gebhart/patrepeval huggingface dataset:
Release of Interleukin-8, Interleukin-6, and Colony-stimulating Factors by Upper Airway Epithelial Cells: Implications for Cystic Fibrosis (1993)

Cystic fibrosis (CF) is characterized by a dramatic neutrophil recruitment and repeated Pseudomonas infections in the lungs. To evaluate cytokine releasibility by airway epithelial cells in the context of CF, we studied primary nasal epithelial cells isolated from the upper airways and continuous epithelial cell lines from normal and CF subjects. Relatively low levels of interleukin (IL)-8, IL-6, and granulocyte/macrophage colony-stimulating factor (GM-CSF) were produced spontaneously by primary epithelial cells (< 50 pg/10(6) cells) and higher levels of colony-stimulating factor-1 (CSF-1) (1 to 2 ng/10(6) cells). Cells were stimulated with substances that are likely to be present in the inflamed lungs of CF patients-namely, the proinflammatory monokines IL-1 and tumor necrosis factor-alpha (TNF alpha) as well as neutrophil elastase and bacterial products from Pseudomonas (mucoid exopolysaccharide [MEP] and rhamnolipids). Both IL-1 and TNF alpha induced a dose-dependent release of IL-6 (5 to 10 ng/10(6) cells) and GM-CSF (2 to 3 ng/10(6) cells) by primary epithelial cells from eight normal volunteers. The TNF alpha/IL-1-stimulated GM-CSF release was blocked by the addition of 1 microM dexamethasone, whereas basal CSF-1 release was unaffected. Neutrophil elastase was a potent inducer of IL-8 and GM-CSF both in primary epithelial cells and in cell lines. Dexamethasone (1 microM) did not inhibit elastase-induced IL-8 release in either normal or CF epithelial cells. Rhamnolipids and MEP were found to stimulate the copious release of IL-8, GM-CSF, and IL-6 from epithelial cells, in a steroid-sensitive fashion.(ABSTRACT TRUNCATED AT 250 WORDS)
Genome sequence of Halobacterium species NRC-1 (2000)

We report the complete sequence of an extreme halophile, Halobacterium sp. NRC-1, harboring a dynamic 2,571,010-bp genome containing 91 insertion sequences representing 12 families and organized into a large chromosome and 2 related minichromosomes. The Halobacterium NRC-1 genome codes for 2,630 predicted proteins, 36% of which are unrelated to any previously reported. Analysis of the genome sequence shows the presence of pathways for uptake and utilization of amino acids, active sodium-proton antiporter and potassium uptake systems, sophisticated photosensory and signal transduction pathways, and DNA replication, transcription, and translation systems resembling more complex eukaryotic organisms. Whole proteome comparisons show the definite archaeal nature of this halophile with additional similarities to the Gram-positive Bacillus subtilis and other bacteria. The ease of culturing Halobacterium and the availability of methods for its genetic manipulation in the laboratory, including construction of gene knockouts and replacements, indicate this halophile can serve as an excellent model system among the archaea.
Transparent conductive grids via direct writing of silver nanoparticle inks (2011)

Transparent conductive grids are patterned by direct writing of concentrated silver nanoparticle inks. This maskless, etch-free patterning approach is used to produce well-defined, two-dimensional periodic arrays composed of conductive features with center-to-center separation distances of up to 400 µm and an optical transmittance as high as 94.1%.
Distribution of .OMEGA.-amino acid: Pyruvate transaminase and aminobutyrate: .ALPHA.-Ketoglutarate transaminase in microorganisms. (1983)

The distribution of ω-ammo acid transaminases in microorganisms was investigated. ω-Amino acid : pyruvate t ansaminase (ω-APT) was found bacteria and yeasts, but not in actinomycetes and fungi. On the contrary, aminobutyrate : α-ketoglutarate transaminase (GABA-T) was shown in most of the microorganisms from bacteria to fungi. β-Alanine is a preferred amino donor for the ω-APT reaction. Although bacterial and yeast GABA-T are inactive for β-alanine, fungal and actinomycete enzymes react with this compound and γ-aminobutyrate. In comparing these results with those of plant and mammalian enzymes, two different pathways of ω-amino acid metabolism are suggested for bacteria, yeast and plants, i.e. one for β-alanine and the other for γ-aminobutyrate, catalyzed by ω-APT and GABA-T, respectively. In actinomycetes, fungi, and mammals GABA-T may be involved in the metabolism of both ω-amino acids. In addition, evolutionary changes of ω-amino acid transaminases are discussed.
Interactions of ions with the surface receptor of the azobenzene-containing bilayer membrane. Discrimination, transduction, and amplification of chemical signals (1982)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTInteractions of ions with the surface receptor of the azobenzene-containing bilayer membrane. Discrimination, transduction, and amplification of chemical signalsM. Shimomura and T. KunitakeCite this: J. Am. Chem. Soc. 1982, 104, 6, 1757–1759Publication Date (Print):March 1, 1982Publication History Published online1 May 2002Published inissue 1 March 1982https://pubs.acs.org/doi/10.1021/ja00370a061https://doi.org/10.1021/ja00370a061research-articleACS PublicationsRequest reuse permissionsArticle Views159Altmetric-Citations59LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Characterization of two 3-ketothiolases possessing differing substrate specificities in the polyhydroxyalkanoate synthesizing organism Alcaligenes eutrophus (1988)

Two constitutive acetyl-CoA acetyltransferases (3-ketothiolases A and B) were purified from Alcaligenes eutrophus. Enzyme A was active with only acetoacetyl-CoA and 3-ketopentanoyl-CoA, whereas enzyme B was active with all the 3-ketoacyl-CoAs (C4−C10) tested. Enzyme A appeared to be a tetramer (Mr 70 000) with identical subunits (Mr 44 000) and enzyme B had a similar Mr of 168 000 (containing Mr 46 000 subunits). Enzymes A and B had isoelectric points of 5.0 and 6.4, respectively. The stoichiometry of the reactions catalysed by each enzyme was confirmed. Km values of 44 µM and 394 µM for acetoacetyl-CoA, and 16 µM and 93 µM for CoA, were determined with enzymes A and B, respectively. Enzymes A and B gave Km values of 1.1 mM and 230 µM, respectively, for acetyl-CoA. The condensation reaction was potently inhibited by CoA in both cases.
Histogram-based traffic anomaly detection (2009)

Identifying network anomalies is essential in enterprise and provider networks for diagnosing events, like attacks or failures, that severely impact performance, security, and Service Level Agreements (SLAs). Feature-based anomaly detection models (ab)normal network traffic behavior by analyzing different packet header features, like IP addresses and port numbers. In this work, we describe a new approach to feature-based anomaly detection that constructs histograms of different traffic features, models histogram patterns, and identifies deviations from the created models. We assess the strengths and weaknesses of many design options, like the utility of different features, the construction of feature histograms, the modeling and clustering algorithms, and the detection of deviations. Compared to previous feature-based anomaly detection approaches, our work differs by constructing detailed histogram models, rather than using coarse entropy-based distribution approximations. We evaluate histogram-based anomaly detection and compare it to previous approaches using collected network traffic traces. Our results demonstrate the effectiveness of our technique in identifying a wide range of anomalies. The assessed technical details are generic and, therefore, we expect that the derived insights will be useful for similar future research efforts.
The Measurement of Observer Agreement for Categorical Data (1977)

This paper presents a general statistical methodology for the analysis of multivariate categorical data arising from observer reliability studies. The procedure essentially involves the construction of functions of the observed proportions which are directed at the extent to which the observers agree among themselves and the construction of test statistics for hypotheses involving these functions. Tests for interobserver bias are presented in terms of first-order marginal homogeneity and measures of interobserver agreement are developed as generalized kappa-type statistics. These procedures are illustrated with a clinical diagnosis example from the epidemiological literature.
Remodeling of sugar chain structures of human interferon- (2000)

Natural human interferon (IFN)-gamma has mainly biantennary complex-type sugar chains and scarcely has multiantennary structures. We attempted to remodel the sugar chain structures using IFN-gamma as a model glycoprotein. To obtain the branching glycoforms of IFN-gamma, we introduced the genes for GnT-IV (UDP-N-acetylglucosamine:alpha-1,3-D-mannoside beta-1, 4-N-acetylglucosaminyltransferase) and/or GnT-V (UDP-N-acetylglucosamine:alpha-1,6-D-mannoside beta-1, 6-N-acetylglucosaminyltransferase) into Chinese hamster ovary (CHO) cells producing human IFN-gamma. The parental CHO cells produced IFN-gamma with biantennary sugar chains mainly. When the GnT-IV activity was increased, triantennary sugar chains with a branch produced by GnT-IV increased up to 66.9% of the total sugar chains. When the GnT-V activity was increased, triantennary sugar chains with a corresponding branch increased up to 55.7% of the total sugar chains. When the GnT-IV and -V activities were increased at a time, tetraantennary sugar chains increased up to 56.2% of the total sugar chains. The proportion of these multiantennary sugar chains corresponded to the intracellular activities of GnT-IV and -V. What is more, lectin blot and flow cytometric analysis indicated that the multi-branch structure of the sugar chains was increased not only on IFN-gamma, one of the secretory glycoproteins, but also on almost CHO cellular proteins by introducing either or both of the GnT genes. The results suggest that the branching structure of sugar chains of glycoproteins could be controlled by cellular GnT-IV and GnT-V activities. This technology can produce glycoforms out of natural occurrence, which should enlarge the potency of glycoprotein therapeutics.
Autonomous real-time ground ubiquitous surveillance-imaging system (ARGUS-IS) (2008)

Finding, tracking and monitoring events and activities of interest on a continuous basis remains one of our highest Intelligence Surveillance and Reconnaissance (ISR) requirements. Unmanned Aerial Systems (UAS) serve as one of the warfighter's primary and most responsive means for surveillance and gathering intelligence information and are becoming vital assets in military operations. This is demonstrated by their significant use in Afghanistan during Operation Enduring Freedom and in Iraq as part of Operation Iraqi Freedom. Lessons learned from these operations indicate that UAVs provide critical capabilities for enhancing situational awareness, intelligence gathering and force protection for our military forces. Current UAS high resolution electro-optics offers a small high resolution field of view (FOV). This narrow FOV is a limiting factor on the utility of the EO system. The UAS that are available offer persistence; however, the effectiveness of the EO system is limited by the sensors and available processing. DARPA is addressing this developing the next generation of persistent, very wide area surveillance with the Autonomous Real-time Ground Ubiquitous Surveillance - Imaging System (ARGUS-IS). The system will be capable of imaging an area of greater than 40 square kilometers with a Ground Space Distance (GSD) of 15 cm at video rates of greater than 12 Hz. This paper will discuss the elements of the ARGUS-IS program.
Acoustic radiation- and streaming-induced microparticle velocities determined by microparticle image velocimetry in an ultrasound symmetry plane (2012)

We present microparticle image velocimetry measurements of suspended microparticles of diameters from 0.6 to 10 μm undergoing acoustophoresis in an ultrasound symmetry plane in a microchannel. The motion of the smallest particles is dominated by the Stokes drag from the induced acoustic streaming flow, while the motion of the largest particles is dominated by the acoustic radiation force. For all particle sizes we predict theoretically how much of the particle velocity is due to radiation and streaming, respectively. These predictions include corrections for particle-wall interactions and ultrasonic thermoviscous effects and match our measurements within the experimental uncertainty. Finally, we predict theoretically and confirm experimentally that the ratio between the acoustic radiation- and streaming-induced particle velocities is proportional to the actuation frequency, the acoustic contrast factor, and the square of the particle size, while it is inversely proportional to the kinematic viscosity.
PREPARATION OF MONOMETHYL FUMARATE (1983)

(1983). PREPARATION OF MONOMETHYL FUMARATE. Organic Preparations and Procedures International: Vol. 15, No. 4, pp. 233-238.
Late-Onset Bleb Leaks After Glaucoma Filtering Surgery (1998)

The risk of late-onset focal bleb leakage increases following trabeculectomy with mitomycin C therapy. Late leakage after combined cataract and glaucoma surgery is infrequent.
Computer-aided detection of microcalcifications in mammograms. Methodology and preliminary clinical study. (1988)

The authors investigated the feasibility of using computer methods for automated detection of clustered microcalcifications on clinical mammograms. A new difference-image approach using a matched filter/box-rim filter combination effectively removed the structured background from the image. A locally adaptive gray-level thresholding technique was then used for extraction of the signals from the resulting difference image. Signal-extraction criteria based on the size, contrast, number, and clustering properties of microcalcifications were next imposed on the detected signals to distinguish true signals from noise or artifacts. The detection accuracy of the computer scheme was evaluated by means of a free response receiver operating characteristic (FROC) analysis. It was found that, for simulated subtle microcalcifications superimposed on normal mammograms, the difference-image approach with a matched filter/box-rim filter combination could yield a true-positive cluster detection rate of 80% at a false-positive detection rate of one cluster per image. In a study of 20 clinical images containing moderately subtle microcalcifications, the automated computer scheme obtained an 82% true-positive cluster detection rate at a false-positive detection rate of one cluster per image. These results indicate that the automated method has the potential to aid radiologists in screening mammograms for clustered microcalcifications.
Computer-assisted analysis of painting brushstrokes: digital image processing for unsupervised extraction of visible features from van Gogh’s works (2014)

Abstract The automatic extraction of objective features from paintings, like brushstroke distribution, orientation, and shape, could be particularly useful for different artwork analyses and management tasks. In fact, these features contribute to provide a unique signature of the artists’ style and can be effectively used for artist identification and classification, artwork examination and retrieval, etc. In this paper, an automatic technique for unsupervised extraction of individual brushstrokes from digital reproductions of van Gogh’s paintings is presented. Through the iterative application of segmentation, characterization, and validation steps, valid brushstrokes complying with specific area and shape constraints are identified. On the extracted brushstrokes, several representative features can then be calculated, like orientation, length, and width. The accuracy of the devised method is evaluated by comparing numerical results obtained on a dataset of digital reproductions of van Gogh’s oil-on-canvas works with observations made by human subjects and with another recent approach for automatic brushstroke analysis. Experimental tests showed that the devised methodology produces results that are rather close to those obtained by human subjects and, for some of the metrics considered, can provide improved performances with respect to alternative techniques.
Membrane Potential Regulates Sea Urchin Sperm Adenylylcyclase (1996)

Adenylylcyclase (AC) from sea urchin sperm does not appear to be regulated by G proteins [Hildebrandt, J. D., Tash, J. S., Kirchick, H. J., Lipschunits, L., Secra, R. D., & Birmbaumer, L. (1985) Endocrinology 116, 1357-1366]. During sperm activation and the acrosome reaction, membrane potential changes and cAMP increases. Here we explore if membrane potential can modulate the sperm AC. Hyperpolarization of Lytechinus pictus sea urchin sperm either with valinomycin in artificial sea water (ASW) without K+ or with dilution in ASW without Na+ increased the [c-AMP] (2.2- and 5.8-fold, respectively). This increase also occurred in the absence of extracellular Ca2+ (1.9- and 3.1-fold, respectively) and was enhanced by 100 microM IBMX, a phosphodiesterase inhibitor. It has been suggested that sea urchin sperm AC is stimulated by increases in intracellular Ca2+ and intracellular pH. In ASW without Na+ and Ca2+ (0Na0CaASW), sea urchin sperm intracellular pH decreases, and intracellular Ca2+ cannot increase. Therefore, these observations taken together indicate that AC in these cells in modulated by membrane potential. Dilution of Strogylocentrotus purpuratus sperm in 0Na0CaASW hyperpolarized them and increased their cAMP levels (1.3-fold). This stimulation was enhanced by IBMX (1.6-fold). Addition of the egg peptide speract under this condition further hyperpolarized S. purpuratus sperm and synergistically increased [cAMP] above 0Na0CaASW. This stimulation became larger in the presence of IBMX (from 1.6- to 5.2-fold). Since speract cannot elevate intracellular pH or [Ca2+] in 0Na0CaASW, the increase in [cAMP] it causes must be due to sperm hyperpolarization.
THE EXPRESSION OF CAPSULE IN SERUM-SOFT AGAR BY STAPHYLOCOCCUS AUREUS ISOLATED FROM HUMAN CLINICAL SOURCES (1985)

Staphylococcus aureus isolates from human clinical sources were incubated for various times in modified 110 medium and tested for production of capsule by the serum-soft agar technique. Ten (5.7%) of 175 isolates were encapsulated after incubation for 24 h. A more detailed examination of 77 isolates showed that incubation period affected the production of capsule. After 2 h, 31% were encapsulated, but after 6 h and 24 h this decreased to 17% and 4% respectively. Rapid passage in vitro induced the expression of capsule in four of 50 unencapsulated strains. Only three of 20 encapsulated strains could be typed with standard antisera.
Genome-Wide Significant Association Between a Sequence Variant at 15q15.2 and Lung Cancer Risk (2011)

Genome-wide association studies (GWAS) have identified 3 genomic regions, at 15q24-25.1, 5p15.33, and 6p21.33, which associate with the risk of lung cancer. Large meta-analyses of GWA data have failed to find additional associations of genome-wide significance. In this study, we sought to confirm 7 variants with suggestive association to lung cancer (P < 10(-5)) in a recently published meta-analysis. In a GWA dataset of 1,447 lung cancer cases and 36,256 controls in Iceland, 3 correlated variants on 15q15.2 (rs504417, rs11853991, and rs748404) showed a significant association with lung cancer, whereas rs4254535 on 2p14, rs1530057 on 3p24.1, rs6438347 on 3q13.31, and rs1926203 on 10q23.31 did not. The most significant variant, rs748404, was genotyped in an additional 1,299 lung cancer cases and 4,102 controls from the Netherlands, Spain, and the United States and the results combined with published GWAS data. In this analysis, the T allele of rs748404 reached genome-wide significance (OR = 1.15, P = 1.1 × 10(-9)). Another variant at the same locus, rs12050604, showed association with lung cancer (OR = 1.09, 3.6 × 10(-6)) and remained significant after adjustment for rs748404 and vice versa. rs748404 is located 140 kb centromeric of the TP53BP1 gene that has been implicated in lung cancer risk. Two fully correlated, nonsynonymous coding variants in TP53BP1, rs2602141 (Q1136K) and rs560191 (E353D) showed association with lung cancer in our sample set; however, this association did not remain significant after adjustment for rs748404. Our data show that 1 or more lung cancer risk variants of genome-wide significance and distinct from the coding variants in TP53BP1 are located at 15q15.2.
Oral Artesunate Dose-Response Relationship in Acute Falciparum Malaria (2002)

The combination of an oral artemisinin derivative (usually artesunate) and mefloquine has become standard treatment for multidrug-resistant falciparum malaria in several parts of Southeast Asia. The doses of artesunate used in monotherapy and combination treatment have largely been derived empirically. In order to characterize the in vivo dose-response relationship for artesunate and thus rationalize dosing, 47 adult patients with acute uncomplicated falciparum malaria and parasitemia > or = 1% were randomized to receive a single oral dose of artesunate varying between 0 and 250 mg together with a curative dose of oral mefloquine. Acceleration of parasite clearance was used as the pharmacodynamic variable. An inhibitory sigmoidal maximum effect (Emax) pharmacodynamic model typical of a dose-response curve was fitted to the relationship between dose and shortening of parasite clearance time (PCT). The Emax was estimated as 28.6 oral h, and the 50% effective concentration was 1.6 mg/kg of body weight. These results imply that there is no reduction in PCTs with the use of single doses of artesunate higher than 2 mg/kg, and this therefore reflects the average lower limit of the maximally effective dose.
Synthesis and Antibacterial Activity of Ketolides (6-O-Methyl-3-oxoerythromycin Derivatives):  A New Class of Antibacterials Highly Potent Against Macrolide-Resistant and -Susceptible Respiratory Pathogens (1998)

In the search for new antibiotics active against macrolide-resistant pneumococci and Haemophilus influenzae, we synthesized a new class of 3-oxo-6-O-methylerythromycin derivatives, so-called "ketolides". A keto function was introduced in position 3 after removal of L-cladinose, a sugar which has long been thought essential. Further modifications of the macrolactone backbone allowed us to obtain three different series of 9-oxime, 11,12-carbamate, and 11, 12-hydrazonocarbamate ketolides. These compounds were found to be very active against penicillin/erythromycin-resistant pneumococci and noninducers of MLSB resistance. The 11,12-substituted ketolide 61 (HMR 3004) demonstrated a potent activity against multiresistant pneumococci associated with a well-balanced activity against all bacteria involved in respiratory infections including H. influenzae, Mycoplasma catarrhalis, group A streptococci, and atypical bacteria. In addition HMR 3004 displayed high therapeutic activity in animals infected by all major strains, irrespective of their resistance phenotype.