gebhart/patrepeval huggingface dataset:
Sequence dependence of DNA conformational flexibility (1989)

By using conformational free energy calculations, we have studied the sequence dependence of flexibility and its anisotropy along various conformational variables of DNA base pairs. The results show the AT base step to be very flexible along the twist coordinate. On the other hand, homonucleotide steps, GG(CC) and AA(TT), are among the most rigid sequences. For the roll motion that would correspond to a bend, the TA step is most flexible, while the GG(CC) step is least flexible. The flexibility of roll is quite anisotropic; the ratio of fluctuations toward the major and minor grooves is the largest for the GC step and the smallest for the AA(TT) and CG steps. Propeller twisting of base pairs is quite flexible, especially of A.T base pairs; propeller twist can reach 19 degrees by thermal fluctuation. We discuss the effect of electrostatic parameters, comparison with available experimental results, and biological relevance of these results.
Cation sensitivity of inositol 1,4,5-trisphosphate production and metabolism in agonist-stimulated adrenal glomerulosa cells. (1994)

Angiotensin II (AII) evokes a biphasic increase in inositol 1,4,5-trisphosphate (Ins(1,4,5)P3) levels in adrenal glomerulosa cells, with an extracellular Ca(2+)-independent early peak followed by a secondary sustained elevation that is highly dependent on the presence of extracellular Ca2+. The Ca(2+)-dependent sustained phase of agonist-induced Ins(1,4,5)P3 production was closely correlated with Ca2+ influx and was inhibited by inorganic Ca2+ channel blockers with the potency ratio: La3+ >> Cd2+ > Mn2+ > Co2+ > Ni2+. Of the two Ca2+ surrogates, Sr2+ and Ba2+, Sr2+ was partially active compared with Ca2+, and Ba2+ was inactive in restoring Ins(1,4,5)P3 formation in cells stimulated with AII in Ca(2+)-free medium. However, unlike Ca2+, Sr2+ only weakly supported and Ba2+ failed to affect the calmodulin-activation of Ins(1,4,5)P3 3-kinase. Also, there was an accumulation of Ins(1,4,5)P3 and diminished formation of Ins(1,3,4,5)P4 and Ins(1,3,4)P3 when intact glomerulosa cells were stimulated by AII in the presence of Sr2+. This difference between the Sr2+ sensitivity of phospholipase C and Ins(1,4,5)P3 3-kinase provides a means for the potentiation of agonist-induced elevations of Ins(1,4,5)P3 in the intact cell and for direct analysis of the role of the inositol tris-/tetrakisphosphate pathway in cellular signaling.
Cost effective dynamic program slicing (2004)

Although dynamic program slicing was first introduced to aid in user level debugging, applications aimed at improving software quality, reliability, security, and performance have since been identified as candidates for using dynamic slicing. However, the dynamic dependence graph constructed to compute dynamic slices can easily cause slicing algorithms to run out of memory for realistic program runs. In this paper we present the design and evaluation of a cost effective dynamic program slicing algorithm. This algorithm is based upon a dynamic dependence graph representation that is highly compact and rapidly traversable. Thus, the graph can be held in memory and dynamic slices can be quickly computed. A compact representation is derived by recognizing that all dynamic dependences (data and control) need not be individually represented. We identify sets of dynamic dependence edges between a pair of statements that can share a single representative edge. We further show that the dependence graph can be transformed in a manner that increases sharing and sharing can be performed even in the presence of aliasing. Experiments show that transformed dynamic dependence graphs explicitly represent only 6% of the dependence edges present in the full dynamic dependence graph. When the full graph sizes range from 0.84 to 1.95 Gigabytes in size, our compacted graphs range from 20 to 210 Megabytes in size. Average slicing times for our algorithm range from 1.74 to 36.25 seconds across several benchmarks from SPECInt2000/95.
Aspartate Residue 142 Is Important for Catalysis by ADP-glucose Pyrophosphorylase from Escherichia coli (2001)

Structural prediction of several bacterial and plant ADP-glucose pyrophosphorylases, as well as of other sugar-nucleotide pyrophosphorylases, was used for comparison with the three-dimensional structures of two crystallized pyrophosphorylases (Brown, K., Pompeo, F., Dixon, S., Mengin-Lecreulx, D., Cambillau, C., and Bourne, Y. (1999) EMBO J. 18, 4096-4107; Blankenfeldt, W., Asuncion, M., Lam, J. S., and Naismith, J. H. (2000) EMBO J. 19, 6652-6663). This comparison led to the discovery of highly conserved residues throughout the superfamily of pyrophosphorylases despite the low overall homology. One of those residues, Asp(142) in the ADP-glucose pyrophosphorylase from Escherichia coli, was predicted to be near the substrate site. To elucidate the function that Asp(142) might play in the E. coli ADP-glucose pyrophosphorylase, aspartate was replaced by alanine, asparagine, or glutamate using site-directed mutagenesis. Kinetic analysis in the direction of synthesis or pyrophosphorolysis of the purified mutants showed a decrease in specific activity of up to 4 orders of magnitude. Comparison of other kinetic parameters, i.e. the apparent affinities for substrates and allosteric effectors, showed no significant changes, excluding this residue from the specific role of ligand binding. Only the D142E mutant exhibited altered K(m) values but none as pronounced as the decrease in specific activity. These results show that residue Asp(142) is important in the catalysis of the ADP-glucose pyrophosphorylase from E. coli.
Prognostic Significance of Carcinoembryonic Antigen in Colorectal Carcinoma (1991)

The use of carcinoembryonic antigen was evaluated in 425 patients with a mean follow-up of 48 months. The preoperative and postoperative carcinoembryonic antigen levels were predictive of recurrence and survival independent of the tumor stage. In a multivariate regression analysis of age, location, tumor stage, and preoperative and postoperative carcinoembryonic antigen levels, the latter three factors were significant prognostic variables with respect to the adjusted survival. Recurrent disease was found in 42% of patients, excluding patients with stage IV disease. The carcinoembryonic antigen level at recurrence was greater than 5 ng/mL in 79% of the patients and in 89% of the intra-abdominal recurrences. Carcinoembryonic antigen level at recurrence was not predictive of postrecurrence survival except in the subgroup of locoregional disease. The life span in patients with liver and lung metastases was not influenced by carcinoembryonic antigen level at recurrence. Preoperative and postoperative carcinoembryonic antigen levels can indicate a poorer prognostic group of patients with colorectal cancer who may benefit from adjuvant treatment. The carcinoembryonic antigen at recurrence can be used effectively to diagnose intra-abdominal recurrences and project survival after development of local/regional disease.
Optimization Algorithms on Matrix Manifolds (2008)

Many problems in the sciences and engineering can be rephrased as optimization problems on matrix search spaces endowed with a so-called manifold structure. This book shows how to exploit the special structure of such problems to develop efficient numerical algorithms. It places careful emphasis on both the numerical formulation of the algorithm and its differential geometric abstraction--illustrating how good algorithms draw equally from the insights of differential geometry, optimization, and numerical analysis. Two more theoretical chapters provide readers with the background in differential geometry necessary to algorithmic development. In the other chapters, several well-known optimization methods such as steepest descent and conjugate gradients are generalized to abstract manifolds. The book provides a generic development of each of these methods, building upon the material of the geometric chapters. It then guides readers through the calculations that turn these geometrically formulated methods into concrete numerical algorithms. The state-of-the-art algorithms given as examples are competitive with the best existing algorithms for a selection of eigenspace problems in numerical linear algebra. Optimization Algorithms on Matrix Manifolds offers techniques with broad applications in linear algebra, signal processing, data mining, computer vision, and statistical analysis. It can serve as a graduate-level textbook and will be of interest to applied mathematicians, engineers, and computer scientists.
A multi-level diagnosis methodology for complex systems (2003)

A multi-level approach is discussed for robust diagnosis of complex continuous-valued engineering systems. The focus of the research was on component-oriented diagnosis. The diagnosis system consists of two modules: an associational module, based on heuristic knowledge gained from manuals and expert mechanics, which generates partial decision trees for mechanics to study and conduct further tests, and a model-based diagnosis module that incorporates schematic, functional, and behavioral knowledge for fault isolation and measurement selection. The architecture of the diagnosis system is presented. A key component of this system is the global controller that coordinates the activities between the two diagnostic modules. A successful prototype for diagnosing problems in the pneumatic system of a DC-10 aircraft has been implemented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Oncolytic herpes simplex virus and immunotherapy (2018)

We reviewed the immunotherapy mechanism of the oHSV and provided a series of cases. We also pointed out that an in-depth study of the application of oHSV in cancer treatment will potentially benefits cancer patients more.
Out-Diffusion and Precipitation of Copper in Silicon: An Electrostatic Model (2000)

Concentrations of mobile interstitial copper and precipitated copper in silicon were studied after a high temperature intentional contamination and quench to room temperature. It was found that below a critical contamination the copper predominantly diffuses out to the surface, while for higher initial copper concentrations it mainly precipitates in the bulk. The critical copper contamination equals the acceptor concentration plus 10(16) cm (-3). This behavior can be explained by the electrostatic interaction between the positively charged interstitial copper and the forming copper precipitates.
An Invasion-Biological Perspective of Taekwondo Globalization (2017)

Researchers have long been interested in the reasons why Taekwondo was globalized success-fully. The efforts of masters in the foreign lands, the role of organizations, the support of the Korean government, and Taekwondo`s sportization have all been suggested as reasons. These explanations are convincing but not enough to define the reasons because of their lack of discus-sion about the characteristics of Taekwondo itself. This study focused on identifying the cultural phenomenal characteristics of Taekwondo which have aided in the sport`s globalization. The pur-pose of this study was to identify the reasons for the successful globalization of Taekwondo from an invasion-biological perspective. Invasion biology was chosen as the theoretical resource. Suc-cessful invasive organisms have two characteristics: absence of natural enemies and a genetic factor with various information. These biological traits can be interpreted as cultural features of uniqueness and requisite diversity. Taekwondo is a unique cultural phenomenon with exception-ally dynamic skills and a rich cultural diversity that can cope with environmental changes. Firstly, Taekwondo skills are fast and dynamic. The dynamics expressed in Taekwondo sparring are pro-moted through demonstration and competitions, including poomsae competitions. In addition, Taekwondo has the requisite diversity to meet demands from various environments. One of the main reasons why Taekwondo has the requisite diversity is its weak tradition. The cultural phe-nomenon which has a strong tradition is closed to its environment, but the cultural phenomenon which has a weak tradition is opened. The expression “open to the environment” means to absorb the heterogeneous elements into oneself. Through such inclusive process, Taekwondo has the requisite diversity. The uniqueness of skills and the requisite diversity are an agent of Taekwondo`s successful globalization.
Demonstration of Avionics Module Exchangeability via Simulation (DAMES) program overview (2003)

The Joint Integrated Avionics Working Group's (JIAWG) organization, strategy, and program planning to achieve commonality in the concurrent development of advanced tactical weapon systems in each of the three services is discussed. The completeness, adequacy, and technical issues in the area of avionics specifications and systems are especially complex. A history of the significant JIAWG events in addressing these common concerns that led to the DAMES program is discussed. The contribution of the DAMES tasks, strategy, and gate-level system simulation methodology contributions to the efficient design, manufacture, cost reduction, and risk reduction of the advanced avionics for tri-service weapons systems are detailed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Synthesis of ionic block polymers for desalination membranes (1973)

Abstract Copolymer containing 2‐vinylpyridine–trimethylsilyl methacrylate, styrene–2‐vinylpyridine, and styrene–trimethylsilyl methacrylate blocks as well as terpolymers containing the styrene2–vinylpyridine–trimethylsilyl methacrylate blocks were synthesized by initiation of the appropriate monomers sequentially both with butyllithium and sodium. These polymers were subjected to hydrolysis by which the acrylate ester segment is converted to the free acid and to the reaction with methyl iodide, which quaternizes the pyridine segment; finally the hydrolyzed and quaternized polymers were subjected to dehydrohalogenation with external base. The properties of these block polymers and blends of the styrene‐containing block copolymers were examined, especially in regard to their suitability as reverse osmosis desalination membranes.
Wipe production in MPEG-2 compressed video (2000)

With the increased role of technology in video production, several types of complex video special effects editing have begun to appear. We consider wiping special effects editing in MPEG-2 compressed video without full frame decompression and motion estimation. We estimated the DCT coefficients and use these coefficients together with the existing motion vectors to produce these special effects editing in the compressed domain. The results show that both the objective and subjective quality of the edited video in the compressed domain closely follows the quality of the video edited in the uncompressed domain at the same bit rate.
Endocyclic nucleophilic substitution at tetracoordinate sulfur(VI) (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEndocyclic nucleophilic substitution at tetracoordinate sulfur(VI)Kenneth K. Andersen, Sumalee Chumpradit, and Debra J. McIntyreCite this: J. Org. Chem. 1988, 53, 20, 4667–4675Publication Date (Print):September 1, 1988Publication History Published online1 May 2002Published inissue 1 September 1988https://doi.org/10.1021/jo00255a005Request reuse permissionsArticle Views1126Altmetric-Citations15LEARN 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 InReddit PDF (1 MB) Get e-Alertsclose Get e-Alerts
Awareness Tools and Mutual Modelling in a Collaborative Game (2003)

Nicolas Nova (Nicolas.Nova@epfl.ch), Thomas Wherle (Thomas.Wehrle@pse.unige.ch), Jeremy Goslin (jeremy@jeremygoslin.com), Yvan Bourquin (Yvan.Bourquin@tecfa.unige.ch), Pierre Dillenbourg (Pierre.Dillenbourg@epfl.ch) Ecole Polytechnique Federale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland http://www.epfl.ch/ TECFA/Universite de Geneve, Bd du Pont d’Arve. 40, CH-1205 Geneva, Switzerland http://tecfa.unige.ch
ICAM-1 and VCAM-1 Expression following Aneurysmal Subarachnoid Hemorrhage and Their Possible Role in the Pathophysiology of Subsequent Ischemic Deficits (2006)

We believe that inflammatory processes are involved in the pathogenesis of cerebral vasospasm but they might only be a part of a multifactorial pathogenesis.
Synthesis and Processing of Improved Second Order Nonlinear Optical Materials (1999)

Polymeric EO modulators operating with drive voltages of 0.8-4.5 volts, bandwidths of 150 GHz, and insertion losses on the order of 5-6 dB have been demonstrated. These modulators have also been packaged as 3-D circuit structures and integrated directly with VLSI semiconductor electronics and with silica fiber optics. A variety of new device structures including phased array radar, ultrafast analog-to-digital converters, polarization insensitive modulators, ultrahigh bandwidth oscillators, and spatial light modulators have been demonstrated. New condensed matter theory has been developed which is capable of correctly predicting for all concentration regimes the behavior of many-body, spatially-anisotropic, long-range electrostatically-interacting dipolar molecules. This theory has guided the dramatic improvement in organic EO materials.
Life-Add: Lifetime Adjustable Design for WiFi Networks with Heterogeneous Energy Supplies (2013)

WiFi usage significantly reduces the battery lifetime of handheld devices such as smartphones and tablets, due to its high energy consumption. In this paper, we propose "Life-Add": a Lifetime Adjustable design for WiFi networks, where the devices are powered by battery, electric power, and/or renewable energy. In Life-Add, a device turns off its radio to save energy when the channel is sensed to be busy, and sleeps for a random time period before sensing the channel again. Life-Add carefully controls the devices' average sleep periods to improve their throughput while satisfying their operation time requirement. It is proven that Life-Add achieves near-optimal proportional-fair utility performance for single access point (AP) scenarios. Moreover, Life-Add alleviates the near-far effect and hidden terminal problem in general multiple AP scenarios. Our ns-3 simulations show that Life-Add simultaneously improves the lifetime, throughput, and fairness performance of WiFi networks, and coexists harmoniously with IEEE 802.11.
Control of a voltage source inverter fed induction motor with on-line efficiency optimization (2002)

Induction motor efficiency can be significantly improved (specially under light loads) by reducing the motor air-gap flux. Flux can be indirectly controlled by adjusting both stator voltage and frequency. This paper describes the development and implementation of a controller for a voltage source inverter fed induction motor with online efficiency optimization. The system was tested for a small power induction motor and results are presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Surface Properties of Fluorinated Acrylate Polymer Latex Films (2007)

The surface chemical compositions of fluorinated latex films and the dynamic contact angles of water were determined using X-ray photoelectron spectroscopy (XPS) and a Kruss interface tension measurement, respectively. The surface tensions of the films were calculated by the equation of state approach using the dynamic contact angles, and the effect of temperature on the wetting behavior of these films was investigated. It was shown that the F 1s signal intensity from the outermost surface of these fluorinated latex films was stronger than that from the interior surface of the film and that the surface tension showed a linear decrease with the increase of density of fluorine atoms on the latex film surface to a certain extent. The surface tension rapidly decreased with the increase of fluorinated lateral chains (Rf) content in the copolymer with longer Rf (carbon atom number n>6). The water receding contact angles (θr) on the latex films sharply decreased with the increase of n value, then leveled off nearly at n=10, and remained almost unchanged when n>10. In addition, θr increased more remarkably with the increase of F content in the poly (protonated acrylate- co-fluorinated acrylate) with short hydrocarbon side chains. The water wetting ability of the fluorinate latex films became slightly better only when temperature was more than 40°C.
The Reaction of Hydrazine with 3,6-Diamino-s-tetrazine<sup>1</sup> (1963)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThe Reaction of Hydrazine with 3,6-Diamino-s-tetrazine1Henry J. Marcus and Allen RemanickCite this: J. Org. Chem. 1963, 28, 9, 2372–2375Publication Date (Print):September 1, 1963Publication History Published online1 May 2002Published inissue 1 September 1963https://doi.org/10.1021/jo01044a053RIGHTS & PERMISSIONSArticle Views416Altmetric-Citations25LEARN 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 InReddit PDF (530 KB) Get e-Alerts Get e-Alerts