gebhart/patrepeval huggingface dataset:
Functional recognition of fragmented operator sites by R17/MS2 coat protein, a translational repressor (1997)

The R17/MS2 coat protein serves as a translational repressor of replicase by binding to a 19 nt RNA hairpin containing the Shine-Dalgarno sequence and the initiation codon of the replicase gene. We have explored the structural features of the RNA operator site that are necessary for efficient translational repression by the R17/MS2 coat protein in vivo . The R17/MS2 coat protein efficiently directs lysogen formation for P22 R17 , a bacteriophage P22 derivative that carries the R17/MS2 RNA operator site within the P22 phage ant mRNA. Phages were constructed that contain fragmented operator sites such that the Shine-Dalgarno sequence and the initiation codon of the affected gene are not located within the RNA hairpin. The wild-type coat protein directs efficient lysogen formation for P22 phages that carry several fragmented RNA operator sites, including one in which the Shine-Dalgarno sequence is positioned 4 nt outside the coat protein binding site. Neither the wild-type R17/MS2 coat protein nor super-repressor mutants induce lysogen formation for a P22 phage encoding an RNA hairpin at a distance of 9 nt from the Shine-Dalgarno sequence, implying that a discrete region of biological repression is defined by the coat protein-RNA hairpin interaction. The assembly of RNA species into capsid structures is not an efficient means whereby the coat protein achieves translational repression of target mRNA transcripts. The R17/MS2 coat protein exerts translational regulation that extends considerably beyond the natural biological RNA operator site structure; however, the coat protein still mediates repression in these constructs by preventing ribosome access to linear sequence determinants of the translational initiation region by the formation of a stable RNA secondary structure. An efficient translational regulatory mechanism in bacteria appears to reside in the ability of proteins to regulate RNA folding states for host cell and phage mRNAs.
Investigation of the High-Energy Acceleration Mode in the Coaxial Gun (1964)

The amount of deuterium gas admitted to a short center electrode (1 cm) coaxial plasma gun delineates two regions of operation, depending on whether the gas is localized near the inlet port or allowed to diffuse throughout the gun length. In the former, fast deuterium ions with energy in excess of the applied voltage (V0 = 15 kV) emerge from the gun muzzle whereas in the latter, the accelerated plasma which initially starts at the breech end reaches an axial velocity of ∼2.5 × 107 cm/sec at the muzzle end and forms a high-density plasma focus on the axis in front of the central electrode. Neutron measurements show that this dense plasma is not in contact with the electrode and is most probably stagnated by the high ambient gas pressure downstream. Particle momentum analysis of the fast ion (&amp;gt; V0) distribution and neutron measurements downstream of the gun suggest two accelerated groups of fast ions, (1) a group of ∼1016 particles which diverge from the gun muzzle and (2) a group of ∼1014 particles which stream primarily along the axis with a radial distribution of ∼3 cm width. Multiple probes (Bθ) show an asymmetric angular distribution of the discharge current that varies as a function of time during a given discharge. A sharp break in the total gas current is accompanied by large inductive voltages. In the high-energy mode, inductive voltages up to 7V0 have been recorded at the breech end.
Country Update for Sweden (2010)

A summary of ongoing geothermal projects and heat production from heat pumps is presented. The Lund project is still the largest geothermal plant in Sweden producing about 250 GWh/year and has been doing so for 25 years, Bjelm and Alm (2010). Utilization of heat pumps is by far the most common way of using geothermal energy in Sweden, Figure 1. With bedrock-soil- water source heat pumps about 12 TWh heat energy is extracted or about 15 % of the national heat demand is covered this way making Sweden a leading nation in heat pump based geothermal utilisation. The majority of the heat pumps are small and typically used in single houses, Nowacki (2007) and Lund, Bjelm and Bloomquist (2008). 1. BACKGROUND Geothermal energy in Sweden is thanks to the use of heat pumps an important national energy resource, Bjelm
Giant Wormlike Rubber Micelles (1999)

A low molecular weight poly(ethyleneoxide)-poly(butadiene) (PEO-PB) diblock copolymer containing 50 weight percent PEO forms gigantic wormlike micelles at low concentrations (<5 percent by weight) in water. Subsequent generation of free radicals with a conventional water-based redox reaction leads to chemical cross-linking of the PB cores without disruption of the cylindrical morphology, as evidenced by cryotransmission electron microscopy and small-angle neutron scattering experiments. These wormlike rubber micelles exhibit unusual viscoelastic properties in water.
Laplacian Eigenmaps for Dimensionality Reduction and Data Representation (2003)

One of the central problems in machine learning and pattern recognition is to develop appropriate representations for complex data. We consider the problem of constructing a representation for data lying on a low-dimensional manifold embedded in a high-dimensional space. Drawing on the correspondence between the graph Laplacian, the Laplace Beltrami operator on the manifold, and the connections to the heat equation, we propose a geometrically motivated algorithm for representing the high-dimensional data. The algorithm provides a computationally efficient approach to nonlinear dimensionality reduction that has locality-preserving properties and a natural connection to clustering. Some potential applications and illustrative examples are discussed.
Therapeutic Effect of Intracameral Amphotericin B Injection in the Treatment of Fungal Keratitis (2007)

ICAMB seems to be effective in reducing time to disappearance of hypopyon and final improvement in the treatment of fungal keratitis.
An Evaluation of the Sysmex NE-8000® Hematology Analyzer (1991)

The Sysmex NE-8000 is a new, fully automated hematology analyzer capable of providing a five-part white blood cell differential count and identifying abnormal specimens. This instrument was evaluated on 5,000 consecutive blood specimens and compared to the Coulter S Plus-IV analyzer and manual differential cell counts to determine the efficacy of its five-cell differential and screening capabilities. There was a high correlation between the commercial counters for the standard parameters, white blood cell count, red blood cell count, hemoglobin level, hematocrit, mean corpuscular volume, mean corpuscular hemoglobin concentration, and platelet count (r greater than 0.95), except for the mean corpuscular hemoglobin concentration (r = 0.51), for which the NE-8000 was considered the more accurate measurement. Precision and linearity studies were excellent. The white blood cell count, red blood cell count, hemoglobin level, and platelet count were reproducible on specimens stored at 4 degrees C or room temperature for 72 hours and the differential counts were reproducible for 12 hours. The correlations between automated and manual counts for neutrophils, eosinophils, basophils, and lymphocytes were excellent: r = 0.912, 0.945, 0.332, and 0.964, respectively. The monocyte correlation improved with software modification from 0.306 to 0.801. The NE-8000 gave accurate and reproducible differential counts for neutrophils, lymphocytes, and monocytes on specimens with white blood cell counts as low as 0.6 x 10(9)/1. The ability of the instrument to 'flag' abnormal specimens was excellent. The false-positive rate on normal samples was 1.8%, and the false-negative rate on known abnormal samples was 0.3%, due only to nonrecognition of a mild left shift. The identification of specific abnormalities was less precise. The NE-8000 is a powerful hematology analyzer that can perform a five-part white blood cell differential count accurately for a wide range of WBCs and reliably indicate abnormal specimens. It is an excellent screening tool for distinguishing between normal and abnormal specimens and identifying those that require microscopy. Its reliability significantly reduces the need for manual film examination.
Molecular packing changes of alkanethiols monolayers on Au(111) under applied pressure (2000)

A study of the changes of molecular packing in self-assembled monolayers of alkylthiols on Au(111) induced by external pressure is presented. Atomic force microscopy (AFM) is used to apply pressure and to measure the height of islands of alkanethiols partially covering the gold surface. The islands are made of ordered straight chain alkylthiol molecules tilted from the surface normal. Their height was found to decrease in a stepwise manner as a function of the load applied by the tip. Simultaneous stepwise increases in friction force were observed. A simple geometrical model involving the interlocking of alkyl chains at specific molecular tilt angles can explain the observations. According to the model, tilts in both the nearest neighbor and the next-nearest neighbor directions are necessary.
Innate Preference for Host-Odor Blends Modulates Degree of Anthropophagy of <I>Anopheles gambiae</I> sensu lato (Diptera: Culicidae) (2001)

In field studies, Anopheles gambiae Giles sensu stricto obtains most blood meals from humans, whereas Anopheles quadriannulatus Theobald bites predominantly bovids. We investigated whether host odors modulate the host preference of these mosquito species. In a dual-choice olfactometer, mosquitoes were given a choice between clean air and putative host-specific odor blends. An. gambiae chose 'human odor' over clean air and clean air over cow odor.' Although Anopheles quadriannulatus did not choose cow odor over clean air, it chose clean air over human odor. Cheese odor, which attracted An. gambiae, did not result in higher trap catch of An. quadriannulatus. We conclude that the degree of anthropophagy of An. gambiae s.l. has an innate olfactory basis.
Leveraging design rules to improve software architecture recovery (2013)

In order to recover software architecture, various clustering techniques have been created to automatically partition a software system into meaningful subsystems. While these techniques have demonstrated their effectiveness, we observe that a key feature within most software systems has not been fully exploited: most well-designed systems follow strong architectural design rules that split the overall system into modules. These design rules are often manifested as special program constructs, such as shared data structures or abstract interfaces, which should not belong to any of the subordinate modules. We contribute a new perspective of architecture recovery based on this rationale, which enables the combination of design-rule-based clustering with other clustering techniques, as well as enabling the splitting of a large system into subsystems. We evaluated our approach both quantitatively and qualitatively, using both open source and real industrial software projects.
Staphylococcus aureus susceptibility to thrombin-induced platelet microbicidal protein is independent of platelet adherence and aggregation in vitro (1992)

Bacterium-platelet interactions at the cardiac valve surface represent an important initial step in the induction of infective endocarditis (IE). This cell-cell interaction may play either a protagonistic role in the induction of IE via bacterial adherence to and aggregation of platelets or an antagonistic role via secretion of platelet-derived microbicidal molecules. We examined the spectrum and interrelationship of three aspects of the interaction of 20 clinical Staphylococcus aureus isolates with rabbit platelets in vitro: (i) S. aureus adherence to platelets; (ii) S. aureus-induced platelet aggregation; and (iii) S. aureus resistance to the action of thrombin-induced platelet microbicidal protein (PMP; low-molecular-weight cationic peptides contained in alpha granules). Among the 20 S. aureus isolates (11 bacteremia, 9 endocarditis), there was a heterogeneous distribution profile for each of the bacterium-platelet interaction parameters studied. For S. aureus-platelet adherence and S. aureus-induced platelet aggregation, 3 of 20 and 7 of 20 isolates tested were considered highly active for each respective parameter; 5 of 20 staphylococcal strains were deemed resistant to the bactericidal action of PMP. In addition, more endocarditis isolates (45%) were PMP resistant than strains from patients without endocarditis (19%). When analyzed concomitantly, there was a significant, positive correlation between S. aureus-platelet adherence and S. aureus-induced platelet aggregation among isolates (P = 0.003; r = 0.78). In contrast, there were no statistically significant relationships between either platelet adherence or aggregation and PMP resistance among these 20 S. aureus isolates. These data suggest that platelet adherence and aggregation are related abilities of S. aureus, while resistance to thrombin-induced PMP is an independent phenotypic characteristic and potential virulence factor.
AA-Sort: A New Parallel Sorting Algorithm for Multi-Core SIMD Processors (2007)

Many sorting algorithms have been studied in the past, but there are only a few algorithms that can effectively exploit both SIMD instructions and thread-level parallelism. In this paper, we propose a new parallel sorting algorithm, called aligned-access sort (AA-sort), for shared-memory multi processors. The AA-sort algorithm takes advantage of SIMD instructions. The key to high performance is eliminating unaligned memory accesses that would reduce the effectiveness of SIMD instructions. We implemented and evaluated the AA-sort on PowerPCreg 970MP and Cell Broadband Enginetrade. In summary, a sequential version of the AA-sort using SIMD instructions outperformed IBM's optimized sequential sorting library by 1.8 times and GPUTeraSort using SIMD instructions by 3.3 times on PowerPC 970MP when sorting 32 M of random 32-bit integers. Furthermore, a parallel version of AA-sort demonstrated better scalability with increasing numbers of cores than a parallel version of GPUTeraSort on both platforms.
Evaluation of hybrid MRAM/CMOS cells for reconfigurable computing (2013)

The main objective of this paper is to give an overview of different hybrid MRAM/CMOS cells to use in the context of reconfigurable computing. The way to convert magnetic information into an electrical one is not unique and we propose to compare different kind of hybrid cells. These hybrid cells can be used to define structures as Look-up Table, configuration memory point, Flip-flop and other basic elements needed to define programmable logic. Even if these cells were designed for the TAS (Thermally Assisted Switching) MRAM technology, it is possible to adapt them to more advanced technologies such as STT (Spin Transfer Torque).
Adhesion or Plasmin Regulates Tyrosine Phosphorylation of a Novel Membrane Glycoprotein p80/gp140/CUB Domain-containing Protein 1 in Epithelia (2004)

Suspension of cultured human foreskin keratinocytes (HKs) with trypsin phosphorylates tyrosine residues on an 80-kDa membrane glycoprotein, p80 (Xia, Y., Gil, S. G., and Carter, W. G. (1996) J. Cell Biol. 132, 727-740). Readhesion dephosphorylates p80. Sequencing of a p80 cDNA established identity to CUB domain-containing protein 1 (CDCP1), a gene elevated in carcinomas. CDCP1/p80 cDNA encodes three extracellular CUB domains, a transmembrane domain, and two putative cytoplasmic Tyr phosphorylation sites. Treatment of adherent HKs with suramin, a heparin analogue, or inhibitors of phosphotyrosine phosphatases (PTPs; vanadate or calpeptin) increases phosphorylation of p80 and a novel 140-kDa membrane glycoprotein, gp140. Phosphorylated gp140 was identified as a trypsin-sensitive precursor to p80. Identity was confirmed by digestion and phosphorylation studies with recombinant gp140-GFP. Plasmin, a serum protease, also converts gp140 to p80, providing biological significance to the cleavage in wounds. Phosphorylation of gp140 and p80 are mediated by Src family kinases at multiple Tyr residues including Tyr(734). Dephosphorylation is mediated by PTP(s). Conversion of gp140 to p80 prolongs phosphorylation of p80 in response to suramin and changes in adhesion. This distinguishes gp140 and p80 and explains the relative abundance of phosphorylated p80 in trypsinized HKs. We conclude that phosphorylation of gp140 is dynamic and balanced by Src family kinase and PTPs yielding low equilibrium phosphorylation. We suggest that the balance is altered by conversion of gp140 to p80 and by adhesion, providing a novel transmembrane phosphorylation signal in epithelial wounds.
Tamoxifen-induced antitumorigenic/antiestrogenic action synergized by a selective aryl hydrocarbon receptor modulator. (2001)

Tamoxifen (TAM) is a highly effective selective estrogen receptor (ER) modulator used extensively for the treatment and prevention of breast cancer. However, prolonged treatment of women with TAM may be a risk factor for endometrial cancer, and research in our laboratory is focused on the development of selective aryl hydrocarbon receptor modulators that can be used in combination with TAM to improve its efficacy in the breast and inhibit TAM-induced endometrial effects. This study investigated the effects of the selective aryl hydrocarbon receptor modulators 6-methyl-1,3,8-trichlorodibenzofuran (6-MCDF) alone and in combination with TAM in the carcinogen-induced mammary tumor model and in the ovariectomized uterotropic assay using female Sprague Dawley rats. The lowest effective dose of 6-MCDF that inhibited tumor growth was 50 microg/kg/day, and TAM was antitumorigenic at a dose of 100 microg/kg/day. In animals cotreated with TAM + 6-MCDF at doses of 100, 50, or 25 microg/kg/day of each compound, complete inhibition of mammary tumor growth was observed at all doses, and the results are consistent with a more than additive antitumorigenic response for the low dose group (25 + 25 microg/kg) and additive interactions at the 50 and 100 microg/kg doses. In a separate experiment, 6-MCDF (800 microg/kg) inhibited TAM-induced peroxidase activity and progesterone receptor binding in the ovariectomized rat uterus but did not affect TAM-induced bone growth in ovariectomized rats. This study also investigated the effects of TAM and 6-MCDF alone and in combination on ERalpha protein levels in MCF-7 human breast cancer cells as a model for studying interactions between these compounds. The results show that 6-MCDF decreased TAM-induced ERalpha levels in the absence or presence of 17beta-estradiol through proteasome activation, and these interactions may contribute to the observed combined antitumorigenic effects of these compounds.
Galectins and microenvironmental niches during hematopoiesis (2011)

The abundance of galectins in both extracellular and intracellular compartments, their multifunctional properties and ability to form supramolecular signaling complexes with specific glycoconjugates, make these glycan-binding proteins excellent candidates to mediate interactions between hematopoietic cells and the stromal microenvironment. Their secretion by one of the cellular partners can modulate adhesive properties by cross-linking specific glycoconjugates present on stromal or hematopoietic cells, by favoring the formation of synapses or by creating glycoprotein lattices on the surface of different cell types. Their divergent specificities and affinities for various glycoproteins contribute to the multiplicity of their cellular interactions.
An integrated understander (1980)

A new type of natural language parser is presented. The idea behind this parser is to map input sentences into the deepest form of the representation of their meaning and inferences, as is appropriate. The parser is not distinct from an entire understanding system. It uses an integrated conception of inferences, scripts, plans, and other knowledge to aid in the parse. Furthermore, it does not attempt to parse everything it sees. Rather, it determines what is most interesting and concentrates on that, ignoring the rest.
Review of Microscale Magnetic Power Generation (2007)

This paper discusses the history, current state of the art, and ongoing challenges for compact (less than a few cubic centimeters) magnetic power generation systems in the microwatts to tens of watts power range. These systems are of great interest for powering sensor networks, robotics, wireless communication systems, and other portable electronics. The paper considers the following topics. 1) The theoretical and practical implications of miniaturizing magnetic power generators. 2) The design and performance of previously demonstrated devices, which are summarized and compared. 3) Ongoing challenges for implementation, including integrated high-performance hard magnetic materials, microscale core laminations, low-friction bearings, high-speed rotor dynamics, and compact, high-efficiency power converters.
Antioxidant and Antimicrobial Properties of the Essential Oil and Extracts of Zanthoxylum alatum Grown in North‐Western Himalaya (2013)

The essential oil obtained from the fresh leaves of Zanthoxylum alatum was analysed by gas chromatography/mass spectrometry (GC/MS). Fourteen components were identified, and linalool (30.58%), 2-decanone (20.85%), β -fenchol (9.43%), 2-tridecanone (8.86%), β -phellandrene (5.99%), Sabinene (4.82%), and α -pinene (4.11%) were the main components. The EO and methanolic extract of Z. alatum exhibited potent antifungal activity against Alternaria alternata, Alternaria brassicae, and Curvularia lunata. The EO also showed significant antibacterial activity against Bacillus subtilis, Micrococcus luteus, Staphylococcus aureus, and Escherichia coli. Further, antimicrobial constituents of the EO were isolated by bioautography and preparative thin layer chromatography (PTLC) and identified as β -fenchol and linalool using GC/MS analysis. In addition to this, the free radical scavenging activity and antioxidant potential of EO and methanolic extract/fractions of Z. alatum were also investigated using in vitro assays including scavenging ability against DPPH(•), reducing power and chelating ability on Fe(2+) ions. Our results demonstrate that Z. alatum could be used as a resource of antioxidant and antimicrobial compounds which may find applications in food and pesticide industries.