrate a fast and economically viable 2D/3D maskless digital light-projection based on stereolithography compared to traditional processes. Furthermore, electrodes and sensors are easily integrated without introducing leakages to the LOC.
The Transistor Laser: Theory and Experiment (2013)

The quantum-well (QW) heterojunction bipolar transistor (HBT) laser [the transistor laser (TL)], inherently a fast switching device, operates by transporting small minority base charge densities <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex Notation="TeX">$\sim\!\! {\hbox {10}}^{16}\ {\hbox {cm}}^{-3}$</tex></formula> over nanoscale base thickness ( <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$<$</tex></formula> 900 A) in picoseconds. The base QW acts as an optical “collector,” in addition to the usual electrical collector, that selects out “fast” recombining carriers, resulting in a short lifetime ( <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex Notation="TeX">$\sim$</tex></formula> 29 ps) and higher differential laser gains. Charge and current continuity, together with the boundary conditions imposed by both collectors of the TL lead to a new charge control model, “unpinning” of population inversion beyond lasing threshold, quasi-Fermi level discontinuity across base QW, and a new equivalent circuit model requiring an extension to Kirchhoff's law. With the TL, the HBT becomes more than just a charge control device, but also a photon storage and switching device. The TL, owing to fast recombination speed, its unique three-terminal configuration, and the complementary nature of its optical and electrical collector output signals, enables resonance-free base current and collector voltage modulations, and compact realization of electro–optical applications such as nonlinear signal mixing, frequency multiplication, negative feedback, and optoelectronic logic gates.
Metal–Organic Frameworks for Oxygen Storage (2014)

Abstract We present a systematic study of metal–organic frameworks (MOFs) for the storage of oxygen. The study starts with grand canonical Monte Carlo simulations on a suite of 10 000 MOFs for the adsorption of oxygen. From these data, the MOFs were down selected to the prime candidates of HKUST‐1 (Cu‐BTC) and NU‐125, both with coordinatively unsaturated Cu sites. Oxygen isotherms up to 30 bar were measured at multiple temperatures to determine the isosteric heat of adsorption for oxygen on each MOF by fitting to a Toth isotherm model. High pressure (up to 140 bar) oxygen isotherms were measured for HKUST‐1 and NU‐125 to determine the working capacity of each MOF. Compared to the zeolite NaX and Norit activated carbon, NU‐125 has an increased excess capacity for oxygen of 237 % and 98 %, respectively. These materials could ultimately prove useful for oxygen storage in medical, military, and aerospace applications.
Two Point Mutations of RPE65 from Patients with Retinal Dystrophies Decrease the Stability of RPE65 Protein and Abolish Its Isomerohydrolase Activity (2006)

RPE65 is the isomerohydrolase in the retinoid visual cycle essential for recycling of 11-cis retinal, the chromophore for visual pigments in both rod and cone photoreceptors. Mutations in the RPE65 gene are associated with inherited retinal dystrophies with unknown mechanisms. Here we show that two point mutations of RPE65, R91W and Y368H, identified in patients with retinal dystrophies both abolished the isomerohydrolase activity of RPE65 after a subretinal injection into the Rpe65-/- mice and in the in vitro isomerohydrolase activity assay, independent of their protein levels. Further, the R91W and Y368H mutants showed significantly decreased protein levels but unchanged mRNA levels when compared with the wild-type RPE65 (wtRPE65). Protein stability analysis showed that wtRPE65 is a fairly stable protein, with an apparent half-life longer than 10 h, when expressed in 293A cells. Under the same conditions, mutants R91W and Y368H both showed substantially decreased protein stabilities, with half-lives less than 2 and 6 h, respectively. Subcellular fractionation and Western blot analysis demonstrated that wtRPE65 predominantly exists in the membrane fraction, while both of the mutants are primarily distributed in the cytosolic fraction, suggesting that these mutations disrupt the membrane association of RPE65. However, palmitoylation assay showed that wtRPE65 and both of the mutants were palmitoylated. These results suggest that these mutations may result in critical structural alterations of RPE65 protein, disrupt its membrane association, and consequently impair its isomerohydrolase activity, leading to retinal degeneration.
An intrinsically irreversible thermoacoustic heat engine (1983)

Certain thermoacoustic effects are described which form the basis for a heat engine that is intrinsically irreversible in the sense that it requires thermal lags for its operation. After discussing several acoustical heating and cooling effects, including the behavior of a new structure called a ‘‘thermoacoustic couple,’’ we discuss structures that can be placed in acoustically resonant tubes to produce both substantial heat pumping effects and, for restricted heat inputs, large temperature differences. The results are analyzed quantitatively using a second-order thermoacoustic theory based on the work of Rott. The qualities of the acoustic engine are generalized to describe a class of intrinsically irreversible heat engines of which the present acoustic engine is a special case. Finally the results of analysis of several idealized intrinsically irreversible engines are presented. These suggest that the efficiency of such engines may be determined primarily by geometry or configuration rather than by temperature.
Blood Oxygenation by Liquid Membrane Permeation (1973)

Blood oxygenation is one of the many potential applications of the separation technique using liquid membranes. In this particular application, the blood is oxygenated by contacting with oxygen bubbles pre-coated with the membranes. The oxygen in the bubbles diffuses through the membrane into the blood, whereas the carbon dioxide diffuses from the blood into the bubbles. The exploratory results show that stable fluorocarbon-type liquid membranes were formed around oxygen bubbles, and such membranes allowed opposite transfer of oxygen and carbon dioxide at substantial rates. Blood damage, which usually occurs in conventional artificial lung devices, should be greatly reduced as previous studies have indicated good and perhaps unique compatibility of the liquid fluorocarbon and blood interface. The potential advantages that this new and unique oxygenation technique can offer over the currently available techniques are discussed.
<title>New abnormal dispersion liquid for use in the design of high-performance optical systems</title> (1993)

The requirements for superior polychromatic optical performance, low cost, and thermal stability have guided the search at Lockheed for abnormal dispersion optical liquids to be used in combinations with inexpensive, normal dispersion glass in a new generation of lens designs. Our research suggests that an optimal liquid would combine the properties of very high abnormality and dispersion with high viscosity and a low freezing point. A liquid with these properties has recently been developed and its identity and characteristics will be reported. The performance benefits of using this new liquid are then explored through the design of a very high performance F/2.8, 300 mm focal length, telephoto lens for 35 mm cameras.
Biomanufacturing of CdS quantum dots (2015)

A strain of<italic>Stenotrophomonas maltophilia</italic>is engineered to achieve size controlled synthesis of water soluble CdS quantum dots.
Non-reciprocal lasing action in topological cavities of arbitrary geometries (2019)

Topological insulator is a material in which helical conducting states exist on the surface of the bulk insulator. These states can transport electrons or photons at the boundary without any back scattering, even in presence of obstacles enabling to make topological cavities with arbitrary geometries that light can propagate in one direction. Here, we present the demonstration of the first experimental non-reciprocal topological laser that operates at telecommunication wavelengths. The unidirectional stimulated emission from edge states is coupled to a selected waveguide output port with an isolation ratio of 11 dB. Topological cavities are made of hybrid photonic crystals (i.e., two different photonic crystals) with distinct topological phase invariants, which are bonded on a magnetic material of yttrium iron garnet to break the time-reversal symmetry. Our experimental demonstration, paves the way to develop complex nonreciprocal topological devices of arbitrary geometries for integrated and robust generation and transport of light in classical and quantum regimes.
Self-interference cancellation with nonlinear distortion suppression for full-duplex systems (2013)

In full-duplex systems, due to the strong self-interference signal, system nonlinearities become a significant limiting factor that bounds the possible cancellable self-interference power. In this paper, a self-interference cancellation scheme for full-duplex orthogonal frequency division multiplexing systems is proposed. The proposed scheme increases the amount of cancellable self-interference power by suppressing the distortion caused by the transmitter and receiver nonlinearities. An iterative technique is used to jointly estimate the self-interference channel and the nonlinearity coefficients required to suppress the distortion signal. The performance is numerically investigated showing that the proposed scheme achieves a performance that is less than 0.5dB off the performance of a linear full-duplex system.
Boron neutron capture (BNC): a mechanism for enhancing tumor cell kill in fast neutron radiotherapy (1997)

At therapeutic doses fast neutron radiotherapy alone gives significant tumor control can result in a significant increase in tumor control probability. As a fast neutron beam penetrates tissue it is partially moderated producing a cloud of thermalized neutrons. We describe measurements of this thermalized component using the therapy beam at the University of Washington and show how it is possible to increase its magnitude without appreciable degradation of the other clinical properties of the beam. We describe model calculation of the radiobiological effects of a boron neutron capture boost as well as in vitro cell culture measurements on the V-79 cell line, in vivo experiments on the 36B10 rat glioma system, and a preliminary experiment on a human melanoma nodule test system. Plans to extend this work to clinically-relevant tumor systems are discussed.
Developing live<i>Shigella</i>vaccines using Î» Red recombineering (2006)

Live attenuated Shigella vaccines have shown promise in inducing protective immune responses in human clinical trials and as carriers of heterologous antigens from other mucosal pathogens. In the past, construction of Shigella vaccine strains relied on classical allelic exchange systems to genetically engineer the bacterial genome. These systems require extensive in vitro engineering of long homologous sequences to create recombinant replication-defective plasmids or phage. Alternatively, the lambda red recombination system from bacteriophage facilitates recombination with as little as 40 bp of homologous DNA. The process, referred to as recombineering, typically uses an inducible lambda red operon on a temperature-sensitive plasmid and optimal transformation conditions to integrate linear antibiotic resistance cassettes flanked by homologous sequences into a bacterial genome. Recent advances in recombineering have enabled modification of genomic DNA from bacterial pathogens including Salmonella, Yersinia, enteropathogenic Escherichia coli, or enterohemorrhagic E. coli and Shigella. These advances in recombineering have been used to systematically delete virulence-associated genes from Shigella, creating a number of isogenic strains from multiple Shigella serotypes. These strains have been characterized for attenuation using both in vivo and in vitro assays. Based on this data, prototypic Shigella vaccine strains containing multiple deletions in virulence-associated genes have been generated.
Elastic sheet-defined functions: Generalising spreadsheet functions to variable-size input arrays (2020)

Abstract Sheet-defined functions (SDFs) bring modularity and abstraction to the world of spreadsheets. Alas, end users naturally write SDFs that work over fixed-size arrays, which limits their reusability. To help end user programmers write more reusable SDFs, we describe a principled approach to generalising such functions to become elastic SDFs that work over inputs of arbitrary size. We prove that under natural, checkable conditions, our algorithm returns the principal generalisation of an input SDF. We describe a formal semantics and several efficient implementation strategies for elastic SDFs. A user study with spreadsheet users compares the human experience of programming with elastic SDFs to the alternative of relying on array-processing combinators. Our user study finds that the cognitive load of elastic SDFs is lower than for SDFs with map/reduce array combinators, the closest alternative solution.