gebhart/patrepeval huggingface dataset:
Clara cell secretory protein decreases lung inflammation after acute virus infection (1998)

Clara cell secretory protein (CCSP) is an abundant 10-kDa polypeptide synthesized and secreted primarily by nonciliated bronchiolar epithelial cells in the mammalian lung. To determine the potential role of CCSP in pulmonary inflammation after acute viral infection, CCSP gene-targeted (CCSP-deficient [CCSP(-/-)]) mice were exposed to a recombinant E1- and E3-deficient adenoviral vector, Av1Luc1, intratracheally. Lung inflammation was markedly increased in CCSP(-/-) mice compared with wild-type control mice and was associated with an increased number of polymorphonuclear cell infiltrates and epithelial cell injury in both conducting airways and alveolar regions. Histological evidence of pulmonary inflammation in CCSP(-/-) mice was associated with increased production of cytokine (interleukin-1beta and -6 and tumor necrosis factor-alpha) mRNA and protein, as well as chemokine (macrophage inflammatory protein-1alpha and -2 and monocyte chemoattractant protein-1) mRNA expression within the lung in response to adenoviral infection. Adenoviral-mediated gene transfer was decreased in CCSP(-/-) mice relative to wild-type mice as measured by luciferase enzyme activity in lung homogenates. The present study suggests that CCSP is involved in modulating lung inflammation during viral infection and supports a role for CCSP in lung host defense.
Low Surface Energy Coatings from Waterborne Nano-Dispersions of Polymer Complexes (1999)

Strategies for obtaining low surface energy coating materials; include those for realizing surfaces rich in CF3 groups. Of these, ones that are low in cost and environmentally friendly (for example, avoid organic solvents) have a good chance of being introduced for everyday use. It is shown that waterborne nanodispersions with supramolecular ordering—produced from a commercially available polyelectrolyte and a fluorinated
Optimization of a Yeast RNA Interference System for Controlling Gene Expression and Enabling Rapid Metabolic Engineering (2013)

Reduction of endogenous gene expression is a fundamental operation of metabolic engineering, yet current methods for gene knockdown (i.e., genome editing) remain laborious and slow, especially in yeast. In contrast, RNA interference allows facile and tunable gene knockdown via a simple plasmid transformation step, enabling metabolic engineers to rapidly prototype knockdown strategies in multiple strains before expending significant cost to undertake genome editing. Although RNAi is naturally present in a myriad of eukaryotes, it has only been recently implemented in Saccharomyces cerevisiae as a heterologous pathway and so has not yet been optimized as a metabolic engineering tool. In this study, we elucidate a set of design principles for the construction of hairpin RNA expression cassettes in yeast and implement RNA interference to quickly identify routes for improvement of itaconic acid production in this organism. The approach developed here enables rapid prototyping of knockdown strategies and thus accelerates and reduces the cost of the design-build-test cycle in yeast.
Morphological image compositing (2006)

Image mosaicking can be defined as the registration of two or more images that are then combined into a single image. Once the images have been registered to a common coordinate system, the problem amounts to the definition of a selection rule to output a unique value for all those pixels that are present in more than one image. This process is known as image compositing. In this paper, we propose a compositing procedure based on mathematical morphology and its marker-controlled segmentation paradigm. Its scope is to position seams along salient image structures so as to diminish their visibility in the output mosaic even in the absence of radiometric corrections or blending procedures. We also show that it is suited to the seamless minimization of undesirable transient objects occurring in the regions where two or more images overlap. The proposed methodology and algorithms are illustrated for the composition of satellite images minimizing cloud cover.
Recursive bipartitioning of BDDs for performance driven synthesis of pass transistor logic circuits (2001)

In this paper, we address the problem of performance oriented synthesis of pass transistor logic (PTL) circuits using a binary decision diagram (BDD) decomposition technique. We transform the BDD decomposition problem into a recursive bipartitioning problem and solve the latter using a max-flow min-cut technique. We use the area and delay cost of the PTL implementation of the logic function to guide the bipartitioning scheme. Using recursive bipartitioning and a one-hot multiplexer circuit, we show that our PTL implementation has logarithmic delay in the number of inputs, under certain assumptions. The experimental results on benchmark circuits are promising, since they show the significant delay reductions with small or no area overheads as compared to previous approaches.
Purification of the hexokinases by affinity chromatography on sepharose-<i>N</i>-aminoacylglucosamine derivates. Design of affinity matrices from free solution kinetics (1978)

The purification is described of rat hepatic hexokinase type III and kidney hexokinase type I on a large scale by using a combination of conventional and affinity techniques similar to those previously used for the purification of rat hepatic glucokinase [Holroyde, Allen, Storer, Warsy, Chesher, Trayer, Cornish-Bowden & Walker (1976) Biochem. J. 153, 363-373] and muscle hexokinase type II [Holroyde & Trayer (1976) FEBS Lett. 62, 215-219]. The key to each purification was the use of a Sepharose-N-aminoacylglucosamine affinity matrix in which a high degree of specificity for a particular hexokinase isoenzyme could be introduced by either varying the length of the aminoacyl spacer and/or varying the ligand concentration coupled to the gel. This was predicted from a study of the free solution kinetic properties of the various N-aminoacylglucosamine derivatives used (N-aminopropionyl, N-aminobutyryl, N-aminohexanoyl and N-aminooctanoyl), synthesized as described by Holroyde, Chesher, Trayer & Walker [(1976) Biochem. J. 153, 351-361]. All derivatives were competitive inhibitors, with respect to glucose, of the hexokinase reaction, and there was a direct correlation between the Ki for a particular derivative and its ability to act as an affinity matrix when immobilized to CNBr-activated Sepharose 4B. Muscle hexokinase type II could be chromatographed on the Sepharose conjugates of all four N-aminoacylglucosamine derivatives, although the N-aminohexanoylglucosamine derivative proved best. This same derivative was readily able to bind hepatic glucokinase and hexokinase type III, but Sepharose-N-amino-octanoyl-glucosamine was better for these enzymes and was the only derivative capable of binding kidney hexokinase type I efficiently. Separate studies with yeast hexokinase showed that again only the Sepharose-N-amino-octanoylglucosamine was capable of acting as an efficient affinity matrix for this enzyme. Implications of these studies in our understanding of affinity-chromatography operation are discussed.
Efficacy and Release Rate of Reservoir Pheromone Dispensers for Simultaneous Mating Disruption of Codling Moth and Oriental Fruit Moth (Lepidoptera: Tortricidae) (2009)

Five formulations of controlled release, polyethylene tube dispensers of pheromone were evaluated during three field seasons for disruption of codling moth, Cydia pomonella (L.) (Lepidoptera: Tortricidae), and the oriental fruit moth, Grapholita molesta (Busck) (Lepidoptera: Tortricidae). Evaluations were conducted in replicated 4-ha plots of commercial apple in Michigan. Disruption of both C. pomonella and G. molesta male orientation to pheromone traps in plots treated with a dual-species formulation (Isomate CM/OFM TT), simultaneously releasing the pheromone components of both C. pomonella and G. molesta, was equivalent to that obtained by treating plots with separate formulations for each species (Isomate C Plus or Isomate C TT for C. pomonella and Isomate M Rosso for G. molesta) through mid-season. However, disruption efficacy of the dual-species formulation was significantly lower near the end of the season for G. molesta compared with the Isomate M Rosso formulation because of depletion of active ingredients and coincided with a slight increase in fruit injury. Effective disruption of C. pomonella and G. molesta also was obtained with a multispecies formulation (Isomate CM/OFM/LR) that releases the main pheromone components of C. pomonella, G. molesta, and several leafroller species. Each formulation type releasing (E,E)-8,10-dodecadien-1-ol (codlemone) also was found to release the E,Z- and Z,E-isomers of codlemone. Our data provide further evidence that simultaneous disruption of C. pomonella and G. molesta with dispensers releasing both species' pheromone components is possible; however, the controlled release formulations tested here require modification or postponed deployment coupled with early season control by other means to achieve season-long efficacy. Simultaneous disruption of several species with a single formulation will be economically advantageous in regions where control of multiple pests is needed given the need for hand application of this technology.
DNA encapsulation within co-guanidine membrane coated alginate beads and protection from extracapsular nuclease (1999)

Co-guanidine membranes were shown to form intact, ionically complexed membranes on alginate beads, serving as an alternative to the commonly used polymers, poly-L-lysine and chitosan. DNA was encapsulated and membrane thickness, the level of DNA protection from nuclease diffusion and the degree of DNA-complexation with co-guanidine membranes were all shown to be dependent on both polymer concentration and coating time. The highest level of DNAse exclusion was possible within beads coated with a polymer concentration of 5 mg/ml. Recovery of double-stranded DNA after nuclease exposure for 60 min reached 90% of that initially encapsulated. The molecular weight cut-off for these co-guanidine membranes was approximately 31 kDa, sufficient to exclude extracapsular nuclease. The level of DNA protection was found to be comparable to high molecular weight poly-L-lysine membranes (197.1 kDa). Intracapsular DNA was accessible to the carcinogen ethidium bromide, which showed a 4-fold increase in uptake in uncoated beads and 2-fold uptake in co-guanidine coated beads compared to beads lacking in DNA. Co-guanidine membranes coating alginate result in a molecular weight cut-off sufficient to retain DNA and exclude 31 kDa DNAse, while providing access to the low molecular weight carcinogen, ethidium bromide.
In vitro induction of human suppressor T cells by mycobacterial antigens. BCG activated OKT4+ cells mediate suppression of antigen induced T cell proliferation. (1983)

Peripheral blood mononuclear cells (PBMC), obtained from BCG vaccinated healthy donors, were induced to proliferation by BCG for five days in vitro. When re-exposed to BCG, they failed to proliferate. However, they partially retained the ability to respond to Con A and allogeneic cells. The addition of graded numbers of such cultured cells to fresh autologous PBMC suppressed their proliferative response to BCG. These suppressor cells could also inhibit the proliferation of fresh cells to other mycobacterial antigens, both in particulate form, i.e. Mycobacterium leprae, or in soluble form, i.e. PPD and SPA30. However, these pre-cultured cells did not inhibit the response of fresh cells to non-specific mitogens, i.e. Con A and alloantigens. The inhibition of the response to non-mycobacterial soluble antigens, i.e. tetanus toxoid (TT) and diphtheria toxoid (DT) varied with little suppression in some individuals and stronger suppression in others. The suppression to BCG was found to be mediated by T cells. Subfractionation of T cells by monoclonal antibodies OKT4 and OKT8 allocated the suppressor cells to the OKT4+ class of T cells. The suppression in the autologous system was quite strong, whereas it was much weaker in allogeneic systems.
Guiding, bending, and splitting of electromagnetic waves in highly confined photonic crystal waveguides (2001)

We have experimentally demonstrated the guiding, bending, and splitting of electromagnetic (EM) waves in highly confined waveguides built around three-dimensional layer-by-layer photonic crystals by removing a single rod. Full transmission of the EM waves was observed for straight and bended waveguides. We also investigated the power splitter structures in which the input EM power could be efficiently divided into the output waveguide ports. The experimental results, dispersion relation and photon lifetime, were analyzed with a theory based on the tight-binding photon picture. Our results provide an important tool for designing photonic crystal based optoelectronic components.
Controlled Doping of Vacancy-Containing Few-Layer MoS<sub>2</sub> <i>via</i> Highly Stable Thiol-Based Molecular Chemisorption (2015)

MoS2 is considered a promising two-dimensional active channel material for future nanoelectronics. However, the development of a facile, reliable, and controllable doping methodology is still critical for extending the applicability of MoS2. Here, we report surface charge transfer doping via thiol-based binding chemistry for modulating the electrical properties of vacancy-containing MoS2 (v-MoS2). Although vacancies present in 2D materials are generally regarded as undesirable components, we show that the electrical properties of MoS2 can be systematically engineered by exploiting the tight binding between the thiol group and sulfur vacancies and by choosing different functional groups. For example, we demonstrate that NH2-containing thiol molecules with lone electron pairs can serve as an n-dopant and achieve a substantial increase of electron density (Δn = 3.7 × 10(12) cm(-2)). On the other hand, fluorine-rich molecules can provide a p-doping effect (Δn = -7.0 × 10(11) cm(-2)) due to its high electronegativity. Moreover, the n- and p-doping effects were systematically evaluated by photoluminescence (PL), X-ray photoelectron spectroscopy (XPS), and electrical measurement results. The excellent binding stability of thiol molecules and recovery properties by thermal annealing will enable broader applicability of ultrathin MoS2 to various devices.
Ischemia‐induced apoptosis in primary cultures of astrocytes (2001)

Astrocytes participate in a wide variety of important physiological processes and pathological insults, including ischemia. Information on the mechanism of astroglial injury and death during ischemic insult, however, is scarce. In this study, we investigated the mode of astrocytic cell death using an in vitro ischemic model. Cultured astrocytes exhibited several distinct morphological and biochemical features of apoptosis under ischemia. At 4 h of ischemia, Annexin V staining demonstrated an early commitment of some astrocytes to apoptosis. Condensed nuclei became visible from 4 h and the number increased with ischemic incubation time. Electron microscopy showed compacted and segregated chromatin along the edges of nuclear membranes. The number of TUNEL-positive nuclei and the degree of DNA laddering increased with ischemic incubation. Caspase-3, but not caspase-1, activity was increased in ischemia-injured astrocytes. Swollen mitochondria and vacuoles found in some cells with chromatin condensation indicated that these apoptotic-like cells might die of necrosis. The results imply that astrocytes are capable of undergoing apoptosis without the presence of other cell types, such as neurons. Ischemia can induce apoptosis in astrocytes contributing to the pathogenesis of ischemic injury in the CNS.
A tumor lysate is an effective vaccine antigen for the stimulation of CD4<sup>+</sup>T-cell function and subsequent induction of antitumor immunity mediated by CD8<sup>+</sup>T cells (2015)

To develop a potent cancer vaccine, it is important to study how to prepare highly immunogenic antigens and to identify the most appropriate adjuvants for the antigens. Here we show that a tumor lysate works as an effective antigen to prime CD4(+) T-cell help when baculovirus is employed as an adjuvant. When immunized intradermally with the combination (BLP) of baculovirus, a CT26 tumor lysate, and a cytotoxic T-cell epitope peptide before a tumor challenge, 60% of mice rejected tumors. In contrast, all mice vaccinated with baculovirus plus a tumor lysate (BL) developed tumors. In addition, flow cytometry showed that tumor-specific, interferon γ-producing CD8(+) cytotoxic T lymphocytes (CTLs) were robustly activated by intradermal immunization with BLP. When BLP was administered therapeutically to tumor-bearing mice, antitumor efficacy was better compared to BL. The established tumor was completely eradicated in 50-60% of BLP-treated mice, and induction of tumor-specific CTLs was observed, suggesting that the antitumor efficacy of BLP is mediated by CD8(+) T cells. Numerous CD4(+) T cells infiltrated the tumors of BLP-treated mice, whereas the antitumor effect of BLP almost disappeared after removal of the tumor lysate from BLP or after depletion of BLP-immunized mice of CD4(+) T cells. Thus, the combination of a peptide, lysate, and baculovirus provides stronger antitumor immunity than does a peptide plus baculovirus or a lysate plus baculovirus; effectiveness of BLP is determined by functioning of CD4(+) T cells stimulated with a tumor lysate.
Within-Subject Comparison of Word Recognition and Spiral Ganglion Cell Count in Bilateral Cochlear Implant Recipients (2014)

This study suggests higher residual SGCs predicted better performance after implantation in a given patient. The results also support attempts to identify factors which may promote survival of SGCs.
Dynamic properties of molecular complexes and receptor–substrate complementarity. Molecular dynamics of macrotricyclic diammonium cryptates (1981)

The correlation times of the diammonium cryptates of the macrotricyclic receptor molecules (1a–d) describe the molecular dynamics of these complexes and indicate that complementarity (steric fit) is reflected in dynamic coupling (dynamic fit) between receptor and substrate.
Ejaculatory Duct Obstruction (1980)

The diagnosis, long-range pathophysiology and surgical approach to ejaculatory duct obstruction are presented. Of 5 cases 3 had epididymal extravasation from long-term pressure buildup and secondary epididymal obstruction. This is similar to the epididymal findings after long-term vasectomy.
Resolution- versus sensitivity-effective diameter in pinhole collimation: experimental verification (2005)

To account for photon penetration, the formulae used to calculate the geometric resolution of a pinhole collimator use an effective diameter d(e) rather than the physical diameter of the aperture. The expressions commonly used for d(e), however, were originally derived to include penetration in sensitivity calculations. To predict the full width at half maximum (FWHM) resolution of the point-spread function (PSF) of a knife-edge pinhole collimator, we have previously proposed simple expressions for a resolution-effective diameter d(re). Unlike those for d(e), expressions for d(re) predict both a dependence on the polar angle of the source (theta) and a non-isotropic PSF. In this paper, the new theory was tested by measuring experimentally the FWHM of the PSF. Results confirm the theoretical predictions that (a) d(re) provides the best estimates of the experimental FWHM as a function of theta and of the direction in the plane of the pinhole, (b) Paix's expression for d(e) tends to overestimate the FWHM, (c) Anger's is a better approximation, but still cannot predict the dependence on theta, and (d) the FWHM decreases with decreasing theta, i.e. resolution improves for sources at the edge of the field-of-view.
Effect of a Nonionic Surface-Active Agent on Blood Viscosity and Platelet Adhesiveness (1969)

The effects of Pluronic F68, a nonionic surface-active agent, on blood viscosity and platelet adhesiveness during extracorporeal circulation were investigated. Blood viscosity was significantly decreased. Platelet adhesiveness decreased markedly in six patients within ten minutes after intravenous injection. Pluronic F68 has many properties and actions which make it a useful additive to perfusion systems. Its potential in the treatment of diseases in which high viscosity or increased platelet adhesiveness are present deserves investigation.
A mechanism for inhibition of luminol-dependent neutrophil chemiluminescence by polyanions. (1983)

Heparin has been reported to have antiinflammatory properties in both experimental animal and human disease states. Previous investigators assumed that the antiinflammatory properties of heparin were related to its anticoagulant effect. In this study we confirm the ability of heparin to inhibit luminol-dependent chemiluminescence by neutrophils stimulated with serum-activated zymosan. This inhibition is due to a combination of the diminished release of myeloperoxidase and the scavenging of the luminol oxidant generated by the myeloperoxidase-H2O2-chloride system. Although the polyanions heparin and dextran sulfate were effective in inhibiting luminol-dependent myeloperoxidase-H2O2-chloride chemiluminescence, the uncharged polysaccharide dextran T500 was without effect. None of the polysaccharides inhibited oxygen consumption by stimulated neutrophils. Additionally, heparin was able to reduce the myeloperoxidase release from zymosan-stimulated neutrophils by nearly 50%. Recent studies have shown that some antiinflammatory drugs scavenge peroxidase-generated oxidants of luminol. Such a property may explain the previously observed antiinflammatory effects of heparin and other polyanions.
Endogenous and Natural Complement Inhibitor Attenuates Myocardial Injury and Arterial Thrombogenesis (2012)

Our results suggest that the natural, endogenous inhibitor MAP-1 effectively inhibits lectin pathway activation in vivo. MAP-1 at pharmacological doses represents a novel therapeutic approach for human diseases involving the lectin pathway and its associated MASPs.
A 5‐year (2000–2004) epidemiological survey of <i>Candida</i> and non‐<i>Candida</i> yeast species causing vulvovaginal candidiasis in Graz, Austria (2006)

Vulvovaginal candidasis (VVC) is a common disease. The majority of cases is caused by Candida albicans, but in recent years an increase has been observed in the frequency of non-albicans Candida infections, especially due to C. glabrata and C. tropicalis. The aim of the study was to assess the prevalence of non-albicans Candida infections in patients suffering from VVC. Therefore, the statistical data of culture-confirmed VVC ascertained at the Institute of Hygiene (Medical University Graz) have been studied. Altogether, 10,463 samples from patients with vulvovaginal complaints were analysed in the years 2000-2004, a number of 3184 proved to be culture-positive for yeast. Candida albicans was the most prevalent cause in 87.9% of all cases. Non-albicans Candida yeast were detected in 12.1%, mainly C. glabrata and Saccharomyces cerevisiae. During a 1-year period 185 patients showed more than one episode of VVC. Patients aged 21-40 years were significantly more prone to suffer from VVC compared with other age-related groups.