gebhart/patrepeval huggingface dataset:
Temperate phages TP901-1 and ÏLC3, belonging to the P335 species, apparently use different pathways for DNA injection in<i>Lactococcus lactis</i>subsp.<i>cremoris</i>3107 (2007)

Five mutants of Lactococcus lactis subsp. cremoris 3107 resistant to phage TP901-1 were obtained after treatment with ethyl methanesulfonate. Two of the mutants were also resistant to phage phiLC3. The remaining three mutants were as sensitive as 3107. Mutants E46 and E100 did not adsorb the two phages. Mutants E119, E121 and E126 adsorbed phage phiLC3 as well as 3107 but phage TP901-1 with significantly reduced efficiency. All, except E46, could be lysogenized with phage TP901-BC1034, a derivative of TP901-1 harboring an erythromycin-resistance marker. However, the lysogenization frequency was 10(3)-10(4) fold higher for 3107 than for the mutants. Mitomycin C induction of lysogenized mutants 3107 indicated that phage propagation was not affected in these four mutants. Electron microscopy and analysis of total DNA of infected cells showed that DNA was liberated from the phage particle during infection of strain 3107 with TP901-1 and that intracellular phage DNA replication occurred. This was not the case for mutants E121 and E126. This strongly suggests that some step starting with triggering DNA release and ending with DNA injection is impaired during infection with TP901-1. As such impairment was not seen when infecting E119, E121 and E126 with phiLC3, we conclude that TP901-1 and phiLC3 either are differently triggered by their receptor or utilize different pathways of injection.
Increased Gas Production from Hydrates by Combining Depressurization with Heating of the Wellbore (2012)

To extract gas from hydrate reservoirs, it has to be dissociated in situ. This endothermic dissociation process absorbs heat energy from the formation and pore fluid. The heat transfer governs the dissociation rate, which is proportional to the difference between the actual temperature and the equilibrium temperature. This study compares three potential gas production schemes from hydrate-bearing soil, where the radial heat transfer is governing. Cylindrical samples with 40% pore-filling hydrate saturation were tested. The production tests were carried out over 90 min by dissociating the hydrate from a centered miniature wellbore, by either lowering the pressure to 6, 4, or 6 MPa with simultaneous heating of the wellbore to 288 K. All tests were replicated by a numerical simulation. With additional heating at the same wellbore pressure, the gas production from hydrates could, on average, be increased by 1.8 and 3.6 times in the simulation and experiments, respectively. If the heat influx from the outer boundary is limited, a simulation showed that the specific heat of the formation is rapidly used up when the wellbore is only depressurized and not heated.
Causal fracture prediction: Curvature, stress, and geomechanics (2011)

We propose scaling volume curvature measurements with material property estimates to produce a superior prediction of natural fractures. Curvature is one of many, indirect, fracture-inferring attributes. It does not detect fractures, but is causally related to them through the assumption that increasing curvature relates to increasing strain. There are many other variables that are causally related to fractures. We propose that it would be advantageous to create combinations of these causal variables with curvature. Some of the most well known and important causes of variations in natural fracture density are material properties relating to brittleness. Material properties are critical geologically at all scales, from large-scale regional studies to prospect-level inquiries because the properties may vary significantly within individual formations and between formations. These vertical and lateral changes in material properties may be important and should be considered in fracture estimation, along with curvature. There is a lack of clarity regarding exactly which material property is best from the perspective of physics and rock mechanics; however, we have chosen a combination of parameters that we argue is a starting point. Fortunately, material properties are routinely estimated with amplitude variation with offset (AVO) techniques, and there is little practical reason not to use them together with curvature to produce a more complete attribute inferring fracture density. The combination of these variables is a step in the direction of creating quantitative causal fracture prediction estimates.
<scp>F</scp>our‐dimensional computed tomography (<scp>4DCT</scp>): A review of the current status and applications (2015)

The applications of conventional computed tomography (CT) have been widely researched and implemented in clinical practice. A recent technological innovation in the field of CT is the emergence of four-dimensional computed tomography (4DCT), where a three-dimensional computed tomography volume containing a moving structure is imaged over a period of time, creating a dynamic volume data set. 4DCT has previously been mainly utilised in the setting of radiation therapy planning, but with the development of wide field of view CT, 4DCT has opened major avenues in the diagnostic arena. The aim of this study is to provide a comprehensive narrative review of the literature regarding the current clinical applications of 4DCT. The applications reviewed include both routine diagnostic usage as well as an appraisal of the current research literature. A systematic review of the studies related to 4DCT was conducted. The Medline database was searched using the MeSH subject heading 'Four-Dimensional Computed Tomography'. After excluding non-human and non-English papers, 2598 articles were found. Further exclusion criteria were applied, including date range (since wide field of view CT was introduced in 2007), and exclusion of technical/engineering/physics papers. Further filtration of papers included identification of Review papers. This process yielded 67 papers. Of these, exclusion of papers not specifically discussing 4DCT (cone beam, 4D models) yielded 38 papers. As part of the review, the technique for 4DCT is described, with perspectives as to how it has evolved and its benefits in different clinical indications.
Effect of Age of Infusion Site and Type of Rapid-Acting Analog on Pharmacodynamic Parameters of Insulin Boluses in Youth With Type 1 Diabetes Receiving Insulin Pump Therapy (2008)

With both insulin aspart and lispro, there is an earlier peak and shorter duration of action with increasing duration of infusion site use, but overall insulin action is not affected.
Maternal licking regulates hippocampal glucocorticoid receptor transcription through a thyroid hormone–serotonin–NGFI-A signalling cascade (2012)

Variations in parental care direct phenotypic development across many species. Variations in maternal pup licking/grooming (LG) in the rat regulate the development of individual differences in hypothalamic-pituitary-adrenal responses to stress. The adult offspring of mothers that show an increased frequency of pup LG have increased hippocampal glucocorticoid receptor (GR) expression and more modest pituitary-adrenal responses to stress. This parental effect is mediated by the epigenetic programming of a GR exon 1 promoter (exon 1(7)) through the binding of the transcription factor nerve growth factor-inducible factor A (NGFI-A). In this paper, we report that: (i) the association of NGFI-A with the exon 1(7) GR promoter is dynamically regulated by mother-pup interactions; (ii) this effect is mimicked by artificial tactile stimulation comparable to that provided by pup LG; (iii) that serotonin (5-HT) induces an NGFI-A-dependent increase in GR transcription in hippocampal neurons and NGFI-A overexpression is sufficient for this effect; and (iv) that thyroid hormones and 5-HT are key mediators of the effects of pup LG and tactile stimulation on NGFI-A binding to the exon 1(7) GR promoter in hippocampus. These findings suggest that pup LG directly activates 5-HT systems to initiate intracellular signalling pathways in the hippocampus that regulate GR transcription.
Antibacterial activity of different solvent extracts of Albizia amara (2014)

Albizia amara (Family:Fabaceae) is a plant of Ayurvedic, traditional and ethno medicinal importance as indigenous tribes used different parts of the plant for medicine. The aim of the present study was to evaluate the antibacterial activity of various solvent extracts of A. amara. The antibacterial activity of different solvent extracts of A. amara were tested against the Gram-positive and Gram-negative bacterial strains by observing the zone of inhibition. The organisms used in the test were Staphylococcus aureus,S almonella typhi, Pseudomonas auriginosa, Escherichia coli, Bacillus subtilus, Pseudomonas aeruginosa, and Klebsiellea pneumonia. It was observed that petroleum ether, dichloromethane and methanol extract showed activity against Gram-positive and Gram-negative bacteria. The bark dichloromethane extract of A. amara bark showed more activity against Gram-positive and Gram-negative bacteria when compared to other solvent extracts and other different parts of the plant. The results are summarized in the table.
Peroxynitrite-mediated modification of proteins at physiological carbon dioxide concentration: pH dependence of carbonyl formation, tyrosine nitration, and methionine oxidation (1999)

The ability of peroxynitrite to modify amino acid residues in glutamine synthetase (GS) and BSA is greatly influenced by pH and CO2. At physiological concentrations of CO2 (1.3 mM), the generation of carbonyl groups (0.2-0.4 equivalents/subunit) is little affected by pH over the range of 7.2-9.0, but, in the absence of CO2, carbonyl formation increases (from 0.1- 1.2 equivalents/subunit) as the pH is raised from 7.2 to 10.5. This increase is attributable, in part but not entirely, to the increase in peroxynitrite (PN) stability with increasing pH. Of several amino acid polymers tested, only those containing lysine residues yielded carbonyl derivatives. In contrast, the nitration of tyrosine residues of both GS and BSA at pH 7.5 almost completely depends on the presence of CO2. However, the pH profiles of tyrosine nitration in GS and BSA are not the same. With both proteins, nitration decreases approximately 65% with increasing pH over the range of 7.2-8.4, but, then in the case of GS only, there is a 3.4-fold increase in the level of nitration over the range pH 8.4-8.8. The oxidation of methionine residues in both proteins and in the tripeptide Ala-Met-Ala was inhibited by CO2 at both high and low pH values. These results emphasize the importance of controlling the pH and CO2 concentrations in studies involving PN and indicate that PN is not likely to contribute appreciably to carbonyl formation or oxidation of methionine residues of proteins at physiological pH and CO2 concentrations.
CMOS-Compatible Self-Aligned In<sub>0.53</sub>Ga<sub>0.47</sub>As MOSFETs With Gate Lengths Down to 30 nm (2014)

We demonstrate self-aligned fully-depleted 20-nm-thick In <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.53</sub> Ga <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0.47</sub> As-channel MOSFETs using CMOS-compatible device structures and manufacturable process flows. These devices consist of self-aligned source/drain extensions and self-aligned raised source/drain with low sheet resistance of 360 and 115 Ω/sq, respectively. We demonstrate short-channel MOSFETs with gate lengths L <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</sub> down to 30 nm, low series resistance R <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">EXT</sub> = 375 Ω·μm, and high peak saturation transconductance G <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">MSAT</sub> = 1275 μS/μm at L <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</sub> = 50 nm and drain bias V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">DS</sub> = 0.5 V. We obtain long-channel capacitive inversion thickness TINV = 2.3 nm and effective mobility μ <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">EFF</sub> = 650 cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> /Vs at sheet carrier density N <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">S</sub> = 5 × 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">12</sup> cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-2</sup> . Finally, using a calibrated quasi-ballistic FET model, we argue that for L <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</sub> ≤ 20 nm, μ <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">EFF</sub> ≈ 1000 cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> /Vs will lead to short-channel MOSFETs operating within 10% of the ballistic limit. Thus, our III-V processes and device structures are well-suited for future generations of high-performance CMOS applications at short gate lengths and tight gate pitches.
Gene Expression and Metabolite Profiling of Developing Highbush Blueberry Fruit Indicates Transcriptional Regulation of Flavonoid Metabolism and Activation of Abscisic Acid Metabolism     (2011)

Highbush blueberry (Vaccinium corymbosum) fruits contain substantial quantities of flavonoids, which are implicated in a wide range of health benefits. Although the flavonoid constituents of ripe blueberries are known, the molecular genetics underlying their biosynthesis, localization, and changes that occur during development have not been investigated. Two expressed sequence tag libraries from ripening blueberry fruit were constructed as a resource for gene identification and quantitative real-time reverse transcription-polymerase chain reaction primer design. Gene expression profiling by quantitative real-time reverse transcription-polymerase chain reaction showed that flavonoid biosynthetic transcript abundance followed a tightly regulated biphasic pattern, and transcript profiles were consistent with the abundance of the three major classes of flavonoids. Proanthocyanidins (PAs) and corresponding biosynthetic transcripts encoding anthocyanidin reductase and leucoanthocyanidin reductase were most concentrated in young fruit and localized predominantly to the inner fruit tissue containing the seeds and placentae. Mean PA polymer length was seven to 8.5 subunits, linked predominantly via B-type linkages, and was relatively constant throughout development. Flavonol accumulation and localization patterns were similar to those of the PAs, and the B-ring hydroxylation pattern of both was correlated with flavonoid-3'-hydroxylase transcript abundance. By contrast, anthocyanins accumulated late in maturation, which coincided with a peak in flavonoid-3-O-glycosyltransferase and flavonoid-3'5'-hydroxylase transcripts. Transcripts of VcMYBPA1, which likely encodes an R2R3-MYB transcriptional regulator of PA synthesis, were prominent in both phases of development. Furthermore, the initiation of ripening was accompanied by a substantial rise in abscisic acid, a growth regulator that may be an important component of the ripening process and contribute to the regulation of blueberry flavonoid biosynthesis.
2-Methyltetrahydrofuran as a suitable green solvent for phthalimide functionalization promoted by supported KF (2010)

An efficient chemoselective nitrogen functionalization of phthalimides by using KF-Alumina in 2-methyltetrahydrofuran, a solvent obtained from renewal sources, is described.
Race/Ethnicity and Neighborhood Characteristics Are Associated With Bystander Cardiopulmonary Resuscitation in Pediatric Out‐of‐Hospital Cardiac Arrest in the United States: A Study From CARES (2019)

Background Whether racial and neighborhood characteristics are associated with bystander cardiopulmonary resuscitation ( BCPR ) in pediatric out-of-hospital cardiac arrest ( OHCA ) is unknown. Methods and Results An analysis was conducted of CARES (Cardiac Arrest Registry to Enhance Survival) for pediatric nontraumatic OHCA s from 2013 to 2017. An index (range, 0-4) was created for each arrest based on neighborhood characteristics associated with low BCPR (>80% black; >10% unemployment; <80% high school; median income, <$50 000). The primary outcome was BCPR . BCPR occurred in 3399 of 7086 OHCA s (48%). Compared with white children, BCPR was less likely in other races/ethnicities (black: adjusted odds ratio [ aOR ], 0.59; 95% CI , 0.52-0.68; Hispanic: aOR , 0.78; 95% CI , 0.66-0.94; and other: aOR , 0.54; 95% CI , 0.40-0.72). Compared with arrests in neighborhoods with an index score of 0, BCPR occurred less commonly for arrests with an index score of 1 ( aOR , 0.80; 95% CI , 0.70-0.91), 2 ( aOR , 0.75; 95% CI , 0.65-0.86), 3 ( aOR , 0.52; 95% CI , 0.45-0.61), and 4 ( aOR , 0.46; 95% CI , 0.36-0.59). Black children had an incrementally lower likelihood of BCPR with increasing index score while white children had an overall similar likelihood at most scores. Black children with an index of 4 were approximately half as likely to receive BCPR compared with white children with a score of 0. Conclusions Racial and neighborhood characteristics are associated with BCPR in pediatric OHCA . Targeted CPR training for nonwhite, low-education, and low-income neighborhoods may increase BCPR and improve pediatric OHCA outcomes.
A Unified Framework for Individualized Avatar-Based Interactions (2014)

This paper presents a framework to interactively control avatars in remote environments. The system, called AMITIES, serves as the central component that connects people controlling avatars (inhabiters), various manifestations of these avatars (surrogates), and people interacting with these avatars (participants). A multiserver–client architecture, based on a low-demand network protocol, connects the participant environment(s), the inhabiter station(s), and the avatars. A human-in-the-loop metaphor provides an interface for remote operation, with support for multiple inhabiters, multiple avatars, and multiple participants. Custom animation blending routines and a gesture-based interface provide inhabiters with an intuitive avatar control paradigm. This gesture control is enhanced by genres of program-controlled behaviors that can be triggered by events or inhabiter choices for individual or groups of avatars. This mixed (agency and gesture-based) control paradigm reduces the cognitive and physical loads on the inhabiter while supporting natural bidirectional conversation between participants and the virtual characters or avatar counterparts, including ones with physical manifestations, for example, robotic surrogates. The associated system affords the delivery of personalized experiences that adapt to the actions and interactions of individual users, while staying true to each virtual character's personality and backstory. In addition to its avatar control paradigm, AMITIES provides processes for character and scenario development, testing, and refinement. It also has integrated capabilities for session recording and event tagging, along with automated tools for reflection and after-action review. We demonstrate effectiveness by describing an instantiation of AMITIES, called TeachLivE, that is widely used by colleges of education to prepare new teachers and provide continuing professional development to existing teachers. Finally, we show the system's flexibility by describing a number of other diverse applications, and presenting plans to enhance capabilities and application areas.
Cytochromes P450. Structure, Function, and Mechanism By David F. Lewis. Taylor & Francis, London and Bristol, PA. 1996. xxi + 348 pp. 17.5 × 25 cm. ISBN 0-7484-0443-0. $150.00. (1997)

ADVERTISEMENT RETURN TO ISSUEPREVBook ReviewNEXTCytochromes P450. Structure, Function, and Mechanism By David F. Lewis. Taylor & Francis, London and Bristol, PA. 1996. xxi + 348 pp. 17.5 × 25 cm. ISBN 0-7484-0443-0. $150.00.James R. HalpertView Author Information College of Pharmacy University of Arizona Tucson, Arizona 85721Cite this: J. Med. Chem. 1997, 40, 25, 4163Publication Date (Web):December 5, 1997Publication History Published online5 December 1997Published inissue 1 December 1997https://pubs.acs.org/doi/10.1021/jm970605ehttps://doi.org/10.1021/jm970605ebook-reviewACS PublicationsCopyright © 1997 American Chemical SocietyRequest reuse permissionsArticle Views237Altmetric-Citations-LEARN 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 Get e-Alertsclose SUBJECTS:Chemical structure,Extended X-ray absorption fine structure,Mechanisms of action,Molecular modeling,Peptides and proteins Get e-Alerts
Cysteinyl-leukotriene receptor antagonist montelukast decreases blood–brain barrier permeability but does not prevent oedema formation in traumatic brain injury (2009)

The present study suggests that montelukast may have beneficial effects against TBI-induced oxidative stress of the brain.