gebhart/patrepeval huggingface dataset:
A phorbol ester tumor promoter induces changes in the expression of immunoglobulins and DR antigens in human lymphoblastoid cells. (1982)

The present study indicates that 12-O-tetradecanoyl phorbol 13-acetate (TPA) can induce either increases or decreases in the relative expression of membrane-associated IgM and IgD as well as the expression of other markers of lymphocyte differentiation on human B lymphoblasts, depending on the clone studied. The changes in membrane Ig expression are apparent within 24 hr and are maximal at about 48 hr after the addition of the compound. In clone BL, TPA decreases the membrane IgM/IgD ratio as determined by the percentage of cells bearing these isotypes and by their densities on single cells. In clone MW-E, TPA has the opposite effect. Although these changes are followed by an increase in Ig secretion by MW-E cells, measured by immunofluorescence and the protein A plaque assay, there is no induction of Ig secretion in BL cells. In addition, TPA increases the expression in BL of an additional B lymphocyte marker, the D region-related (DR) antigens, while having the opposite effect in MW-E. In two sublines of Daudi, a membrane IgM-positive, IgD-negative, nonsecreting cell line, TPA treatment resulted in the expression of membrane IgD without the induction of Ig secretion. Thus, the TPA-induced changes in the IgM/IgD ratio and DR antigen expression are inversely related and are not due to differential proliferation of subpopulations. Taken together, it appears that, depending on the particular clone of B lymphoblasts studied, TPA can induce or inhibit a coherent program of B lymphocyte maturation.
Experimental Test of the Importance of Preen Oil in Rock Doves (Columba Livia) (2003)

Abstract Most species of birds have a uropygial gland, also known as a preen gland, which produces oil that birds spread through their plumage when preening. The plumage of waterfowl deprived of uropygial oil becomes brittle and is subject to breakage. For other groups of birds, however, the importance of preen oil remains unclear. Previous workers have argued that preen oil may serve little or no function in Columbiforms (pigeons and doves). We tested that assertion by removing uropygial glands from Rock Doves (Columba livia) and assessing their plumage condition after several months. The results of that experiment showed significant degradation of plumage in the absence of oil. Our results are the first rigorous demonstration that preen oil is important for plumage condition in nonwaterfowl. We tested one possible function of preen oil—that it has insecticidal properties and that reduction in plumage condition on birds without glands is due to an increase in ectoparasites. We tested that hypothesis for feather-feeding lice (Phthiraptera:Ischnocera) using both in vitro and in vivo experiments. Lice raised in an incubator died more rapidly on feathers with preen oil than on feathers without oil, which suggests that preen oil may help combat lice. However, removal of the preen gland from captive birds had no significant effect on louse loads over the course of a four-month experiment. Although the results of our in vivo experiments suggest that preen oil may not be an important defense against lice, further experiments are needed. We also consider the possibility that preen oil may protect birds against other plumage-degrading organisms, such as bacteria and fungi.
Gecko inspired micro-fibrillar adhesives for wall climbing robots on micro/nanoscale rough surfaces (2008)

This paper presents the fabrication, characterization and testing of bio-inspired synthetic dry adhesive fiber arrays. Fibers were fabricated via micromolding followed by spatula tip formation via dipping. Arrays of fibers with diameters between 28 mum and 57 mum and a height of 114 mum were fabricated with high uniformity on 6.25 cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> areas with up to 95% yield. Adaptation to uneven surfaces was observed with fiber elongations over 6 times the original height of the fiber. The unstructured sample exhibited 1.6 times as much adhesion as the fiber array sample for the flat punch indenter. However, fibrillar samples demonstrated up to 5.3 times as much adhesion as the unstructured sample for the hemispherical indenter. The fibrillar adhesive sample was implemented on a wall climbing robot which was able to carry itself and climb a distance on a painted wall and wood door.
An efficient microwave‐assisted extraction process of stevioside and rebaudioside‐A from Stevia rebaudiana (Bertoni) (2009)

Abstract Introduction Stevioside and rebaudioside‐A are major low‐calorie diterpene steviol glycosides in the leaves of Stevia rebaudiana . They are widely used as natural sweeteners for diabetic patients, but the long extraction procedures required and the optimisation of product yield present challenging problems. Objective To develop a rapid and effective methodology for the extraction of stevioside and rebaudioside‐A from S. rebaudiana leaves and to compare yields using different extraction techniques. Methodology Dried and powdered leaves of S. rebaudiana were extracted by conventional, ultrasound and microwave‐assisted extraction techniques using methanol, ethanol and water as single solvents as well as in binary mixtures. Conventional cold extraction was performed at 25°C for 12 h while ultrasound extraction was carried out at temperature of 35 ± 5°C for 30 min. Microwave‐assisted extraction (MAE) was carried out at a power level of 80 W for 1 min at 50°C. Results MAE yielded 8.64 and 2.34% of stevioside and rebaudioside‐A, respectively, while conventional and ultrasound techniques yielded 6.54 and 1.20%, and 4.20 and 1.98% of stevioside and rebaudioside‐A, respectively. Conclusion A rapid and efficient method has been developed for the extraction of stevioside and rebaudioside‐A in optimum yields using MAE procedure. This method has the advantage of rapid extraction and fast screening of a large number of S. rebaudiana samples for assessment of planting material. MAE saves considerable time, energy and has implications in the quality assessment of stevioside and rebaudioside‐A prior to their industrial production from the leaves of S. rebaudiana . Copyright © 2009 John Wiley &amp; Sons, Ltd.
Anti-leu-3/T4 antibodies react with cells of monocyte/macrophage and langerhans lineage (1984)

Anti-Leu-3a, anti-Leu-3b, OKT4, and anti-T4 murine monoclonal antibodies react with a membrane component expressed by mature peripheral blood helper T cells and certain thymocyte subsets. Using a variety of immunologic staining techniques, we have demonstrated the reactivity of these antibodies with other cell types. Normal and neoplastic cells of monocyte/macrophage lineage bear the Ia+/Leu-6-/Leu-3+ phenotype, whereas histiocytosis X cells bear the Ia+/Leu-6+/Leu-3+ phenotype. The Ia+/Leu-6- cells of malignant histiocytosis and the Ia+/Leu-6+ epidermal Langerhans cells were variably Leu-3+. Normal monocyte/macrophage reactivity with anti-Leu-3/T4 appears to be primarily intracytoplasmic, whereas on U937 monocyte tumor cells, marked membrane reactivity is also observed. These results strongly suggest that certain cells other than helper T cells and thymocytes can express and, at least in some cases, synthesize a component previously regarded as T-lineage specific.
B7-blocking agents, alone or in combination with cyclosporin A, induce antigen-specific anergy of human memory T cells (1997)

T cell anergy refers to a functional state in which the cells are alive but unable to produce IL-2 after appropriate triggering. Lack of CD28 costimulation through CD80 and CD86 molecules on APC might play a causative role in anergy induction, as previously shown with T cell clones. We now developed a model of anergy induction in cultures of freshly isolated memory T cells. Addition of either CTLA-4Ig or blocking anti-CD80 and anti-CD86 mAbs, in combination with cyclosporin A, to cultures of PBMC with soluble Ag consistently resulted in Ag-specific unresponsiveness, as evidenced upon antigenic rechallenge. In most experiments, the presence of cyclosporin A was not required, and blocking the B7-CD28 interaction during antigenic stimulation was sufficient to induce unresponsiveness. Unresponsiveness was apparent at the level of T cell proliferation as well as at the level of IL-2 and IFN-gamma production, and T cell responses to unrelated Ags were intact. Induction of unresponsiveness correlated with lack of T cell proliferation in the induction culture and could largely be prevented by supplementing the induction cultures with rIL-2, indicating that lack of IL-2 was responsible for this altered functional state. Unresponsive T cells did not suppress the proliferation of autologous T cells in response to original or third-party Ags. On the other hand, culture with IL-2 and Ag could reverse established T cell unresponsiveness, pointing to anergy rather than deletion as the underlying mechanism. Anergy induction in freshly isolated memory T cells opens perspectives for treatment of autoimmune and allergic diseases.
Laser thermal angioplasty probe (“hot tip”) temperature: Effects of flow (1990)

The temperature developed by the laser thermal ("hot tip") probe during arterial recanalisation is primarily dependent on the rate of energy delivery and the rate of dissipation to the surrounding medium. While higher probe tip temperatures enhance the efficacy of atheroma ablation, so too is the incidence of adverse effects increased. We studied the temperature developed in the probe tip in an artificial circulation using both saline and blood. In saline the peak probe temperatures were limited to 100 degrees C (boiling point), falling with each increment in flow. Small discrepancies in probes at different times and may be due to malalignment of the optical fibre-metal cap coupling, temperature measurement inaccuracy, tip insulation, or generator output instability. In blood, charring and clot formation insulated the tip raising the temperature (up to 700 degrees C within 5 seconds at 10 W) but also retarded dissipation of heat to the surroundings. The degree of clot and char formation was critical in determining subsequent thermal responses in any particular probe. The unknown rate and quantity of char buildup and changing blood flow during in vivo angioplasty are likely to be important obstacles to developing a reliable thermal feedback control system.
Selective Deposition and Self-Assembly of Triblock Copolymers into Matrix Arrays for Membrane Protein Production (2011)

To improve the stability of cell membrane mimics, there has been growing interest in the use of block copolymers. Here, we present an easy approach to create an array of planar polymeric matrices capable of hosting membrane proteins. The array of polymeric matrices was formed by the selective deposition of triblock copolymers onto an array of hydrophilic islands situated within a hydrophobic background. The thickness of these matrices corresponds to the length of a single polymer chain. These polymeric matrices were used to host cell-free expressed membrane proteins, and offers a prototype from which a membrane protein array can be created for diagnostics or drug discovery purposes.
AudioScope (2015)

Mobile audio augmented reality systems (MAARS) provide a new and engaging modality to present information or to create playful experiences. Using special filters, spatial audio rendering creates the impression that the sound of a virtual source emanates from a certain position in the physical space. So far, most of the implementations of such systems rely on head tracking to create a realistic effect, which requires additional hardware. Recent results indicate that the built-in sensors of a smartphone can be used as source for orientation measurement, reducing deployment to a simple app download. AudioScope presents an alternative interaction technique to create such an experience, using the metaphor of pointing a directional microphone at the environment. In an experiment with 20 users, we compared the time to locate a proximate audio source and the perceived presence in the virtual environment. Results show that there is no significant difference between head-orientation measurement and AudioScope regarding accuracy and perceived presence. This means that MAARS, such as audio guides for museums, do not require special hardware but can run on the visitor's smartphones with standard headphones.
Immunogenicities of intravenous and intramuscular administrations of modified vaccinia virus Ankara-based multi-CTL epitope vaccine for human immunodeficiency virus type 1 in mice. (1998)

A vaccine against human immunodeficiency virus (HIV) is still awaited. Although the correlates of protection remain elusive, it is likely that CD8+ T cells play an important role in the control of this infection. To firmly establish the importance of these cells in protective immunity, a means of efficient elicitation of CD8+ T cell responses in the absence of antibody is needed and, when available, might represent a crucial step towards a protective vaccine. Here, a novel vaccine candidate was constructed as a multi-cytotoxic T lymphocyte (CTL) epitope gene delivered and expressed using modified vaccinia virus Ankara (MVA). The immunogen consists of 20 human, one murine and three rhesus macaque epitopes. The non-human epitopes were included so that the vaccine can be tested for immunogenicity and optimal vaccination doses, routes and regimes in experimental animals. Mice were immunized intravenously (i.v.) or intramuscularly (i.m.) using a single dose of 10(6) p.f.u. of the recombinant MVA and the induction of CTL was assessed. It was demonstrated that both administration routes induced specific CTL responses and that the i.v. route was moderately more immunogenic than the i.m. route. The frequencies of ex vivo splenocytes producing interferon-y upon MHC class I-restricted peptide stimulation were determined using an ELISPOT assay. Also, the correct processing and presentation of some HLA-restricted epitopes in human cells was confirmed.
Discovery of Novel p-Arylthio Cinnamides as Antagonists of Leukocyte Function-Associated Antigen-1/Intracellular Adhesion Molecule-1 Interaction. 1. Identification of an Additional Binding Pocket Based on an Anilino Diaryl Sulfide Lead (2000)

The interaction between leukocyte function-associated antigen-1 (LFA-1), a member of the beta(2)-integrin family of adhesion molecules, and intracellular adhesion molecule ICAM-1 (cd54) is thought to play a critical role in the inflammatory process. On the basis of an anilino diaryl sulfide screening lead 1, in combination with pharmacophore analysis of other screening hits, we have identified an adjacent binding pocket. Subsequently, a p-ethenylcarbonyl linker was discovered to be optimal for accessing this binding site. Solution-phase parallel synthesis enabled rapid optimization of the cinnamides for this pocket. In conjunction with fine-tuning of the diaryl substituents, we discovered a novel series of potent, nonpeptide inhibitors of LFA-1/ICAM-1 interaction, exemplified by A-286982 (28h), which has IC(50) values of 44 and 35 nM in an LFA-1/ICAM-1 binding assay and LFA-1-mediated cellular adhesion assay, respectively.
Multilingual deep neural network based acoustic modeling for rapid language adaptation (2014)

This paper presents a study on multilingual deep neural network (DNN) based acoustic modeling and its application to new languages. We investigate the effect of phone merging on multilingual DNN in context of rapid language adaptation. Moreover, the combination of multilingual DNNs with Kullback-Leibler divergence based acoustic modeling (KL-HMM) is explored. Using ten different languages from the Globalphone database, our studies reveal that crosslingual acoustic model transfer through multilingual DNNs is superior to unsupervised RBM pre-training and greedy layer-wise supervised training. We also found that KL-HMM based decoding consistently outperforms conventional hybrid decoding, especially in low-resource scenarios. Furthermore, the experiments indicate that multilingual DNN training equally benefits from simple phoneset concatenation and manually derived universal phonesets.
Hematopoietic Stem Cell Characterization and Isolation (2011)

Hematopoietic stem cells (HSCs) are defined by the capabilities of multi-lineage differentiation and long-term self-renewal. Both these characteristics contribute to maintain the homeostasis of the system and allow the restoration of hematopoiesis after insults, such as infections or therapeutic ablation. Reconstitution after lethal irradiation strictly depends on a third, fundamental property of HSCs: the capability to migrate under the influence of specific chemokines. Directed by a chemotactic compass, after transplant HSCs find their way to the bone marrow, where they eventually home and engraft. HSCs represent a rare population that primarily resides in the bone marrow with an estimated frequency of 0.01% of total nucleated cells. Separating HSCs from differentiated cells that reside in the bone marrow has been the focus of intense investigation for years. In this chapter, we will describe in detail the strategy routinely used by our laboratory to purify murine HSCs, by exploiting their antigenic phenotype (KSL), combined with the physiological capability to efficiently efflux the vital dye Hoechst 33342, generating the so-called Side Population, or SP.
Membrane Permeable Cyclic Peptidyl Inhibitors against Human Peptidylprolyl Isomerase Pin1 (2010)

Peptidylprolyl isomerase Pin1 regulates the function and/or stability of phosphoproteins by altering the conformation of specific pSer/pThr-Pro peptide bonds. In this work, a cyclic peptide library was synthesized and screened against the catalytic domain of human Pin1. The selected inhibitors contained a consensus motif of D-pThr-Pip-Nal (where Pip is L-piperidine-2-carboxylic acid and Nal is L-2-naphthylalanine). Representative compounds were tested for binding to Pin1 by isothermal titration calorimetry and inhibition of Pin1 activity, and the most potent inhibitors had K(D) (and K(I)) values in the low nanomolar range. Treatment of breast cancer cells with the inhibitors, which were rendered membrane permeable by attachment of an octaarginine sequence, inhibited cell proliferation and increased the protein levels of two previously established Pin1 substrates, PML and SMRT. Finally, a second generation of cell permeable Pin1 inhibitors was designed by replacing the noncritical residues within the cyclic peptide ring with arginine residues and shown to have antiproliferative activity against the cancer cells.
Glucose is essential for proliferation and the glycolytic enzyme induction that provokes a transition to glycolytic energy production. (1994)

A transition from aerobic to anaerobic metabolism occurs as mitogen-activated thymocytes undergo proliferation. Glucose utilization and lactate formation increases 18- and 38-fold, respectively, during proliferation. The absolute amount of 14CO2 production by pyruvate dehydrogenase remains constant, while 14CO2 production by the tricarboxylic acid cycle is reduced during transition from a resting to a proliferating state. Addition of 2,4-dinitrophenol, an agent uncoupling oxidative phosphorylation, and phenacinemethosulfate, an electron acceptor, provide evidence that the reduction of glucose oxidation in proliferating thymocytes is caused neither by limitation of the tricarboxylic acid cycle itself nor by an insufficient supply of ADP. Our data suggest that enhanced cytosolic regeneration of NAD+ by induction of the glycolytic enzymes during proliferation effectively competes with NADH transport and its subsequent oxidation in the mitochondria. Mitogen-stimulated rat thymocytes cultured in a conventional medium containing glucose induce their glycolytic enzymes 8-10-fold in the S phase of the cell cycle and divide within a culture period of 72 h. Replacement of glucose by glutamine, glutamine and ribose, or glutamine and uridine prevents glycolytic enzyme induction and thymocyte proliferation. The effect of glucose on glycolytic enzyme induction cannot be mimicked by 3-O-methylglucose or 2-deoxyglucose. In conclusion, glucose is required for proliferation and the glycolytic enzyme induction that mediates the transition from oxidative to glycolytic energy production during the G1/S transition of rat thymocytes.
In vitro fermentability of human milk oligosaccharides by several strains of bifidobacteria (2007)

This study was conducted to investigate the catabolism and fermentation of human milk oligosaccharides (HMO) by individual strains of bifidobacteria. Oligosaccharides were isolated from a pooled sample of human milk using solid-phase extraction, and then added to a growth medium as the sole source of fermentable carbohydrate. Of five strains of bifidobacteria tested (Bifidobacterium longum biovar infantis, Bifidobacterium bifidum, Bifidobacterium longum biovar longum, Bifidobacterium breve, and Bifidobacterium adolescentis), B. longum bv. infantis grew better, achieving triple the cell density then the other strains. B. bifidum did not reach a high cell density, yet generated free sialic acid, fucose and N-acetylglucosamine in the media, suggesting some capacity for HMO degradation. Thin layer chromatography profiles of spent fermentation broth suggests substantial degradation of oligosaccharides by B. longum bv. infantis, moderate degradation by B. bifidum and little degradation by other strains. While all strains were able to individually ferment two monosaccharide constituents of HMO, glucose and galactose, only B. longum bv. infantis and B. breve were able to ferment glucosamine, fucose and sialic acid. These results suggest that as a potential prebiotic, HMO may selectively promote the growth of certain bifidobacteria strains, and their catabolism may result in free monosaccharides in the colonic lumen.
Site-Specific Conjugation of a Temperature-Sensitive Polymer to a Genetically Engineered Protein (1994)

A genetically-engineered mutant of cytochrome b5, incorporating a unique cysteine residue, was conjugated to maleimide-terminated oligo(N-isopropylacrylamide). The conjugation of the protein by reaction of the cysteine residue, precisely positioned by site-directed mutagenesis techniques, with an activated oligomer containing only one reactive end group in the oligomer chain permits the site-specific and stoichiometric conjugation of the oligomer with the protein. The protein-oligomer conjugate was shown to exhibit lower critical solution temperature (LCST) behavior, similar to the free oligomer. Furthermore, the LCST behavior of the protein-oligomer conjugate is reversible and allows selective precipitation of the conjugate above its LCST.
An algorithm and a modular subroutine for the CAP model (1979)

Abstract A cap model algorithm and the associated FORTRAN subroutine, CAP, are presented. The algorithm lends itself to a wide range of soil and rock cap models, and can easily be incorporated into most dynamic codes. The routine permits the user to obtain flexibility with respect to changes in functional forms and parameters with minor coding changes.