gebhart/patrepeval huggingface dataset:
Arsinothricin, a novel organoarsenic species produced by a rice rhizosphere bacterium (2016)

Environmental context Rice is a major human dietary source of arsenic. We identified a novel organoarsenic species, arsinothricin, produced by a bacterium in the rice rhizosphere. This result suggests diverse biochemical dynamics and microbial biodiversity of arsenic metabolism in the rice rhizosphere. Abstract Methylated arsenic compounds in rice grains originate from the action of soil bacteria in the rice rhizosphere. Here, we investigated the chemical structures of arsenic compounds produced by a bacterium, Burkholderia gladioli strain GSRB05, in the rice rhizosphere. When cultured in liquid R2A medium containing arsenite (AsIII), strain GSRB05 produced two unknown novel arsenic compounds that were later identified as arsinothricin (AST, 2-amino-4-(hydroxymethylarsinoyl)butanoic acid), an arsenic mimetic of the herbicide phosphinothricin, and a probable hydroxyl precursor of AST, termed AST-OH (2-amino-4-(dihydroxyarsonoyl)butanoic acid). The chemical structure of AST was determined by means of liquid chromatography–high-resolution tandem mass spectrometry and NMR analyses, whereas that of AST-OH was estimated by means of ultra-high-performance liquid chromatography–tandem mass spectrometry. Time-dependent AsIII transformation by strain GSRB05 showed that AST was produced after AST-OH. Compared with AsIII, AST showed higher absorption by, and was more toxic to, Escherichia coli DH5a cells in M9 minimal medium, which lacks amino acids. These findings have implications for the environmental transfer of arsenic, and human health consequences in terms of our dietary burden of arsenic.
Privacy in Location-Based Services: State-of-the-Art and Research Directions (2007)

The explosive growth of location-detection devices (e.g., GPS-like devices and handheld devices) along with wireless communications and mobile databases results in realizing location-based applications that deliver specific information to their users based on their current locations. Examples of such applications include location-based store finder, location-based traffic reports, and location-based advertisements. Although location-based services promise safety and convenience, they threaten the privacy and security of users as such services explicitly require users to share private location information with the service. If a user wants to keep her location information private, she has to turn off her location-aware device and temporarily unsubscribe from the service. Recent studies show that such privacy concerns - ranging from worries over employers snooping on their workers' whereabouts to fears of tracking by potential stalkers - are a serious obstacle to wider adoption of location-based services. This article aims to provide practitioners, researchers, and graduate students with the state of the art and major research issues in the important and practical research area of location privacy. In general, the tutorial is divided into the following five parts: (1) legislative issues and privacy concerns, (2) location privacy in mobile environments, (3) privacy attack models, (4) privacy-aware location query processing; (5) concluding remarks.
Use of the Advia 120 hematology analyzer in the differential cytologic analysis of biological fluids (cerebrospinal, peritoneal, pleural, pericardial, synovial, and others). (2003)

The centralization of our laboratories and the demand for new parameters to measure have led to an increase in the number of biological fluid samples, which are generally sent for urgent analysis. Due to this they cannot be processed by manual methods. Meeting this increased demand for assistance is a challenge for the laboratory, and the challenge has been met by the automated hematology area. A study of the reliability of the Advia 120 hematology analyzer has been carried out through leukocyte and red blood cell counting of 179 biological fluids: cerebrospinal, peritoneal or ascitic, pleural, pericardial, synovial, and others. The automated leukocyte counts of cerebrospinal fluid samples containing up to 0.150 x 10(9) leukocytes/L are correlated with counts obtained with the manual reference method in a Neubauer counting chamber (r = 0.958; P = .0001). Applying Passing-Bablok regression analysis to these results indicates a slope p of 1.155 (95% confidence interval [CI], 0.915-1.347) and an ordinate intercept b of 0.0076 (95% CI, 0.012-0.034), showing the results to be perfectly interchangeable. In the comparison of the manual analysis of the leukocyte differential using the May-Grünwald-Giemsa staining method with the analysis using the automated method, the percentage of polymorphonuclear granulocytes of the Advia 120 basophil/lobularity method is significantly correlated (r = 0.844; P = .0001) with that obtained with the manual count. The results of Passing-Bablok regression analysis (p = 0.859 [95% CI, 0.58-1.190]; b = 8.8 [95% CI, -12.09-24.2]) indicate that these two counting methods are also perfectly interchangeable. Automated leukocyte and differential counts of peritoneal or ascitic fluids also show good correlations with the manual method, and the results are not statistically different. Pretreating synovial fluid samples with hyaluronidase enzyme allows their processing on the Advia 120; no significant differences were found between manual and automated methods with respect to leukocyte counts and differentials. Finally, results with pleural fluid samples indicated that leukocyte and differential counts obtained with the Advia 120 showed significant differences from results obtained with manual methods because of the high incidence of mesothelial, lymphoid, and other tumoral cells in this kind of fluid sample. This result shows that use of hematology analyzers is questionable for these kinds of samples, especially from oncology patients with tumors. A procedure is proposed for the processing of these pleural fluids.
Fuzzy Numbers in Cost Range Estimating (2007)

Range estimating is a simple form of simulating a project estimate by breaking the project into work packages and approximating the variables in each package using statistical distributions. This paper explores an alternate approach to range estimating that is grounded in fuzzy set theory. The approach addresses two shortcomings of Monte Carlo simulation. The first is related to the analytical difficulty associated with fitting statistical distributions to subjective data, and the second relates to the required number of simulation runs to establish a meaningful estimate of a given parameter at the end of the simulation. For applications in cost estimating, the paper demonstrates that comparable results to Monte Carlo simulation can be achieved using the fuzzy set theory approach. It presents a methodology for extracting fuzzy numbers from experts and processing the information in fuzzy range estimating analysis. It is of relevance to industry and practitioners as it provides an approach to range estimating that more closely resembles the way in which experts express themselves, making it practically easy to apply an approach.
Refractory chronic migraine: a Consensus Statement on clinical definition from the European Headache Federation (2014)

The debate on the clinical definition of refractory Chronic Migraine (rCM) is still far to be concluded. The importance to create a clinical framing of these rCM patients resides in the complete disability they show, in the high risk of serious adverse events from acute and preventative drugs and in the uncontrolled application of therapeutic techniques not yet validated.The European Headache Federation Expert Group on rCM presents hereby the updated definition criteria for this harmful subset of headache disorders. This attempt wants to be the first impulse towards the correct identification of these patients, the correct application of innovative therapeutic techniques and lastly aim to be acknowledged as clinical entity in the next definitive version of the International Classification of Headache Disorders 3 (ICHD-3 beta).
Strigolactone regulates shoot development through a core signalling pathway (2016)

Strigolactones are a recently identified class of hormone that regulate multiple aspects of plant development. The DWARF14 (D14) α/β fold protein has been identified as a strigolactone receptor, which can act through the SCF<sup>MAX2</sup> ubiquitin ligase, but the universality of this mechanism is not clear. Multiple proteins have been suggested as targets for strigolactone signalling, including both direct proteolytic targets of SCF<sup>MAX2</sup>, and downstream targets. However, the relevance and importance of these proteins to strigolactone signalling in many cases has not been fully established. Here we assess the contribution of these targets to strigolactone signalling in adult shoot developmental responses. We find that all examined strigolactone responses are regulated by SCF<sup>MAX2</sup> and D14, and not by other D14-like proteins. We further show that all examined strigolactone responses likely depend on degradation of SMXL proteins in the SMXL6 clade, and not on the other proposed proteolytic targets BES1 or DELLAs. Taken together, our results suggest that in the adult shoot, the dominant mode of strigolactone signalling is D14-initiated, MAX2-mediated degradation of SMXL6-related proteins. We confirm that the BRANCHED1 transcription factor and the PIN-FORMED1 auxin efflux carrier are plausible downstream targets of this pathway in the regulation of shoot branching, and show that BRC1 likely acts in parallel to PIN1.
Pearl: A Probabilistic Chart Parser (1994)

This paper describes a natural language parsing algorithm for unrestricted text which uses a probability-based scoring function to select the "best" parse of a sentence. The parser, Pearl, is a time-asynchronous bottom-up chart parser with Earley-type top-down prediction which pursues the highest-scoring theory in the chart, where the score of a theory represents the extent to which the context of the sentence predicts that interpretation. This parser differs from previous attempts at stochastic parsers in that it uses a richer form of conditional probabilities based on context to predict likelihood. Pearl also provides a framework for incorporating the results of previous work in part-of-speech assignment, unknown word models, and other probabilistic models of linguistic features into one parsing tool, interleaving these techniques instead of using the traditional pipeline architecture. In preliminary tests, Pearl has been successful at resolving part-of-speech and word (in speech processing) ambiguity, determining categories for unknown words, and selecting correct parses first using a very loosely fitting covering grammar.
Equalization for infrared wireless systems using OOK-CDMA (2002)

We evaluate the performance of indoor infrared wireless systems using on-off keying code-division multiple-access (OOK-CDMA) systems with three kinds of equalizers: decision-feedback equalizer (DFE), decision-feedforward-and-feedback equalizer (DFFE), and feedforward equalizer (FE). To estimate the impulse response, we use the training sequence that alternates '1' and '0' sequentially. Among three kinds of equalizers, we show that the system with the DFFE can achieve the best performance at high bit rate. When the bit rate is low or the transmitted optical power is low, the system with the FE achieves the best performance.
[Interferons in the therapy of solid tumors]. (1995)

Belonging to the vast family of cytokines, interferons (IFN) have recently been widely investigated concerning their possible clinical applications, both in virology and oncology. In this field results have been quite mixed but definitely encouraging. The best achievements have been obtained in hematology, and particularly in the treatment of hairy cell leukemia and chronic myelogenous leukemia, but new perspectives have also opened in the therapy of solid tumors, especially in the local treatment of superficial bladder cancer and ovarian cancer, AIDS-related Kaposi's sarcoma and malignant melanoma. IFN have in certain cases showed an efficacy comparable to that of classic treatments but with lower toxicity, and in some tumors they have even improved the results obtained so far, especially in combined therapy. We have here gathered the most recent results concerning the use of IFN in the therapy of solid tumors in order to highlight the new therapeutic opportunities available to clinical oncology.
Field-induced resonant tunneling between parallel two-dimensional electron systems (1991)

Resonant tunneling between two high-mobility two-dimensional (2D) electron systems in a double quantum well structure has been induced by the action of an external Schottky gate field. Using one 2D electron gas as source and the other as drain, the tunnel conductance between them shows a strong resonance when the gate field aligns the ground subband edges of the two quantum wells.
Electrical Properties of Thick Epitaxial Silicon Films Deposited at High Rates and Low Temperatures by Mesoplasma Chemical Vapor Deposition (2007)

The deposition of homoepitaxial silicon thick films at a rate of ∼33 nm/s and a substrate temperature of 360 °C was achieved by mesoplasma chemical vapor deposition. The deposition rate increased linearly with silane partial pressure with no significant effect from the substrate temperature. An average Hall mobility of ∼270 cm2 V-1 s-1 was obtained irrespective of both the deposition rate and the substrate temperature. Epitaxy at such a high rate and low temperature under a precursor-transport-limited condition was thought to be due to the high transport rate of thermally activated atoms/clusters, together with high atomic hydrogen flux, which are unique characteristics of the mesoplasma condition.
Structured planning: deriving project views (1990)

Structured planning draws on the systems modelling approach of structured analysis and applies those ideas to project planning: the traditional elements of a project plan, the work breakdown structure and PERT diagram, are replaced by a levelled work Bow diagram and a deliverable dictionary. A technique for providing flexible summaries of the new project model, viewing,has been defined to assist with project tracking and control. This paper develops a formal definition of work flow diagrams and the technique of viewing in order to lay a theoretical foundation for structured planning, such that a complete set of operations to build and edit a levelled work flow diagram and deliverable dictionary can be specified and implemented in an automated project management tool.
Carbon-Based, Ultraelastic, Hierarchically Coated Fiber Strain Sensors with Crack-Controllable Beads (2019)

Fiber-based electronics or textronics are spotlighted as a promising strategy to develop stretchable and wearable devices for conformable machine-human interface and ubiquitous healthcare systems. We have prepared a highly sensitive fiber-type strain sensor (maximum gauge factor (GF) = 863) with a broad range of strain (ε < 400%) by introducing a single active layer onto the fiber. In contrast to other metal-based fiber-type electronics, our hierarchical fiber sensors are based on coating carbon-based nanomaterials with responsive microbeads onto elastic fibers. Utilizing the formation of uniform cracks around the microbeads, the device performance was maximized by adjusting the number of microbeads in the carbon-coating layer. We overcoated the carbon-based coating layer of the elastic fiber with a protective polymeric layer and verified no effects on the GF and the range of strain. Our fiber sensors were repeatedly tested more than 5000 times, exhibiting excellent cyclic responses to on/off switching behaviors. For practical applications, the hierarchical fiber sensors were sewed into electrical fabric bands, which are integrable to a wireless transmitter to monitor waveforms of pulsations, respirations, and various postures of level of bending a spinal cord.
Synthesis and pharmacological evaluation of 4a-phenanthrenamine derivatives acting at the phencyclidine binding site of the N-methyl-D-aspartate receptor complex (1993)

A novel series of octahydrophenanthrenamines and their heterocyclic analogues have been synthesized as potential noncompetitive antagonists of the N-methyl-D-aspartate (NMDA) receptor complex. The compounds were evaluated for their affinity at the phencyclidine (PCP) binding site by determining their ability to displace [3H]TCP from crude rat brain synaptic membranes. A wide range of affinities were observed, with the most potent analogs possessing IC50's equivalent to that of the reference agent MK-801 (3, dizocilpine). NMDA antagonist activity was demonstrated by prevention of glutamate-induced accumulation of [45Ca2+] in cultured rat cortical neurons. Selected compounds were also studied in vivo to determine their ability to prevent the lethal effects of systemically injected NMDA in the mouse. In general, the SAR of the phenanthrenamine series may be summarized as follows: (a) for the amino group at C4a, NHMe > NH2 > NHEt >> NC5H10; (b) for the B-ring substitution, X = CH2 > S > O; (c) unsaturation of the C ring decreases receptor affinity; (d) cis-ring fusion between the B and C rings is desirable; (e) 6-hydroxy or 6-methoxy substitution of the phenanthrenamine system identified an additional hydrogen bonding interaction that substantially increased receptor affinity; (f) spiro analogues (such as 55, IC50 = 3400 nM), which altered the point of attachment of the C ring, caused a substantial reduction in PCP-site affinity. Molecules from this series were useful for refining a pharmacophore model consistent with previous models of the PCP site. In this model, the (R)-(+)-phenanthrenamine 13 superimposes closely onto MK-801 (3), and the angular 4a-amino group is believed to hydrogen bond with a putative receptor site atom. In the phenanthrenamine and thiaphenanthrenamine series, the (R)-(+)-enantiomers (9, 13, and 44) are more potent by approximately 5-10-fold than their corresponding (S)-(-)-enantiomers with respect to their affinity for the PCP site, their ability to prevent accumulation of [45Ca2+] in cultured neuronal cells, and their protection against the lethal effects of NMDA in mice. In general, there was no separation between the dose that prevented NMDA lethality and the dose that produced ataxia in mice, except in the case of the thiaphenanthrenamines 41 and 43. We have not yet obtained evidence that this small separation in activity offers a therapeutic advantage in the treatment of cerebral ischemia or other neurodegenerative disorders.
SORN: a Self-organizing Recurrent Neural Network (2009)

Understanding the dynamics of recurrent neural networks is crucial for explaining how the brain processes information. In the neocortex, a range of different plasticity mechanisms are shaping recurrent networks into effective information processing circuits that learn appropriate representations for time-varying sensory stimuli. However, it has been difficult to mimic these abilities in artificial neural network models. Here we introduce SORN, a self-organizing recurrent network. It combines three distinct forms of local plasticity to learn spatio-temporal patterns in its input while maintaining its dynamics in a healthy regime suitable for learning. The SORN learns to encode information in the form of trajectories through its high-dimensional state space reminiscent of recent biological findings on cortical coding. All three forms of plasticity are shown to be essential for the network's success.
Rabbit models of arthritis: immunolocalization of matrix metalloproteinases and tissue inhibitor of metalloproteinase in synovium and cartilage. (1993)

The distribution of the matrix metalloproteinases, collagenase, stromelysin, gelatinases A and B, and the tissue inhibitor of metalloproteinases in cartilage and synovium removed from rabbits up to 27 days after induction of two models of arthritis was investigated by immunolocalization. Following intra-articular injection of poly-D-lysine/hyaluronic acid coacervate, collagenase and stromelysin were found bound to cartilage matrix, but there was little increase in chondrocyte synthesis of these enzymes. The synovium underwent a complex wound healing response involving invagination and encapsulation of the coacervate and inflammatory cell debris, during which all four metalloproteinases and tissue inhibitor of metalloproteinase could be immunolocalized. The second model, intra-articular injection of ovalbumin into sensitized rabbits, caused considerable chondrocyte necrosis; collagenase was found bound to cartilage matrix on day 13, although again there was little evidence of synthesis by chondrocytes. Inflammatory cell infiltration of meniscoid synovia took place initially, followed by fibrosis involving macrophagelike cells secreting gelatinase A. In both models there was rapid loss of glycosaminoglycan metachromasia from the cartilage matrix. These results are discussed in relation to current knowledge of metalloproteinase involvement in the chronic rheumatoid synovial pannus erosion of cartilage in humans. The data suggest that there are considerable differences between rheumatoid arthritis and these models, and their use must therefore be carefully defined.
Variation through the Cell Cycle in the Dose-response of DNA Neutral Filter Elution in X-irradiated Synchronous CHO-cells (1988)

Dose-response curves for DNA neutral (pH 9.6) filter elution were obtained with synchronized CHO cells exposed to X-rays at various phases of the cell cycle. The dose response was similar in synchronized and plateau-phase G1 cells, as well as in cells that were arrested at the G1/S border using aphidicolin; it flattened as cells progressed into S phase and reached a minimum in the middle of this phase. An increase in DNA elution dose response, to values only slightly lower than those obtained with G1 cells, was observed as cells entered G2 phase. Significant alterations in the sedimentation properties of the DNA during S phase were also observed in Ehrlich ascites tumor cells using the neutral sucrose gradient centrifugation technique. A significant proportion of the DNA from S cells irradiated with 10 Gy sedimented at speeds (350S-700S) well above the maximum sedimentation speed expected for free sedimenting DNA molecules (Smax = 350S), indicating the formation of a DNA complex. DNA from G1, G1/S, or G2 + M cells sedimented as expected for free sedimenting molecules. These results indicate significant alterations in the physicochemical properties of the DNA--probably caused by DNA replication-associated alterations in DNA structure and chromatin conformation--as cells enter S phase, and are invoked to explain the observed variation in DNA elution dose response throughout the cycle. It is proposed that the formation of a complex DNA structure, resistant to the proteolytic enzymes and detergents used, affected the elution characteristics of the DNA and gave rise to the observed curvilinear DNA elution dose-response curves, as well as to the fluctuations in elution characteristics observed throughout the cell cycle.