gebhart/patrepeval huggingface dataset:
Epigenetic deregulation of miR-29a and miR-1256 by isoflavone contributes to the inhibition of prostate cancer cell growth and invasion (2012)

The epigenetic regulation of genes has long been recognized as one of the causes of prostate cancer (PCa) development and progression. Recent studies have shown that a number of microRNAs (miRNAs) are also epigenetically regulated in different types of cancers including PCa. In this study, we found that the DNA sequence of the promoters of miR-29a and miR-1256 are partly methylated in PCa cells, which leads to their lower expression both in PCa cells and in human tumor tissues compared with normal epithelial cells and normal human prostate tissues. By real-time PCR, Western Blot analysis and miRNA mimic and 3'-UTR-Luc transfection, we found that TRIM68 is a direct target of miR-29a and miR-1256 and that the downregulation of miR-29a and miR-1256 in PCa cells leads to increased expression of TRIM68 and PGK-1 in PCa cells and in human tumor tissue specimens. Interestingly, we found that a natural agent, isoflavone, could demethylate the methylation sites in the promoter sequence of miR-29a and miR-1256, leading to the upregulation of miR-29a and miR-1256 expression. The increased levels of miR-29a and miR-1256 by isoflavone treatment resulted in decreased expression of TRIM68 and PGK-1, which is mechanistically linked with inhibition of PCa cell growth and invasion. The selective demethylation activity of isoflavone on miR-29a and miR-1256 leading to the suppression of TRIM68 and PGK-1 expression is an important biological effect of isoflavone, suggesting that isoflavone could be a useful non-toxic demethylating agent for the prevention of PCa development and progression.
Use of Senescence-Accelerated Mouse Model in Bleomycin-Induced Lung Injury Suggests That Bone Marrow-Derived Cells Can Alter the Outcome of Lung Injury in Aged Mice (2009)

The incidence of pulmonary fibrosis increases with age. Studies from our group have implicated circulating progenitor cells, termed fibrocytes, in lung fibrosis. In this study, we investigate whether the preceding determinants of inflammation and fibrosis were augmented with aging. We compared responses to intratracheal bleomycin in senescence-accelerated prone mice (SAMP), with responses in age-matched control senescence-accelerated resistant mice (SAMR). SAMP mice demonstrated an exaggerated inflammatory response as evidenced by lung histology. Bleomycin-induced fibrosis was significantly higher in SAMP mice compared with SAMR controls. Consistent with fibrotic changes in the lung, SAMP mice expressed higher levels of transforming growth factor-beta1 in the lung. Furthermore, SAMP mice showed higher numbers of fibrocytes and higher levels of stromal cell-derived factor-1 in the peripheral blood. This study provides the novel observation that apart from increases in inflammatory and fibrotic factors in response to injury, the increased mobilization of fibrocytes may be involved in age-related susceptibility to lung fibrosis.
Multidimensional Optical Fractionation with Holographic Verification (2010)

Using holographic microscopy to track colloidal particles’ trajectories through designed optical trapping arrays and measure their radii and refractive indexes, we demonstrate the optical fractionation with exceptionally fine resolution in either size or refractive index.
Analysis and Prediction of Water Quality Using LSTM Deep Neural Networks in IoT Environment (2019)

This research paper focuses on a water quality prediction model which requires high-quality data. In the process of construction and operation of smart water quality monitoring systems based on Internet of Things (IoT), more and more big data are produced at a high speed, which has made water quality data complicated. Taking advantage of the good performance of long short-term memory (LSTM) deep neural networks in time-series prediction, a drinking-water quality model was designed and established to predict water quality big data with the help of the advanced deep learning (DL) theory in this paper. The drinking-water quality data measured by the automatic water quality monitoring station of Guazhou Water Source of the Yangtze River in Yangzhou were utilized to analyze the water quality parameters in detail, and the prediction model was trained and tested with monitoring data from January 2016 to June 2018. The results of the study indicate that the predicted values of the model and the actual values were in good agreement and accurately revealed the future developing trend of water quality, showing the feasibility and effectiveness of using LSTM deep neural networks to predict the quality of drinking water.
Müller cell protection of rat retinal ganglion cells from glutamate and nitric oxide neurotoxicity. (2000)

RMG cells can protect RGCs from glutamate and NO neurotoxicity. We suggest that functional disorders of glutamate uptake in RMGs might be one of the etiologies of glaucoma.
Analysis of error propagation in hybrid video coding with application to error resilience (1999)

A theoretical analysis of the overall mean squared error (MSE) in hybrid video coding is presented for the case of error prone transmission. The derived model for interframe error propagation includes the effects of INTRA coding and spatial loop filtering and corresponds to simulation results very accurately. For a given target bit rate, only four parameters are necessary to describe the overall distortion behavior of the decoder. Using the model, the optimal trade-off between INTRA and INTER coding can be determined for a given packet loss probability by minimizing the expected MSE at the decoder.
DNA-GAN: Learning Disentangled Representations from Multi-Attribute Images (2017)

Disentangling factors of variation has become a very challenging problem on representation learning. Existing algorithms suffer from many limitations, such as unpredictable disentangling factors, poor quality of generated images from encodings, lack of identity information, etc. In this paper, we propose a supervised learning model called DNA-GAN which tries to disentangle different factors or attributes of images. The latent representations of images are DNA-like, in which each individual piece (of the encoding) represents an independent factor of the variation. By annihilating the recessive piece and swapping a certain piece of one latent representation with that of the other one, we obtain two different representations which could be decoded into two kinds of images with the existence of the corresponding attribute being changed. In order to obtain realistic images and also disentangled representations, we further introduce the discriminator for adversarial training. Experiments on Multi-PIE and CelebA datasets finally demonstrate that our proposed method is effective for factors disentangling and even overcome certain limitations of the existing methods.
Antibody titers against bovine coronavirus and shedding of the virus via the respiratory tract in feedlot cattle (2000)

Bovine coronavirus can be detected in populations of feedlot cattle in the form of viral shedding as well as seroconversion to the virus. Although only a few cattle were shedding the virus at the time of arrival at a feedlot, most of the cattle seroconverted to BCV by 28 days after arrival.
Preparation and Spectroscopic Properties of Multiluminophore Luminescent Oxygen and Temperature Sensor Films (2005)

A new luminescent oxygen and temperature sensor has been developed that utilizes two luminescent dyes, 5,10,15,20-tetrakis(pentafluorophenyl)porphyrin platinum(II) (PtTFPP, the oxygen sensor) and tris(1,10-phenanthroline)ruthenium(II) dichloride (Ruphen, the temperature sensor). The two dyes are dispersed in an oxygen-permeable polymer binder consisting of a copolymer of 4-tert-butylstyrene (tBS) and 2,2,2-trifluoroethyl methacrylate (p-tBS-co-TFEM). To alleviate energy transfer and other quenching interactions between the two luminescent dyes in the p-tBS-co-TFEM binder, the Ruphen temperature sensor is encapsulated in polyacrylonitrile (PAN) polymer nanospheres that are prepared by coprecipitation of PAN and Ruphen from N,N-dimethylformamide solution. The temperature and air-pressure response of the emission from the sensor film is fully characterized by using emission spectroscopy. The emission from the two luminescent dyes is spectrally well-separated. The intensity of the Ruphen emission varies strongly with temperature (approximately 1.4% degrees C(-1)), whereas the intensity of the PtTFPP emission varies with temperature and air pressure. The two-dye luminescent coating is useful as a pressure-sensitive paint (PSP), where the emission from the Ruphen temperature sensor is used to correct for the temperature dependence of the pressure response of the PtTFPP sensor. To demonstrate the PSP application, a coupon coated with the sensor was imaged using a CCD camera, and the CCD images were analyzed by intensity ratio methods. Spectroscopic studies were also carried out on a sensor that contains three dyes in order to demonstrate the feasibility of including an intensity reference dye along with the temperature and pressure dyes into the sensor.
Dissociation of Plaque Formation from Glucan-Induced Agglutination in Mutants of <i>Streptococcus mutans</i> (1974)

The traits adhesion and cohesion are manifested in Streptococcus mutans by in vitro plaque formation and glucan-mediated agglutination and have been dissociated in mutants of this caries-associated microbe. In these mutants, which differ from each other in colonial morphology, we have observed a consistent loss of ability to form adhesive microbial deposits (plaque) on wires, but only a minimal alteration from the wild type in ability to agglutinate into macroscopic clumps in the presence of exogenous glucans or sucrose. Also, when these mutants were cultured in sucrose-containing medium, there was an increase in the synthesis of water-soluble, extracellular glucans and a decrease in the synthesis of alkali-soluble, cell-associated glucans. Based on these findings, it appears (i) that in vitro plaque formation and agglutination are distinct and dissociable traits, and (ii) that adhesion but not agglutination appears related to the synthesis of alkali-soluble, cell-associated glucans.
Kif18A is involved in human breast carcinogenesis (2010)

Microtubule (MT) kinesin motor proteins orchestrate various cellular processes (e.g. mitosis, motility and organelle transportation) and have been implicated in human carcinogenesis. Kif18A, a plus-end directed MT depolymerase kinesin, regulates MT dynamics, chromosome congression and cell division. In this study, we report that Kif18A is overexpressed in human breast cancers and Kif18A overexpression is associated with tumor grade, metastasis and poor survival. Functional analyses reveal that ectopic overexpression of Kif18A results in cell multinucleation, whereas ablation of Kif18A expression significantly inhibits the proliferative capability of breast cancer cells in vitro and in vivo. Inhibition of Kif18A not only affects the critical mitotic function of Kif18A but also decreases cancer cell migration by stabilizing MTs at leading edges and ultimately induces anoikis of cells with inactivation of the phosphatidylinositol 3-kinase-Akt signaling pathway. Together, our results indicate that Kif18A is involved in human breast carcinogenesis and may serve as a potential therapeutic target for human breast cancer.
Mitochondrial dysfunction measured <i>in vivo</i> (2004)

This work represents a significant advance in research on the role of mitochondria in degenerative disease and ageing because it allows a quantitative measure of mitochondrial pathology in vivo. The non-invasive nature of this approach also enables repeated measures of mitochondrial function on the same individual, thereby making this a potentially useful diagnostic technique. The results from this work have led to insights into the coupling of ATP synthesis to oxidation and the regulation of oxidative phosphorylation by intracellular PO2.
Sonochemistry and Sonoluminescence of Room-Temperature Ionic Liquids (2003)

The sonication of ionic organic liquids leads to decomposition of the liquids. Multibubble sonoluminescence spectra and headgas analysis reveal a variety of decomposition products from the sonolysis of N,N'-dialkylimidazolium ionic liquids. The decomposition is a result of acoustic cavitation, which generates localized hot spots from the implosive collapse of bubbles in the ionic liquids. Despite the negligible vapor pressure of the ionic liquids, reaction still occurs in a heated shell of the bubbles or from microdroplets thrown into the collapsing bubbles.
A Novel Inhibitor of Dengue Virus Replication That Targets the Capsid Protein (2012)

Dengue viruses (DENV) infect 50 to 100 million people worldwide per year, of which 500,000 develop severe life-threatening disease. This mosquito-borne illness is endemic in most tropical and subtropical countries and has spread significantly over the last decade. While there are several promising vaccine candidates in clinical trials, there are currently no approved vaccines or therapeutics available for treatment of dengue infection. Here, we describe a novel small-molecule compound, ST-148, that is a potent inhibitor of all four serotypes of DENV in vitro. ST-148 significantly reduced viremia and viral load in vital organs and tended to lower cytokine levels in the plasma in a nonlethal model of DENV infection in AG129 mice. Compound resistance mapped to the DENV capsid (C) gene, and a direct interaction of ST-148 with C protein is suggested by alterations of the intrinsic fluorescence of the protein in the presence of compound. Thus, ST-148 appears to interact with the DENV C protein and inhibits a distinct step(s) of the viral replication cycle.
Transverse mode dynamics of VCSELs through space-time domain simulation (1999)

An approximation to the Maxwell-Semiconductor Bloch equations is used to model transverse mode dynamics of vertical-cavity surface-emitting lasers (VCSELs). The time-evolution of the spatial profiles of the laser field and carrier density is solved by a finite-difference algorithm. The algorithm is fairly general; it can handle devices of any shape, which are either gain or index guided or both. Also there is no a priori assumption about the type or number of modes. The physical modeling includes the nonlinear carrier dependence of the optical gain and refractive index and dispersion effects on the gain and the refractive index are also included. The modeling of the optical susceptibility is based on first-principles and includes device details such as the quantum well structures, and also includes many-body effects. Temporal dynamics as fast as on a picosecond scale can be resolved. The influences of the shape of the pumping region and of the index confinement on the transverse mode dynamics are investigated.
Neural Network for Graphs: A Contextual Constructive Approach (2009)

This paper presents a new approach for learning in structured domains (SDs) using a constructive neural network for graphs (NN4G). The new model allows the extension of the input domain for supervised neural networks to a general class of graphs including both acyclic/cyclic, directed/undirected labeled graphs. In particular, the model can realize adaptive contextual transductions, learning the mapping from graphs for both classification and regression tasks. In contrast to previous neural networks for structures that had a recursive dynamics, NN4G is based on a constructive feedforward architecture with state variables that uses neurons with no feedback connections. The neurons are applied to the input graphs by a general traversal process that relaxes the constraints of previous approaches derived by the causality assumption over hierarchical input data. Moreover, the incremental approach eliminates the need to introduce cyclic dependencies in the definition of the system state variables. In the traversal process, the NN4G units exploit (local) contextual information of the graphs vertices. In spite of the simplicity of the approach, we show that, through the compositionality of the contextual information developed by the learning, the model can deal with contextual information that is incrementally extended according to the graphs topology. The effectiveness and the generality of the new approach are investigated by analyzing its theoretical properties and providing experimental results.
In vitro permeation and in vivo anti-inflammatory and analgesic properties of nanoscaled emulsions containing ibuprofen for topical delivery (2011)

The ingredients and the physical properties of the nanoscaled emulsions produced by using the newly synthesized POEs succeeded to deliver ibuprofen competently.
Posttranscriptional Gene Regulation by Spatial Rearrangement of the 3′ Untranslated Region (2008)

Translation termination at premature termination codons (PTCs) triggers degradation of the aberrant mRNA, but the mechanism by which a termination event is defined as premature is still unclear. Here we show that the physical distance between the termination codon and the poly(A)-binding protein PABPC1 is a crucial determinant for PTC recognition in human cells. "Normal" termination codons can trigger nonsense-mediated mRNA decay (NMD) when this distance is extended; and vice versa, NMD can be suppressed by folding the poly(A) tail into proximity of a PTC or by tethering of PABPC1 nearby a PTC, indicating an evolutionarily conserved function of PABPC1 in promoting correct translation termination and antagonizing activation of NMD. Most importantly, our results demonstrate that spatial rearrangements of the 3' untranslated region can modulate the NMD pathway and thereby provide a novel mechanism for posttranscriptional gene regulation.
SP 800-90A. Recommendation for Random Number Generation Using Deterministic Random Bit Generators (2012)

This Recommendation specifies mechanisms for the generation of random bits using deterministic methods. The methods provided are based on either hash functions, block cipher algorithms or number theoretic problems.
Lipopolysaccharide-induced modulation of human monocyte urokinase production and activity. (1990)

Cells of the monocyte/macrophage lineage are known to produce urokinase type plasminogen activator (u-PA) and are active participants in the inflammatory response. Modulation of cellular u-PA production, for instance in response to LPS, may have an important impact on the evolution of inflammatory lesions. A definitive picture of how monocyte u-PA production and activity are regulated by LPS is lacking. We addressed this issue directly by measuring u-PA Ag and activity in mononuclear cell cultures. By using a competition ELISA to quantitate u-PA Ag, we found that LPS-stimulated mononuclear cells in culture increased u-PA production in a dose-dependent manner and that all the u-PA detected was attributable to the monocytes therein. Increasing amounts of u-PA were secreted into the medium, bound to the cell surface, and found intracellularly. Although the absolute amounts of u-PA varied from donor to donor, the increases seen with LPS stimulation were a consistent and statistically significant finding. Only the cell-surface-bound u-PA was fibrinolytically active, however, with this activity increasing upon LPS stimulation. All monocyte cell-surface-associated fibrinolytic activity was attributed to u-PA, as shown by plasminogen dependence, neutralization by antibodies to u-PA, and identification of fibrinolytically active molecules eluted from the cell surface. The surface bound u-PA was not inhibited by its physiologic inhibitors, PAI-1 or PAI-2, whereas free u-PA was. Hence LPS stimulation results in monocytes exhibiting increased cell-surface-associated u-PA Ag and fibrinolytic activity, in spite of concomitant high levels of plasminogen activator inhibitor type 2 production. This surface-bound enzymatic activity may influence the ability of monocytes to migrate in and interact with an inflammatory microenvironment.
‘Above Rubies’: Malory and Morte Arthure 2559–61 (1995)

‘Above Rubies’: Malory and Morte Arthure 2559–61 Get access P. J. C. Field P. J. C. Field University of Wales, Bangor Search for other works by this author on: Oxford Academic Google Scholar Notes and Queries, Volume 42, Issue 1, March 1995, Pages 29–30, https://doi.org/10.1093/notesj/42.1.29 Published: 01 March 1995
Genes for the hook-basal body proteins of the flagellar apparatus in Escherichia coli (1978)

Of the more than 30 genes required for flagellar function, 6 are located between pyrC and ptsG on the Escherichia coli genetic man. This cluster of genes is called flagellar region I. Four-point transductional crosses were used to establish the position and order of the region I flagellar genes with respect to the outside markers ptsG and pyrC. Bacteriophage lambda-E. coli hybrids that contained most of the genes necessary for flagellar formation were constructed. The properties of specific hybrids that carried the region I fla genes were examined by genetic complementation and by measuring the capacity of the hybrids to direct the synthesis of specific polypeptides. The results of these tests with lambda hybrids and with a series of deletion mutations derived from the lambda hybrids demonstrated the existence of at least six flagellar-specific cistrons. These directed the synthesis of polypeptides with the following apparent molecular weights: flaV, 11,000; flaK, 42,000; flaL, 30,000 and 27,000; flaM, 38,000; flS, 60,000; and flaT, 35,000. Plasmid ColE1-E. coli hybrids with region I flagellar genes were also used to program the synthesis of polypeptides in minicell-producing strains. The polypeptides synthesized in these experiments were identical to polypeptides of the hook-basal body structure and helped to confirm the assignment of genes to specific polypeptides. The synthesis of all of these polypeptides was regulated by the same mechanism that regulates the synthesis of other flagellar-related structural components.
Amphibians and Reptiles from the Pleistocene (Illinoian) of Williston, Florida (1959)

-. 1955. Vascularization of respiratory surfaces in Leiopelma hochstetteri Fitzinger and Xenopus laevis (Daudin). Acta Anat. 25: 34660. c a ge, as the capi laries a es of the palate in reeding speci ens l o e percent of the total i capi laries. . 1957. The vascularization of respiratory surfaces in Ambystoma mexicanum (Cope) in ontogeny. Zool. Pol. 8: In Press. CZOPKOWA, G., AND J. CZOPEK. 1955. The vascu arization of the respiratory surfaces in Bombina variegata (L.). Bull. Acad. Pol. Sci. Cl. II, 3: 313-18.