gebhart/patrepeval huggingface dataset:
Isolation and Structural Elucidation of (13<i>Z</i>,13‘<i>Z</i>,3<i>R</i>,3‘<i>R</i>,6‘<i>R</i>)-Lutein from Marigold Flowers, Kale, and Human Plasma (1999)

(13Z,13'Z,3R,3'R,6'R)-Lutein has been isolated and purified from extracts of marigold flowers, fresh raw kale (Brassica oleracea var. Acephala), and human plasma and fully characterized by (1)H and (13)C NMR, UV/vis, and MS. While the concentration of (13Z, 13'Z)-lutein in kale and human plasma compared to (all-E,3R,3'R, 6'R)-lutein was found to be quite low, this compound was readily isolated by fractional crystallization of lutein from marigold extracts. Thus, the mother liquors from two consecutive crystallizations of lutein from a saponified extract of marigold flowers were enriched in (13Z,13'Z)-lutein (8.7% of total carotenoids) and employed for the isolation of this compound by HPLC. The identity of the di-Z-lutein in kale and human plasma has been established by comparison of the HPLC-UV/vis-MS profiles of the purified compounds with those of a fully characterized sample, isolated from marigolds. 3-Hydroxy-beta,epsilon-caroten-3'-one and 3'-epilutein have also been identified in extracts from marigolds.
Structurally Analogous Degradable Version of Fluorene–Bipyridine Copolymer with Exceptional Selectivity for Large-Diameter Semiconducting Carbon Nanotubes (2017)

Separation of electronically pure, narrowly dispersed, pristine, semiconducting single-walled carbon nanotubes (CNTs) from a heterogeneous as-synthesized mixture is essential for various semiconducting technologies and biomedical applications. Although conjugated polymer wrappers are often utilized to facilitate electronic-type sorting, it is highly desirable to remove organic residues from the resulting devices. We report here the design and synthesis of a mild acid-degradable π-conjugated polyimine polymer, poly[(9,9-di-n-octyl-2,7-fluoren-dinitrilomethine)-alt-co-(6,6'-{2,2'-bipyridyl-dimethine})] (PFO-N-BPy), that is structurally analogous to the commonly used and commercially available poly[(9,9-dioctylfluorenyl-2,7-diyl)-alt-co-(6,6'-(2,2'-bipyridine))] (PFO-BPy). An acid cleavable imine link (-HC═N-) was introduced in the PFO-N-BPy backbone to impart degradability, which is absent in PFO-BPy. PFO-N-BPy was synthesized via a metal catalyst-free aza-Wittig reaction in high yields. PFO-N-BPy with a degree of polymerization of just ∼10 showed excellent (>99% electronic purity) selectivity for both large-diameter (1.3-1.7 nm) arc-discharge semiconducting CNTs (S-CNTs) and smaller diameter (0.8-1.2 nm) high-pressure carbon monoxide disproportionation reaction S-CNTs. Overall, the selectivity for the semiconducting species is similar to that of PFO-BPy but with an advantage of complete depolymerization under mild acidic conditions into recyclable monomers. We further show by ultraviolet-visible spectroscopy, X-ray photoelectron spectroscopy, and scanning electron microscopy that the PFO-N-BPy-wrapped S-CNTs can be aligned into a monolayer array on gate dielectrics using a floating evaporative self-assembly process from which the polymer can be completely removed. Short channel field effect transistors were fabricated from the polymer-stripped aligned S-CNT arrays, which further confirmed the semiconducting purity on the order of 99.9% or higher.
Self-Interference Incoherent Digital Holography for Holographic Fluorescence Microscopy (2015)

We present recent progress in the development of self-interference incoherent digital holography for holographic fluorescence microscopy, including aberration compensation of fluorescent holographic image and 3D differential holography.
Identification and Characterization of DNA Aptamers Specific for Phosphorylation Epitopes of Tau Protein (2018)

Tau proteins are proteins that stabilize microtubules, but their hyperphosphorylation can result in the formation of protein aggregates and, over time, neurodegeneration. This phenomenon, termed tauopathy, is pathologically involved in several neurodegenerative disorders. DNA aptamers are single-stranded oligonucleotides capable of specific binding to target molecules. Using tau epitopes predisposed for phosphorylation, we identified six distinct aptamers that bind to tau at two phosphorylatable epitopes (Thr-231 and Ser-202) and to full-length Tau441 proteins with nanomolar affinity. In addition, several of these aptamers also inhibit tau phosphorylation (IT4, IT5, IT6) and tau oligomerization (IT3, IT4, IT5, IT6). This is the first report to identify tau epitope-specific aptamers. Such tau aptamers can be used to detect tau in biofluids and uncover the mechanism of tauopathy. They can be further developed into novel therapeutic agents in mitigating tauopathy-associated neurodegenerative disorders.
Acoustically Grounded Word Embeddings for Improved Acoustics-to-Word Speech Recognition (2019)

Direct acoustics-to-word (A2W) systems for end-to-end automatic speech recognition are simpler to train, and more efficient to decode with, than sub-word systems. However, A2W systems can have difficulties at training time when data is limited, and at decoding time when recognizing words outside the training vocabulary. To address these shortcomings, we investigate the use of recently proposed acoustic and acoustically grounded word embedding techniques in A2W systems. The idea is based on treating the final pre-softmax weight matrix of an AWE recognizer as a matrix of word embedding vectors, and using an externally trained set of word embeddings to improve the quality of this matrix. In particular we introduce two ideas: (1) Enforcing similarity at training time between the external embeddings and the recognizer weights, and (2) using the word embeddings at test time for predicting out-of-vocabulary words. Our word embedding model is acoustically grounded, that is it is learned jointly with acoustic embeddings so as to encode the words' acoustic-phonetic content; and it is parametric, so that it can embed any arbitrary (potentially out-of-vocabulary) sequence of characters. We find that both techniques improve the performance of an A2W recognizer on conversational telephone speech.
Fiber-content dependency of the optical transparency and thermal expansion of bacterial nanofiber reinforced composites (2006)

We produced transparent nanocomposite reinforced with bacterial cellulose having a wide range of fiber contents, from 7.4to66.1wt%, by the combination of heat drying and organic solvent exchange methods. The addition of only 7.4wt% of bacterial cellulose nanofibers, which deteriorated light transmittance by only 2.4%, was able to reduce the coefficient of thermal expansion of acrylic resin from 86×10−6to38×10−6K−1. As such, the nanofiber network of bacterial cellulose has an extraordinary potential as a reinforcement to obtain optically transparent and low thermal expansion materials.
Photon accelerator (1989)

A novel method of frequency upshifting short (\ensuremath{\le}1 ps) pulses of laser light, which makes use of relativistic plasma waves, is described. This method makes use of the fact that a laser pulse moving in a plasma can be thought of as a packet of photons, each possessing an effective mass of ${m}_{\ensuremath{\gamma}}$=\ensuremath{\Elzxh}${\ensuremath{\omega}}_{\mathrm{pe}}$/${c}^{2}$ and moving with the group velocity of the laser pulse. These photons experience a force acting on them when in the presence of a gradient in the plasma density. By using a relativistic plasma wave (i.e., a moving density gradient) traveling with the photons, energy of the photons (thus the frequency) can be continuously increased.
Site-specific antibody-drug conjugation through an engineered glycotransferase and a chemically reactive sugar (2014)

Conjugation of small molecule drugs to specific sites on the antibody molecule has been increasingly used for the generation of relatively homogenous preparations of antibody-drug conjugates (ADCs) with physicochemical properties similar or identical to those of the naked antibody. Previously a method for conjugation of small molecules to glycoproteins through existing glycans by using an engineered glycotransferase and a chemically reactive sugar as a handle was developed. Here, for the first time, we report the use of this method with some modifications to generate an ADC from a monoclonal antibody, m860, which we identified from a human naïve phage display Fab library by panning against the extracellular domain of human HER2. M860 bound to cell surface-associated HER2 with affinity comparable to that of Trastuzumab (Herceptin), but to a different epitope. The m860ADC was generated by enzymatically adding a reactive keto-galactose to m860 using an engineered glycotransferase and conjugating the reactive m860 to aminooxy auristatin F. It exhibited potent and specific cell-killing activity against HER2 positive cancer cells, including trastuzumab-resistant breast cancer cells. This unique ADC may have utility as a potential therapeutic for HER2 positive cancers alone or in combination with other drugs. Our results also validate the keto-galactose/engineered glycotransferase method for generation of functional ADCs, which could potentially also be used for preparation of ADCs targeting other disease markers.
Discovery of a Peptide-Based Renin Inhibitor with Oral Bioavailability and Efficacy (1992)

Peptidic renin inhibitors have been poorly absorbed across the intestine or rapidly eliminated by the liver and have been reported to have oral bioavailabilities of less than 2%. A peptide-based renin inhibitor, A-72517 (molecular mass of 706 daltons), was devised that has oral bioavailabilities of 8, 24, 32, and 53% in the monkey, rat, ferret, and dog, respectively. Dose-related reductions in blood pressure, plasma renin activity, and plasma angiotensin II in parallel with increased plasma drug concentrations were observed after oral administration of A-72517 to conscious, salt-depleted dogs. Thus, peptide-based molecules of sizable molecular mass can be absorbed intact into the systemic circulation of animals. These findings support the potential of peptide-based drugs for oral administration.
Continuous-wave HF R-branch laser demonstration (1983)

Continuous-wave lasing on HF R-branch transitions has been demonstrated using a standard combustion driven HF chemical laser with a 15-cm single-row supersonic nozzle. A set of specially coated mirrors was used to discriminate against normal HF P-branch transitions and force the laser toward the shorter wavelengths. 2.5 W of power were outcoupled at 2.47, microm on the HF R-branch transition from an HF laser, producing nominally 50 W of power on the P branch.
Voluntary motion support by an upper limb support system based on bioelectrical signals for heavy overhead tasks (2016)

We have developed a wearable upper limb support system (ULSS) for support during heavy overhead tasks. The purpose of this study is to develop the voluntary motion support algorithm for the ULSS, and to confirm the effectiveness of the ULSS with the developed algorithm through dynamic evaluation experiments. The algorithm estimates the motor intention of the wearer based on a bioelectrical signal (BES). The ULSS measures the BES via electrodes attached onto the triceps brachii, deltoid, and clavicle. The BES changes in synchronization with the motion of the wearer's upper limbs. The algorithm changes a control phase by comparing the BES and threshold values. The algorithm achieves voluntary motion support for dynamic tasks by changing support torques of the ULSS in synchronization with the control phase. Five healthy adult males moved heavy loads vertically overhead in the evaluation experiments. In a random instruction experiment, the volunteers moved in synchronization with random instructions, and we confirmed that the control phase changes in synchronization with the random instructions. In a motion support experiment, we confirmed that the average number of the vertical motion with the ULSS increased 2.3 times compared to the average number without the ULSS. As a result, the ULSS with the algorithm supports the motion voluntarily, and it has a positive effect on the support. In conclusion, we could develop the novel voluntary motion support algorithm of the ULSS.
Evaluating the Role of Macrocycles in the Susceptibility of Hepatitis C Virus NS3/4A Protease Inhibitors to Drug Resistance (2013)

The hepatitis C virus (HCV) infects an estimated 150 million people worldwide and is the major cause of viral hepatitis, cirrhosis, and liver cancer. The available antiviral therapies, which include PEGylated interferon, ribavirin, and one of the HCV NS3/4A protease inhibitors telaprevir or boceprevir, are ineffective for some patients and cause severe side effects. More potent NS3/4A protease inhibitors are in clinical development, but the long-term effectiveness of these drugs is challenged by the development of drug resistance. Here, we investigated the role of macrocycles in the susceptibility of NS3/4A protease inhibitors to drug resistance in asunaprevir, danoprevir, vaniprevir, and MK-5172, with similar core structures but varied P2 moieties and macrocyclizations. Linear and macrocyclic analogues of these drugs were designed, synthesized, and tested against wild-type and drug-resistant variants R155K, V36M/R155K, A156T, and D168A in enzymatic and antiviral assays. Macrocyclic inhibitors were generally more potent, but the location of the macrocycle was critical for retaining activity against drug-resistant variants: the P1-P3 macrocyclic inhibitors were less susceptible to drug resistance than the linear and P2-P4 macrocyclic analogues. In addition, the heterocyclic moiety at P2 largely determined the inhibitor resistance profile, susceptibility to drug resistance, and the extent of modulation by the helicase domain. Our findings suggest that to design robust inhibitors that retain potency to drug-resistant NS3/4A protease variants, inhibitors should combine P1-P3 macrocycles with flexible P2 moieties that optimally contact with the invariable catalytic triad of this enzyme.
Highly Efficient Dye‐Sensitized Solar Cells Based on Panchromatic Ruthenium Sensitizers with Quinolinylbipyridine Anchors (2013)

Abstract Panchromatic Ru II sensitizers TF‐30–TF‐33 bearing a new class of 6‐quinolin‐8‐yl‐2,2′‐bipyridine anchor were synthesized and tested under AM1.5 G simulated solar irradiation. Their increased π conjugation relative to that of the traditional 2,2′:6′,2′′‐terpyridine‐based anchor led to a remarkable improvement in absorptivity across the whole UV–Vis–NIR spectral regime. Furthermore, the introduction of a bulky tert ‐butyl substituent on the quinolinyl fragment not only led to an increase in the J SC value owing to the suppression of dye aggregation, but remarkably also resulted in no loss in V OC in comparison with the reference sensitizer containing a tricarboxyterpyridine anchor. The champion sensitizer in DSC devices was found to be TF‐32 with a performance of J SC =19.2 mA cm −2 , V OC =740 mV, FF=0.72, and η =10.19 %. This 6‐quinolin‐8‐yl‐2,2′‐bipyridine anchor thus serves as a prototype for the next generation of Ru II sensitizers with any tridentate ancillary.
An integrated Bayesian approach to layer extraction from image sequences (2001)

This paper describes a Bayesian approach for modeling 3D scenes as collection of approximately planar layers that are arbitrarily positioned and oriented in the scene. In contrast to much of the previous work on layer-based motion modeling, which computes layered descriptions of 2D image motion, our work leads to a 3D description of the scene. There are two contributions within the paper. The first is to formulate the prior assumptions about the layers and scene within a Bayesian decision making framework which is used to automatically determine the number of layers and the assignment of individual pixels to layers. The second is algorithmic. In order to achieve the optimization, a Bayesian version of RANSAC is developed with which to initialize the segmentation. Then, a generalized expectation maximization method is used to find the MAP solution.
ALD Functionalized Nanoporous Gold: Thermal Stability, Mechanical Properties, and Catalytic Activity (2011)

Nanoporous metals have many technologically promising applications, but their tendency to coarsen limits their long-term stability and excludes high temperature applications. Here, we demonstrate that atomic layer deposition (ALD) can be used to stabilize and functionalize nanoporous metals. Specifically, we studied the effect of nanometer-thick alumina and titania ALD films on thermal stability, mechanical properties, and catalytic activity of nanoporous gold (np-Au). Our results demonstrate that even only 1 nm thick oxide films can stabilize the nanoscale morphology of np-Au up to 1,000°C, while simultaneously making the material stronger and stiffer. The catalytic activity of np-Au can be drastically increased by TiO(2) ALD coatings. Our results open the door to high-temperature sensor, actuator, and catalysis applications and functionalized electrodes for energy storage and harvesting applications.
Screening for Down syndrome using urine hCG free β-subunit in the second trimester of pregnancy (1997)

Human chorionic gonadotropin (hCG) free beta-subunit levels were determined in 709 control and 13 Down syndrome urine samples from the second trimester of pregnancy. Results were normalized to urine creatinine concentration and converted to multiples of the unaffected pregnancy medium (MOM). The concentration of free beta-subunit in Down syndrome cases was 3.9 MOM. Seven of 13 Down syndrome pregnancies (54 per cent) had free beta-subunit levels at or above the 95th centile of unaffected pregnancies. Urine free beta-subunit may potentially be useful as a screening test for Down syndrome.
Simple analytical models for the temperature dependent threshold behavior of depletion-mode devices (1979)

Threshold voltage shifts in ion-implanted depletion-mode MOSFET's depart substantially from the usual dose proportional shift of enhancement-mode devices. Analytic expressions for the relationship between threshold voltage shift and implanted donor dose and position are extended to include impurity freezeout at low temperatures, and a simple model for the observed low substrate sensitivity at low temperature is presented. Criteria to avoid parasitic subthreshold conduction in depletion-mode devices are also established using the threshold shift formulation.
Plasmodium falciparum exports the Golgi marker sphingomyelin synthase into a tubovesicular network in the cytoplasm of mature erythrocytes (1994)

This work describes two unusual features of membrane development in a eukaryotic cell. (a) The induction of an extensive network of tubovesicular membranes by the malaria parasite Plasmodium falciparum in the cytoplasm of the mature erythrocyte, and its visualization with two ceramide analogues C5-DMB-ceramide and C6-NBD-ceramide. "Sectioning" of the infected erythrocytes using laser confocal microscopy has allowed the reconstruction of detailed three-dimensional images of this novel membrane network. (b) The stage-specific export of sphingomyelin synthase, a biosynthetic activity concentrated in the Golgi of mammalian cells, to this tubovesicular network. Evidence is presented that in the extracellular merozoite stage the parasite retains sphingomyelin synthase within its plasma membrane. However, intracellular ring- and trophozoite-stage parasites export a substantial fraction (approximately 26%) of sphingomyelin synthase activity to membranes beyond their plasma membrane. Importantly we do not observe synthesis of new enzyme during these intracellular stages. Taken together these results strongly suggest that the export of this classic Golgi enzyme is developmentally regulated in Plasmodium. We discuss the significance of this export and the tubovesicular network with respect to membrane development and function in the erythrocyte cytosol.
Scaffolds for Tissue Engineering of Cartilage (2002)

Articular cartilage lesions resulting from trauma or degenerative diseases are commonly encountered clinical problems. It is well-established that adult articular cartilage has limited regenerative capacity, and, although numerous treatment protocols are currently employed clinically, few approaches exist that are capable of consistently restoring long-term function to damaged articular cartilage. Tissue engineering strategies that focus on the use of three-dimensional scaffolds for repairing articular cartilage lesions offer many advantages over current treatment strategies. Appropriate design of biodegradable scaffold conduits (either preformed or injectable) allow for the delivery of reparative cells bioactive factors, or gene factors to the defect site in an organized manner. This review seeks to highlight pertinent design considerations and limitations related to the development, material selection, and processing of scaffolds for articular cartilage tissue engineering, evidenced over the last decade. In particular, considerations for novel repair strategies that use scaffolds in combination with controlled release of bioactive factors or gene therapy are discussed, as are scaffold criteria related to mechanical stimulation of cell-seeded constructs. Furthermore, the subsequent impact of current and future aspects of these multidisciplinary scaffold-based approaches related to in vitro and in vivo cartilage tissue engineering are reported herein.
A Step Change for Single-Well Chemical-Tracer Tests: Field Pilot Testing of New Sets of Novel Tracers (2018)

Summary The single-well chemical-tracer test (SWCTT) is an in-situ test to measure oil saturation, and has been used extensively to assess the potential for enhanced oil recovery (EOR) or to qualify particular EOR chemicals and methods. An SWCTT requires that a primary tracer be injected and that a secondary tracer be generated from the primary tracer in situ. Typically, a few hundred liters of ester is injected as primary tracer, and the secondary tracer is formed through hydrolysis in the formations. The ester is an oil/water-partitioning tracer, whereas the in-situ-generated alcohol is a water tracer. During production, these tracers separate and the time lag of the ester vs. the alcohol is used to estimate oil saturation in the near-well region. In this paper, we report a field test of a class of new reacting tracers for SWCTTs. In the test, approximately 100 cm3 of each of the new tracers was injected and used to assess oil saturation. In the test, ethyl acetate (EtAc) was used as a benchmark to verify the new tracers. This paper reviews the design and implementation of the test, highlights operational issues, provides a summary of the analyzed tracer curves, and gives a summary of the interpretation methodology used to find oil saturations from the tracer curves. Briefly summarized, we find the Sor measured by each of the novel tracers to compare with that from a conventional SWCTT. To validate stability and detectability of the tracers, a mass-balance assessment for the new tracers is compared with that of the conventional tracers. A benefit of the new tracers is the small amount needed. Methodological advantages resulting from using small amounts include the possibility to inject a mix of several tracers. Using several tracers with different partitioning coefficients enables probing of different depths of the reservoir. In addition, the robustness of SWCTTs can be increased by using several tracers, with different reaction rates and temperature sensitivity. The field trial also demonstrated that the new tracers have operational advantages. One benefit is the possibility to inject the new tracers as a short pulse of 10 minutes. Other benefits are that the small amounts needed reduce operational hazards and ease logistical handling.