Science.gov

Sample records for 5th order sequence

  1. Multi-mode heterodyned 5th-order infrared spectroscopy

    NASA Astrophysics Data System (ADS)

    Leger, Joel D.; Varner, Clyde; Rubtsov, Igor V.

    2016-10-01

    Fifth-order multidimensional infrared spectroscopy with heterodyned detection was carried out in the three-beam dual-frequency configuration. Numerous 5th-order cross peaks were detected for the 4-azidobutyrate-N-hydroxysuccinimide ester compound in solution involving several vibrational modes ranging in frequency from 1045 to 2100 cm-1. Cross peaks involving overtones (2X/Z) and combination bands (XY/Z) among the tags, modes X and Y excited by the first two mid-IR laser pulses, and the reporter, modes Z excited by the third laser pulse, were acquired and the factors affecting the amplitude of 5th-order cross peaks are discussed. The 5th-order cross peaks were detected among modes that are spatially close (a few bonds apart) as well as for modes spatially separated by ca. 12 Å (eight bonds apart). In both cases, the waiting time dependences for the 3rd and 5th order cross peaks were found to be different. In particular, the waiting time at which the cross-peak maximum is reached, the decay time, and the value of a plateau at large waiting times were all differing strongly. The differences are explained by reduced sensitivity of the 5th-order signals to modes coupled weakly to the reporter mode and different relaxation dynamics involving overtone state of the tag. The ability of the 5th-order peaks to single out the modes coupled strongly to the reporter can help identifying specific energy relaxation and transport pathways, which will be useful for understanding energy transport dynamics in molecules. The absorptive 5th-order cross peaks were constructed which report on three-point correlation functions. It is shown that in addition to the triple-frequency correlation functions, a correlation of the frequencies with the mode coupling (anharmonicity) can be naturally measured by the 5th-order spectroscopy. The current limit for detecting 5th-order signals was estimated at the level of 1 × 10-3 in reduced anharmonicity, which is determined by the corresponding two

  2. Compositional analysis with atomic column spatial resolution by 5th-order aberration-corrected scanning transmission electron microscopy.

    PubMed

    Hernández-Maldonado, David; Herrera, Miriam; Alonso-González, Pablo; González, Yolanda; González, Luisa; Gazquez, Jaume; Varela, María; Pennycook, Stephen J; Guerrero-Lebrero, María de la Paz; Pizarro, Joaquín; Galindo, Pedro L; Molina, Sergio I

    2011-08-01

    We show in this article that it is possible to obtain elemental compositional maps and profiles with atomic-column resolution across an InxGa1-xAs multilayer structure from 5th-order aberration-corrected high-angle annular dark-field scanning transmission electron microscopy (HAADF-STEM) images. The compositional profiles obtained from the analysis of HAADF-STEM images describe accurately the distribution of In in the studied multilayer in good agreement with Muraki's segregation model [Muraki, K., Fukatsu, S., Shiraki, Y. & Ito, R. (1992). Surface segregation of In atoms during molecular beam epitaxy and its influence on the energy levels in InGaAs/GaAs quantums wells. Appl Phys Lett 61, 557-559].

  3. Tools of Radio Astronomy, 5th edition

    NASA Astrophysics Data System (ADS)

    Wilson, Thomas L.; Rohlfs, Kristian; Huttemeister, Susanne

    2012-12-01

    New 5th corrected edition of the book http://adsabs.harvard.edu/abs/2009tra..book.....W in Russian, translated by O. Verkhodanov and S. Trushkin, editing S.A. Trushkin from Special astrophysical observatory RAS. This edition contains the translation of the 5th Springer edition of 2009 and new additional chapter (wrote by authors) of Solutions of the problems.

  4. Kids & Family Reading Report™. 5th Edition

    ERIC Educational Resources Information Center

    Scholastic Inc., 2015

    2015-01-01

    This report presents the 5th Edition of Scholastic's biannual study of children's and parents' attitudes and behaviors about reading. The latest research touches on reading aloud to children of all ages, the impact of reading independently for fun at school and at home, the importance of frequent reading, and the books children want most to read.…

  5. Ordered hierarchy versus scale invariance in sequence stratigraphy

    NASA Astrophysics Data System (ADS)

    Schlager, Wolfgang

    2010-10-01

    Sequence stratigraphy has been applied in a wide range of scales of time and space, from decimeter-thick layers formed within hours to kilometer-thick basin fills formed during hundreds of millions of years. The traditional approach to practice sequence stratigraphy in this wide range of scales is to subdivide the sediment piles into an ordered hierarchy of sequence cycles of different duration and different architecture. An alternative are scale-invariant models with fractal characteristics. Published data confirm two predictions of the ordered-hierarchy model: sequences of very short duration (<1 × 103 years) are parasequences bounded by flooding surfaces, very long sequences (>200 × 106 years) are symmetrical transgressive-regressive cycles. However, the sequence record in the range of 1 × 104-200 × 106 years, the principal domain of sequence stratigraphy, shows a rather irregular succession of sequences with variable symmetry and bounded by flooding surfaces or exposure surfaces. For these time scales, scale-invariant models are a good first approximation, particularly because the evidence for scale-invariance and randomness in the stratigraphic record is strong: Frequency spectra of sea-level change as well as rates of sedimentation and rates of accommodation change plotted against length of observation span show basic trends indistinguishable from random walk. These trends, combined with scale-invariant sequence models may be the most efficient tools for across-the-board predictions on sequences and for locating islands of order in the sequence record.

  6. Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Next-generation, whole genome shotgun (WGS) assemblies of complex genomes are highly enabling, but fail to link nearby sequence contigs with each other or provide a linear order of contigs along individual chromosomes. Here, we introduce a strategy based on sequencing progeny of a segregating popul...

  7. Nullomers and High Order Nullomers in Genomic Sequences

    PubMed Central

    Vergni, Davide; Santoni, Daniele

    2016-01-01

    A nullomer is an oligomer that does not occur as a subsequence in a given DNA sequence, i.e. it is an absent word of that sequence. The importance of nullomers in several applications, from drug discovery to forensic practice, is now debated in the literature. Here, we investigated the nature of nullomers, whether their absence in genomes has just a statistical explanation or it is a peculiar feature of genomic sequences. We introduced an extension of the notion of nullomer, namely high order nullomers, which are nullomers whose mutated sequences are still nullomers. We studied different aspects of them: comparison with nullomers of random sequences, CpG distribution and mean helical rise. In agreement with previous results we found that the number of nullomers in the human genome is much larger than expected by chance. Nevertheless antithetical results were found when considering a random DNA sequence preserving dinucleotide frequencies. The analysis of CpG frequencies in nullomers and high order nullomers revealed, as expected, a high CpG content but it also highlighted a strong dependence of CpG frequencies on the dinucleotide position, suggesting that nullomers have their own peculiar structure and are not simply sequences whose CpG frequency is biased. Furthermore, phylogenetic trees were built on eleven species based on both the similarities between the dinucleotide frequencies and the number of nullomers two species share, showing that nullomers are fairly conserved among close species. Finally the study of mean helical rise of nullomers sequences revealed significantly high mean rise values, reinforcing the hypothesis that those sequences have some peculiar structural features. The obtained results show that nullomers are the consequence of the peculiar structure of DNA (also including biased CpG frequency and CpGs islands), so that the hypermutability model, also taking into account CpG islands, seems to be not sufficient to explain nullomer phenomenon

  8. 5th Austrian Hungarian workshop on celestial mechanics

    NASA Astrophysics Data System (ADS)

    Süli, Áron

    2011-06-01

    The 5th Hungarian-Austrian Workshop on Celestial Mechanics took place from 9th until the 10th of April 2010 in Vienna, Austria. The workshop was held in the Institute for Astronomy of Vienna University. From the Eötvös University and from the host institute experts and PhD students gathered together to discuss the challenges and new results of the actual problems of celestial mechanics. The workshop was held in the meeting room at the Sternwarte of the Vienna University located in a magnificent park in the heart of Vienna. Following the themes of the four previous events the focus for this workshop ranged from the Trojan problem, dynamics in binary star systems and exoplanetray systems. We were pleased to acknowledge the support of the host university. The talks were characterized by a large spectrum, which is typical of the workshops on celestial mechanics. Several talks discussed different aspects of the trojan problem, such as the three Trojan Problem, dynamics of trojan-like planets in binary stars, the frequencies of their motion around the triangular lagrangian points, etc. Several speakers focused on the formation of planetary systems and on the field of exoplanetary systems, like exoplanetary systems in higher order mean motion resonances, formation of planets in binary systems, stability of exomoons etc. Some of the presentation used sophisticated mathematical tools in order to understand mean motion resonances, the Sitnikov problem applying the KAM and the Nekhoroshev theorem. The theme of a number of talks was the motion of Solar System bodies: dynamics of the newly discovered moons of Pluto and of near-Earth asteroids. General problems were also addressed, among others chaos in Hamiltonian systems, adaptive Lie-integration method and iterative solution approximation to the generalised Sitnikov problem.

  9. Working Together for Student Achievement. 5th Biennial Joint Report

    ERIC Educational Resources Information Center

    Washington State Board of Education, 2014

    2014-01-01

    The Washington state Board of Education (SBE) and the Professional Educator Standards Board (PESB) submitted this 5th biennial joint report to the Governor, Legislative Education Committees, and Superintendent of Public Instruction. The report outlines the collaborative work of the Boards, highlights accomplishments, and provides goals and…

  10. 5th Latin American pesticide residue workshop (LAPRW 2015)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    This invited editorial proceedings article introduces the 6 research papers published in the special topical collection for the 5th Latin American Pesticide Residue Workshop held in Santiago, Chile, May 10-13, 2015. The meeting was a great success with more than 50 talks, 140 posters, 21 vendors, a...

  11. Are You a Reader? 5th Graders Respond

    ERIC Educational Resources Information Center

    Barone, Diane; Barone, Rebecca

    2016-01-01

    The author tells the story of a 5th-grade teacher who challenges her class to take on self-identities as readers. Students defined seven characteristics of what it means to be a good reader and considered whether those characteristics applied to them: Good readers read for fun, talk about books, usually finish the book they're reading, can relate…

  12. 5th Conference on Aerospace Materials, Processes, and Environmental Technology

    NASA Technical Reports Server (NTRS)

    Cook, M. B. (Editor); Stanley, D. Cross (Editor)

    2003-01-01

    Records are presented from the 5th Conference on Aerospace Materials, Processes, and Environmental Technology. Topics included pollution prevention, inspection methods, advanced materials, aerospace materials and technical standards,materials testing and evaluation, advanced manufacturing,development in metallic processes, synthesis of nanomaterials, composite cryotank processing, environmentally friendly cleaning, and poster sessions.

  13. Sequencing in SLA: Phonological Memory, Chunking, and Points of Order.

    ERIC Educational Resources Information Center

    Ellis, Nick C.

    1996-01-01

    Argues that much of language acquisition is sequence learning and that the resultant long-term knowledge base of language sequences serves as the database for grammar acquisition. The article also proposes mechanisms to analyze sequence information that result in knowledge of underlying grammar. (184 references) (Author/CK)

  14. Moselle River Crossing. Offensive, River Crossing, 5th Infantry Division, September 1944

    DTIC Science & Technology

    1983-05-20

    MOSELLE, we see a formation of three infantry "regiments and various special support troops. The teeth of the 5th Infantry Division was provided by its...turret gums into working order. Hermann Rochling, an industrialist based in Saarbrucken, came to METZ with a number of mechanics, -- who succeeded in...been recognized for valor prior to attending officers school. The doctrine of the German forces stressed the Schwerpunkt, or point of mail effort, as

  15. From Cooks to Carpenters: Measuring - A Saleable Work Skill. Occupation Simulation Packet. Grades 5th-6th.

    ERIC Educational Resources Information Center

    Kennedy, Helena

    This teacher's guide contains simulated work experiences for 5th and 6th grade students using the isolated skill concept - measuring. Teacher instructions include objectives, evaluation, and sequence of activities. The guide contains pre-tests and post-tests with instructions and answer keys. Three pre-skill activities are suggested, such as…

  16. On the Extreme Order Statistics for a Stationary Sequence.

    DTIC Science & Technology

    1987-07-01

    DTIC TAB U!, anounced 0 "+’. ~juztfjatin------ Technical Report No. 198 By. ~~Distribtion/_____. * July 1987 Aviltbility Cods 7 Avai A-/ o - St...Random Measures. Berlin: Akademie-Verlag, London- New York: Academic Press . Le-dbetter, M. R. (1974). On extreme values in stationary sequences. Z

  17. Sequencing human ribs into anatomical order by quantitative multivariate methods.

    PubMed

    Cirillo, John; Henneberg, Maciej

    2012-06-01

    Little research has focussed on methods to anatomically sequence ribs. Correct anatomical sequencing of ribs assists in determining the location and distribution of regional trauma, age estimation, number of puncture wounds, number of individuals, and personal identification. The aim of the current study is to develop a method for placing fragmented and incomplete rib sets into correct anatomical position. Ribs 2-10 were used from eleven cadavers of an Australian population. Seven variables were measured from anatomical locations on the rib. General descriptive statistics were calculated for each variable along with an analysis of variance (ANOVA) and ANOVA with Bonferroni statistics. Considerable overlap was observed between ribs for univariate methods. Bivariate and multivariate methods were then applied. Results of the ANOVA with post hoc Bonferroni statistics show that ratios of various dimensions of a single rib could be used to sequence it within adjacent ribs. Using multiple regression formulae, the most accurate estimation of the anatomical rib number occurs when the entire rib is found in isolation. This however, is not always possible. Even when only the head and neck of the rib are preserved, a modified multivariate regression formula assigned 91.95% of ribs into correct anatomical position or as an adjacent rib. Using multivariate methods it is possible to sequence a single human rib with a high level of accuracy and they are superior to univariate methods. Left and right ribs were found to be highly symmetrical. Some rib dimensions were greater in males than in females, but overall the level of sexual dimorphism was low.

  18. Megabase sequencing of human genome by ordered-shotgun-sequencing (OSS) strategy

    NASA Astrophysics Data System (ADS)

    Chen, Ellson Y.

    1997-05-01

    So far we have used OSS strategy to sequence over 2 megabases DNA in large-insert clones from regions of human X chromosomes with different characteristic levels of GC content. The method starts by randomly fragmenting a BAC, YAC or PAC to 8-12 kb pieces and subcloning those into lambda phage. Insert-ends of these clones are sequenced and overlapped to create a partial map. Complete sequencing is then done on a minimal tiling path of selected subclones, recursively focusing on those at the edges of contigs to facilitate mergers of clones across the entire target. To reduce manual labor, PCR processes have been adapted to prepare sequencing templates throughout the entire operation. The streamlined process can thus lend itself to further automation. The OSS approach is suitable for large- scale genomic sequencing, providing considerable flexibility in the choice of subclones or regions for more or less intensive sequencing. For example, subclones containing contaminating host cell DNA or cloning vector can be recognized and ignored with minimal sequencing effort; regions overlapping a neighboring clone already sequenced need not be redone; and segments containing tandem repeats or long repetitive sequences can be spotted early on and targeted for additional attention.

  19. From sequences to polynomials and back, via operator orderings

    NASA Astrophysics Data System (ADS)

    Amdeberhan, Tewodros; De Angelis, Valerio; Dixit, Atul; Moll, Victor H.; Vignat, Christophe

    2013-12-01

    Bender and Dunne ["Polynomials and operator orderings," J. Math. Phys. 29, 1727-1731 (1988)] showed that linear combinations of words qkpnqn-k, where p and q are subject to the relation qp - pq = ı, may be expressed as a polynomial in the symbol z = 1/2(qp+pq). Relations between such polynomials and linear combinations of the transformed coefficients are explored. In particular, examples yielding orthogonal polynomials are provided.

  20. 5th Antiviral Drug Discovery and Development Summit.

    PubMed

    Blair, Wade; Perros, Manos

    2004-08-01

    The 5th Antiviral Drug Discovery and Development Summit provided an up-to-date snapshot of the ongoing developments in the area. The topics covered ranged from updates on recently launched drugs (Kaletra), Fuzeon) and new investigational inhibitors (T-1249, Reverset, UK-427857, L-870810, PA-457, remofovir, VX-950), to the discovery of new antiviral targets and advances in technologies that may provide the substrate for the next generation of therapeutics. It is apparent from the range of presentations that much of today's efforts are focused on developing new classes of HIV inhibitors (gp41, integrase), while there is also considerable progress in hepatitis C, where a number of inhibitors have or should reach proof-of-concept studies in the coming months. Here we provide the highlights of this meeting, with particular emphasis on the new developments in HIV and hepatitis C virus.

  1. 5th Annual Global College of Neuroprotection and Neuroregeneration.

    PubMed

    Sharma, Hari Shanker

    2008-06-01

    The 5th Global College of Neuroprotection and Neuroregeneration (GCNN) was held in the historic charming capital city of Bucharest, Romania in JW Marriott Grand Hotel on 3-6 March, 2008. The meeting was a unique blend of basic researchers and clinicians across the Globe presenting their recent findings in neuroprotection and neuroregeneration in a beautiful exotic ambience. More than 300 students and researchers attended the congress and participated in deliberations. Over 60 representatives from various pharmaceutical industries from all over the world supported this event. This meeting was held for the first time as a joint venture with GCNN and the Society for study on Neuroproetction and Neuroplasticity (SSNN), and was a grand success both scientifically and socially. Thus, these joint meetings of the two societies (GCNN and SSNN) will continue in future in different European cities for the coming 5 years.

  2. The generalized order-k Fibonacci-Pell sequence by matrix methods

    NASA Astrophysics Data System (ADS)

    Kilic, Emrah

    2007-12-01

    In this paper, we consider the usual and generalized order-k Fibonacci and Pell recurrences, then we define a new recurrence, which we call generalized order-k F-P sequence. Also we present a systematic investigation of the generalized order-k F-P sequence. We give the generalized Binet formula, some identities and an explicit formula for sums of the generalized order-k F-P sequence by matrix methods. Further, we give the generating function and combinatorial representations of these numbers. Also we present an algorithm for computing the sums of the generalized order-k Pell numbers, as well as the Pell numbers themselves.

  3. Not All Order Memory Is Equal: Test Demands Reveal Dissociations in Memory for Sequence Information

    ERIC Educational Resources Information Center

    Jonker, Tanya R.; MacLeod, Colin M.

    2017-01-01

    Remembering the order of a sequence of events is a fundamental feature of episodic memory. Indeed, a number of formal models represent temporal context as part of the memory system, and memory for order has been researched extensively. Yet, the nature of the code(s) underlying sequence memory is still relatively unknown. Across 4 experiments that…

  4. On the Higher Power Sums of Reciprocal Higher-Order Sequences

    PubMed Central

    Zhang, Jin

    2014-01-01

    Let {un} be a higher-order linear recursive sequence. In this paper, we use the properties of error estimation and the analytic method to study the reciprocal sums of higher power of higher-order sequences. Then we establish several new and interesting identities relating to the infinite and finite sums. PMID:24741351

  5. 167. GENERAL VIEW DOWN 5TH AVE. VIEW TO SOUTHWEST DOWN ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    167. GENERAL VIEW DOWN 5TH AVE. VIEW TO SOUTHWEST DOWN 5TH AVE. SHOWING FROM LEFT TO RIGHT, BUILDING 504, 436, 11, AND 155. - Quonset Point Naval Air Station, Roger Williams Way, North Kingstown, Washington County, RI

  6. PREFACE: 5th Baltic Conference on Silicate Materials

    NASA Astrophysics Data System (ADS)

    Mezinskis, G.; Bragina, L.; Colombo, P.; Frischat, G. H.; Grabis, J.; Greil, P.; Deja, J.; Kaminskas, R.; Kliava, J.; Medvids, A.; Nowak, I.; Siauciunas, R.; Valancius, Z.; Zalite, I.

    2011-12-01

    Logo This Volume of IOP Conference Series: Materials Science and Engineering presents a selection of the contributions to the 5th Baltic Conference on Silicate Materials (BaltSilica2011) held at Riga Technical University, Riga, Latvia from 23-25 May 2011. The conference was organized by Riga Technical University (Latvia) and Kaunas University of Technology (Lithuania). The series of Baltic conferences on silicate materials was started since 2004: the first conference was held in Riga, Latvia, 2004; the second conference was held in Kaunas, Lithuania 2005; the third was held again in Riga, Latvia, 2007, and the fourth was held in Kaunas, Lithuania 2009. BaltSilica 2011 was attended by around 50 participants from Latvia, Lithuania, Estonia, Germany, Poland, Italy, France, Ukraine and Russia. In comparison with previous silicate materials conferences, the broadening of participating countries is an indication of the interest of scientists, engineers and students to exchange research ideas, latest results, and to find new research topics for cooperation in the fields of silicate, high temperature materials, and inorganic nanomaterials. The scientific programme included 8 invited plenary lectures 23 oral presentations and 25 posters [1]. Scientific themes covered in the conference and in this special issue: Natural and Artificial Stone Materials; Traditional and New Ceramic and Glass-Like Materials; Nanoparticles and Nanomaterials. This volume consists of 23 selected proceeding papers. The Editor of this special issue is grateful to all the contributors to BaltSilica 2011. I am also very grateful to the scientific committee, the local organizing committee, the session chairs, the referees who refereed the submitted articles to this issue, and to students from the Department of Silicate, High Temperature and Inorganic Nanomaterials Technology of the Riga Technical University who ensured the smooth running of the conference. Particular thanks goes to eight plenary

  7. Superimposed multiple orders of sequences predict reservoir migration and thickness in stratigraphy trapped Haynesville carbonate reservoirs

    SciTech Connect

    Neuhart, D.; Hwang, D. )

    1991-08-01

    The Upper Jurassic Haynesville Formation is part of the Louark group located on the east flank of the East Texas salt basin. Haynesville gas production is from ooid grainstones which formed on a gently dipping carbonate ramp. Hydrocarbon was sourced from the underlying Smackover Formation basinal deposits and trapped stratigraphically by multiple ooid shoal pinch-outs. Therefore, an essential tool in prospecting for Haynesville gas is an understanding of Haynesville stratigraphy. Toward that end, the authors placed the formation into a sequence stratigraphic framework. Haynesville stratal-stacking patterns and lithology distribution result from the superimposition of three orders of cyclicity. Evidence of second order, third order, and fourth order sequences are found within the Haynesville data. The entire Haynesville Formation lies within a second-order transgressive systems tract, which is expresses in facies as an overall deepening event. The superimposition of second-order extreme retrograde deposition during periods of in-phase second- and third- order transgression. The results were large shifts in deposition centers and additional reservoir thickness due to increased accommodation. Fourth -order sequences exerted the greatest control an ooid reservoir distribution due to shoal progradation. By superimposing the observed multiple orders of sequences into the Haynesville geologic model, the top of Haynesville becomes both a sequence boundary in the third order and a maximum flooding surface in the second order. Together, fourth-order flooding surface in the second order. Together, fourth-order and third order sequences indicate the direction of reservoir migration as well as areas of maximum reservoir thickness.

  8. Teaching 5th grade science for aesthetic understanding

    NASA Astrophysics Data System (ADS)

    Girod, Mark A.

    Many scientists speak with great zeal about the role of aesthetics and beauty in their science and inquiry. Few systematic efforts have been made to teach science in ways that appeal directly to aesthetics and this research is designed to do just that. Drawing from the aesthetic theory of Dewey, I describe an analytic lens called learning for aesthetic understanding that finds power in the degree to which our perceptions of the world are transformed, our interests and enthusiasm piqued, and our actions changed as we seek further experiences in the world. This learning theory is contrasted against two other current and popular theories of science learning, that of learning for conceptual understanding via conceptual change theory and learning for a language-oriented or discourse-based understanding. After a lengthy articulation of the pedagogical strategies used to teach for aesthetic understanding the research is described in which comparisons are drawn between students in two 5th grade classrooms---one taught for the goal of conceptual understanding and the other taught for the goal of aesthetic understanding. Results of this comparison show that more students in the treatment classroom had aesthetic experiences with science ideas and came to an aesthetic understanding when studying weather, erosion, and structure of matter than students in the control group. Also statistically significant effects are shown on measures of interest, affect, and efficacy for students in the treatment class. On measures of conceptual understanding it appears that treatment class students learned more and forgot less over time than control class students. The effect of the treatment does not generally depend on gender, ethnicity, or prior achievement except in students' identity beliefs about themselves as science learners. In this case, a significant interaction for treatment class females on science identity beliefs did occur. A discussion of these results as well as elaboration and

  9. Genomics into Healthcare: the 5th Pan Arab Human Genetics Conference and 2013 Golden Helix Symposium.

    PubMed

    Fortina, Paolo; Al Khaja, Najib; Al Ali, Mahmoud Taleb; Hamzeh, Abdul Rezzak; Nair, Pratibha; Innocenti, Federico; Patrinos, George P; Kricka, Larry J

    2014-05-01

    The joint 5th Pan Arab Human Genetics conference and 2013 Golden Helix Symposium, "Genomics into Healthcare" was coorganized by the Center for Arab Genomic Studies (http://www.cags.org.ae) in collaboration with the Golden Helix Foundation (http://www.goldenhelix.org) in Dubai, United Arab Emirates from 17 to 19 November, 2013. The meeting was attended by over 900 participants, doctors and biomedical students from over 50 countries and was organized into a series of nine themed sessions that covered cancer genomics and epigenetics, genomic and epigenetic studies, genomics of blood and metabolic disorders, cytogenetic diagnosis and molecular profiling, next-generation sequencing, consanguinity and hereditary diseases, clinical genomics, clinical applications of pharmacogenomics, and genomics in public health.

  10. Genomics into Healthcare: The 5th Pan Arab Human Genetics Conference and 2013 Golden Helix Symposium

    PubMed Central

    Fortina, Paolo; AlKhaja, Najib; Al Ali, Mahmoud Taleb; Hamzeh, Abdul Rezzak; Nair, Pratibha; Innocenti, Federico; Patrinos, George P.; Kricka, Larry J.

    2014-01-01

    The joint 5th Pan Arab Human Genetics conference and 2013 Golden Helix Symposium, “Genomics into Healthcare” was coorganized by the Center for Arab Genomic Studies (http://www.cags.org.ae) in collaboration with the Golden Helix Foundation (http://www.goldenhelix.org) in Dubai, United Arab Emirates from 17 to 19 November, 2013. The meeting was attended by over 900 participants, doctors and biomedical students from over 50 countries and was organized into a series of nine themed sessions that covered cancer genomics and epigenetics, genomic and epigenetic studies, genomics of blood and metabolic disorders, cytogenetic diagnosis and molecular profiling, next-generation sequencing, consanguinity and hereditary diseases, clinical genomics, clinical applications of pharmacogenomics, and genomics in public health. PMID:24526565

  11. Mapping by sequencing the Pneumocystis genome using the ordering DNA sequences V3 tool.

    PubMed Central

    Xu, Zheng; Lance, Britton; Vargas, Claudia; Arpinar, Budak; Bhandarkar, Suchendra; Kraemer, Eileen; Kochut, Krys J; Miller, John A; Wagner, Jeff R; Weise, Michael J; Wunderlich, John K; Stringer, James; Smulian, George; Cushion, Melanie T; Arnold, Jonathan

    2003-01-01

    A bioinformatics tool called ODS3 has been created for mapping by sequencing. The tool allows the creation of integrated genomic maps from genetic, physical mapping, and sequencing data and permits an integrated genome map to be stored, retrieved, viewed, and queried in a stand-alone capacity, in a client/server relationship with the Fungal Genome Database (FGDB), and as a web-browsing tool for the FGDB. In that ODS3 is programmed in Java, the tool promotes platform independence and supports export of integrated genome-mapping data in the extensible markup language (XML) for data interchange with other genome information systems. The tool ODS3 is used to create an initial integrated genome map of the AIDS-related fungal pathogen, Pneumocystis carinii. Contig dynamics would indicate that this physical map is approximately 50% complete with approximately 200 contigs. A total of 10 putative multigene families were found. Two of these putative families were previously characterized in P. carinii, namely the major surface glycoproteins (MSGs) and HSP70 proteins; three of these putative families (not previously characterized in P. carinii) were found to be similar to families encoding the HSP60 in Schizosaccharomyces pombe, the heat-shock psi protein in S. pombe, and the RNA synthetase family (i.e., MES1) in Saccharomyces cerevisiae. Physical mapping data are consistent with the 16S, 5.8S, and 26S rDNA genes being single copy in P. carinii. No other fungus outside this genus is known to have the rDNA genes in single copy. PMID:12702676

  12. PREFACE: 5th Workshop of Young Researchers in Astronomy & Astrophysics

    NASA Astrophysics Data System (ADS)

    Forgács-Dajka, Emese; Plachy, Emese; Molnár, László

    2010-04-01

    The 5th Workshop of Young Researchers in Astronomy and Astrophysics was held on 2-4 September 2009 at the Eötvös University in Budapest, Hungary. This meeting fits into a conference series which can already be considered a tradition where the younger generation has the opportunity to present their work. The event was also a great opportunity for senior astronomers and physicists to form new connections with the next generation of researchers. The selection of invited speakers concentrated on the researchers currently most active in the field, mostly on a post-doctoral/tenure/fresh faculty position level. A number of senior experts and PhD students were also invited. As the conference focused on people rather than a specific field, various topics from theoretical physics to planetology were covered in three days. The programme was divided into six sections: Physics of the Sun and the Solar System Gravity and high-energy physics Galactic and extragalactic astronomy, cosmology Celestial mechanics and exoplanets Infrared astronomy and young stars Variable stars We had the pleasure of welcoming 10 invited review talks from senior researchers and 42 contributed talks and a poster from the younger generation. Participants also enjoyed the hospitality of the pub Pál at the Pálvölgyi-cave after giving, hearing and disputing countless talks. Brave souls even descended to the unbuilt, adventurous Mátyásvölgyi-cave. Memories of the conference were shadowed though. Péter Csizmadia, one of our participants and three other climbers attempted a first ever ascent to the Ren Zhong Feng peak in Sichuan, China, but they never returned from the mountains. Péter departed to China shortly after the conference, with best wishes from participants and friends. We dedicate this volume to his memory. The organisers thankthe Physics Doctoral School of Eötvös University for its hospitality. The workshop was supported by the Mecenatúra and Polányi Mihály Programmes of the National

  13. The utility of a 5th nap in multiple sleep latency test

    PubMed Central

    Lykouras, Dimosthenis; Rees, Kate

    2016-01-01

    Background This is the first study that aimed to look specifically at the utility of the 5th nap in the multiple sleep latency test (MSLT), a test used to assist in the diagnosis of narcolepsy. Methods Data was retrospectively collected from the Sleep Disorders Centre of a Tertiary Hospital on patients that had a 5th nap during their MSLT from the 08th November 2011 to 12th November 2014. Results Fifty-three patients had a 5th nap performed out of 378 MSLT studies. In 16% of cases a diagnosis of narcolepsy was given directly due to the inclusion of the 5th nap on the MSLT. Here a 5th nap allowed diagnostic criteria of mean sleep latency <8 minutes and >2 SOREMPS to be met. In 53% of cases the mean sleep latency increased due to 5th nap inclusion; the mean sleep latency of the first four naps was 5.6 vs. 6.7 after inclusion of the 5th nap. Conclusions The 5th nap is not often performed within the MSLT studies. Our study shows that only a few patients may benefit from a 5th nap opportunity which also led to increase of the mean sleep latency at the expense of extra time, cost, labour and increased patient anxiety. PMID:26904269

  14. NASA-marks 5th anniversary of first lunar landing

    NASA Technical Reports Server (NTRS)

    1974-01-01

    The accomplishments of the Apollo 11 Flight are presented as a tribute to the fifth anniversary of the first landing on the moon. The document contains: (1) a general description of the Apollo 11 Flight, (2) Presidential statements, (3) Apollo historical summary, (4) Apollo mission facts, (5) information on astronauts who are no longer in the program, and (6) transcripts of the landing sequence and first extravehicular activities on the moon.

  15. IP-MSA: Independent order of progressive multiple sequence alignments using different substitution matrices

    NASA Astrophysics Data System (ADS)

    Boraik, Aziz Nasser; Abdullah, Rosni; Venkat, Ibrahim

    2014-12-01

    Multiple sequence alignment (MSA) is an essential process for many biological sequence analyses. There are many algorithms developed to solve MSA, but an efficient computation method with very high accuracy is still a challenge. Progressive alignment is the most widely used approach to compute the final MSA. In this paper, we present a simple and effective progressive approach. Based on the independent order of sequences progressive alignment which proposed in QOMA, this method has been modified to align the whole sequences to maximize the score of MSA. Moreover, in order to further improve the accuracy of the method, we estimate the similarity of any pair of input sequences by using their percent identity, and based on this measure, we choose different substitution matrices during the progressive alignment. In addition, we have included horizontal information to alignment by adjusting the weights of amino acid residues based on their neighboring residues. The experimental results have been tested on popular benchmark of global protein sequences BAliBASE 3.0 and local protein sequences IRMBASE 2.0. The results of the proposed approach outperform the original method in QOMA in terms of sum-of-pair score and column score by up to 14% and 7% respectively.

  16. Protein ordered sequences are formed by random joining of amino acids in protein 0(th)-order structure, followed by evolutionary process.

    PubMed

    Ikehara, Kenji

    2014-12-01

    Only random processes should occur on the primitive Earth. In contrast, many ordered sequences are synthesized according to genetic information on the present Earth. In this communication, I have proposed an idea that protein 0(th)-order structures or specific amino acid compositions would mediate the transfer from random process to formation of ordered sequences, after formation of double-stranded genes.

  17. Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome.

    PubMed

    Krzywinski, Martin; Wallis, John; Gösele, Claudia; Bosdet, Ian; Chiu, Readman; Graves, Tina; Hummel, Oliver; Layman, Dan; Mathewson, Carrie; Wye, Natasja; Zhu, Baoli; Albracht, Derek; Asano, Jennifer; Barber, Sarah; Brown-John, Mabel; Chan, Susanna; Chand, Steve; Cloutier, Alison; Davito, Jonathon; Fjell, Chris; Gaige, Tony; Ganten, Detlev; Girn, Noreen; Guggenheimer, Kurtis; Himmelbauer, Heinz; Kreitler, Thomas; Leach, Stephen; Lee, Darlene; Lehrach, Hans; Mayo, Michael; Mead, Kelly; Olson, Teika; Pandoh, Pawan; Prabhu, Anna-Liisa; Shin, Heesun; Tänzer, Simone; Thompson, Jason; Tsai, Miranda; Walker, Jason; Yang, George; Sekhon, Mandeep; Hillier, LaDeana; Zimdahl, Heike; Marziali, Andre; Osoegawa, Kazutoyo; Zhao, Shaying; Siddiqui, Asim; de Jong, Pieter J; Warren, Wes; Mardis, Elaine; McPherson, John D; Wilson, Richard; Hübner, Norbert; Jones, Steven; Marra, Marco; Schein, Jacqueline

    2004-04-01

    As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC library. These BAC clones provide approximately 13-fold redundant coverage of the genome and have been assembled into 376 fingerprint contigs. A yeast artificial chromosome (YAC) map was also constructed and aligned with the BAC map via fingerprinted BAC and P1 artificial chromosome clones (PACs) sharing interspersed repetitive sequence markers with the YAC-based physical map. We have annotated 95% of the fingerprint map clones in contigs with coordinates on the version 3.1 rat genome sequence assembly, using BAC-end sequences and in silico mapping methods. These coordinates have allowed anchoring 358 of the 376 fingerprint map contigs onto the sequence assembly. Of these, 324 contigs are anchored to rat genome sequences localized to chromosomes, and 34 contigs are anchored to unlocalized portions of the rat sequence assembly. The remaining 18 contigs, containing 54 clones, still require placement. The fingerprint map is a high-resolution integrative data resource that provides genome-ordered associations among BAC, YAC, and PAC clones and the assembled sequence of the rat genome.

  18. Determination of the Colour Preferences of 5th Grade Students in Relation to Gender

    ERIC Educational Resources Information Center

    Uysal, Hüseyin

    2016-01-01

    The purpose of this research is to determine the colour preferences of 5th grade students in relation to the concept of gender. The study was conducted with the 19 5th grade students studying at Central District of Bartin Province in 2015 to 2016 academic year. Throughout the research, quantitative research method had been used while survey had…

  19. Not all order memory is equal: Test demands reveal dissociations in memory for sequence information.

    PubMed

    Jonker, Tanya R; MacLeod, Colin M

    2017-02-01

    Remembering the order of a sequence of events is a fundamental feature of episodic memory. Indeed, a number of formal models represent temporal context as part of the memory system, and memory for order has been researched extensively. Yet, the nature of the code(s) underlying sequence memory is still relatively unknown. Across 4 experiments that manipulated encoding task, we found evidence for 3 dissociable facets of order memory. Experiment 1 introduced a test requiring a judgment of which of 2 alternatives had immediately followed a word during encoding. This measure revealed better retention of interitem associations following relational encoding (silent reading) than relatively item-specific encoding (judging referent size), a pattern consistent with that observed in previous research using order reconstruction tests. In sharp contrast, Experiment 2 demonstrated the reverse pattern: Memory for the studied order of 2 sequentially presented items was actually better following item-specific encoding than following relational encoding. Experiment 3 reproduced this dissociation in a single experiment using both tests. Experiment 4 extended these findings by further dissociating the roles of relational encoding and item strength in the 2 tests. Taken together, these results indicate that memory for event sequence is influenced by (a) interitem associations, (b) the emphasized directionality of an association, and (c) an item's strength independent of other items. Memory for order is more complicated than has been portrayed in theories of memory and its nuances should be carefully considered when designing tests and models of temporal and relational memory. (PsycINFO Database Record

  20. Two-Stage orders sequencing system for mixed-model assembly

    NASA Astrophysics Data System (ADS)

    Zemczak, M.; Skolud, B.; Krenczyk, D.

    2015-11-01

    In the paper, the authors focus on the NP-hard problem of orders sequencing, formulated similarly to Car Sequencing Problem (CSP). The object of the research is the assembly line in an automotive industry company, on which few different models of products, each in a certain number of versions, are assembled on the shared resources, set in a line. Such production type is usually determined as a mixed-model production, and arose from the necessity of manufacturing customized products on the basis of very specific orders from single clients. The producers are nowadays obliged to provide each client the possibility to determine a huge amount of the features of the product they are willing to buy, as the competition in the automotive market is large. Due to the previously mentioned nature of the problem (NP-hard), in the given time period only satisfactory solutions are sought, as the optimal solution method has not yet been found. Most of the researchers that implemented inaccurate methods (e.g. evolutionary algorithms) to solving sequencing problems dropped the research after testing phase, as they were not able to obtain reproducible results, and met problems while determining the quality of the received solutions. Therefore a new approach to solving the problem, presented in this paper as a sequencing system is being developed. The sequencing system consists of a set of determined rules, implemented into computer environment. The system itself works in two stages. First of them is connected with the determination of a place in the storage buffer to which certain production orders should be sent. In the second stage of functioning, precise sets of sequences are determined and evaluated for certain parts of the storage buffer under certain criteria.

  1. 75 FR 63478 - 5th Annual PHEMCE Stakeholders Workshop and BARDA Industry Day

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-10-15

    ... HUMAN SERVICES Office of the Secretary 5th Annual PHEMCE Stakeholders Workshop and BARDA Industry Day... Emergency Medical Countermeasures Enterprise (PHEMCE) Stakeholders Workshop and BARDA Industry Day to be..., International Governments, Industry, Healthcare Providers, First Responders, Community-Based Organizations,...

  2. 6. 5TH FLOOR, VIEW NORTH OF KETTLE SOAP STORAGE TANKS ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    6. 5TH FLOOR, VIEW NORTH OF KETTLE SOAP STORAGE TANKS (RIGHT) AND WEIGH HOPPERS OVER SITES OF REMOVED AMALGAMATORS (LEFT) - Colgate & Company Jersey City Plant, Building No. B-14, 54-58 Grand Street, Jersey City, Hudson County, NJ

  3. CT demonstration of a 5th ventricle--a finding to KO boxers?

    PubMed

    Macpherson, P; Teasdale, E

    1988-01-01

    The reported prevalence of 5th ventricles based on air studies varies from 1-12% and ranges up to 60% as an autopsy finding. The prevalence of what is usually an incidental anomaly has not been determined by computed tomography (CT). 5th ventricles are however known to be more common in brain damaged boxers and with the introduction of compulsory CT scanning for certain boxers it is necessary to know what significance to attach to the finding of a cavum in these individuals. To ascertain the prevalence and morphology of 5th ventricles as detected by CT in the population, a thousand consecutive scans were analysed for the presence or absence of a 5th ventricle and other associated midline developmental abnormalities and correlations made with any pathology found. A 5th ventricle was present in 5.5% of the group and in most cases was less than 3 mm wide. An apparent association with other pathology was found only in patients under the age of 15. A 6th ventricle was found in 0.5% while a cavum velum interpositum was present in 9.5%. The isolated finding of a small 5th ventricle on the CT scan of a young active boxer almost certainly represents a persistent congenital anomaly of no significance.

  4. Numerical Fluid Dynamics Symposium, 5th, Tokyo, Japan, Dec. 19-21, 1991, Proceedings

    NASA Astrophysics Data System (ADS)

    1991-07-01

    Various papers on numerical fluid dynamics are presented. Individual topics discussed include: numerical analysis (NA) of shock structure problems, CFD development and a future high-speed computer, simulating vortex motion by 3D method, application of CFD to turbomachine design, numerical simulation (NS) of converging shock waves, NS of unsteady 3D shock wave phenomenon, 5th-order accurate compact upwind scheme, development of a multidimensional upwind scheme, fortified solution algorithm, large-eddy simulation of a bound jet, construction of collision model of diatomic molecules, VSL analysis of nonequilibrium flows around a hypersonic body, NA of chemically nonequilibrium flow, topological transition of flow past some axisymmetric bodies, modeling of scalar transport in free turbulence, a contribution to general application of the vortex method. Also addressed are: vortex simulation of artificial control of mixing layers, 3D motion of vortex filaments, Navier-Stokes simulation of 2D mixing layer, active control of vortex shedding frequency by a jet, direct NS of homogeneous turbulent sheer flow, NA of fuel spray jet by Eulerian method, NS of ignition using a premixed pulsed jet, NS of a scram jet combustor flow, numerical simulation of supersonic flow CO chemical laser, adaptive grid generation using optimal control theory, NS of characteristics of the Stalker tube, imcompressible flow solver using velocity vector and a new variable, unsteady analysis of helicopter rotor.

  5. Factors affecting the output pulse flatness of the linear transformer driver cavity systems with 5th harmonics

    DOE PAGES

    Alexeenko, V. M.; Mazarakis, M. G.; Kim, A. A.; ...

    2016-09-19

    Here, we describe the study we have undertaken to evaluate the effect of component tolerances in obtaining a voltage output flat top for a linear transformer driver (LTD) cavity containing 3rd and 5th harmonic bricks [A. A. Kim et al., in Proc. IEEE Pulsed Power and Plasma Science PPPS2013 (San Francisco, California, USA, 2013), pp. 1354–1356.] and for 30 cavity voltage adder. Our goal was to define the necessary component value precision in order to obtain a voltage output flat top with no more than ±0.5% amplitude variation.

  6. Factors affecting the output pulse flatness of the linear transformer driver cavity systems with 5th harmonics

    NASA Astrophysics Data System (ADS)

    Alexeenko, V. M.; Mazarakis, M. G.; Kim, A. A.; Kondratiev, S. S.; Sinebryukhov, V. A.; Volkov, S. N.; Cuneo, M. E.; Kiefer, M. L.; Leckby, J. J.; Oliver, B. V.; Maloney, P. D.

    2016-09-01

    We describe the study we have undertaken to evaluate the effect of component tolerances in obtaining a voltage output flat top for a linear transformer driver (LTD) cavity containing 3rd and 5th harmonic bricks [A. A. Kim et al., in Proc. IEEE Pulsed Power and Plasma Science PPPS2013 (San Francisco, California, USA, 2013), pp. 1354-1356.] and for 30 cavity voltage adder. Our goal was to define the necessary component value precision in order to obtain a voltage output flat top with no more than ±0.5 % amplitude variation.

  7. Complete Chloroplast Genome Sequence of Aquilaria sinensis (Lour.) Gilg and Evolution Analysis within the Malvales Order

    PubMed Central

    Wang, Ying; Zhan, Di-Feng; Jia, Xian; Mei, Wen-Li; Dai, Hao-Fu; Chen, Xiong-Ting; Peng, Shi-Qing

    2016-01-01

    Aquilaria sinensis (Lour.) Gilg is an important medicinal woody plant producing agarwood, which is widely used in traditional Chinese medicine. High-throughput sequencing of chloroplast (cp) genomes enhanced the understanding about evolutionary relationships within plant families. In this study, we determined the complete cp genome sequences for A. sinensis. The size of the A. sinensis cp genome was 159,565 bp. This genome included a large single-copy region of 87,482 bp, a small single-copy region of 19,857 bp, and a pair of inverted repeats (IRa and IRb) of 26,113 bp each. The GC content of the genome was 37.11%. The A. sinensis cp genome encoded 113 functional genes, including 82 protein-coding genes, 27 tRNA genes, and 4 rRNA genes. Seven genes were duplicated in the protein-coding genes, whereas 11 genes were duplicated in the RNA genes. A total of 45 polymorphic simple-sequence repeat loci and 60 pairs of large repeats were identified. Most simple-sequence repeats were located in the noncoding sections of the large single-copy/small single-copy region and exhibited high A/T content. Moreover, 33 pairs of large repeat sequences were located in the protein-coding genes, whereas 27 pairs were located in the intergenic regions. Aquilaria sinensis cp genome bias ended with A/T on the basis of codon usage. The distribution of codon usage in A. sinensis cp genome was most similar to that in the Gonystylus bancanus cp genome. Comparative results of 82 protein-coding genes from 29 species of cp genomes demonstrated that A. sinensis was a sister species to G. bancanus within the Malvales order. Aquilaria sinensis cp genome presented the highest sequence similarity of >90% with the G. bancanus cp genome by using CGView Comparison Tool. This finding strongly supports the placement of A. sinensis as a sister to G. bancanus within the Malvales order. The complete A. sinensis cp genome information will be highly beneficial for further studies on this traditional medicinal

  8. Complete Chloroplast Genome Sequence of Aquilaria sinensis (Lour.) Gilg and Evolution Analysis within the Malvales Order.

    PubMed

    Wang, Ying; Zhan, Di-Feng; Jia, Xian; Mei, Wen-Li; Dai, Hao-Fu; Chen, Xiong-Ting; Peng, Shi-Qing

    2016-01-01

    Aquilaria sinensis (Lour.) Gilg is an important medicinal woody plant producing agarwood, which is widely used in traditional Chinese medicine. High-throughput sequencing of chloroplast (cp) genomes enhanced the understanding about evolutionary relationships within plant families. In this study, we determined the complete cp genome sequences for A. sinensis. The size of the A. sinensis cp genome was 159,565 bp. This genome included a large single-copy region of 87,482 bp, a small single-copy region of 19,857 bp, and a pair of inverted repeats (IRa and IRb) of 26,113 bp each. The GC content of the genome was 37.11%. The A. sinensis cp genome encoded 113 functional genes, including 82 protein-coding genes, 27 tRNA genes, and 4 rRNA genes. Seven genes were duplicated in the protein-coding genes, whereas 11 genes were duplicated in the RNA genes. A total of 45 polymorphic simple-sequence repeat loci and 60 pairs of large repeats were identified. Most simple-sequence repeats were located in the noncoding sections of the large single-copy/small single-copy region and exhibited high A/T content. Moreover, 33 pairs of large repeat sequences were located in the protein-coding genes, whereas 27 pairs were located in the intergenic regions. Aquilaria sinensis cp genome bias ended with A/T on the basis of codon usage. The distribution of codon usage in A. sinensis cp genome was most similar to that in the Gonystylus bancanus cp genome. Comparative results of 82 protein-coding genes from 29 species of cp genomes demonstrated that A. sinensis was a sister species to G. bancanus within the Malvales order. Aquilaria sinensis cp genome presented the highest sequence similarity of >90% with the G. bancanus cp genome by using CGView Comparison Tool. This finding strongly supports the placement of A. sinensis as a sister to G. bancanus within the Malvales order. The complete A. sinensis cp genome information will be highly beneficial for further studies on this traditional medicinal

  9. Implicit Sequence Learning in Dyslexia: A Within-Sequence Comparison of First- and Higher-Order Information

    ERIC Educational Resources Information Center

    Du, Wenchong; Kelly, Steve W.

    2013-01-01

    The present study examines implicit sequence learning in adult dyslexics with a focus on comparing sequence transitions with different statistical complexities. Learning of a 12-item deterministic sequence was assessed in 12 dyslexic and 12 non-dyslexic university students. Both groups showed equivalent standard reaction time increments when the…

  10. Application of population sequencing (POPSEQ) for ordering and inputting genotyping-by-sequencing markers in hexaploid wheat

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The advancement of next-generation sequencing technologies in conjunction with new bioinformatics tools enabled fine-tuning of sequence-based high resolution mapping strategies for complex genomes. Although genotyping-by-sequencing (GBS) provides a large number of markers, its application for assoc...

  11. EDITORIAL: 'Best article' prize for the 5th anniversary of Environmental Research Letters 'Best article' prize for the 5th anniversary of Environmental Research Letters

    NASA Astrophysics Data System (ADS)

    Kammen, Dan; Wright, Guillaume

    2011-12-01

    To celebrate the 5th anniversary of Environmental Research Letters (ERL) the publishers of the journal, IOP Publishing, have awarded a prize for the five best articles published in ERL since the journal began in 2006. The procedure for deciding the winning articles was as thorough as possible to ensure that the most outstanding articles would win the prize. A shortlist of 25 nominated research articles, five for each year since ERL was launched, which were chosen based on a range of criteria including novelty, scientific impact, readership, broad appeal and wider media coverage, was selected. The ERL Editorial Board then assessed and rated these 25 articles in order to choose a winning article for each year. We would like to announce that the following articles have been awarded ERL's 5th anniversary best article prize: 2006/7 The Bodélé depression: a single spot in the Sahara that provides most of the mineral dust to the Amazon forest Ilan Koren, Yoram J Kaufman, Richard Washington, Martin C Todd, Yinon Rudich, J Vanderlei Martins and Daniel Rosenfeld 2006 Environ. Res. Lett. 1 014005 2008 Causes and impacts of the 2005 Amazon drought Ning Zeng, Jin-Ho Yoon, Jose A Marengo, Ajit Subramaniam, Carlos A Nobre, Annarita Mariotti and J David Neelin 2008 Environ. Res. Lett. 3 014002 2009 How difficult is it to recover from dangerous levels of global warming? J A Lowe, C Huntingford, S C B Raper, C D Jones, S K Liddicoat and L K Gohar 2009 Environ. Res. Lett. 4 014012 2010 Is physical water scarcity a new phenomenon? Global assessment of water shortage over the last two millennia Matti Kummu, Philip J Ward, Hans de Moel and Olli Varis 2010 Environ. Res. Lett. 5 034006 2011 Implications of urban structure on carbon consumption in metropolitan areas Jukka Heinonen and Seppo Junnila 2011 Environ. Res. Lett. 6 014018 Our congratulations go to these authors. In recognition of their outstanding work, we are delighted to offer all of the authors of the winning articles free

  12. The Effect of Interference on Temporal Order Memory for Random and Fixed Sequences in Nondemented Older Adults

    ERIC Educational Resources Information Center

    Tolentino, Jerlyn C.; Pirogovsky, Eva; Luu, Trinh; Toner, Chelsea K.; Gilbert, Paul E.

    2012-01-01

    Two experiments tested the effect of temporal interference on order memory for fixed and random sequences in young adults and nondemented older adults. The results demonstrate that temporal order memory for fixed and random sequences is impaired in nondemented older adults, particularly when temporal interference is high. However, temporal order…

  13. Simulations of ordering and sequence reconstruction of random DNA clones hybridized with a small number of oligomeric probes

    SciTech Connect

    Labat, I.; Drmanac, R.

    1992-12-01

    The sequencing by hybridization (SBH) method has been developed for assaying millions of 0.5- to 2-kb-tong clones. This opens up an efficient way for defining the order of short clones and creating a physical map at 100-bp resolution. Moreover, complete sequences can be obtained using a modest number (about 3000) of probes if hybridization and gel sequence data from overlapped or similar sequences are used. In light of these possibilities, various heuristic algorithms have been developed and tested in simulation experiments. This approach can influence the interpretation of the intuitively obvious term, ``known sequence.``

  14. Third-order Middle Miocene-Early Pliocene depositional sequences in the prograding delta complex of the Pannonian Basin

    USGS Publications Warehouse

    Vakarcs, G.; Vail, P.R.; Tari, G.; Pogácsás, Gy.; Mattick, R.E.; Szabo, A.

    1994-01-01

    Few studies exist in the geologic literature that show the distribution of seismic facies and depositional sequences within a lacustrine basin. The Pannonian Basin of Central Europe offers a unique opportunity to evaluate the influence of the eustatic signal on lacustrine deposition. Seismic stratigraphie and sedimentological studies indicate that the Middle Miocene-Early Pliocene infill of the transtensional Pannonian Basin was formed by large delta systems. Systematic sequence stratigraphie analysis of 6000 km of reflection seismic data and more than 100 hydrocarbon exploration wells in Hungary allowed the identification of twelve third-order sequence boundaries in the late Neogene sedimentary fill. This number of depositional sequences corresponds to that of the published global eustatic curve for this time period. Furthermore, based on magnetostratigraphic and radiometric data, the ages of these depositional sequences can be tentatively correlated with the global eustatic curve. The Pannonian Basin became isolated from the world sea at the Sarmatian/Pannonian (11.5 Ma) boundary and formed a large lake. The stratal patterns and sedimentary facies of individual systems tracts within the lacustrine sequences display the same characteristics as marine depositional sequences. The relatively low rate of thermal subsidence and the high rate of sediment supply resulted in a good sequence resolution. Within the third-order sequences higher-order sequences can be recognized with an average duration of about 0.1-0.5 Ma. ?? 1994.

  15. Higher order asymptotics for negative binomial regression inferences from RNA-sequencing data.

    PubMed

    Di, Yanming; Emerson, Sarah C; Schafer, Daniel W; Kimbrel, Jeffrey A; Chang, Jeff H

    2013-03-26

    RNA sequencing (RNA-Seq) is the current method of choice for characterizing transcriptomes and quantifying gene expression changes. This next generation sequencing-based method provides unprecedented depth and resolution. The negative binomial (NB) probability distribution has been shown to be a useful model for frequencies of mapped RNA-Seq reads and consequently provides a basis for statistical analysis of gene expression. Negative binomial exact tests are available for two-group comparisons but do not extend to negative binomial regression analysis, which is important for examining gene expression as a function of explanatory variables and for adjusted group comparisons accounting for other factors. We address the adequacy of available large-sample tests for the small sample sizes typically available from RNA-Seq studies and consider a higher-order asymptotic (HOA) adjustment to likelihood ratio tests. We demonstrate that 1) the HOA-adjusted likelihood ratio test is practically indistinguishable from the exact test in situations where the exact test is available, 2) the type I error of the HOA test matches the nominal specification in regression settings we examined via simulation, and 3) the power of the likelihood ratio test does not appear to be affected by the HOA adjustment. This work helps clarify the accuracy of the unadjusted likelihood ratio test and the degree of improvement available with the HOA adjustment. Furthermore, the HOA test may be preferable even when the exact test is available because it does not require ad hoc library size adjustments.

  16. The 5th International Conference on Language, Literature and Culture: The Book of Abstracts

    ERIC Educational Resources Information Center

    Kiliçkaya, Ferit, Ed.

    2016-01-01

    The 5th International Conference on Language, Literature and Culture has been hosted by Mehmet Akif Ersoy University (Burdur, Turkey), in cooperation with Çankaya University (Ankara, Turkey) and Süleyman Demirel University (Isparta, Turkey). Our main aim has been to provide a forum for discussion, to facilitate integration in these fields, and to…

  17. How Arizona Compares: Real Numbers and Hot Topics. Policy Choices. 5th Edition

    ERIC Educational Resources Information Center

    Morrison Institute for Public Policy, 2005

    2005-01-01

    Morrison Institute for Public Policy is pleased to present "How Arizona Compares: Real Numbers and Hot Topics," the 5th edition of Arizona "Policy Choices." The Arizona "Policy Choices" volumes seek to do more than report. They are designed to assist decision making, stimulate debate, and serve as references. Arizona "Policy Choices" volumes have…

  18. An Investigation of Science and Technology Teachers' Views on the 5th Grade Science Course

    ERIC Educational Resources Information Center

    Dasdemir, Ikramettin

    2014-01-01

    This study was conducted to explore the science and technology teachers' views on the implementation of 5th grade science course. Open-ended questions were used as a data collection tool. The study sample consisted of 28 science and technology teachers working in Erzurum in 2012-2013 education year. The data gathered were analysed via content…

  19. 10. Interior view, working house, scale floor (5th level). View ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    10. Interior view, working house, scale floor (5th level). View facing across floor toward no. 2 scale and garner. Tile structure at left center is weighmaster's shack; view facing east. - Saint Anthony Elevator No. 3, 620 Malcom Avenue, Southeast, Minneapolis, Hennepin County, MN

  20. RTP Speakers Bureau hosts EPA’s 5th Annual Science of Climate Change Workshop

    EPA Pesticide Factsheets

    On June 15-19, 2015, the Speakers Bureau hosted EPA’s 5th Annual Science of Climate Change Workshop in Research Triangle Park, bringing in a group of high-school students eager to learn about the science behind taking action on climate change.

  1. Reflecting on the 5th World Environmental Education Congress, Montreal, 2009

    ERIC Educational Resources Information Center

    Jickling, Bob

    2010-01-01

    This article traces the development of the World Environmental Congress movement and its establishment as an important international forum. Reflecting on the 5th Congress, it notes the particular contribution of the Congress theme, "Our Common Home". Finally, it considers environmental education's place alongside other parallel transformative…

  2. The Effect of Progressive Sentence Development Activities on 5th Graders' Description Skills

    ERIC Educational Resources Information Center

    Hamzadayi, Ergun

    2015-01-01

    The aim of this study was to examine the effect of progressive sentence development activities on 5th graders' description skills. The study was conducted based on the pretest-posttest quasi-experimental model with a control group. A total of 58 students participated in the study; 29 in the control group, and 29 in the experimental group. The…

  3. Urban 5th Graders Conceptions during a Place-Based Inquiry Unit on Watersheds

    ERIC Educational Resources Information Center

    Endreny, Anna Henderson

    2010-01-01

    This study aimed to determine how 33 urban 5th grade students' science conceptions changed during a place-based inquiry unit on watersheds. Research on watershed and place-based education was used as a framework to guide the teaching of the unit as well as the research study. A teacher-researcher designed the curriculum, taught the unit and…

  4. Successfully Promoting 21st Century Online Research Skills: Interventions in 5th-Grade Classrooms

    ERIC Educational Resources Information Center

    Kingsley, Tara L.; Cassady, Jerrell C.; Tancock, Susan M.

    2015-01-01

    This quantitative study was developed to explore the ability to impact elementary student 21st Century online research skills with a planned classroom intervention curriculum. The repeated measures quasi-experimental study randomly assigned all 5th grade classes in a Midwestern, suburban school (n = 418) to a 12-week intervention or control…

  5. 78 FR 53454 - Filing Dates for the Louisiana Special Elections in the 5th Congressional District

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-08-29

    ... From the Federal Register Online via the Government Publishing Office FEDERAL ELECTION COMMISSION Filing Dates for the Louisiana Special Elections in the 5th Congressional District AGENCY: Federal Election Commission. ACTION: Notice of filing dates for special election. SUMMARY: Louisiana has...

  6. Socially, Developmentally, and Academically Appropriate Prevention Curriculum for 5th Graders

    ERIC Educational Resources Information Center

    Harthun, Mary L.; Dustman, Patricia A.; Reeves, Leslie J.; Marsiglia, Flavio F.; Hecht, Michael L.

    2009-01-01

    This paper reports on a process in which program designers, classroom teachers, and students worked together to adapt the 7th grade "keepin' it REAL" prevention curriculum to a developmentally, socially, and academically appropriate curriculum for 5th graders. A Community-Based Participatory Research methodology (CBPR), combined with a 9-step…

  7. 9. 5TH FLOOR, INTERIOR DETAIL TO EAST OF SOAP BIN ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    9. 5TH FLOOR, INTERIOR DETAIL TO EAST OF SOAP BIN No. 4: UPPER SCREWS MOVED SOAP CHIPS HORIZONTALLY FROM BIN TO BIN; LOWER LEFT-AND RIGHT-HAND SCREWS MOVED CHIPS TO CHUTE LEADING TO 3RD FLOOR SOAP MILLS - Colgate & Company Jersey City Plant, Building No. B-14, 54-58 Grand Street, Jersey City, Hudson County, NJ

  8. Effects of temperature and modified atmospheres on diapausing 5th instar codling moth metabolism

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Diapausing 5th instars of codling moth, Cydia pomonella, are serious quarantine pests of in-shell walnuts. Previous research indicates that heat treatments in combination with high concentrations of carbon dioxide and low concentrations of oxygen may be effective for controlling this pest in walnuts...

  9. Anatomic variation of the 5th extensor tendon compartment and extensor digiti minimi tendon.

    PubMed

    Tanaka, Toshikazu; Moran, Steven L; Zhao, Chunfeng; Zobitz, Mark E; An, Kai-Nan; Amadio, Peter C

    2007-08-01

    Anatomic variation within the 5th extensor compartment may contribute to the development of tenosynovitis and limit the usefulness of the extensor digiti minimi (EDM) for tendon transfer. The purpose of this study was to assess the anatomic variation of the EDM tendon and its surrounding retinaculum, with particular attention to anatomical variation between specimens. Forty-one fresh cadaver hands were dissected. The length of the 5th compartment retinaculum was noted. The incidence of an intercompartmental septum was noted in each specimen as well as the type of tendinous attachments present between the EDM and extensor digitorum communis (EDC) tendons. The presence and length of any accessory retinacular bands distal to the edge of proper extensor retinaculum was also noted. Only one specimen contained a single EDM tendon, while 71% (n = 29) of specimens contained two slips and 23% (n = 9) had three slips; 24% (n = 10) of EDC tendons had no slip to the small finger, while 61% (n = 25) of specimens had a single slip to the small finger. The EDC's contribution to the small finger was found to be an independent tendon in 42% of cases (n = 17), while 34% (n = 14) of specimens were found to have a common EDC slip, which branched to both the ring and small finger. Three EDM tendons divided distal to the extensor retinaculum, while the remaining EDM tendons divided beneath or proximal to the extensor retinaculum. Seventy-three percent (n = 30) of the specimens had an accessory retinacular band surrounding the EDM tendon identified at the base of the 5th metacarpal. Eighty-eight percent (n = 36) of hands had a septum between the EDM slips. The surgeon should be aware of variability within the 5th dorsal compartment in cases of trauma and in cases of tendon transfer. In our series 30 of 41 specimens were noted to contain an accessory dorsal retinacular band surrounding the EDM and 36 specimens were noted to contain a septum within the 5th compartment. The presence of an

  10. News from the "5th International Meeting on Inflammatory Bowel Diseases" CAPRI 2010.

    PubMed

    Latella, Giovanni; Fiocchi, Claudio; Caprili, Renzo

    2010-12-01

    At the "5th International Meeting on Inflammatory Bowel Diseases selected topics of inflammatory bowel disease (IBD), including the environment, genetics, the gut flora, the cell response and immunomodulation were discussed in order to better understand specific clinical and therapeutic aspects. The incidence of IBD continues to rise, both in low and in high-incidence areas. It is believed that factors associated with 'Westernization' may be conditioning the expression of these disorders. The increased incidence of IBD among migrants from low-incidence to high-incidence areas within the same generation suggests a strong environmental influence. The development of genome-wide association scanning (GWAS) technologies has lead to the discovery of more than 100 IBD loci. Some, as the Th 17 pathway genes, are shared between Crohn's disease (CD) and ulcerative colitis (UC), while other are IBD subtype-specific (autophagy genes, epithelial barrier genes). Disease-specific therapies targeting these pathways should be developed. Epigenetic regulation of the inflammatory response also appears to play an important role in the pathogenesis of IBD. The importance of gut flora in intestinal homeostasis and inflammation was reinforced, the concepts of eubiosis and dysbiosis were introduced, and some strategies for reverting dysbiosis to a homeostatic state of eubiosis were proposed. The current status of studies on the human gut microbiota metagenome, metaprotome, and metabolome was also presented. The cell response in inflammation, including endoplasmic reticulum (ER) stress responses, autophagy and inflammasome-dependent events were related to IBD pathogenesis. It was suggested that inflammation-associated ER stress responses may be a common trait in the pathogenesis of various chronic immune and metabolic diseases. How innate and adaptive immunity signaling events can perpetuate chronic inflammation was discussed extensively. Signal transduction pathways provide intracellular

  11. VizieR Online Data Catalog: The Roma BZCAT - 5th edition (Massaro+, 2015)

    NASA Astrophysics Data System (ADS)

    Massaro, E.; Giommi, P.; Leto, C.; Marchegiani, P.; Maselli, A.; Perri, M.; Piranomonte, S.; Sclavi, S.

    2016-02-01

    In the 5th Edition we use similar denomination of blazars adopted in the previous editions. Each blazar is identified by a code, with 5BZ for all blazars, a fourth letter that specifies the type (B, G, Q or U), followed by the truncated equatorial coordinates (J2000). We introduced the edition number before the letters BZ to avoid possible confusion due to the fact that several sources changed their old names because of the new adopted classification. The codes are defined in the "Note (G1)" below. The 5th edition contains 1151 BZB sources, 92 of which are reported as candidates because we could not find their optical spectra in the literature, 1909 BZQ sources, 274 BZG sources and 227 BZU objects (1 data file).

  12. [The ethical questions raised by the law of July 5th, 2011].

    PubMed

    Mazodier, Marianne

    2012-01-01

    The law of 5th July 2011 raises numerous questions relating to care and the procedures for treating patients. Is the purpose of care getting lost in this legislative mosaic? What is the future of the rights of the patients, faced with the world of justice ? The ethical aspect must be questioned and must bring together multi-professional reflections for the benefit of the care projects.

  13. An 8 x 10 to the 5th bit bubble memory cell for spacecraft applications

    NASA Technical Reports Server (NTRS)

    Becker, F. J.; Murray, G. W.; Bohning, O. D.; Stermer, R. L.

    1980-01-01

    A multiple chip magnetic bubble memory cell design developed for NASA embodies the low power, low weight, environmental tolerance and reliability necessary for successful operation in spacecraft launch and mission environments. Packaging of multiple chips in a common magnetic bias, drive coil assembly reduces weight and volume overhead per chip and also reduces the number of coil drive components required. This 8 x 10 to the 5th bit cell is conduction cooled and provides a metal and ceramic sealed hermetic chip environment.

  14. Using 5th Force Searches to Place Limits on New Scalars in the Dark Sector

    NASA Astrophysics Data System (ADS)

    Wanninayake, Aruna; Duda, Gintaras

    2011-04-01

    Several dark matter models have been introduced recently that involve new scalar particles. For example, if dark matter decays into a new light boson that is constrained to decay into leptons, the PAMELA positron excess can be explained. This work involves using both historic and modern searches for fifth forces to constrain new dark matter models that introduce new, light, scalar particles. Limits on such models from laboratory 5th force searches will be presented; additionally, astrophysical constraints will be explored.

  15. Measuring Listening Comprehension Skills of 5th Grade School Students with the Help of Web Based System

    ERIC Educational Resources Information Center

    Acat, M. Bahaddin; Demiral, Hilmi; Kaya, Mehmet Fatih

    2016-01-01

    The main purpose of this study is to measure listening comprehension skills of 5th grade school students with the help of web based system. This study was conducted on 5th grade students studying at the primary schools of Eskisehir. The scale used in the process of the study is "Web Based Listening Scale". In the process of the study,…

  16. Effects of the 5th and 7th Grade Enhanced Versions of the "keepin' it REAL" Substance Use Prevention Curriculum

    ERIC Educational Resources Information Center

    Elek, Elvira; Wagstaff, David A.; Hecht, Michael L.

    2010-01-01

    This study assessed the outcomes of adapting the culturally-grounded, middle school, substance-use prevention intervention, "keepin' it REAL" ("kiR"), to target elementary school students and to address acculturation. At the beginning of 5th grade, 29 schools were randomly assigned to conditions obtained by crossing grade of implementation (5th,…

  17. Analysis of CXCR5(+)Th17 cells in relation to disease activity and TNF inhibitor therapy in Rheumatoid Arthritis.

    PubMed

    Singh, Deepika; Henkel, Matthew; Sendon, Bernadette; Feng, June; Fabio, Anthony; Metes, Diana; Moreland, Larry W; McGeachy, Mandy J

    2016-12-22

    Th17 and TfH cells are thought to promote tissue inflammation and autoantibody production, respectively, in autoimmune diseases including rheumatoid arthritis (RA). TfH cells that co-express Th17 markers (CXCR5(+)Th17) encompass both of these pathogenic functions, and are increased in some human autoimmune settings including juvenile dermatomyositis. We investigated CXCR5(+)Th17 cells in RA subjects with stable or active disease and before and after TNF inhibitor therapy. CXCR5(+)Th17 cell frequency was increased in RA compared to healthy controls, but other helper T cell subsets were not different. CXCR5(+)Th17 cells correlated with disease activity in subjects with active RA prior to initiation of TNF inhibitor therapy. Baseline CXCR5(+)Th17 cells also correlated with numbers of swollen joints as late as one year post-therapy. CXCR5(+)Th17 cell frequencies were unaltered by TNF blockade and in fact remained remarkably stable within individuals. We conclude that CXCR5(+)Th17 cells are not a direct target of TNF blockade and therefore cannot serve as a biomarker of current disease activity. However, basal CXCR5(+)Th17 cell frequency may indicate underlying differences in disease phenotype between patients and predict ultimate success of TNF inhibitor therapy.

  18. Analysis of CXCR5+Th17 cells in relation to disease activity and TNF inhibitor therapy in Rheumatoid Arthritis

    PubMed Central

    Singh, Deepika; Henkel, Matthew; Sendon, Bernadette; Feng, June; Fabio, Anthony; Metes, Diana; Moreland, Larry W.; McGeachy, Mandy J.

    2016-01-01

    Th17 and TfH cells are thought to promote tissue inflammation and autoantibody production, respectively, in autoimmune diseases including rheumatoid arthritis (RA). TfH cells that co-express Th17 markers (CXCR5+Th17) encompass both of these pathogenic functions, and are increased in some human autoimmune settings including juvenile dermatomyositis. We investigated CXCR5+Th17 cells in RA subjects with stable or active disease and before and after TNF inhibitor therapy. CXCR5+Th17 cell frequency was increased in RA compared to healthy controls, but other helper T cell subsets were not different. CXCR5+Th17 cells correlated with disease activity in subjects with active RA prior to initiation of TNF inhibitor therapy. Baseline CXCR5+Th17 cells also correlated with numbers of swollen joints as late as one year post-therapy. CXCR5+Th17 cell frequencies were unaltered by TNF blockade and in fact remained remarkably stable within individuals. We conclude that CXCR5+Th17 cells are not a direct target of TNF blockade and therefore cannot serve as a biomarker of current disease activity. However, basal CXCR5+Th17 cell frequency may indicate underlying differences in disease phenotype between patients and predict ultimate success of TNF inhibitor therapy. PMID:28004828

  19. Some new spaces of lacunary f-statistical A-convergent sequences of order α

    NASA Astrophysics Data System (ADS)

    Savas, Ekrem; Borgohain, Stuti

    2015-09-01

    We study the concept of density for sets of natural numbers in some spaces of lacunary A-convergent sequences. Also we investigate the relation between the ordinary convergence and module statistical convergence for every unbounded modulus function. Morever we also study some results on the spaces of lacunary f-statistically A-convergent sequences with respect to some Musielak-Orlicz function.

  20. Utilization of deletion bins to anchor and order sequences along the wheat 7B chromosome

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Bread wheat (Triticum aestivum L.) has a large, complex and highly repetitive genome which is challenging to assemble into high quality pseudo-chromosomes. As part of the international effort to sequence the hexaploid bread wheat genome by the international wheat genome sequencing consortium (IWGSC)...

  1. Effects of the 5th and 7th grade enhanced versions of the keepin' it REAL substance use prevention curriculum.

    PubMed

    Elek, Elvira; Wagstaff, David A; Hecht, Michael L

    2010-01-01

    This study assessed the outcomes of adapting the culturally-grounded, middle school, substance-use prevention intervention, keepin ' it REAL (kiR), to target elementary school students and to address acculturation. At the beginning of 5th grade, 29 schools were randomly assigned to conditions obtained by crossing grade of implementation (5th, 7th, 5th + 7th, and control/comparison) by curriculum version [kiR-Plus vs. kiR-Acculturation Enhanced (AE)]. Students (n = 1984) completed 6 assessments through the end of 8th grade. The kiR curricula generally appear no more effective than the comparison schools' programming. Students receiving either version of the kiR intervention in only the 5th grade report greater increases in substance use than did control students. Receiving the kiR-AE version twice (both 5th and 7th grades) has benefits over receiving it once.

  2. Impact of order of movement on nerve strain and longitudinal excursion: a biomechanical study with implications for neurodynamic test sequencing.

    PubMed

    Nee, Robert J; Yang, Chich-Haung; Liang, Chung-Chao; Tseng, Guo-Fang; Coppieters, Michel W

    2010-08-01

    It is assumed that strain in a nerve segment at the end of a neurodynamic test will be greatest if the joint nearest that nerve segment is moved first in the neurodynamic test sequence. To test this assumption, the main movements of the median nerve biased neurodynamic test were applied in three different sequences to seven fresh-frozen human cadavers. Strain and longitudinal excursion were measured in the median nerve at the distal forearm. Strain and relative position of the nerve at the end of a test did not differ between sequences. The nerve was subjected to higher levels of strain for a longer duration during the sequence where wrist extension occurred first. The pattern of excursion was different for each sequence. The results highlight that order of movement does not affect strain or relative position of the nerve at the end of a test when joints are moved through comparable ranges of motion. When used clinically, different neurodynamic sequences may still change the mechanical load applied to a nerve segment. Changes in load may occur because certain sequences apply increased levels of strain to the nerve for a longer time period, or because sequences differ in ranges of joint motions.

  3. Tachyon search speeds up retrieval of similar sequences by several orders of magnitude

    PubMed Central

    Tan, Joshua; Kuchibhatla, Durga; Sirota, Fernanda L.; Sherman, Westley A.; Gattermayer, Tobias; Kwoh, Chia Yee; Eisenhaber, Frank; Schneider, Georg; Maurer-Stroh, Sebastian

    2012-01-01

    Summary: The usage of current sequence search tools becomes increasingly slower as databases of protein sequences continue to grow exponentially. Tachyon, a new algorithm that identifies closely related protein sequences ~200 times faster than standard BLAST, circumvents this limitation with a reduced database and oligopeptide matching heuristic. Availability and implementation: The tool is publicly accessible as a webserver at http://tachyon.bii.a-star.edu.sg and can also be accessed programmatically through SOAP. Contact: sebastianms@bii.a-star.edu.sg Supplementary information: Supplementary data are available at the Bioinformatics online. PMID:22531216

  4. Indoor Air '90: the 5th in a series of international conferences on the indoor environment.

    PubMed

    Walkinshaw, D

    1992-01-01

    The 5th International Conference on Indoor Air Quality and Climate: INDOOR AIR '90 continued a series of international scientific conferences begun in 1978 on a complex, interdisciplinary subject increasingly recognized to be of importance to human comfort, health and productivity, and having important implications for building design and furnishing, office equipment, appliances, cleaning, heating, ventilating, humidifying and air-conditioning. INDOOR AIR '90 constituted a week long program of 542 paper and poster presentations and forum discussions, 100 exhibits, and a public forum. This paper summarizes some of the highlights of this conference and links these to some of the studies reported at earlier INDOOR AIR Conference.

  5. Selected highlights on women and HIV from the 5th Conference on Retroviruses and Opportunistic Infections.

    PubMed

    Bartnof, H S

    1998-04-01

    Many sessions at the 5th Conference on Retroviruses and Opportunistic Infections dealt specifically with HIV infection and treatment in women. Highlights are presented from several sessions, including indinavir blood levels at various points in the menstrual cycle, abnormal kidney function associated with women taking indinavir, abnormal pap smears in women with high viral load, the relationship between viral load and the increased risk of death in women, and the impact of ddI crossing the placenta in pregnant women. Information is given on each presentation, including clinical trial results, side effects, and impacts on disease progression.

  6. PREFACE: The 5th International Conference on Radiotherapy Gel Dosimetry (DOSGEL 2008)

    NASA Astrophysics Data System (ADS)

    Maris, Thomas G.; Pappas, Evangelos

    2009-07-01

    The International Conference on Radiotherapy Gel Dosimetry (DOSGEL) is held every two years. Its purpose is to bring together basic science and clinical researchers, medical physicists and clinicians from around the world to discuss the state-of-the-art of the gel dosimetry technique and to set the directions and trends for its future improvements. Gel dosimetry can be broadly defined as using a gel that can react to the absorption of ionizing radiation, and that can retain this information which can subsequently be retrieved by an external imaging modality. Examples of radiation-sensitive gels include, but are not limited to, polymer gel dosimeters, Fricke gel dosimeters and others. Imaging modalities that are of general use in this field are (in alphabetical order) magnetic resonance imaging (MRI), optical light computed tomography and x-ray computed tomography. This volume comprises the proceedings of the 5th International Conference on Radiotherapy Gel Dosimetry (DOSGEL 2008). The conference, organised by the University of Crete, Medical Physics Department, took place in Hersonissos, Crete, Greece from 29 September to 3 October 2008. The meeting aimed to continue the series of biannual DOSGEL conferences and focused on the promotion of gel dosimetry techniques by setting the trends for their future improvements. The main scientific session topics of DOSGEL 2008 were the following: Chemistry and fundamental properties of polymer gel dosimeters Gel dosimetry with Optical Computed Tomography Gel dosimetry with Magnetic Resonance Imaging Gel dosimetry with other than Optical CT and MR scan Techniques Other 3D dosimeters Gel dosimetry applications Local Organizing Committee Thomas G Maris (University of Crete, Greece, Chairman DOSGEL 2008) John Damilakis (University of Crete, Greece) Evangelos Pappas (University of Crete, Greece) Antonios Papadakis (University of Crete, Greece) Fotini Zacharopoulou (University of Crete, Greece) John Stratakis (University of Crete

  7. Chloroplast phylogenomic data from the green algal order Sphaeropleales (Chlorophyceae, Chlorophyta) reveal complex patterns of sequence evolution.

    PubMed

    Fučíková, Karolina; Lewis, Paul O; Lewis, Louise A

    2016-05-01

    Chloroplast sequence data are widely used to infer phylogenies of plants and algae. With the increasing availability of complete chloroplast genome sequences, the opportunity arises to resolve ancient divergences that were heretofore problematic. On the flip side, properly analyzing large multi-gene data sets can be a major challenge, as these data may be riddled with systematic biases and conflicting signals. Our study contributes new data from nine complete and four fragmentary chloroplast genome sequences across the green algal order Sphaeropleales. Our phylogenetic analyses of a 56-gene data set show that analyzing these data on a nucleotide level yields a well-supported phylogeny - yet one that is quite different from a corresponding amino acid analysis. We offer some possible explanations for this conflict through a range of analyses of modified data sets. In addition, we characterize the newly sequenced genomes in terms of their structure and content, thereby further contributing to the knowledge of chloroplast genome evolution.

  8. 5th Bionanotox and Applications International Research Conference, Peabody, Little Rock, Arkansas, USA

    NASA Astrophysics Data System (ADS)

    Sabb, Taneicie; Chowdhury, Parimal

    2011-06-01

    "BioNanoTox and Toxicity: using Technology to Advance Discovery" was this year's theme at the 5th BioNanoTox and Applications International Research Conference held at the Peabody Hotel, Little Rock, Arkansas on November 4-5th, 2010. This year, the international participation in this conference increased to 25 countries spanning the globe. The conference began with opening remarks by Paul Howard, Associate Director of the National Center for Toxicological Research, Food and Drug Administration, Jefferson, Arkansas, United States. Two keynote speakers, Dr. Ananth V. Annapragada and Dr. Merle G. Paule presented lectures on "Toxicity of Novel Nanoparticles for CT imaging" and "The Biology of Neurotoxicity: using Technology to Advance Discovery", respectively. Teachers, students, faculty, and scientists presented oral and poster presentations on fundamental and translational research related to BioNanoTox and related fields of science. Six presentation sessions were held over the two-day conference. There were 31 presentations and 39 posters from disciplines ranging from biology to chemistry, toxicology, nanotechnology, computational sciences, mathematics, engineering, plant science, and biotechnology. Poster presentation awards were presented to three high school students, three high school teachers, and three college students. In addition to poster awards a memorial, travel, and BioNanoTox award were presented. This year's meeting paved the way for a more outstanding meeting for the future.

  9. Third-order many-body perturbation theory calculations for the beryllium and magnesium isoelectronic sequences

    SciTech Connect

    Ho, H. C.; Johnson, W. R.; Blundell, S. A.; Safronova, M. S.

    2006-08-15

    Third-order relativistic many-body perturbation theory (MBPT) is applied to obtain energies of ions with two valence electrons in the no virtual-pair approximation (NVPA). A total of 302 third-order Goldstone diagrams are organized into 12 one-body and 23 two-body terms. Only third-order two-body terms and diagrams are presented in this paper, owing to the fact that the one-body terms are identical to the previously studied third-order terms in monovalent ions. Dominant classes of diagrams are identified. The model potential is the Dirac-Hartree-Fock potential V{sup N-2}, and B-spline basis functions in a cavity of finite radius are employed in the numerical calculations. The Breit interaction is taken into account through the second order of perturbation theory, and the lowest-order Lamb shift is also evaluated. Sample calculations are performed for berylliumlike ions with Z=4-7, and for the magnesiumlike ion P IV. The third-order excitation energies are in excellent agreement with measurement with an accuracy at 0.2% level for the cases considered. Comparisons are made with second-order MBPT results, and with other calculations. The third-order energy correction is shown to be significant, improving the previous second-order calculations by an order of magnitude.

  10. Systematically frameshifting by deletion of every 4th or 4th and 5th nucleotides during mitochondrial transcription: RNA self-hybridization regulates delRNA expression.

    PubMed

    Seligmann, Hervé

    2016-01-01

    In mitochondria, secondary structures punctuate post-transcriptional RNA processing. Recently described transcripts match the human mitogenome after systematic deletions of every 4th, respectively every 4th and 5th nucleotides, called delRNAs. Here I explore predicted stem-loop hairpin formation by delRNAs, and their associations with delRNA transcription and detected peptides matching their translation. Despite missing 25, respectively 40% of the nucleotides in the original sequence, del-transformed sequences form significantly more secondary structures than corresponding randomly shuffled sequences, indicating biological function, independently of, and in combination with, previously detected delRNA and thereof translated peptides. Self-hybridization decreases delRNA abundances, indicating downregulation. Systematic deletions of the human mitogenome reveal new, unsuspected coding and structural informations.

  11. Identifying Odd/Even-Order Binary Kernel Slices for a Nonlinear System Using Inverse Repeat m-Sequences

    PubMed Central

    Hu, Jin-yan; Yan, Gang

    2015-01-01

    The study of various living complex systems by system identification method is important, and the identification of the problem is even more challenging when dealing with a dynamic nonlinear system of discrete time. A well-established model based on kernel functions for input of the maximum length sequence (m-sequence) can be used to estimate nonlinear binary kernel slices using cross-correlation method. In this study, we examine the relevant mathematical properties of kernel slices, particularly their shift-and-product property and overlap distortion problem caused by the irregular shifting of the estimated kernel slices in the cross-correlation function between the input m-sequence and the system output. We then derive the properties of the inverse repeat (IR) m-sequence and propose a method of using IR m-sequence as an input to separately estimate odd- and even-order kernel slices to reduce the chance of kernel-slice overlapping. An instance of third-order Wiener nonlinear model is simulated to justify the proposed method. PMID:25873988

  12. Identifying odd/even-order binary kernel slices for a nonlinear system using inverse repeat m-sequences.

    PubMed

    Hu, Jin-Yan; Yan, Gang; Wang, Tao

    2015-01-01

    The study of various living complex systems by system identification method is important, and the identification of the problem is even more challenging when dealing with a dynamic nonlinear system of discrete time. A well-established model based on kernel functions for input of the maximum length sequence (m-sequence) can be used to estimate nonlinear binary kernel slices using cross-correlation method. In this study, we examine the relevant mathematical properties of kernel slices, particularly their shift-and-product property and overlap distortion problem caused by the irregular shifting of the estimated kernel slices in the cross-correlation function between the input m-sequence and the system output. We then derive the properties of the inverse repeat (IR) m-sequence and propose a method of using IR m-sequence as an input to separately estimate odd- and even-order kernel slices to reduce the chance of kernel-slice overlapping. An instance of third-order Wiener nonlinear model is simulated to justify the proposed method.

  13. Does order matter? Investigating the effect of sequence on glance duration during on-road driving

    PubMed Central

    Roberts, Shannon C.; Reimer, Bryan; Mehler, Bruce

    2017-01-01

    Previous literature has shown that vehicle crash risks increases as drivers’ off-road glance duration increases. Many factors influence drivers’ glance duration such as individual differences, driving environment, or task characteristics. Theories and past studies suggest that glance duration increases as the task progresses, but the exact relationship between glance sequence and glance durations is not fully understood. The purpose of this study was to examine the effect of glance sequence on glance duration among drivers completing a visual-manual radio tuning task and an auditory-vocal based multi-modal navigation entry task. Eighty participants drove a vehicle on urban highways while completing radio tuning and navigation entry tasks. Forty participants drove under an experimental protocol that required three button presses followed by rotation of a tuning knob to complete the radio tuning task while the other forty participants completed the task with one less button press. Multiple statistical analyses were conducted to measure the effect of glance sequence on glance duration. Results showed that across both tasks and a variety of statistical tests, glance sequence had inconsistent effects on glance duration—the effects varied according to the number of glances, task type, and data set that was being evaluated. Results suggest that other aspects of the task as well as interface design effect glance duration and should be considered in the context of examining driver attention or lack thereof. All in all, interface design and task characteristics have a more influential impact on glance duration than glance sequence, suggesting that classical design considerations impacting driver attention, such as the size and location of buttons, remain fundamental in designing in-vehicle interfaces. PMID:28158301

  14. Does order matter? Investigating the effect of sequence on glance duration during on-road driving.

    PubMed

    Lee, Joonbum; Roberts, Shannon C; Reimer, Bryan; Mehler, Bruce

    2017-01-01

    Previous literature has shown that vehicle crash risks increases as drivers' off-road glance duration increases. Many factors influence drivers' glance duration such as individual differences, driving environment, or task characteristics. Theories and past studies suggest that glance duration increases as the task progresses, but the exact relationship between glance sequence and glance durations is not fully understood. The purpose of this study was to examine the effect of glance sequence on glance duration among drivers completing a visual-manual radio tuning task and an auditory-vocal based multi-modal navigation entry task. Eighty participants drove a vehicle on urban highways while completing radio tuning and navigation entry tasks. Forty participants drove under an experimental protocol that required three button presses followed by rotation of a tuning knob to complete the radio tuning task while the other forty participants completed the task with one less button press. Multiple statistical analyses were conducted to measure the effect of glance sequence on glance duration. Results showed that across both tasks and a variety of statistical tests, glance sequence had inconsistent effects on glance duration-the effects varied according to the number of glances, task type, and data set that was being evaluated. Results suggest that other aspects of the task as well as interface design effect glance duration and should be considered in the context of examining driver attention or lack thereof. All in all, interface design and task characteristics have a more influential impact on glance duration than glance sequence, suggesting that classical design considerations impacting driver attention, such as the size and location of buttons, remain fundamental in designing in-vehicle interfaces.

  15. Effects of temperature and modified atmospheres on diapausing 5th instar codling moth metabolism.

    PubMed

    Neven, Lisa G; Lehrman, Nathan J; Hansen, Lee D

    2014-05-01

    The oxygen and capacity limitation of thermal tolerance (OCLTT) has been established in aquatic insect larvae, but OCLTT has not been shown to generally apply to terrestrial insects. Previous research indicates that heat treatments in combination with high concentrations of carbon dioxide and low concentrations of oxygen may be effective for controlling diapausing codling moth, a quarantine pest in walnuts, but treatment requires long times and the killing mechanism is unknown. In this study, the effects of temperature and modified atmospheres on metabolism in diapausing 5th instar codling moth (Cydia pomonella) was investigated with multi-channel differential scanning calorimeters, one equipped with an oxygen sensor. O2 consumption and metabolic heat rates in air were measured simultaneously at isothermal temperatures from 5 to 50°C at 5°C intervals. Both rates increased with increasing temperatures from 5 to 40°C. The ratio of metabolic heat rate to O2 consumption rate at temperatures ≤40°C shows that a portion of the metabolic heat is from normal anabolic reactions of metabolism. At 45 and 50°C in air, O2 consumption and metabolic heat rates dropped to near zero. These results indicate that treatment of walnuts in air at >45°C for a short period of time (minutes) is effective in killing diapausing 5th instar codling moth larvae. Continuous heating scans at 0.4°C/min were used to measure metabolic heat rates from 10 to 50°C with air and modified atmospheres with lowered oxygen and high carbon dioxide. A rapid increase was observed in heat rates above 40°C in scans with O2≥11%. Taken together with the isothermal results showing no metabolic heat production or oxygen uptake at 45 and 50°C, these results demonstrate that thermal damage to cell membranes and loss of control of oxidation reactions is the lethal mechanism at high temperature when O2≥11%. The data from scans with O2≤2% and high CO2 show the effects of oxygen limitation as postulated by

  16. Mitochondrial genome sequence and gene order of Sipunculus nudus give additional support for an inclusion of Sipuncula into Annelida

    PubMed Central

    Mwinyi, Adina; Meyer, Achim; Bleidorn, Christoph; Lieb, Bernhard; Bartolomaeus, Thomas; Podsiadlowski, Lars

    2009-01-01

    Background Mitochondrial genomes are a valuable source of data for analysing phylogenetic relationships. Besides sequence information, mitochondrial gene order may add phylogenetically useful information, too. Sipuncula are unsegmented marine worms, traditionally placed in their own phylum. Recent molecular and morphological findings suggest a close affinity to the segmented Annelida. Results The first complete mitochondrial genome of a member of Sipuncula, Sipunculus nudus, is presented. All 37 genes characteristic for metazoan mtDNA were detected and are encoded on the same strand. The mitochondrial gene order (protein-coding and ribosomal RNA genes) resembles that of annelids, but shows several derivations so far found only in Sipuncula. Sequence based phylogenetic analysis of mitochondrial protein-coding genes results in significant bootstrap support for Annelida sensu lato, combining Annelida together with Sipuncula, Echiura, Pogonophora and Myzostomida. Conclusion The mitochondrial sequence data support a close relationship of Annelida and Sipuncula. Also the most parsimonious explanation of changes in gene order favours a derivation from the annelid gene order. These results complement findings from recent phylogenetic analyses of nuclear encoded genes as well as a report of a segmental neural patterning in Sipuncula. PMID:19149868

  17. First- or second-order transition in the melting of repeat sequence DNA.

    PubMed Central

    Chen, Y Z; Prohofsky, E W

    1994-01-01

    Both theoretical analysis and observation of the continuity of the melted fraction of base pairs indicate that the melting transition in DNA is second order. Analysis of the salt dependence of the transition by polyelectrolyte limiting laws, however, has first-order dynamics imbedded in the analysis. This paper proposes that the observation taken to be a latent heat of melting in the limiting law analysis could instead be a specific heat anomaly associated with a second-order transition. The limiting laws can be reconstructed based on a second-order transition with a specific heat anomaly. The T2M dependence of this excess heat is also consistent with its being a specific heat anomaly of a system displaying classical critical behavior. Classical critical behavior indicates that theoretical mean field approaches such as MSPA should be particularly appropriate to helix melting studies. PMID:8130338

  18. Exciting new developments at the 5th International Symposium on Surface and Interface of Biomaterials.

    PubMed

    Grøndahl, Lisbeth; Kingshott, Peter; Griesser, Hans J

    2015-12-17

    Materials intended for use as implantable or diagnostic devices are required not only to display the required functional bulk properties but also have surface properties that elicit a desired biological response, and do so with high selectivity. The area of surface functionalization approaches and bioactive coatings for biomaterials and biomedical devices has been the subject of much research over several decades; yet, many challenges still remain to be solved. The 5th International Symposium on Surface and Interface of Biomaterials (ISSIB) held in Sydney (Australia) in April 2015 was an ideal forum to discuss the most recent developments in biomaterial surface modification, characterization, and evaluation of biological responses. The conference covered a range of topics including antimicrobial coatings, analysis of biomaterial surfaces and interfaces, biomolecules and cells at surfaces and interfaces, nanoparticles, functional coatings, patterned biomaterials, nanofabrication, bioreactors, and biosensors. In this special conference issue, the authors include papers that detail some of the highlights from the meeting.

  19. The 5th annual European League Against Rheumatism congress in Berlin: a personal perspective

    PubMed Central

    2005-01-01

    The 5th annual European League Against Rheumatism congress, held in Berlin, 9–12 June 2004, was attended by a record number of delegates from all continents and offered a large choice of education, state-of-the-art and original research presentations in up to 15 parallel sessions. Some of these were poorly attended, although featuring top-ranked abstracts. The poster sessions remain a problem child. They were not well attended by viewers and largely neglected by presenters, mainly because of the general structure of the meeting. Ways to improve this could be to provide lunch packages and to appoint poster session chairmen. Other changes would involve moving morning hour satellites to other slots. However, in general it was an enjoyable meeting showing important progress in various fields of rheumatology and meeting the expectations of most delegates.

  20. Reflecting on the 5th National Occupational Injury Research Symposium and looking forward ☆

    PubMed Central

    Castillo, Dawn N.; Collins, James

    2015-01-01

    For 2-1/2 days in October, 2011, more than 200 researchers convened at the 5th National Occupational Injury Research Symposium (NOIRS) to celebrate advances and successes in the field, to learn from each other about recent and ongoing occupational injury research, and to network and establish new professional relationships to advance occupational injury research in the future. This special issue highlights some of the research presented at that meeting. There has been considerable progress in research and worker safety since the first NOIRS in 1997, with demonstrated reductions in worker deaths and injury, an increased depth and breadth of research, and the development and validation of prevention strategies. Despite this progress, occupational injuries continue to exert too high a toll on workers, employers and society, and there are numerous challenges that need to be addressed to continue advancements in worker safety. PMID:23398698

  1. Theoretical studies of Ir5Th and Ir5Ce nanoscale precipitates in Ir

    SciTech Connect

    Morris, James R; Averill, Frank; Cooper, Valentino R

    2014-01-01

    Experimentally, it is known that very small amounts of thorium and/or cerium added to iridium metal form a precipitate, Ir5Th / Ir5Ce, which improves the high temperature mechanical properties of the resulting alloys. We demonstrate that there are low-energy configurations for nano-scale precipitates of these phases in Ir, and that these coherent arrangements may assist in producing improved mechanical properties. One precipitate/matrix orientation gives a particularly low interfacial energy, and a low lattice misfit. Nanolayer precipitates with this orientation are found to be likely to form, with little driving force to coarsen. The predicted morphology of the precipitates and their orientation with the matrix phase provide a potential experiment that could be used to test these predictions.

  2. 5th Ovarian Cancer Consensus Conference: Individualized Therapy and Patient Factors.

    PubMed

    McGee, J; Bookman, M; Harter, P; Marth, C; McNeish, I; Moore, K N; Poveda, A; Hilpert, F; Hasegawa, K; Bacon, M; Gatsonis, C; Brand, A; Kridelka, F; Berek, J; Ottevanger, N; Levy, T; Silverberg, S; Kim, B-G; Hirte, H; Okamoto, A; Stuart, G; Ochiai, K

    2017-01-24

    This manuscript reports the consensus statements regarding the design and conduct of clinical trials in patients with newly diagnosed and recurrent epithelial ovarian cancer (EOC), following deliberation at the 5th Ovarian Cancer Consensus Conference (OCCC), held in Tokyo in November 2015. Three important questions were identified for discussion prior to the meeting and achieved consensus during the meeting: 1) What are the most important factors to be evaluated prior to initial therapy? 2) What are the most important factors to be evaluated specifically in recurrent disease? 3) Are there specific considerations for special patient subpopulations? In addition, we report a list of important unmet needs compiled during the consensus process, which is intended to guide future research initiatives.

  3. Highlights from the 5th Annual Meeting of the Italian Society of Virology.

    PubMed

    Salata, Cristiano; Calistri, Arianna; Palù, Giorgio

    2006-07-01

    The 5th National Congress of the Italian Society of Virology (SIV) was attended by junior- and senior-level virologists to promote interactions and scientific collaborations among the different areas of Virology and allied sciences. The invited and selected lecturers covered the following topics: General Virology and Viral Genetics; Virus-host Interaction and Pathogenesis; Viral Oncogenesis; Viral Immunology and Vaccines; Anti-viral Therapy; Innovative Diagnostics; Viral Biotechnologies and Cell and Gene Therapy. As in the previous editions (Salata and Palù, 2004; Salata et al., 2005), a specific topic was thoroughly covered in a roundtable. This year the elected subject was "HIV: determinants of pathogenicity and clinical implications." The final program and the abstract book can be found at the web site http://www.siv-virologia.it. This report summarizes the lessons learned from the plenary lectures and the selected oral presentations of the 2005 meeting.

  4. Recurrent Idiopathic Catatonia: Implications beyond the Diagnostic and Statistical Manual of Mental Disorders 5th Edition.

    PubMed

    Caroff, Stanley N; Hurford, Irene; Bleier, Henry R; Gorton, Gregg E; Campbell, E Cabrina

    2015-08-31

    We describe a case of recurrent, life-threatening, catatonic stupor, without evidence of any associated medical, toxic or mental disorder. This case provides support for the inclusion of a separate category of "unspecified catatonia" in the Diagnostic and Statistical Manual of Mental Disorders 5th edition (DSM-5) to be used to classify idiopathic cases, which appears to be consistent with Kahlbaum's concept of catatonia as a distinct disease state. But beyond the limited, cross-sectional, syndromal approach adopted in DSM-5, this case more importantly illustrates the prognostic and therapeutic significance of the longitudinal course of illness in differentiating cases of catatonia, which is better defined in the Wernicke-Kleist-Leonhard classification system. The importance of differentiating cases of catatonia is further supported by the efficacy of antipsychotics in treatment of this case, contrary to conventional guidelines.

  5. Proceedings of the 5th US/German Workshop on Salt Repository Research Design and Operation

    SciTech Connect

    Hansen, Francis D.; Leigh, Christi; Stein, Walter; Bollingerfehr, Wilhelm; Von Berlepsche, Thilo

    2015-01-01

    The 5th US/German Workshop on Salt Repository Research, Design, and Operation was held in Santa Fe New Mexico September 8-10, 2014. The forty seven registered participants were equally divided between the United States (US) and Germany, with one participant from The Netherlands. The agenda for the 2014 workshop was under development immediately upon finishing the 4th Workshop. Ongoing, fundamental topics such as thermomechanical behavior of salt, plugging and sealing, the safety case, and performance assessment continue to advance the basis for disposal of heat-generating nuclear waste in salt formations. The utility of a salt underground research laboratory (URL) remains an intriguing concept engendering discussion of testing protocol. By far the most interest in this years’ workshop pertained to operational safety. Given events at the Waste Isolation Pilot Plant (WIPP), this discussion took on a new sense of relevance and urgency.

  6. Statistical learning of an auditory sequence and reorganization of acquired knowledge: A time course of word segmentation and ordering.

    PubMed

    Daikoku, Tatsuya; Yatomi, Yutaka; Yumoto, Masato

    2017-01-27

    Previous neural studies have supported the hypothesis that statistical learning mechanisms are used broadly across different domains such as language and music. However, these studies have only investigated a single aspect of statistical learning at a time, such as recognizing word boundaries or learning word order patterns. In this study, we neutrally investigated how the two levels of statistical learning for recognizing word boundaries and word ordering could be reflected in neuromagnetic responses and how acquired statistical knowledge is reorganised when the syntactic rules are revised. Neuromagnetic responses to the Japanese-vowel sequence (a, e, i, o, and u), presented every .45s, were recorded from 14 right-handed Japanese participants. The vowel order was constrained by a Markov stochastic model such that five nonsense words (aue, eao, iea, oiu, and uoi) were chained with an either-or rule: the probability of the forthcoming word was statistically defined (80% for one word; 20% for the other word) by the most recent two words. All of the word transition probabilities (80% and 20%) were switched in the middle of the sequence. In the first and second quarters of the sequence, the neuromagnetic responses to the words that appeared with higher transitional probability were significantly reduced compared with those that appeared with a lower transitional probability. After switching the word transition probabilities, the response reduction was replicated in the last quarter of the sequence. The responses to the final vowels in the words were significantly reduced compared with those to the initial vowels in the last quarter of the sequence. The results suggest that both within-word and between-word statistical learning are reflected in neural responses. The present study supports the hypothesis that listeners learn larger structures such as phrases first, and they subsequently extract smaller structures, such as words, from the learned phrases. The present

  7. Generation of Some First-Order Autoregressive Markovian Sequences of Positive Random Variables with Given Marginal Distributions,

    DTIC Science & Technology

    1981-03-01

    LAWRANCE , P A LEWIS UNCLASSIFIED NWS55-81-003 NLm ’hEEEIIIIEEE mhhhhEEh EEEEEEEllEEEll 46 NPS55-81-003 NAVAL POSTGRADUATE SCHOOL Monterey, California D C...GENERATION OF SOME FIRST-ORDER AUTOREGRESSIVE MARKOVIAN SEQUENCES OF POSITIVE RANDOM VARIABLES WITH GIVEN MARGINAL DISTRIBUTIONS by A. J. Lawrance P. A... Lawrance University of Birmingham Birmingham, England P. A. W. Lewis, Professor Department of Operations Research Reviewed by: Released by: K. T

  8. The Effect of Animacy on Children's Noun Order in Verb-Final Sequences.

    ERIC Educational Resources Information Center

    Lempert, Henrietta

    1988-01-01

    Examines effect of training 70 preschool children with animate agent + animate patient sentences (AAV) or animate agent + inanimate patient sentences (IAV). Children were tested with noun-noun-verb (NNV) order sentence to assess whether AAV or IAV produced better comprehension. AAV and IAV showed comparable results at age three, IAV resulted in…

  9. Effect of Element Composition on Streaming and the Ordering of Repeating Sequences

    ERIC Educational Resources Information Center

    McNally, Kathleen A.; Handel, Stephen

    1977-01-01

    The relatedness of four elements (tone, white noise, click, and a buzz) making up a recycled pattern was varied to determine the effects of streaming (sounds that break into separate channels) on the ease of correctly ordering the elements. Results suggest the organization of elements into streams by similarity supplants the organization by…

  10. LaGomiCs-Lagomorph Genomics Consortium: An International Collaborative Effort for Sequencing the Genomes of an Entire Mammalian Order.

    PubMed

    Fontanesi, Luca; Di Palma, Federica; Flicek, Paul; Smith, Andrew T; Thulin, Carl-Gustaf; Alves, Paulo C

    2016-07-01

    The order Lagomorpha comprises about 90 living species, divided in 2 families: the pikas (Family Ochotonidae), and the rabbits, hares, and jackrabbits (Family Leporidae). Lagomorphs are important economically and scientifically as major human food resources, valued game species, pests of agricultural significance, model laboratory animals, and key elements in food webs. A quarter of the lagomorph species are listed as threatened. They are native to all continents except Antarctica, and occur up to 5000 m above sea level, from the equator to the Arctic, spanning a wide range of environmental conditions. The order has notable taxonomic problems presenting significant difficulties for defining a species due to broad phenotypic variation, overlap of morphological characteristics, and relatively recent speciation events. At present, only the genomes of 2 species, the European rabbit (Oryctolagus cuniculus) and American pika (Ochotona princeps) have been sequenced and assembled. Starting from a paucity of genome information, the main scientific aim of the Lagomorph Genomics Consortium (LaGomiCs), born from a cooperative initiative of the European COST Action "A Collaborative European Network on Rabbit Genome Biology-RGB-Net" and the World Lagomorph Society (WLS), is to provide an international framework for the sequencing of the genome of all extant and selected extinct lagomorphs. Sequencing the genomes of an entire order will provide a large amount of information to address biological problems not only related to lagomorphs but also to all mammals. We present current and planned sequencing programs and outline the final objective of LaGomiCs possible through broad international collaboration.

  11. Arousal transitions in sleep, wakefulness, and anesthesia are characterized by an orderly sequence of cortical events.

    PubMed

    Liu, Xiao; Yanagawa, Toru; Leopold, David A; Chang, Catie; Ishida, Hiroaki; Fujii, Naotaka; Duyn, Jeff H

    2015-08-01

    Many aspects of brain function are influenced by modulatory processes, including arousal. The most abrupt changes in arousal occur at the wake-sleep transition and at the induction of anesthetic conditions. They are accompanied by major electrophysiological changes, including an emergence of low-frequency (sleep-like) activity and a loss of mid-frequency (wake-like) activity that has been linked to feedback processes of the brain. Nevertheless, the causal relationship between these two types of electrophysiological changes, as well as the cortical mechanisms underlying changes in arousal and consciousness, remain poorly understood. To address this, we studied spontaneous electro-cortical activity during arousal changes in macaques. During sleep and at loss of consciousness induced by propofol anesthesia, we identified a prototypical sequence of cortical events in which the loss of mid-frequency activity preceded, by seconds, the increases in low-frequency activity. Furthermore, in visual areas, an influence of mid-frequency change onto high-frequency activity was observed across visual hierarchy. These results are consistent with the notion that drops in arousal and consciousness are facilitated by a release of feedback cortical inhibition.

  12. Arousal Transitions in Sleep, Wakefulness, and Anesthesia are Characterized by an Orderly Sequence of Cortical Events

    PubMed Central

    Liu, Xiao; Yanagawa, Toru; Leopold, David A.; Chang, Catie; Ishida, Hiroaki; Fujii, Naotaka; Duyn, Jeff H.

    2015-01-01

    Many aspects of brain function are influenced by modulatory processes, including arousal. The most abrupt changes in arousal occur at the wake-sleep transition and at the induction of anesthetic conditions. They are accompanied by major electrophysiological changes, including an emergence of low-frequency (sleep-like) activity and a loss of mid-frequency (wake-like) activity that has been linked to feedback processes of the brain. Nevertheless, the causal relationship between these two types of electrophysiological changes, as well as the cortical mechanisms underlying changes in arousal and consciousness, remain poorly understood. To address this, we studied spontaneous electro-cortical activity during arousal changes in macaques. During sleep and at loss of consciousness induced by propofol anesthesia, we identified a prototypical sequence of cortical events in which the loss of mid-frequency activity preceded, by seconds, the increases in low-frequency activity. Furthermore, in visual areas, an influence of mid-frequency change onto high-frequency activity was observed across visual hierarchy. These results are consistent with the notion that drops in arousal and consciousness are facilitated by a release of feedback cortical inhibition. PMID:25865143

  13. Order Matters: Sequencing Scale-Realistic Versus Simplified Models to Improve Science Learning

    NASA Astrophysics Data System (ADS)

    Chen, Chen; Schneps, Matthew H.; Sonnert, Gerhard

    2016-10-01

    Teachers choosing between different models to facilitate students' understanding of an abstract system must decide whether to adopt a model that is simplified and striking or one that is realistic and complex. Only recently have instructional technologies enabled teachers and learners to change presentations swiftly and to provide for learning based on multiple models, thus giving rise to questions about the order of presentation. Using disjoint individual growth modeling to examine the learning of astronomical concepts using a simulation of the solar system on tablets for 152 high school students (age 15), the authors detect both a model effect and an order effect in the use of the Orrery, a simplified model that exaggerates the scale relationships, and the True-to-scale, a proportional model that more accurately represents the realistic scale relationships. Specifically, earlier exposure to the simplified model resulted in diminution of the conceptual gain from the subsequent realistic model, but the realistic model did not impede learning from the following simplified model.

  14. GORpipe: a query tool for working with sequence data based on a Genomic Ordered Relational (GOR) architecture

    PubMed Central

    Guðbjartsson, Hákon; Georgsson, Guðmundur Fr.; Guðjónsson, Sigurjón A.; Valdimarsson, Ragnar þór; Sigurðsson, Jóhann H.; Stefánsson, Sigmar K.; Másson, Gísli; Magnússon, Gísli; Pálmason, Vilmundur; Stefánsson, Kári

    2016-01-01

    Motivation: Our aim was to create a general-purpose relational data format and analysis tools to provide an efficient and coherent framework for working with large volumes of DNA sequence data. Results: For this purpose we developed the GORpipe software system. It is based on a genomic ordered architecture and uses a declarative query language that combines features from SQL and shell pipe syntax in a novel manner. The system can for instance be used to annotate sequence variants, find genomic spatial overlap between various types of genomic features, filter and aggregate them in various ways. Availability and Implementation: The GORpipe software is freely available for non-commercial academic usage and can be downloaded from www.nextcode.com/gorpipe. Contact: hakon@wuxinextcode.com Supplementary information: Supplementary data are available at Bioinformatics online. PMID:27339714

  15. The 5th Symposium on Post-Transcriptional Regulation of Plant Gene Expression (PTRoPGE)

    SciTech Connect

    Karen S. Browning; Marie Petrocek; Bonnie Bartel

    2006-06-01

    The 5th Symposium on Post-Transcriptional Regulation of Plant Gene Expression (PTRoPGE) will be held June 8-12, 2005 at the University of Texas at Austin. Exciting new and ongoing discoveries show significant regulation of gene expression occurs after transcription. These post-transcriptional control events in plants range from subtle regulation of transcribed genes and phosphorylation, to the processes of gene regulation through small RNAs. This meeting will focus on the regulatory role of RNA, from transcription, through translation and finally degradation. The cross-disciplinary design of this meeting is necessary to encourage interactions between researchers that have a common interest in post-transcriptional gene expression in plants. By bringing together a diverse group of plant molecular biologist and biochemists at all careers stages from across the world, this meeting will bring about more rapid progress in understanding how plant genomes work and how genes are finely regulated by post-transcriptional processes to ultimately regulate cells.

  16. The acquired preparedness risk model applied to smoking in 5th grade children.

    PubMed

    Combs, Jessica L; Spillane, Nichea S; Caudill, Leann; Stark, Brittany; Smith, Gregory T

    2012-03-01

    The very early onset of smoking predicts numerous health problems. The authors conducted the first test of one risk model for elementary school age smoking, known as the acquired preparedness (AP) model of risk, in a cross-sectional sample of 309 5th grade children. The model posits that (a) impulsivity-related personality traits contribute to risk for a variety of risky, maladaptive behaviors; (b) smoking expectancies confer risk only for smoking; and (c) the personality traits contribute to the formation of high risk expectancies for reinforcement from smoking, which in turn increases the likelihood of early onset smoking. The model was supported: the high-risk personality traits distinguished children engaging in any risky, maladaptive behavior from other children, and the smoking expectancies differentiated smokers from all other children. The relationship between personality tendencies to act rashly when experiencing intense positive or negative emotions and smoker status was partially mediated by expectancies for reinforcement from smoking. This model should be investigated longitudinally.

  17. Design and test of 1/5th scale horizontal axis tidal current turbine

    NASA Astrophysics Data System (ADS)

    Liu, Hong-wei; Zhou, Hong-bin; Lin, Yong-gang; Li, Wei; Gu, Hai-gang

    2016-06-01

    Tidal current energy is prominent and renewable. Great progress has been made in the exploitation technology of tidal current energy all over the world in recent years, and the large scale device has become the trend of tidal current turbine (TCT) for its economies. Instead of the similarity to the wind turbine, the tidal turbine has the characteristics of high hydrodynamic efficiency, big thrust, reliable sealing system, tight power transmission structure, etc. In this paper, a 1/5th scale horizontal axis tidal current turbine has been designed, manufactured and tested before the full scale device design. Firstly, the three-blade horizontal axis rotor was designed based on traditional blade element momentum theory and its hydrodynamic performance was predicted in numerical model. Then the power train system and stand-alone electrical control unit of tidal current turbine, whose performances were accessed through the bench test carried out in workshop, were designed and presented. Finally, offshore tests were carried out and the power performance of the rotor was obtained and compared with the published literatures, and the results showed that the power coefficient was satisfactory, which agrees with the theoretical predictions.

  18. Application of genotyping-by-sequencing on semiconductor sequencing platforms: A comparison of genetic and reference-based marker ordering in barley

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The rapid development of next generation sequencing platforms has enabled the use of sequencing for routine genotyping across a range of genetics studies and breeding applications. Genotyping-by-sequencing (GBS), a low-cost, reduced representation sequencing method, is becoming a common approach fo...

  19. When should orthostatic blood pressure changes be evaluated in elderly: 1st, 3rd or 5th minute?

    PubMed

    Soysal, Pinar; Aydin, Ali Ekrem; Koc Okudur, Saadet; Isik, Ahmet Turan

    2016-01-01

    Detection of orthostatic hypotension (OH) is very important in geriatric practice, since OH is associated with mortality, ischemic stroke, falls, cognitive failure and depression. It was aimed to determine the most appropriate time for measuring blood pressure in transition from supine to upright position in order to diagnose OH in elderly. Comprehensive geriatric assessment (CGA) including Head up Tilt Table (HUT) test was performed in 407 geriatric patients. Orthostatic changes were assessed separately for the 1st, 3rd and 5th minutes (HUT1, HUT3 and HUT5, respectively) taking the data in supine position as the basis. The mean age, recurrent falls, presence of dementia and Parkinson's disease, number of drugs, alpha-blocker and anti-dementia drug use, and fasting blood glucose levels were significantly higher in the patients with versus without OH; whereas, albumin and 25-hydroxy vitamin D levels were significantly lower (p<0.05). However, different from HUT3 and HUT5, Charlson Comorbidity Index and the prevalence of diabetes mellitus were higher, the use of antidiabetics, antipsychotics, benzodiazepine, opioid and levodopa were more common (p<0.05). Statistical significance of the number of drugs and fasting blood glucose level was prominent in HUT1 as compared to HUT3 (p<0.01, p<0.05). Comparison of the patients that had OH only in HUT1, HUT3or HUT5 revealed no difference in terms of CGA parameters. These results suggests that orthostatic blood pressure changes determined at the 1st minute might be more important for geriatric practice. Moreover, 1st minute measurement might be more convenient in the elderly as it requires shorter time in practice.

  20. Patterns of Irregular Burials in Western Europe (1st-5th Century A.D.)

    PubMed Central

    Milella, Marco; Mariotti, Valentina; Belcastro, Maria Giovanna; Knüsel, Christopher J.

    2015-01-01

    Background Irregular burials (IB—burials showing features that contrast with the majority of others in their geographic and chronological context) have been the focus of archaeological study because of their relative rarity and enigmatic appearance. Interpretations of IB often refer to supposed fear of the dead or to social processes taking place in time-specific contexts. However, a comprehensive and quantitative analysis of IB for various geographical contexts is still lacking, a fact that hampers any discussion of these burials on a larger scale. Methods Here, we collected a bibliographic dataset of 375 IB from both Britain and Continental Europe, altogether spanning a time period from the 1st to the 5th century AD. Each burial has been coded according to ten dichotomous variables, further analyzed by means of chi-squared tests on absolute frequencies, non-metric multidimensional scaling, and cluster analysis. Results Even acknowledging the limits of this study, and in particular the bias represented by the available literature, our results point to interesting patterns. Geographically, IB show a contrast between Britain and Continental Europe, possibly related to historical processes specific to these regions. Different types of IB (especially prone depositions and depositions with the cephalic extremity displaced) present a series of characteristics and associations between features that permit a more detailed conceptualization of these occurrences from a socio-cultural perspective that aids to elucidate their funerary meaning. Conclusions and Significance Altogether, the present work stresses the variability of IB, and the need to contextualize them in a proper archaeological and historical context. It contributes to the discussion of IB by providing a specific geographic and chronological frame of reference that supports a series of hypotheses about the cultural processes possibly underlying their occurrence. PMID:26115408

  1. Freezing Rain Diagnostic Study Over Eastern Canada Using the 5th Generation Canadian Regional Climate Model

    NASA Astrophysics Data System (ADS)

    Bresson, É.; Paquin, D.; Laprise, R.; Theriault, J. M.; de Elía, R.

    2015-12-01

    Northeastern North America is often affected by freezing rain events during the cold season. They can have significant consequences (from road accidents, to severe power outages) despite their intensity and duration. The 1998 Ice Storm over Eastern Canada and Northeastern United States is an example of an extreme event with catastrophic consequences. A total of up to 150 mm of ice accumulated during 10 days were observed in some areas. This natural disaster has highlighted the need to better understand how such phenomena will evolve with future climate scenario. The goal is to investigate the feasibility of using regional climate modeling to diagnose the occurrence of freezing rain events over Quebec (Canada). To address this issue, we used the 5th generation of the Canadian Regional Climate Model (CRCM5), from 1979 to 2014. An empirical method (Bourgouin, 2000) developed to determine the type of winter precipitations was chosen to diagnose freezing rain events. The study focused in the Montreal area and the St. Lawrence River Valley (Quebec, Canada). The sensitivity of the model to horizontal resolution was explored by using three resolutions: 0.44°, 0.22° and 0.11°. In general, freezing rain was diagnosed consistently at all resolutions but the higher one (0.11°) produced more realistic results due to a better representation of the orography. Using the higher resolution, the results showed that the climatology of the freezing rain occurrence in the Montreal area is comparable to available observations. It also suggested that the role of the specific orography of the region with the St. Lawrence River Valley can impact the characteristics of freezing rain events in this area. Overall, this study will contribute to a better preparedness for such events in the future. High resolution regional climate simulations are essential to improve the reproduction of local scale orographically-forced phenomena.

  2. Black sea surface temperature anomaly on 5th August 1998 and the ozone layer thickness

    NASA Astrophysics Data System (ADS)

    Manev, A.; Palazov, K.; Raykov, St.; Ivanov, V.

    2003-04-01

    BLACK SEA SURFACE TEMPERATURE ANOMALY ON 5th AUGUST 1998 AND THE OZONE LAYER THICKNESS A. Manev , K. Palazov , St. Raykov, V. Ivanov Solar Terrestrial Influences Laboratory, Bulgarian Academy of Sciences amanev@abv.bg This paper focuses on the peculiarities of the Black Sea surface temperature anomaly on 05.08.1998. Researching the daily temperature changes in a number of control fields in the course of 8-10 years, we have found hidden correlations and anomalous deviations in the sea surface temperatures on a global scale. Research proves the statistical reliability of the temperature anomaly on the entire Black Sea surface registered on 04.-05.08.1998. In the course of six days around these dates the temperatures are up to 2°C higher than the maximum temperatures in this period in the other seven years. A more detailed analysis of the dynamics of the anomaly required the investigation of five Black Sea surface characteristic zones of 75x75 km. The analysis covers the period 20 days - 10 days before and 10 days after the anomaly. Investigations aimed at interpreting the reasons for the anomalous heating of the surface waters. We have tried to analyze the correlation between sea surface temperature and the global ozone above the Black Sea by using simultaneously data from the two satellite systems NOAA and TOMS. Methods of processing and comparing the data from the two satellite systems are described. The correlation coefficients values for the five characteristic zones are very high and close, which proves that the character of the correlation ozone - sea surface temperature is the same for the entire Black Sea surface. Despite the high correlation coefficient, we have proved that causality between the two phenomena at the time of the anomaly does not exit.

  3. 5th International conference on Physics and Astrophysics of Quark Gluon Plasma

    NASA Astrophysics Data System (ADS)

    Sinha, Bikash; Alam, Jan-E.; Nayak, Tapan K.

    2006-11-01

    The 5th International Conference on Physics and Astrophysics of Quark Gluon Plasma (ICPAQGP 2005) was held on 8 - 12 February 2005 at the Variable Energy Cyclotron Centre and Saha Institute of Nuclear Physics campus, Kolkata, India. The conference was enriched by the august presence of about 300 participants representing 18 countries across the globe. It had plenary talks and oral presentations, which form a part of these proceedings. Besides invited and contributed talks there were also a large number of poster presentations. The conference was energized by discussions of fresh experimental data from RHIC on strong elliptic flow, jet quenching, single photon spectra etc. Moreover, new theoretical results were brought to the discussion forum during this conference. Colour glass condensates, hydrodynamical flow, jet quenching and sQGP were intensely debated by the participants. The highlight of ICPAQGP 2005 was the presentation of fresh experimental results from the RHIC-IV run. The ICPAQGP series, since its inception in 1988, has placed emphasis on the role of quark matter in the fields of astrophysics and cosmology. The subsequent conferences held in 1993, 1997, 2001 and 2005 had also retained this focus. The conference was preceded by a Fest Colloquium in honour of Professor Bikash Sinha. Professor Sinha, regarded as the pioneer in establishing quark gluon plasma research in India, has successfully encouraged a group of young Indian researchers to devote themselves wholeheartedly to QGP research - both theoretical and experimental. Members of the International Advisory Committee played a pivotal role mainly in the selection of speakers. The contributions of the Organizing Committee in all aspects, from selecting the contributory talks posters down to arranging local hospitality, were much appreciated. We thank the members of both committees for making ICPAQGP 2005 an interesting platform for scientific deliberation. The ICPAQGP 2005 was supported financially by

  4. Partial order optimum likelihood (POOL): maximum likelihood prediction of protein active site residues using 3D Structure and sequence properties.

    PubMed

    Tong, Wenxu; Wei, Ying; Murga, Leonel F; Ondrechen, Mary Jo; Williams, Ronald J

    2009-01-01

    A new monotonicity-constrained maximum likelihood approach, called Partial Order Optimum Likelihood (POOL), is presented and applied to the problem of functional site prediction in protein 3D structures, an important current challenge in genomics. The input consists of electrostatic and geometric properties derived from the 3D structure of the query protein alone. Sequence-based conservation information, where available, may also be incorporated. Electrostatics features from THEMATICS are combined with multidimensional isotonic regression to form maximum likelihood estimates of probabilities that specific residues belong to an active site. This allows likelihood ranking of all ionizable residues in a given protein based on THEMATICS features. The corresponding ROC curves and statistical significance tests demonstrate that this method outperforms prior THEMATICS-based methods, which in turn have been shown previously to outperform other 3D-structure-based methods for identifying active site residues. Then it is shown that the addition of one simple geometric property, the size rank of the cleft in which a given residue is contained, yields improved performance. Extension of the method to include predictions of non-ionizable residues is achieved through the introduction of environment variables. This extension results in even better performance than THEMATICS alone and constitutes to date the best functional site predictor based on 3D structure only, achieving nearly the same level of performance as methods that use both 3D structure and sequence alignment data. Finally, the method also easily incorporates such sequence alignment data, and when this information is included, the resulting method is shown to outperform the best current methods using any combination of sequence alignments and 3D structures. Included is an analysis demonstrating that when THEMATICS features, cleft size rank, and alignment-based conservation scores are used individually or in combination

  5. WWW.com: A Brief Intervention to Bolster a 5th Grader's Regrouping Skills in Math

    ERIC Educational Resources Information Center

    Waugh, Matthew; Harrison, Gina L.

    2014-01-01

    This study examined the efficacy of a brief math intervention using cognitive behaviour instruction (CBI) supplemented by a mnemonic cue system for a 5th grade student with math computation and fluency difficulties. Regrouping operations in addition and subtraction were the targeted skills. Curriculum-based measurements were conducted at the end…

  6. Communicating Science to Impact Learning? A Phenomenological Inquiry into 4th and 5th Graders' Perceptions of Science Information Sources

    ERIC Educational Resources Information Center

    Gelmez Burakgazi, Sevinc; Yildirim, Ali; Weeth Feinstein, Noah

    2016-01-01

    Rooted in science education and science communication studies, this study examines 4th and 5th grade students' perceptions of science information sources (SIS) and their use in communicating science to students. It combines situated learning theory with uses and gratifications theory in a qualitative phenomenological analysis. Data were gathered…

  7. Using Functional Behavior Assessment to Match Task Difficulty for a 5th Grade Student: A Case Study

    ERIC Educational Resources Information Center

    Haydon, Todd

    2012-01-01

    We used an AB design with a control condition to examine the effects of an academic strategy on a student with a learning disability during a 5th grade math class. During baseline the student had high rates of disruptive behavior, low percentages of intervals of on-task behavior, and low percentages of correct responses. An antecedent-based…

  8. Proceedings of the International Conference on Educational Data Mining (EDM) (5th, Chania, Greece, June 19-21, 2012)

    ERIC Educational Resources Information Center

    International Educational Data Mining Society, 2012

    2012-01-01

    The 5th International Conference on Educational Data Mining (EDM 2012) is held in picturesque Chania on the beautiful Crete island in Greece, under the auspices of the International Educational Data Mining Society (IEDMS). The EDM 2012 conference is a leading international forum for high quality research that mines large data sets of educational…

  9. Brief Report: Data on the Stanford-Binet Intelligence Scales (5th Ed.) in Children with Autism Spectrum Disorder

    ERIC Educational Resources Information Center

    Coolican, Jamesie; Bryson, Susan E.; Zwaigenbaum, Lonnie

    2008-01-01

    The Fifth Edition of the Stanford-Binet Intelligence Scales (SB5; Roid, G. H. (2003). "Stanford Binet intelligence scales" (5th ed.). Itasca, IL: Riverside Publishing) is relatively new, with minimal published research on general populations and none with special populations. The present study provides information on the cognitive profiles of…

  10. Malik Goes to School: Examining the Language Skills of African American Students from Preschool-5th Grade

    ERIC Educational Resources Information Center

    Craig, Holly K.; Washington, Julie A.

    2005-01-01

    "Malik Goes to School: Examining the Language Skills of African American Students From Preschool-5th Grade" synthesizes a decade of research by the authors, Holly Craig and Julie Washington, on the oral language and literacy skills of African American children from preschool to fifth grade. Their research has characterized significant influences…

  11. Storm Peak Laboratory 5th-6th Grade Climate and Weather Program

    NASA Astrophysics Data System (ADS)

    McCubbin, I. B.; Hallar, A. G.

    2008-12-01

    science. At the end of the day each student has a data sheet with measurements recorded from 5 locations of different elevations to take back to the classroom. Following the field trip, SPL scientists and educators visit the school for a follow-up to help children grasp concepts, represent their data set collected in graphical formats, answer questions, and evaluate students" learning. Currently, approximately 250 students annually participate in the SPL 5th and 6th grade climate education program.

  12. PREFACE: 5th International EEIGM/AMASE/FORGEMAT Conference on Advanced Materials Research

    NASA Astrophysics Data System (ADS)

    Ayadi, Zoubir; Czerwiec, Thierry; Horwat, David; Jamart, Brigitte

    2009-07-01

    This issue of IOP Conference Series: Materials Science and Engineering, contains manuscripts of talks that will be presented at the 5th International EEIGM/AMASE/FORGEMAT Conference on Advanced Materials Research that will be held at the Ecole Européenne d'Ingénieurs en Génie des Matériaux - European School of Materials Science and Engineering (EEIGM) in Nancy on November 4-5 2009. The conference will be organized by the EEIGM. The aim of the conference is to bring together scientists from the six European universities involved in the EEIGM and in the ''Erasmus Mundus'' AMASE Master (Advanced Materials Science and Engineering) programmes and in the Tempus FORGEMAT European project: Nancy-Université - EEIGM/INPL (Nancy, France), Universität des Saarlandes (Saarbrücken, Germany), Universitat Politècnica de Catalunya - ETSEIB (Barcelona, Spain), Luleå Tekniska Universitet (Luleå, Sweden), Universidad Politecnica de Valencia - ETSII (Valencia, Spain) and AGH University of Science and Technology, (Kralow, Poland). This conference is also open to other universities who have strong links with the EEIGM and it will provide a forum for exchange of ideas, cooperation and future directions by means of regular presentations, posters and a round-table discussion. After careful refereeing of all manuscripts, equally shared between the four editors, 26 papers have been selected for publication in this issue. The papers are grouped together into different subject categories: polymers, metallurgy, ceramics, composites and nanocomposites, simulation and characterization. The editors would like to take this opportunity to thank all the participants who submitted their manuscripts during the conference and responded in time to the editors' request at every stage from reviewing to final acceptance. The editors are indebted to all the reviewers for painstakingly reviewing the papers at very short notice. Special thanks are called for the sponsors of the conference including

  13. FOREWORD: 5th International Workshop on New Computational Methods for Inverse Problems

    NASA Astrophysics Data System (ADS)

    Vourc'h, Eric; Rodet, Thomas

    2015-11-01

    This volume of Journal of Physics: Conference Series is dedicated to the scientific research presented during the 5th International Workshop on New Computational Methods for Inverse Problems, NCMIP 2015 (http://complement.farman.ens-cachan.fr/NCMIP_2015.html). This workshop took place at Ecole Normale Supérieure de Cachan, on May 29, 2015. The prior editions of NCMIP also took place in Cachan, France, firstly within the scope of ValueTools Conference, in May 2011, and secondly at the initiative of Institut Farman, in May 2012, May 2013 and May 2014. The New Computational Methods for Inverse Problems (NCMIP) workshop focused on recent advances in the resolution of inverse problems. Indeed, inverse problems appear in numerous scientific areas such as geophysics, biological and medical imaging, material and structure characterization, electrical, mechanical and civil engineering, and finances. The resolution of inverse problems consists of estimating the parameters of the observed system or structure from data collected by an instrumental sensing or imaging device. Its success firstly requires the collection of relevant observation data. It also requires accurate models describing the physical interactions between the instrumental device and the observed system, as well as the intrinsic properties of the solution itself. Finally, it requires the design of robust, accurate and efficient inversion algorithms. Advanced sensor arrays and imaging devices provide high rate and high volume data; in this context, the efficient resolution of the inverse problem requires the joint development of new models and inversion methods, taking computational and implementation aspects into account. During this one-day workshop, researchers had the opportunity to bring to light and share new techniques and results in the field of inverse problems. The topics of the workshop were: algorithms and computational aspects of inversion, Bayesian estimation, Kernel methods, learning methods

  14. 5th National Audit Project (NAP5) on accidental awareness during general anaesthesia: summary of main findings and risk factors.

    PubMed

    Pandit, J J; Andrade, J; Bogod, D G; Hitchman, J M; Jonker, W R; Lucas, N; Mackay, J H; Nimmo, A F; O'Connor, K; O'Sullivan, E P; Paul, R G; Palmer, J H M G; Plaat, F; Radcliffe, J J; Sury, M R J; Torevell, H E; Wang, M; Hainsworth, J; Cook, T M

    2014-10-01

    We present the main findings of the 5th National Audit Project (NAP5) on accidental awareness during general anaesthesia (AAGA). Incidences were estimated using reports of accidental awareness as the numerator, and a parallel national anaesthetic activity survey to provide denominator data. The incidence of certain/probable and possible accidental awareness cases was ~1:19,600 anaesthetics (95% confidence interval 1:16,700-23,450). However, there was considerable variation across subtypes of techniques or subspecialities. The incidence with neuromuscular block (NMB) was ~1:8200 (1:7030-9700), and without, it was ~1:135,900 (1:78,600-299,000). The cases of AAGA reported to NAP5 were overwhelmingly cases of unintended awareness during NMB. The incidence of accidental awareness during Caesarean section was ~1:670 (1:380-1300). Two-thirds (82, 66%) of cases of accidental awareness experiences arose in the dynamic phases of anaesthesia, namely induction of and emergence from anaesthesia. During induction of anaesthesia, contributory factors included: use of thiopental, rapid sequence induction, obesity, difficult airway management, NMB, and interruptions of anaesthetic delivery during movement from anaesthetic room to theatre. During emergence from anaesthesia, residual paralysis was perceived by patients as accidental awareness, and commonly related to a failure to ensure full return of motor capacity. One-third (43, 33%) of accidental awareness events arose during the maintenance phase of anaesthesia, mostly due to problems at induction or towards the end of anaesthesia. Factors increasing the risk of accidental awareness included: female sex, age (younger adults, but not children), obesity, anaesthetist seniority (junior trainees), previous awareness, out-of-hours operating, emergencies, type of surgery (obstetric, cardiac, thoracic), and use of NMB. The following factors were not risk factors for accidental awareness: ASA physical status, race, and use or omission

  15. The application of the reduced order model Kalman filter to motion estimation of degraded image sequences. M.S. Thesis

    NASA Technical Reports Server (NTRS)

    Simpson, Elizabeth C.

    1989-01-01

    Motion estimation is a field of great interest because of its many applications in areas such as robotics and image coding. The optic flow method is one such scheme which, although fairly accurate, is prone to error in the presence of noise. This thesis describes the use of the reduced order model Kalman filter (ROMKF) in reducing errors in displacement estimation due to degradation of the sequence. The implementation of filtering and motion estimation algorithms on the SUN workstation is also discussed. Results from preliminary testing were used to determine the degrees of freedom available for the ROMKF in the SUN software. The tests indicated that increasing the state to the left leads to slight improvement over the minimum state case. Therefore, the software uses the minimum model, with the option of adding states to the left only. The ROMKF was then used in conjunction with a hierarchical pel recursive motion estimation algorithm. Applying the ROMKF to the degraded displacements themselves generally yielded slight improvements in cases with noise degradation and noise plus blur. Filtering the images of the degraded sequence prior to motion estimation was less effective in these cases. Both methods performed badly in the case of blur alone, resulting in increased displacement errors. This is thought to be due in part to filter artifacts. Some improvements were obtained by varying the filter parameters when filtering the displacements directly. This result suggests that further study in varying filter parameters may lead to better results. The results of this thesis indicate that the ROMKF can play a part in reducing motion estimation errors from degraded sequences. However, more work needs to be done before the use of the ROMKF can be a practical solution.

  16. eMatchSite: Sequence Order-Independent Structure Alignments of Ligand Binding Pockets in Protein Models

    PubMed Central

    Brylinski, Michal

    2014-01-01

    Detecting similarities between ligand binding sites in the absence of global homology between target proteins has been recognized as one of the critical components of modern drug discovery. Local binding site alignments can be constructed using sequence order-independent techniques, however, to achieve a high accuracy, many current algorithms for binding site comparison require high-quality experimental protein structures, preferably in the bound conformational state. This, in turn, complicates proteome scale applications, where only various quality structure models are available for the majority of gene products. To improve the state-of-the-art, we developed eMatchSite, a new method for constructing sequence order-independent alignments of ligand binding sites in protein models. Large-scale benchmarking calculations using adenine-binding pockets in crystal structures demonstrate that eMatchSite generates accurate alignments for almost three times more protein pairs than SOIPPA. More importantly, eMatchSite offers a high tolerance to structural distortions in ligand binding regions in protein models. For example, the percentage of correctly aligned pairs of adenine-binding sites in weakly homologous protein models is only 4–9% lower than those aligned using crystal structures. This represents a significant improvement over other algorithms, e.g. the performance of eMatchSite in recognizing similar binding sites is 6% and 13% higher than that of SiteEngine using high- and moderate-quality protein models, respectively. Constructing biologically correct alignments using predicted ligand binding sites in protein models opens up the possibility to investigate drug-protein interaction networks for complete proteomes with prospective systems-level applications in polypharmacology and rational drug repositioning. eMatchSite is freely available to the academic community as a web-server and a stand-alone software distribution at http://www.brylinski.org/ematchsite. PMID

  17. Palaeocommunity dynamics across the Lower to Middle Miocene 3rd order sequence boundary of the Central Paratethys

    NASA Astrophysics Data System (ADS)

    Zuschin, Martin; Harzhauser, Mathias; Mandic, Oleg

    2010-05-01

    The 3rd order sequence boundary from the Lower to the Middle Miocene of the Paratethys is characterized by a well-known major change of the molluscan fauna. This change was mainly studied based on regional species lists, which suggest a transition from low-diversity Karpatian (Upper Burdigalian) to highly diverse Badenian (Langhian and Lower Serravallian) assemblages. Here, we present quantitative data from 4 Karpatian and 6 Badenian localities to capture the anatomy of this faunal transition by comparing species-abundance patterns of local assemblages. 223 bulk samples, comprising more than 65,000 shells, were taken from shell beds; all molluscs > 1mm were studied quantitatively and sorted into 496 species. Independent sources (e.g., palaeogeographic position of localities and environmental data from foraminifera) suggest a water depth ranging from the intertidal to several tens of meters for the studied assemblages. Ordination methods indicate that benthic assemblages in the study area developed along the same depth-related environmental gradient across the 3rd order sequence boundary. Due to strong facies shifts at the boundary, the Karpatian faunas are mostly preserved in nearshore settings, but the Badenian faunas range from intertidal to shelf depth. Statistical analyses indicate that differences between the total of Karpatian and the total of Badenian assemblages are smaller than any differences among individual localities. The striking differences among the studied localities are most likely due to heterogeneous environments present on the Lower and Middle Miocene shelf of the Central Paratethys. Clearly, the immigration of several thermophilic molluscan families and superfamilies (e.g., Strombidae, Tonnoidea, Isognomonidae, and Carditidae) reflects climatic changes at the onset of the Langhian transgression. Our quantitative approach, however, favours the strong facies shift at the Lower / Middle Miocene boundary as the main reason for the pretended faunal

  18. The 5th National Audit Project (NAP5) on accidental awareness during general anaesthesia: summary of main findings and risk factors.

    PubMed

    Pandit, J J; Andrade, J; Bogod, D G; Hitchman, J M; Jonker, W R; Lucas, N; Mackay, J H; Nimmo, A F; O'Connor, K; O'Sullivan, E P; Paul, R G; Palmer, J H MacG; Plaat, F; Radcliffe, J J; Sury, M R J; Torevell, H E; Wang, M; Hainsworth, J; Cook, T M

    2014-10-01

    We present the main findings of the 5th National Audit Project on accidental awareness during general anaesthesia. Incidences were estimated using reports of accidental awareness as the numerator, and a parallel national anaesthetic activity survey to provide denominator data. The incidence of certain/probable and possible accidental awareness cases was ~1:19 600 anaesthetics (95% CI 1:16 700-23 450). However, there was considerable variation across subtypes of techniques or subspecialties. The incidence with neuromuscular blockade was ~1:8200 (1:7030-9700), and without it was ~1:135 900 (1:78 600-299 000). The cases of accidental awareness during general anaesthesia reported to 5th National Audit Project were overwhelmingly cases of unintended awareness during neuromuscular blockade. The incidence of accidental awareness during caesarean section was ~1:670 (1:380-1300). Two thirds (82, 66%) of cases of accidental awareness experiences arose in the dynamic phases of anaesthesia, namely induction of and emergence from anaesthesia. During induction of anaesthesia, contributory factors included: use of thiopental; rapid sequence induction; obesity; difficult airway management; neuromuscular blockade; and interruptions of anaesthetic delivery during movement from anaesthetic room to theatre. During emergence from anaesthesia, residual paralysis was perceived by patients as accidental awareness, and commonly related to a failure to ensure full return of motor capacity. One third (43, 33%) of accidental awareness events arose during the maintenance phase of anaesthesia, most due to problems at induction or towards the end of anaesthesia. Factors increasing the risk of accidental awareness included: female sex; age (younger adults, but not children); obesity; anaesthetist seniority (junior trainees); previous awareness; out-of-hours operating; emergencies; type of surgery (obstetric, cardiac, thoracic); and use of neuromuscular blockade. The following factors were

  19. EDITORIAL: 5th International Symposium on Particle Image Velocimetry, PIV'03

    NASA Astrophysics Data System (ADS)

    Sung, Hyung Jin; Kim, Kyung Chun; Lee, Sang Joon

    2004-06-01

    The advent of particle image velocimetry (PIV) in the late 20th century brought about a paradigm change in the technique of flow field measurement, from point measurement to field measurement. This revolution is a result of the recent advances in computers, video cameras, optics and lasers and a deeper understanding of the theory of image processing, and such advances continue by keeping pace with leading-edge technologies such as biotechnology, nanotechnology and so forth. Recently, the PIV technique has been extended in new directions such as stereoscopic PIV, holographic PIV, dynamic PIV, micro PIV and simultaneous PLIF/PIV techniques. This special issue contains research dealing with many of the most recent developments in PIV. The papers were selected from more than 120 papers presented at the 5th International Symposium on Particle Image Velocimetry (PIV'03) held in Busan, Korea, during 22-24 September 2003. Special thanks are due to the invited speakers who have contributed their original work to this special issue, which will enhance the academic reputation of Measurement Science and Technology (MST). Fourteen papers were selected by the Scientific Committee of PIV'03. After the standard refereeing process of MST, nine papers were finally accepted for publication. The selected papers can be categorized into three groups: new PIV algorithms and evaluation methods, three-dimensional velocity field measurement techniques and micro/bio PIV applications. As a new PIV technique, Lecuona et al introduced PIV evaluation algorithms for industrial applications having high shear flow structures. Billy et al used a single-pixel-based cross-correlation method for measuring flow inside a microchannel. Foucaut et al carried out PIV optimization using spectral analysis for the study of turbulent flows. Doh et al applied a 3D PTV method to the wake behind a sphere using three CCD cameras. Hori and Sakakibara developed a high-speed scanning stereoscopic PIV system and

  20. PREFACE: 5th DAE-BRNS Workshop on Hadron Physics (Hadron 2011)

    NASA Astrophysics Data System (ADS)

    Jyoti Roy, Bidyut; Chatterjee, A.; Kailas, S.

    2012-07-01

    The 5th DAE-BRNS Workshop on Hadron Physics was held at the Bhabha Atomic Research Centre (BARC), Mumbai from 31 October to 4 November 2011. This workshop series, supported by the Board of Research in Nuclear Sciences, Department of Atomic Energy (BRNS, DAE), Govt. of India, began ten years ago with the first one being held at BARC, Mumbai in October 2002. The second one was held at Puri in 2005, organized jointly by Institute of Physics, Bhubneswar and Saha Institute of Nuclear Physics, Kolkata. The 3rd and 4th ones took place, respectively, at Shantineketan in 2006, organized by Visva Bharati University, and at Aligarh in 2008, organized by Aligarh Muslim University, Aligarh. The aim of the present workshop was to bring together the experts and young researchers in the field of hadron physics (both experiment and theory) and to have in-depth discussions on the current research activities in this field. The format of the workshop was: a series of review lectures by various experts from India and abroad, the presentation of advanced research results by researchers in the field, and a review of major experimental programs being planned and pursued in major laboratories in the field of hadron physics, with the aim of providing a platform for the young participants for interaction with their peers. The upcoming international FAIR facility at GSI is a unique future facility for studies of hadron physics in the charm sector and hyper nuclear physics. The Indian hadron physics community is involved in this mega science project and is working with the PANDA collaboration on the development of detectors, simulation and software tools for the hadron physics programme with antiprotons at FAIR. A one-day discussion session was held at this workshop to discuss India-PANDA activities, the current collaboration status and the work plan. This volume presents the workshop proceedings consisting of lectures and seminars which were delivered during the workshop. We are thankful to

  1. Novel human vaccine strategies and the 5th Framework Programme: pushing the envelope.

    PubMed

    Tagliabue, Aldo; Cesaroni, Maria Paola; Lewis, David J M

    2003-06-01

    Mucosal vaccines could result in a great scientific and practical achievement. More than three decades of research in experimental models have shown promising results in stimulating mucosal immune responses, thus, it was expected that within a short time mucosal vaccines for human use could be achieved. Indeed this is not being the case. In the last few years, the most important oral vaccine, the anti-polio developed by Sabin in the fifties, has been progressively abandoned in developed countries to avoid the few cases of disease caused by the vaccine. Furthermore, two recently developed mucosal vaccines for human use against rotavirus diarrhoea and influenza were withdrawn after a short period in the market because of adverse reactions among the vaccinees. This controversial situation has created a difficult future for research on mucosal vaccine at the industrial level. A great help and encouragement for believers in mucosal vaccines has been given by the EU Commission through the 5th Framework Programme (5FP). At the end of the first projects of the 5FP, it is quite clear that mucosal vaccines are experiencing a real renaissance. The Euroconference/Workshop "Novel Strategies of Mucosal Immunisation through Exploitation of Mechanisms of Innate Immunity in Pathogen-Host Interaction", organised under the sponsorship of the EU Commission and reported in this special issue of Vaccine, witnesses a very creative moment of European groups involved in mucosal immunology. This conclusive paper of the issue is intended to describe a positive experience of some European scientists that have been working together in organised fashion within two EU projects. The first, defined by the acronym MUCIMM, was aimed to pave the way to tackle mucosal vaccines with different approaches, mainly that of new delivery systems and adjuvants, that of dissecting the fine mechanisms of basic mucosal responses and that of obtaining meaningful assays to measure human immune responses to mucosal

  2. PREFACE: 5th International Workshop on Top Quark Physics (TOP2012)

    NASA Astrophysics Data System (ADS)

    Salamanna, G.; Boisvert, V.; Cerrito, L.; Khan, A.; Moretti, S.; Owen, M.; Schwanenberger, C.

    2013-07-01

    The 5th International Workshop on Top Quark Physics (TOP 2012) took place in Winchester, UK, from the 16-21 September. It gathered students as well as people active in the top quark sector and provided a framework to highlight the newest results and matters related to top quark physics. Discovered in 1995, the top quark is the sixth and heaviest of all quarks, and it is the only one with a lifetime short enough to be observed 'naked'. This makes it an important testing ground in the search for new physics. In fact, the fact of its mass being so much larger than the other quarks, hints at its special role in the Higgs mechanism. For the same reason, in many models of New Physics, new heavy resonances are expected to couple mostly with top quarks. Even if no new particles are observed, the direct correlation between its angular momentum and that of its detectable decay products allows us to probe indirectly New Physics in action when top quarks are created. In this edition of the TOP conference series, for the first time, the agenda was equally balanced between 'traditional' measurements and the now vast number of searches for physics BSM in the top quark sector, thanks mostly to the amount of data collected at the LHC in its Run I. New results were presented by both the Tevatron and the LHC collaborations: improved ttbar and single top cross-section measurements, refined techniques to measure the top quark mass and a large number of results on properties such as spin correlation and W boson polarization in top quark decays were shown. More technical discussions on the experimental issues, both from the detector and the simulation side also took place, drawing together experimentalists and theorists. Reviews of the latest results on ttbar asymmetry both from CDF and D0 and from ATLAS and CMS were shown, and theorists active in the field made some interesting points on this hot topic. Additionally, results on the search for fourth generation fermions and new

  3. First-order kinetics of landfill leachate treatment in a pilot-scale anaerobic sequence batch biofilm reactor.

    PubMed

    Contrera, Ronan Cleber; da Cruz Silva, Katia Cristina; Morita, Dione Mari; Domingues Rodrigues, José Alberto; Zaiat, Marcelo; Schalch, Valdir

    2014-12-01

    This paper reports the kinetics evaluation of landfill leachate anaerobic treatment in a pilot-scale Anaerobic Sequence Batch Biofilm Reactor (AnSBBR). The experiment was carried out at room temperature (23.8 ± 2.1 °C) in the landfill area in São Carlos-SP, Brazil. Biomass from the bottom of a local landfill leachate stabilization pond was used as inoculum. After acclimated and utilizing leachate directly from the landfill, the AnSBBR presented efficiency over 70%, in terms of COD removal, with influent COD ranging from 4825 mg L(-1) to 12,330 mg L(-1). To evaluate the kinetics of landfill leachate treatment, temporal profiles of CODFilt. concentration were performed and a first-order kinetics model was adjusted for substrate consumption, obtaining an average k1 = 4.40 × 10(-5) L mgTVS(-1) d(-1), corrected to 25 °C. Considering the temperature variations, a temperature-activity coefficient θ = 1.07 was obtained. Statistical "Randomness" and "F" tests were used to successfully validate the model considered. Thus, the results demonstrate that the first-order kinetic model is adequate to model the anaerobic treatment of the landfill leachate in the AnSBBR.

  4. Development of THOR-FLx: A Biofidelic Lower Extremity for Use with 5th Percentile Female Crash Test Dummies.

    PubMed

    Shams, Tariq; Beach, David; Huang, Tsai-Jeon; Rangarajan, N; Haffner, Mark

    2002-11-01

    A new lower leg/ankle/foot system has been designed and fabricated to assess the potential for lower limb injuries to small females in the automotive crash environment. The new lower extremity can be retrofitted at present to the distal femur of the 5th percentile female Hybrid III dummy. Future plans are for integration of this design into the 5th percentile female THOR dummy now under development. The anthropometry of the lower leg and foot is based mainly on data developed by Robbins for the 5th percentile female, while the biomechanical response requirements are based upon scaling of 50th percentile male THOR-Lx responses. The design consists of the knee, tibia, ankle joints, foot, a representation of the Achilles tendon, and associated flesh/skins. The new lower extremity, known as THOR-FLx, is designed to be biofidelic under dynamic axial loading of the tibia, static and dynamic dorsiflexion, static plantarflexion and inversion/eversion. Instrumentation includes accelerometers, load cells, and rotary potentiometers to capture relevant kinematic and dynamic information from the foot and tibia. This paper will describe the performance requirements for THOR-FLx, the methodology used in its' development, results of component tests, and the biofidelity tests conducted on the full assembly.

  5. Risk Factors for Elementary School Drinking: Pubertal Status, Personality, and Alcohol Expectancies Concurrently Predict 5th Grade Alcohol Consumption

    PubMed Central

    Gunn, Rachel L.; Smith, Gregory T.

    2010-01-01

    Little is known about the correlates and potential causes of very early drinking. The authors proposed this risk theory: (a) pubertal onset is associated with increased levels of positive urgency (the tendency to act rashly when experiencing intensely positive mood), negative urgency (the tendency to act rashly when distressed), and sensation seeking; (b) those traits predict increased endorsement of high-risk alcohol expectancies; (c) the expectancies predict drinker status among 5th graders; and (d) the apparent influence of positive urgency, negative urgency, and sensation seeking on drinker status is mediated by alcohol expectancies. The authors conducted a concurrent test of whether the relationships among these variables were consistent with the theory in a sample of 1,843 5th grade students. In a well-fitting structural model, their hypotheses were supported. Drinker status among 5th graders is not just a function of context and factors external to children: it is predictable from a combination of pubertal status, personality characteristics, and learned alcohol expectancies. PMID:20822192

  6. Emotional and Behavioral Disorders in 1.5th Generation, 2nd Generation Immigrant Children, and Foreign Adoptees.

    PubMed

    Tan, Tony Xing

    2016-10-01

    Existing theories (e.g., acculturative stress theory) cannot adequately explain why mental disorders in immigrants are less prevalent than in non-immigrants. In this paper, the culture-gene co-evolutionary theory of mental disorders was utilized to generate a novel hypothesis that connection to heritage culture reduces the risk for mental disorders in immigrant children. Four groups of children aged 2-17 years were identified from the 2007 United States National Survey of Children's Health: 1.5th generation immigrant children (n = 1378), 2nd generation immigrant children (n = 4194), foreign adoptees (n = 270), and non-immigrant children (n = 54,877). The 1.5th generation immigrant children's connection to their heritage culture is stronger than or similar to the 2nd generation immigrants, while the foreign adoptees have little connection to their birth culture. Controlling for age, sex, family type and SES, the odds for having ADD/ADHD, Conduct Disorder, Anxiety Disorder, and Depression diagnosis were the lowest for the 1.5th generation immigrant children, followed by the 2nd generation immigrant children and the foreign adoptees. The foreign adoptees and non-adopted children were similar in the odds of having these disorders. Connection to heritage culture might be the underlying mechanism that explained recent immigrants' lower rates of mental disorders.

  7. PREFACE: The 5th International Symposium on Quantum Theory and Symmetries (QTS5)

    NASA Astrophysics Data System (ADS)

    Gadella, M.; Izquierdo, J. M.; Kuru, S.; Negro, J.; del Olmo, M. A.

    2008-08-01

    This special issue of Journal of Physics A: Mathematical and Theoretical appears on the occasion of the 5th International Symposium on Quantum Theory and Symmetries (QTS5), held in Valladolid, Spain, from 22-28 July 2007. This is the fith in a series of conferences previously held in Goslar (Germany) 1999, QTS1; Cracow (Poland) 2001, QTS2; Cincinnati (USA) 2003, QTS3; and Varna (Bulgaria) 2005, QTS4. The QTS5 symposium gathered 181 participants from 39 countries working in different fields of theoretical physics. The spirit of the QTS conference series is to join researchers in a wide variety of topics in theoretical physics, as a way of making accessible recent results and the new lines of different fields. This is based on the feeling that it is good for a physicist to have a general overview as well as expertise in his/her own field. There are many other conferences devoted to specific topics, which are of interest to gain deeper insight in many technical aspects and that are quite suitable for discussions due to their small size. However, we believe that general conferences like this are interesting and worth keeping. We like the talks, in both plenary and parallel sessions, which are devoted to specific topics, to be prepared so as to be accessible to any researcher in any branch of theoretical physics. We think that this objective is compatible with rigour and high standards. As is well known, similar methods and techniques can be useful for many problems in different fields. We hope that this has been appreciated during the sessions of the QTS5 conference. The QTS5 conference offered the following list of topics: 1. Symmetries in string theory, quantum gravity and related topics 2. Symmetries in quantum field theories, conformal and related field theories, lattice and noncommutative theories, gauge theories 3.Quantum computing, information and control 4. Foundations of quantum theory 5. Quantum optics, coherent states, Wigner functions 6. Dynamical and

  8. PREFACE: The 5th International Symposium in Quantum Theory and Symmetries (QTS5)

    NASA Astrophysics Data System (ADS)

    Arratia, O.; Calzada, J. A.; Gómez-Cubillo, F.; Negro, J.; del Olmo, M. A.

    2008-02-01

    This volume of Journal of Physics: Conference Series contains the Proceedings of the 5th International Symposium in Quantum Theory and Symmetries (QTS5), held in Valladolid, Spain, 22-28 July 2007. This is the fifth of a series of conferences previously held in Goslar (Germany) 1999, QTS1; Cracow (Poland) 2001, QTS2; Cincinnati (USA) 2003, QTS3, and Varna (Bulgaria) 2005, QTS4. The QTS5 symposium gathered 181 participants from 39 countries working in different fields on Theoretical Physics. The spirit of the QTS conference series is to join researchers in a wide variety of topics in Theoretical Physics, as a way to make accessible recent results and the new lines of different fields. The QTS5 conference offered the following list of topics: Symmetries in String Theory, Quantum Gravity and related Symmetries in Quantum Field Theories, Conformal and Related Field Theories, Lattice and Noncommutative Theories, Gauge Theories Quantum Computing, Information and Control Foundations of Quantum Theory Quantum Optics, Coherent States, Wigner Functions Dynamical and Integrable Systems Symmetries in Condensed Matter and Statistical Physics Symmetries in Particle Physics, Nuclear, Atomic and Molecular Nonlinear Quantum Mechanics Time Asymmetric Quantum Mechanics SUSY Quantum Mechanics, PT symmetries and pseudo-Hamiltonians Mathematical Methods for Symmetries and Quantum Theories Symmetries in Chemistry Biology and other Sciences Papers accepted for publication in the present issue are based on the contributions from the participants in the QTS5 conference after a peer review process. In addition, a special issue of Journal Physics A: Mathematical and Theoretical contains contributions from plenary speakers, some participants as well as contributions from other authors whose works fit into the topics of the conference. The organization of the conference had the following pattern. In the morning there were five plenary or general sessions for all the participants, which aimed to

  9. Peer Interaction During Collaborative Writing at the 4th/5th Grade Level.

    ERIC Educational Resources Information Center

    Nunn, Grace Gaeta

    A study was conducted to investigate oral language used in fourth- and fifth-grade student dyads in a collaborative writing setting in order to understand better how children learn to write. The study was based on a theoretical framework that emphasized the interrelatedness of thought, language, and learning. Following a pilot study, students in…

  10. A Study of Oral and Local History on Sportswomen with 5th Grade Students

    ERIC Educational Resources Information Center

    Dilek, Gulcin

    2016-01-01

    Problem Statement: Contrary to traditional historiography, which mainly focuses on men's experiences and ignores the women, historiography today includes all people, genders and social groups. Accordingly, school history also needs to regard female actors of the past in order to present a more gender-balanced past that makes visible not only the…

  11. How to Prepare Long Multi-Block Heteropolymer Chains with AN Ordered Sequence and Controllable Block Lengths

    NASA Astrophysics Data System (ADS)

    Wu, Chi; Xie, Zuowei

    2003-03-01

    It had been a long dream in polymer science to synthesize long multi-block heteropolymers with an ordered chain sequence and controllable block lengths. Using ionic or living free radical polymerization, one can prepare copolymers with few blocks, such as diblock and triblock copolymers. The most plausible result with a reasonable yield in this direction was penta-block copolymer. In another way, one could attach each end of polymer blocks with a reactive functional group and then join them together to form a long multi-block heteropolymer chain. However, the functional ends are normally wrapped and hidden inside the coiled polymer blocks in solution, which dramatically reduces their reactivity, so that longer polymer chains cannot be formed in such a way. Recently, combining polymer physics and synthetic chemistry, we have invented a novel self-assembly assisted polypolymerization (SAAP) method to connect 10-100 polymer blocks together to form long multi-block heteropolymer chains with an ordered sequence and controllable narrowly distributed block lengths. The schematic principle is as follows. To demonstrate the principle of SAAP, we used a typical triblock copolymer, poly(methyl methacry-late)-b-polystyrene-b-poly(methylmethacrylate), PMNA-PS-PMMA, prepared by anionic polymeri-zation. The detail of synthesizing the triblock copolymer is not what we try to address here and can be found elsewhere. The number average molar masses of the PMMA and PS blocks used were 7.00 x 102 g/mol and 1.68 x 104 g/mol, respectively. The polydispersity index (Mw/Mn) is 1.25. The ionic ends of the two PMMA blocks were terminated with an excess amount of oxalyl chloride (ClOC-COCl), which led to functional groups (-OC-COCl) at the two ends. The triblock copolymer was soluble in a solvent mixture of methyl acetate and acetonitrile (10.0:1.0, v/v) when the solution temperature was higher than 45 oC. As the temperature decreases, they could self-assemble into a core-shell micelle

  12. Validation of the 5th and 95th Percentile Hybrid III Anthropomorphic Test Device Finite Element Model

    NASA Technical Reports Server (NTRS)

    Lawrence, C.; Somers, J. T.; Baldwin, M. A.; Wells, J. A.; Newby, N.; Currie, N. J.

    2014-01-01

    NASA spacecraft design requirements for occupant protection are a combination of the Brinkley criteria and injury metrics extracted from anthropomorphic test devices (ATD's). For the ATD injury metrics, the requirements specify the use of the 5th percentile female Hybrid III and the 95th percentile male Hybrid III. Furthermore, each of these ATD's is required to be fitted with an articulating pelvis and a straight spine. The articulating pelvis is necessary for the ATD to fit into spacecraft seats, while the straight spine is required as injury metrics for vertical accelerations are better defined for this configuration. The requirements require that physical testing be performed with both ATD's to demonstrate compliance. Before compliance testing can be conducted, extensive modeling and simulation are required to determine appropriate test conditions, simulate conditions not feasible for testing, and assess design features to better ensure compliance testing is successful. While finite element (FE) models are currently available for many of the physical ATD's, currently there are no complete models for either the 5th percentile female or the 95th percentile male Hybrid III with a straight spine and articulating pelvis. The purpose of this work is to assess the accuracy of the existing Livermore Software Technology Corporation's FE models of the 5th and 95th percentile ATD's. To perform this assessment, a series of tests will be performed at Wright Patterson Air Force Research Lab using their horizontal impact accelerator sled test facility. The ATD's will be placed in the Orion seat with a modified-advanced-crew-escape-system (MACES) pressure suit and helmet, and driven with loadings similar to what is expected for the actual Orion vehicle during landing, launch abort, and chute deployment. Test data will be compared to analytical predictions and modelling uncertainty factors will be determined for each injury metric. Additionally, the test data will be used to

  13. Data in support of crystal structures of highly-ordered long-period stacking-ordered phases with 18R, 14H and 10H-type stacking sequences in the Mg-Zn-Y system.

    PubMed

    Kishida, Kyosuke; Nagai, Kaito; Matsumoto, Akihide; Inui, Haruyuki

    2015-12-01

    The crystal structures of highly-ordered Mg-Zn-Y long-period stacking-ordered (LPSO) phases with the 18R, 14H and 10H-type stacking sequences have been investigated by atomic-resolution scanning transmission electron microscopy (STEM) and transmission electron microscopy (Kishida et al., 2015) [1]. This data article provides supporting materials for the crystal structure analysis based on the crystallographic theory of the order-disorder (OD) structure and the crystallographic information obtained through the structural optimization for various simple polytypes of the highly-ordered Mg-Zn-Y LPSO phases with the 18R, 14H and 10H-type stacking sequences by first-principles density functional theory (DFT) calculations.

  14. IBA investigations of loose garnets from Pietroasa, Apahida and Cluj-Someşeni treasures (5th century AD)

    NASA Astrophysics Data System (ADS)

    Bugoi, R.; Oanţă-Marghitu, R.; Calligaro, T.

    2016-03-01

    This paper reports the archaeometric investigations of 418 loose garnets from Pietroasa and Cluj-Someşeni treasures and Apahida II and III princely grave inventories (5th century AD). The chemical composition of the gems was determined by external beam micro-PIXE technique at the AGLAE accelerator of C2RMF, Paris, France. Complementary observations made by Optical Microscopy revealed details on the gemstones cutting and polishing and permitted to identify certain mineral inclusions. The compositional results evidenced several types of garnets from the pyralspite series, suggesting distinct provenances for these Early Medieval gems.

  15. Organization of ESOMM-2014: 5th International Meeting on the Effects of Sound in the Ocean on Marine Mammals

    DTIC Science & Technology

    2014-09-30

    on the Effects of Sound in the Ocean on Marine Mammals 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) 5d. PROJECT...15. SUBJECT TERMS 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF ABSTRACT Same as Report (SAR) 18. NUMBER OF PAGES 2 19a. NAME OF RESPONSIBLE...Organization of ESOMM-2014: 5th international meeting on the Effects of Sound in the Ocean on Marine Mammals Dr. Frans-Peter A. Lam Acoustics & Sonar

  16. Use of cycle stacking patterns to define third-order depositional sequences: Middle to Late Cambrian Bonanza King Formation, southern Great basin

    SciTech Connect

    Montanez, I.P.; Droser, M.L. )

    1991-03-01

    The Middle to Late Cambrian Bonanza King Formation (CA, NV) is characterized by superimposed scales of cyclicity. Small-scale cycles (0.5 to 10m) occur as shallowing-upward peritidal and subtidal cycles that repeat at high frequencies (10{sup 4} to 10{sup 5}). Systematic changes in stacking patterns of meter-scale cycles define several large-scale (50-250 m) third-order depositional sequences in the Bonanza King Formation. Third-order depositional sequences can be traced within ranges and correlated regionally across the platform. Peritidal cycles in the Bonanza King Formation are both subtidal- and tidal flat-dominated. Tidal flat-dominated cycles consist of muddy bases grading upward into thrombolites or columnar stromatolites all capped by planar stromatolites. Subtidal cycles in the Bonanza King Formation consist of grainstone bases that commonly fine upward and contain stacked hardgrounds. These are overlain by digitate-algal bioherms with grainstone channel fills and/or bioturbated ribbon carbonates with grainstone lenses. Transgressive depositional facies of third-order depositional sequences consist primarily of stacks of subtidal-dominated pertidial cycles and subtidal cycles, whereas regressive depositional facies are dominated by stacks of tidal flat-dominated peritidal cycles and regoliths developed over laminite cycle caps. The use of high frequency cycles in the Bonanza King Formation to delineate regionally developed third-order depositional sequences thus provides a link between cycle stratigraphy and sequence stratigraphy.

  17. Sequence analysis of a few species of termites (Order: Isoptera) on the basis of partial characterization of COII gene.

    PubMed

    Sobti, Ranbir Chander; Kumari, Mamtesh; Sharma, Vijay Lakshmi; Sodhi, Monika; Mukesh, Manishi; Shouche, Yogesh

    2009-11-01

    The present study was aimed to get the nucleotide sequences of a part of COII mitochondrial gene amplified from individuals of five species of Termites (Isoptera: Termitidae: Macrotermitinae). Four of them belonged to the genus Odontotermes (O. obesus, O. horni, O. bhagwatii and Odontotermes sp.) and one to Microtermes (M. obesi). Partial COII gene fragments were amplified by using specific primers. The sequences so obtained were characterized to calculate the frequencies of each nucleotide bases and a high A + T content was observed. The interspecific pairwise sequence divergence in Odontotermes species ranged from 6.5% to 17.1% across COII fragment. M. obesi sequence diversity ranged from 2.5 with Odontotermes sp. to 19.0% with O. bhagwatii. Phylogenetic trees drawn on the basis of distance neighbour-joining method revealed three main clades clustering all the individuals according to their genera and families.

  18. A tailed PCR procedure for cost-effective, two-order multiplex sequencing of candidate genes in polyploid plants.

    PubMed

    Gholami, Mahmood; Bekele, Wubishet A; Schondelmaier, Joerg; Snowdon, Rod J

    2012-08-01

    Complex polyploid crop genomes can be recalcitrant towards conventional DNA sequencing approaches for allele mining in candidate genes for valuable traits. In the past, this has greatly complicated the transfer of knowledge on promising candidate genes from model plants to even closely related polyploid crops. Next-generation sequencing offers diverse solutions to overcome such difficulties. Here, we present a method for multiplexed 454 sequencing in gene-specific PCR amplicons that can simultaneously address multiple homologues of given target genes. We devised a simple two-step PCR procedure employing a set of barcoded M13/T7 universal fusion primers that enable a cost-effective and efficient amplification of large numbers of target gene amplicons. Sequencing-ready amplicons are generated that can be simultaneously sequenced in pools comprising multiple amplicons from multiple genotypes. High-depth sequencing allows resolution of the resulting sequence reads into contigs representing multiple homologous loci, with only insignificant off-target capture of paralogues or PCR artefacts. In a case study, the procedure was tested in the complex polyploid genome of Brassica napus for a set of nine genes identified in Arabidopsis as candidates for regulation of seed development and oil content. Up to six copies of these genes were expected in B. napus. SNP discovery was performed by pooled multiplex sequencing of 30 amplicons in 20 diverse B. napus accessions with interesting trait variation for oil content, providing a basis for comparative mapping to relevant quantitative trait loci and for subsequent marker-assisted breeding.

  19. What predicts the selection of nursing as a career choice in 5th and 6th year school students?

    PubMed

    Neilson, Gavin R; Jones, Martyn C

    2012-07-01

    Demand for nursing care, and nurses, is growing in the United Kingdom given an increasingly ageing patient population with long-term co-morbidities. An ageing nursing workforce and fewer school leavers entering nursing are key barriers to student nurse recruitment. This paper aims to identify the socio-demographic and correlates nursing as a career choice in 5th and 6th year school students. This cross-sectional descriptive study gathered self-administered questionnaires from a total cohort of 5th and 6th year school students (n=1059) in one educational authority in Scotland. A response rate of 100% was achieved, with 702 students expressing a career choice. Some 71.7% (n=503) of students providing a full data set would never consider nursing, even if they obtained poor grades. Only 28.3% (n=199) would ever consider nursing. Students cited nursing as a career choice if they were female, of average to below average academic ability/achievement, expressed a positive attitude to nursing as a degree subject which was shared by their career guidance teacher. Each additional higher reduced the likelihood of nursing as a career choice by 22%. Nursing is an unpopular career choice amongst school students. Strategies are required to improve the occupational image of nursing in secondary education.

  20. Effects of Fraxinellone on the Midgut Enzyme Activities of the 5th Instar Larvae of Oriental Armyworm, Mythimna separata Walker

    PubMed Central

    Lv, Min; Wu, Wenjun; Liu, Huixia

    2014-01-01

    Isolated from Dictamnus dasycarpus Turcz., fraxinellone exhibited multiple bioactivities against insects. In the present paper, the changes of digestive enzymes and detoxification enzymes of Mythimna separata Walker (5th instar larvae), treated with fraxinellone, were investigated. Compared with those of the control, the α-amylase activity of the fraxinellone-treated 5th instar larvae was inhibited, whereas the level of their protease activity was increased. Based upon further studies on the specific proteases, the levels of the active alkaline trypsin-like enzyme (BApNA as the substrate) and the chymotrypsin-like enzyme (BTEE as the substrate) activities of the treated larvae were declined; however, the level of activity of the weak alkaline trypsin-like enzyme (TAME as the substrate) of the treated ones was increased. Meanwhile, the activities of two detoxification enzymes, such as carboxylesterase (CarE) and glutathione S-transferase (GST), of the treated larvae were increased to some extent, but the activities of NADPH-P450 reductase and O-demethylase of the treated ones declined. Therefore, protease (especially the weak alkaline trypsin-like enzyme), CarE and GST played important roles in the metabolism of fraxinellone in the midgut of Mythimna separata (M. separata). PMID:25216084

  1. Draft Genome Sequence of Frankia Strain G2, a Nitrogen-Fixing Actinobacterium Isolated from Casuarina equisetifolia and Able To Nodulate Actinorhizal Plants of the Order Rhamnales

    PubMed Central

    Nouioui, Imen; Gtari, Maher; Göker, Markus; Ghodhbane-Gtari, Faten; Tisa, Louis S.; Fernandez, Maria P.; Normand, Philippe; Huntemann, Marcel; Clum, Alicia; Pillay, Manoj; Varghese, Neha; Reddy, T. B. K.; Ivanova, Natalia; Woyke, Tanja; Kyrpides, Nikos C.

    2016-01-01

    Frankia sp. strain G2 was originally isolated from Casuarina equisetifolia and is characterized by its ability to nodulate actinorhizal plants of the Rhamnales order, but not its original host. It represents one of the largest Frankia genomes so far sequenced (9.5 Mbp). PMID:27231368

  2. Draft Genome Sequence of Frankia Strain G2, a Nitrogen-Fixing Actinobacterium Isolated from Casuarina equisetifolia and Able To Nodulate Actinorhizal Plants of the Order Rhamnales.

    PubMed

    Nouioui, Imen; Gtari, Maher; Göker, Markus; Ghodhbane-Gtari, Faten; Tisa, Louis S; Fernandez, Maria P; Normand, Philippe; Huntemann, Marcel; Clum, Alicia; Pillay, Manoj; Varghese, Neha; Reddy, T B K; Ivanova, Natalia; Woyke, Tanja; Kyrpides, Nikos C; Klenk, Hans-Peter

    2016-05-26

    Frankia sp. strain G2 was originally isolated from Casuarina equisetifolia and is characterized by its ability to nodulate actinorhizal plants of the Rhamnales order, but not its original host. It represents one of the largest Frankia genomes so far sequenced (9.5 Mbp).

  3. Double Layers: Potential Formation and Related Nonlinear Phenomena in Plasmas: Proceedings of the 5th Symposium

    NASA Astrophysics Data System (ADS)

    Iizuka, S.

    1998-02-01

    Parallel Velocity Shear Instability (Invited) * Low-Frequency Instabilities under a Cross-Field Electric Field in a K+-C60- Plasma * 3.3 Vortex Formation * Vortex Dynamics in Low Frequency Electrostatic Turbulence * Development of Spiral-Vortex Structures of the Plasma During Rotation in a Neutral Gas * Vortex Formation of Particles in Magnetized Dusty Plasmas (Invited) * CHAPTER 4: SOLITONS, SHOCKS, WAVES AND INSTABILITIES, AND RELATED NONLINEAR PHENOMENA * 4.1 Solitons and Shocks * Refraction and Reflection of Ion Acoustic Solitons by Space Charge Sheath * 2D and 3D Solitons in Plasma: Structure, Stability, Dynamics * Solitary Waves in an Ion-Beam Multi-Component Plasma System * Shock Formation in a Q-Machine Plasma with Negative Ions * 4.2 Waves and Instabilities * Single-Ended Q-Machine as a Source of Oscillations (Invited) * Numerical and Experimental Investigations of Period Doubling of the Potential Relaxation Instability in an Electron-Rich Q-Machine Plasma * Large Amplitude Electrostatic Ion Waves in an e- - e+ - p Plasma * Measurements of Alfvén Waves around the CRIT Releases-Implications for Current Limitation in Alfvén Wings * 4.3 Nonlinear Phenomena * Self-Organization Phenomena in a Q-Machine Plasma * Nonlinearity Related to Self-Organization in a Thermionic Vacuum Arc Discharge * Spontaneous Formation of Ordered Spatio-Temporal Structures in Laboratory and Nature * Nonlinear Evolution and Stabilization of Linearly Unstable Waves in an Electron-Beam Plasma * Disruption of an Electron Hole Due to its Interaction with Ion Acoustic Waves in a Plasma * Expanding Plasma Clouds with Dust Particles (Invited) * LIST OF PARTICIPANTS * AUTHOR INDEX

  4. PREFACE: 5th International Conference on Materials and Applications for Sensors and Transducers (IC-MAST2015)

    NASA Astrophysics Data System (ADS)

    Hristoforou, E.; Vlachos, D. S.; Giouroudi, I.; Kar-Narayan, S.; Potirakis, S.

    2016-03-01

    The 5th International Conference on Materials and Applications for Sensors and Transducers, Mykonos island, Greece, hosted about 110 oral and poster papers and more than 90 participants. IC-MAS, as an international annual conference which tries to meet the needs for various types of sensors, particularly those which may be manufactured by low cost methods (i.e. hybrid sensors, smart specialization devices, particular applications not necessarily requiring integrated micro-nano technologies), covering all types of materials and physical effects, appears to be a necessity. IC-MAST has been established as a high quality international conference by: I. Gathering together multinational researchers from all over the world, working in different materials for sensors and transducers and technical applications of sensors, but also in some cases in the management of the data coming from sensors and transducers. The careful selection of the conference place (like Aegean Sea, Budapest, Prague, Bilbao, Mykonos etc) allows for enjoying the local hospitality and sightseeing. II. Emphasizing in hybrid sensors and smart specialization devices produced by inexpensive methods, without excluding of course micro-nano technology, from all kinds of solid state, liquid and gaseous materials, as well as in particular transducer applications (design and development, as well as use of sensing data) III. Innovatively implementing the Virtual Paper Concept, allowing for large impact of research works presented in the conference by authors who either have no time or no funding support for visiting a conference; this year more than 12 virtual papers are presented in the 5th IC MAST, following a standardized procedure via the our robust and reliable Conference Site (www.icmast.net!) > IV. Allowing for lengthy technical and managerial discussions in terms of sensor, material and instrumentation development; furthermore, the different research groups gathered together are offered the particular

  5. Primary School 5th and 8th Graders' Understanding and Mental Models about the Shape of the World and Gravity

    ERIC Educational Resources Information Center

    Öztürk, Ayse; Doganay, Ahmet

    2013-01-01

    This study investigated primary school 5th and 8th graders' understanding and mental models related to the shape of the world and gravity, and how these models reflected the fact and what kind of a change there is from 5th to 8th graders. This research is based on a cross-sectional design. The study was conducted in a low socioeconomic level…

  6. Method and software for using m-sequences to characterize parallel components of higher-order visual tracking behavior in Drosophila

    PubMed Central

    Aptekar, Jacob W.; Keles, Mehmet F.; Mongeau, Jean-Michel; Lu, Patrick M.; Frye, Mark A.; Shoemaker, Patrick A.

    2014-01-01

    A moving visual figure may contain first-order signals defined by variation in mean luminance, as well as second-order signals defined by constant mean luminance and variation in luminance envelope, or higher-order signals that cannot be estimated by taking higher moments of the luminance distribution. Separating these properties of a moving figure to experimentally probe the visual subsystems that encode them is technically challenging and has resulted in debated mechanisms of visual object detection by flies. Our prior work took a white noise systems identification approach using a commercially available electronic display system to characterize the spatial variation in the temporal dynamics of two distinct subsystems for first- and higher-order components of visual figure tracking. The method relied on the use of single pixel displacements of two visual stimuli according to two binary maximum length shift register sequences (m-sequences) and cross-correlation of each m-sequence with time-varying flight steering measurements. The resultant spatio-temporal action fields represent temporal impulse responses parameterized by the azimuthal location of the visual figure, one STAF for first-order and another for higher-order components of compound stimuli. Here we review m-sequence and reverse correlation procedures, then describe our application in detail, provide Matlab code, validate the STAFs, and demonstrate the utility and robustness of STAFs by predicting the results of other published experimental procedures. This method has demonstrated how two relatively modest innovations on classical white noise analysis—the inclusion of space as a way to organize response kernels and the use of linear decoupling to measure the response to two channels of visual information simultaneously—could substantially improve our basic understanding of visual processing in the fly. PMID:25400550

  7. The 5th Annual One Mind Summit: Lessons Learned About "Science Informing Brain Health Policies and Practice".

    PubMed

    Hicks, Ramona; Johnson, Stephen; Porter, Amy; Zatzick, Douglas F; One Mind Summit Panel Participants, The

    2017-03-29

    Advances in science frequently precede changes in clinical care by several years or even decades. To better understand the path to translation, we invited experts to share their perspectives at the 5th Annual One Mind Summit: "Science Informing Brain Health Policies and Practice", which was held on May 24-25, 2016 in Crystal City, VA. While the translation of brain research throughout the pipeline - from basic science research to patient care - was discussed, the focus was on the implementation of "best evidence" into patient care. The Summit identified key steps, including the need for professional endorsement and clinical guidelines or policies, acceptance by regulators and payers, dissemination and training for clinicians, patient advocacy, and learning healthcare models. The path to implementation was discussed broadly, as well as in the context of a specific project to implement concussion screening in emergency and urgent care centers throughout the U.S.

  8. Macracanthorhynchus hirudinaceus Eggs in Canine Coprolite from the Sasanian Era in Iran (4th/5th Century CE)

    PubMed Central

    MOWLAVI, Gholamreza; MAKKI, Mahsasadat; HEIDARI, Zahra; REZAEIAN, Mostafa; MOHEBALI, Mehdi; ARAUJO, Adauto; BOENKE, Nicole; AALI, Abolfazl; STOLLNER, Thomas; MOBEDI, Iraj

    2015-01-01

    Present paper is the second publication introducing the paleoparasitological findings from animal coprolites obtained from archeological site of Chehrabad salt mine in northwestern Iran. The current archeological site is located in northwest of Iran, dated to the Sassanian Era (4th/5th century CE). In the summer 2012 the carnivore coprolite was obtained within the layers in the mine and were thoroughly analyzed for parasites using TSP rehydration technique. Eggs of 0 were successfully retrieved from the examined coprolite and were confidently identified based on reliable references. Identifying of M. hirudinaceus eggs in paleofeces with clear appearance as demonstrated herein, is much due to appropriate preservation condition has been existed in the salt mine .The present finding could be regarded as the oldest acanthocephalan infection in Iran. PMID:26246822

  9. Proceedings of the 5th International DAWN Summit 2014: Acting together to make person-centred diabetes care a reality.

    PubMed

    Bootle, Stuart; Skovlund, Soren E

    2015-07-01

    Almost 250 stakeholders from across the world, representing all aspects of diabetes, attended the 5th International DAWN Summit. The summit focussed on the issues raised by the recently published DAWN2 study, placing particular emphasis on promoting the concept of person-centred diabetes care. Discussions between the delegates took place throughout a variety of sessions, with presentations, interactive exchanges and workshops providing a platform for clarification of common global priorities and opportunities for joint action. Following the summit, these ideas were developed further, leading to the creation of a Global Action Framework. The framework aims to support the ongoing local implementation of change in response to the DAWN2 results, while helping enable person-centred diabetes care to become a reality at all levels.

  10. Brief report: data on the Stanford-Binet Intelligence Scales (5th ed.) in children with autism spectrum disorder.

    PubMed

    Coolican, Jamesie; Bryson, Susan E; Zwaigenbaum, Lonnie

    2008-01-01

    The Fifth Edition of the Stanford-Binet Intelligence Scales (SB5; Roid, G. H. (2003). Stanford Binet intelligence scales (5th ed.). Itasca, IL: Riverside Publishing) is relatively new, with minimal published research on general populations and none with special populations. The present study provides information on the cognitive profiles of children with ASD (N=63) and on the whether the abbreviated battery is representative of the full scale. A high percentage of the children had significantly stronger nonverbal (vs. verbal) skills. This pattern was not related to Full Scale IQ, age or diagnostic subgroup. IQs derived from the abbreviated battery accounted for a large proportion of the variance in FSIQ relative to comparable abbreviated batteries. However, caution is warranted when using the abbreviated battery, as it misrepresents actual ability in a small percentage of cases.

  11. Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)

    SciTech Connect

    Hovde, Blake T.; Deodato, Chloe R.; Hunsperger, Heather M.; Ryken, Scott A.; Yost, Will; Jha, Ramesh K.; Patterson, Johnathan; Monnat, Raymond J.; Barlow, Steven B.; Starkenburg, Shawn R.; Cattolico, Rose Ann; Richardson, Paul M.

    2015-09-23

    Haptophytes are recognized as seminal players in aquatic ecosystem function. These algae are important in global carbon sequestration, form destructive harmful blooms, and given their rich fatty acid content, serve as a highly nutritive food source to a broad range of eco-cohorts. Haptophyte dominance in both fresh and marine waters is supported by the mixotrophic nature of many taxa. Despite their importance the nuclear genome sequence of only one haptophyte, Emiliania huxleyi (Isochrysidales), is available. Here we report the draft genome sequence of Chrysochromulina tobin (Prymnesiales), and transcriptome data collected at seven time points over a 24-hour light/dark cycle. The nuclear genome of C. tobin is small (59 Mb), compact (∼40% of the genome is protein coding) and encodes approximately 16,777 genes. Genes important to fatty acid synthesis, modification, and catabolism show distinct patterns of expression when monitored over the circadian photoperiod. The C. tobin genome harbors the first hybrid polyketide synthase/non-ribosomal peptide synthase gene complex reported for an algal species, and encodes potential anti-microbial peptides and proteins involved in multidrug and toxic compound extrusion. A new haptophyte xanthorhodopsin was also identified, together with two “red” RuBisCO activases that are shared across many algal lineages. In conclusion, the Chrysochromulina tobin genome sequence provides new information on the evolutionary history, ecology and economic importance of haptophytes.

  12. Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)

    DOE PAGES

    Hovde, Blake T.; Deodato, Chloe R.; Hunsperger, Heather M.; ...

    2015-09-23

    Haptophytes are recognized as seminal players in aquatic ecosystem function. These algae are important in global carbon sequestration, form destructive harmful blooms, and given their rich fatty acid content, serve as a highly nutritive food source to a broad range of eco-cohorts. Haptophyte dominance in both fresh and marine waters is supported by the mixotrophic nature of many taxa. Despite their importance the nuclear genome sequence of only one haptophyte, Emiliania huxleyi (Isochrysidales), is available. Here we report the draft genome sequence of Chrysochromulina tobin (Prymnesiales), and transcriptome data collected at seven time points over a 24-hour light/dark cycle. Themore » nuclear genome of C. tobin is small (59 Mb), compact (∼40% of the genome is protein coding) and encodes approximately 16,777 genes. Genes important to fatty acid synthesis, modification, and catabolism show distinct patterns of expression when monitored over the circadian photoperiod. The C. tobin genome harbors the first hybrid polyketide synthase/non-ribosomal peptide synthase gene complex reported for an algal species, and encodes potential anti-microbial peptides and proteins involved in multidrug and toxic compound extrusion. A new haptophyte xanthorhodopsin was also identified, together with two “red” RuBisCO activases that are shared across many algal lineages. In conclusion, the Chrysochromulina tobin genome sequence provides new information on the evolutionary history, ecology and economic importance of haptophytes.« less

  13. Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae).

    PubMed

    Hovde, Blake T; Deodato, Chloe R; Hunsperger, Heather M; Ryken, Scott A; Yost, Will; Jha, Ramesh K; Patterson, Johnathan; Monnat, Raymond J; Barlow, Steven B; Starkenburg, Shawn R; Cattolico, Rose Ann

    2015-01-01

    Haptophytes are recognized as seminal players in aquatic ecosystem function. These algae are important in global carbon sequestration, form destructive harmful blooms, and given their rich fatty acid content, serve as a highly nutritive food source to a broad range of eco-cohorts. Haptophyte dominance in both fresh and marine waters is supported by the mixotrophic nature of many taxa. Despite their importance the nuclear genome sequence of only one haptophyte, Emiliania huxleyi (Isochrysidales), is available. Here we report the draft genome sequence of Chrysochromulina tobin (Prymnesiales), and transcriptome data collected at seven time points over a 24-hour light/dark cycle. The nuclear genome of C. tobin is small (59 Mb), compact (∼ 40% of the genome is protein coding) and encodes approximately 16,777 genes. Genes important to fatty acid synthesis, modification, and catabolism show distinct patterns of expression when monitored over the circadian photoperiod. The C. tobin genome harbors the first hybrid polyketide synthase/non-ribosomal peptide synthase gene complex reported for an algal species, and encodes potential anti-microbial peptides and proteins involved in multidrug and toxic compound extrusion. A new haptophyte xanthorhodopsin was also identified, together with two "red" RuBisCO activases that are shared across many algal lineages. The Chrysochromulina tobin genome sequence provides new information on the evolutionary history, ecology and economic importance of haptophytes.

  14. Genome Sequence and Transcriptome Analyses of Chrysochromulina tobin: Metabolic Tools for Enhanced Algal Fitness in the Prominent Order Prymnesiales (Haptophyceae)

    PubMed Central

    Hovde, Blake T.; Deodato, Chloe R.; Hunsperger, Heather M.; Ryken, Scott A.; Yost, Will; Jha, Ramesh K.; Patterson, Johnathan; Monnat, Raymond J.; Barlow, Steven B.; Starkenburg, Shawn R.; Cattolico, Rose Ann

    2015-01-01

    Haptophytes are recognized as seminal players in aquatic ecosystem function. These algae are important in global carbon sequestration, form destructive harmful blooms, and given their rich fatty acid content, serve as a highly nutritive food source to a broad range of eco-cohorts. Haptophyte dominance in both fresh and marine waters is supported by the mixotrophic nature of many taxa. Despite their importance the nuclear genome sequence of only one haptophyte, Emiliania huxleyi (Isochrysidales), is available. Here we report the draft genome sequence of Chrysochromulina tobin (Prymnesiales), and transcriptome data collected at seven time points over a 24-hour light/dark cycle. The nuclear genome of C. tobin is small (59 Mb), compact (∼40% of the genome is protein coding) and encodes approximately 16,777 genes. Genes important to fatty acid synthesis, modification, and catabolism show distinct patterns of expression when monitored over the circadian photoperiod. The C. tobin genome harbors the first hybrid polyketide synthase/non-ribosomal peptide synthase gene complex reported for an algal species, and encodes potential anti-microbial peptides and proteins involved in multidrug and toxic compound extrusion. A new haptophyte xanthorhodopsin was also identified, together with two “red” RuBisCO activases that are shared across many algal lineages. The Chrysochromulina tobin genome sequence provides new information on the evolutionary history, ecology and economic importance of haptophytes. PMID:26397803

  15. The Hetu'u Global Network: Using the rare June 5th/6th Transit of Venus to Bring Astronomy to the Remote Easter Island

    NASA Astrophysics Data System (ADS)

    Faherty, Jacqueline; Rodriguez, D.

    2013-01-01

    There are rare times in astronomy when a celestial event, visible in broad daylight, can be used to measure a fundamental parameter and inspire a globe full of school age students. The June 5th/6th transit of Venus was one such event. In celebration, nine astronomy postdocs from the Chilean mainland traveled to Easter Island to lead a series of astronomy outreach activities over three days, culminating in a transit-viewing event. Our team dubbed "Equipo Hetu'u" or "Team Star" in the Rapa Nui (Easter Island native) language spent two days giving astronomy talks and doing hands-on demonstrations at the Museo Antropologico P. Sebastian Englert. In the final day-and-a-half leading up to the transit, we visited the science classes in the majority of the schools on the island, in order to spread the message about the once-in-a-lifetime transit event, highlighting how we planned on using it to measure the distance to the Sun. We estimate over 25% 1500 people) of this remote island participated in one or more of our organized activities. Our experience with this project is an excellent lesson on how to organize, lead, and fully execute a major outreach endeavor that inspires hundreds with minimal resources (save the spectacular event provided by the cosmos).

  16. Co-conservation of rRNA tetraloop sequences and helix length suggests involvement of the tetraloops in higher-order interactions

    NASA Technical Reports Server (NTRS)

    Hedenstierna, K. O.; Siefert, J. L.; Fox, G. E.; Murgola, E. J.

    2000-01-01

    Terminal loops containing four nucleotides (tetraloops) are common in structural RNAs, and they frequently conform to one of three sequence motifs, GNRA, UNCG, or CUUG. Here we compare available sequences and secondary structures for rRNAs from bacteria, and we show that helices capped by phylogenetically conserved GNRA loops display a strong tendency to be of conserved length. The simplest interpretation of this correlation is that the conserved GNRA loops are involved in higher-order interactions, intramolecular or intermolecular, resulting in a selective pressure for maintaining the lengths of these helices. A small number of conserved UNCG loops were also found to be associated with conserved length helices, consistent with the possibility that this type of tetraloop also takes part in higher-order interactions.

  17. Comparative genome analysis and phylogenetic relationship of order Liliales insight from the complete plastid genome sequences of two Lilies (Lilium longiflorum and Alstroemeria aurea).

    PubMed

    Kim, Jung Sung; Kim, Joo-Hwan

    2013-01-01

    Monocots are one of the most diverse, successful and economically important clades of angiosperms. We attempt to analyse the complete plastid genome sequences of two lilies and their lengths were 152,793bp in Lilium longiflorum (Liliaceae) and 155,510bp in Alstroemeria aurea (Alstroemeriaceae). Phylogenetic analyses were performed for 28 taxa including major lineages of monocots using the sequences of 79 plastid genes for clarifying the phylogenetic relationship of the order Liliales. The sister relationship of Liliales and Asparagales-commelinids was improved with high resolution. Comparative analyses of inter-familial and inter-specific sequence variation were also carried out among three families of Liliaceae, Smilacaceae, and Alstroemeriaceae, and between two Lilium species of L. longflorum and L. superbum. Gene content and order were conserved in the order Liliales except infA loss in Smilax and Alstroemeria. IR boundaries were similar in IRa, however, IRb showed different extension patterns as JLB of Smilax and JSB in Alstroemeria. Ka/Ks ratio was high in matK among the pair-wise comparison of three families and the most variable genes were psaJ, ycf1, rpl32, rpl22, matK, and ccsA among the three families and rps15, rpoA, matK, and ndhF between Lilium.

  18. Comparative Genome Analysis and Phylogenetic Relationship of Order Liliales Insight from the Complete Plastid Genome Sequences of Two Lilies (Lilium longiflorum and Alstroemeria aurea)

    PubMed Central

    Kim, Jung Sung; Kim, Joo-Hwan

    2013-01-01

    Monocots are one of the most diverse, successful and economically important clades of angiosperms. We attempt to analyse the complete plastid genome sequences of two lilies and their lengths were 152,793bp in Liliumlongiflorum (Liliaceae) and 155,510bp in Alstroemeriaaurea (Alstroemeriaceae). Phylogenetic analyses were performed for 28 taxa including major lineages of monocots using the sequences of 79 plastid genes for clarifying the phylogenetic relationship of the order Liliales. The sister relationship of Liliales and Asparagales-commelinids was improved with high resolution. Comparative analyses of inter-familial and inter-specific sequence variation were also carried out among three families of Liliaceae, Smilacaceae, and Alstroemeriaceae, and between two Lilium species of L. longflorum and L. superbum. Gene content and order were conserved in the order Liliales except infA loss in Smilax and Alstroemeria. IR boundaries were similar in IRa, however, IRb showed different extension patterns as JLB of Smilax and JSB in Alstroemeria. Ka/Ks ratio was high in matK among the pair-wise comparison of three families and the most variable genes were psaJ, ycf1, rpl32, rpl22, matK, and ccsA among the three families and rps15, rpoA, matK, and ndhF between Lilium. PMID:23950788

  19. Insights into the preferential order of strand exchange in the Cre/loxP recombinase system: impact of the DNA spacer flanking sequence and flexibility

    NASA Astrophysics Data System (ADS)

    Abi-Ghanem, Josephine; Samsonov, Sergey A.; Pisabarro, M. Teresa

    2015-03-01

    The Cre/loxP system is widely used as a genetic tool to manipulate DNA. Cre recombinase catalyzes site-specific recombination between 34 bp loxP sites. Each loxP site is recognized by two Cre molecules assuming a cleaving (CreC) and non-cleaving (CreNC) activity. Despite the symmetry in the sequences of the arms of loxP, available biochemical data show strong evidence that the recombination reaction is asymmetric with a preferred strand exchange order. The asymmetry comes from the spacer separating the two sets of palindromic arms of the loxP sequence. However, it remains to be understood how this preferential order is established. We apply computational structure-based methods and perform a thorough detailed analysis of available structural and biochemical information on the Cre/loxP system in order to investigate such asymmetry in the recombination, and we propose a rationale to explain the determinants favoring the strand exchange order. We show that the structural properties of the DNA flanking sequence of the spacer guide the recombination, and we establish the role of residues R118, R121 and K122 from CreC, which contact the spacer region and by clamping the DNA inhibit the cleavage on the second arm of loxP. Our studies give an atomistic insight on the synapsis state of the recombination process in the Cre/loxP system and highlight the importance of the flexibility and other intrinsic properties of the flanking regions of the DNA spacer to establish a preferential strand exchange order.

  20. Bond Strength of 5th, 6th and 7th Generation Bonding Agents to Intracanal Dentin of Primary Teeth

    PubMed Central

    Afshar, Hossein; Baradaran Nakhjavani, Yahya; Rahro Taban, Sedighe; Baniameri, Zahra; Nahvi, Azam

    2015-01-01

    Objectives: This in-vitro study sought to assess the push-out bond strength of a total etch and 2 self-etch bonding systems to intracanal dentin of primary anterior teeth (PAT). Materials and Methods: Thirty-six primary anterior teeth were randomly divided into 3 groups of 5th generation (Single Bond 2), 6th generation (Clearfil SE) and 7th generation (Single Bond Universal) bonding agents. The canal orifice was restored with composite resin and the push-out test was carried out to assess the bond strength. After applying the push-out load, specimens were evaluated under a light microscope at 40X magnification. One-way ANOVA and log-rank test on Kaplan-Meier curves were applied for the comparison of bond strength among the 3 groups. Results: The mean± standard deviation (SD) bond strength was 13.6±5.33 MPa for Single Bond 2, 13.85±5.86 MPa for Clearfil SE and 12.28±5.24 MPa for Single Bond Universal. The differences in bond strength among the 3 groups were not statistically significant (P>0.05). Conclusion: All three bonding agents are recommended for use with composite posts in PAT. However, due to high technical sensitivity of the Total Etch system, single or two-step self etch systems may be preferred for uncooperative children. PMID:26056518

  1. Communicating Science to Impact Learning? A Phenomenological Inquiry into 4th and 5th Graders' Perceptions of Science Information Sources

    NASA Astrophysics Data System (ADS)

    Gelmez Burakgazi, Sevinc; Yildirim, Ali; Weeth Feinstein, Noah

    2016-04-01

    Rooted in science education and science communication studies, this study examines 4th and 5th grade students' perceptions of science information sources (SIS) and their use in communicating science to students. It combines situated learning theory with uses and gratifications theory in a qualitative phenomenological analysis. Data were gathered through classroom observations and interviews in four Turkish elementary schools. Focus group interviews with 47 students and individual interviews with 17 teachers and 10 parents were conducted. Participants identified a wide range of SIS, including TV, magazines, newspapers, internet, peers, teachers, families, science centers/museums, science exhibitions, textbooks, science books, and science camps. Students reported using various SIS in school-based and non-school contexts to satisfy their cognitive, affective, personal, and social integrative needs. SIS were used for science courses, homework/project assignments, examination/test preparations, and individual science-related research. Students assessed SIS in terms of the perceived accessibility of the sources, the quality of the content, and the content presentation. In particular, some sources such as teachers, families, TV, science magazines, textbooks, and science centers/museums ("directive sources") predictably led students to other sources such as teachers, families, internet, and science books ("directed sources"). A small number of sources crossed context boundaries, being useful in both school and out. Results shed light on the connection between science education and science communication in terms of promoting science learning.

  2. 5th European conference on Progress in Vaccination Against Cancer. 20-21 September 2005, Athens, Greece.

    PubMed

    Cavallo, Federica

    2005-12-01

    'Progress In Vaccination Against Cancer' (PIVAC) examines the latest advances in tumour immunology and their clinical applications. Previous conferences were held in Blaubeuren, London, Cambridge, Oxford, Copenhagen, Stockholm, Nottingham and Freudenstadt-Lauterbad in the Black Forest. The residential format of these conferences encourages interactions between participants and permits a focussed discussion on the new data and concepts. The main topic of the 5th European PIVAC was the induction and maintenance of an active immune memory against cancer. The results of clinical trials with different cancer vaccines were presented. The correlations between tumour regression and immune response, the role of innate and specific immunity, and ways of enhancing these two arms of the antitumour response were explored. Particular attention was devoted to the presence and function of regulatory T cells as a prelude to improving the design of these trials and understanding why they have produced unimpressive results. A consensus was reached on the need to combine vaccination with strategies for suppressing regulatory T cell function. The immune-escape mechanisms of tumours and the emerging importance of some newly discovered mutations were also fully discussed.

  3. Fast food consumption and food prices: evidence from panel data on 5th and 8th grade children.

    PubMed

    Khan, Tamkeen; Powell, Lisa M; Wada, Roy

    2012-01-01

    Fast food consumption is a dietary factor associated with higher prevalence of childhood obesity in the United States. The association between food prices and consumption of fast food among 5th and 8th graders was examined using individual-level random effects models utilizing consumption data from the Early Childhood Longitudinal Study, Kindergarten Class of 1998-99 (ECLS-K), price data from American Chamber of Commerce Researchers Association (ACCRA), and contextual outlet density data from Dun and Bradstreet (D&B). The results found that contextual factors including the price of fast food, median household income, and fast food restaurant outlet densities were significantly associated with fast food consumption patterns among this age group. Overall, a 10% increase in the price of fast food was associated with 5.7% lower frequency of weekly fast food consumption. These results suggest that public health policy pricing instruments such as taxes may be effective in reducing consumption of energy-dense foods and possibly reducing the prevalence of overweight and obesity among US children and young adolescents.

  4. [Progress and prospects on evaluation of ecological restoration: a review of the 5th World Conference on Ecological Restoration].

    PubMed

    Ding, Jing-Yi; Zhao, Wen-Wu

    2014-09-01

    The 5th World Conference on Ecological Restoration was held in Madison, Wisconsin, USA on October 6-11, 2013. About 1200 delegates from more than 50 countries attended the conference, and discussed the latest developments in different thematic areas of ecological restoration. Discussions on evaluation of ecological restoration were mainly from three aspects: The construction for evaluation indicator system of ecological restoration; the evaluation methods of ecological restoration; monitoring and dynamic evaluation of ecological restoration. The meeting stressed the importance of evaluation in the process of ecological restoration and concerned the challenges in evaluation of ecological restoration. The conference had the following enlightenments for China' s research on evaluation of ecological restoration: 1) Strengthening the construction of comprehensive evaluation indicators system and focusing on the multi-participation in the evaluation process. 2) Paying more attentions on scale effect and scale transformation in the evaluation process of ecological restoration. 3) Expanding the application of 3S technology in assessing the success of ecological restoration and promoting the dynamic monitoring of ecological restoration. 4) Carrying out international exchanges and cooperation actively, and promoting China's international influence in ecological restoration research.

  5. Final Report for DOE Support of 5th the International Workshop on Oxide Surfaces (IWOX-V)

    SciTech Connect

    Charles T. Campbell

    2007-02-02

    The 5th International Workshop on Oxide Surfaces (IWOX-V) was held at Granlibakken Conference center in Lake Tahoe, CA, January 7-12. The total attendance was ~90. The breakdown of attendees by country is as follows: USA 41 Germany 18 Japan 7 UK 5 Italy 5 France 4 Austria 3 Denmark 3 Cech. Repub. 1 Ireland 1 New Zealand 1 India 1 The technical program included oral sessions on the electronic and magnetic properties of oxide surfaces, surface and interface structure, advances in theory, surface defects, thin film oxides on metals and on oxides, thin film metals on oxides, surface photochemistry, surface reactivity, and interactions with water. Two evening poster sessions had similar themes. As in previous years, the program stimulated significant interest and discussion among the attendees. The local expenses (food and lodging, $918 per person) for eight foreign invited speakers were covered by BES funds. In addition, partial reimbursement for travel ($328 per person) was supported by BES funds for two more foreign invited speakers.

  6. 5th International ACC Symposium: Classification of Adrenocortical Cancers from Pathology to Integrated Genomics: Real Advances or Lost in Translation?

    PubMed

    de Krijger, Ronald E; Bertherat, Jérôme

    2016-02-01

    For the clinician, despite its rarity, adrenocortical cancer is a heterogeneous tumor both in term of steroid excess and tumor evolution. For patient management, it is crucial to have an accurate vision of this heterogeneity, in order to use a correct tumor classification. Pathology is the best way to classify operated adrenocortical tumors: to recognize their adrenocortical nature and to differentiate benign from malignant tumors. Among malignant tumors pathology also aims at prognosis assessment. Although progress has being made for prognosis assessment, there is still a need for improvement. Recent studies have established the value of Ki67 for adrenocortical cancer (ACC) prognostication, aiming also at standardization to reduce variability. The use of genomics to study adrenocortical tumors gives a very new insight in their pathogenesis and molecular classification. Genomics studies of ACC give now a clear description of the mRNA (transcriptome) and miRNA expression profile, as well as chromosomal and methylation alterations. Exome sequencing also established firmly the list of the main ACC driver genes. Interestingly, genomics study of ACC also revealed subtypes of malignant tumors with different pattern of molecular alterations, associated with different outcome. This leads to a new vision of adrenocortical tumors classification based on molecular analysis. Interestingly, these molecular classifications meet also the results of pathological analysis. This opens new perspectives on the development and use of various molecular tools to classify, along with pathological analysis, ACC, and guides patient management at the area of precision medicine.

  7. Could test length or order affect scores on letter number sequencing of the WAIS-III and WMS-III? Ruling out effects of fatigue.

    PubMed

    Tulsky, D S; Zhu, J

    2000-11-01

    The Letter Number Sequencing subtest of the WAIS-III and WMS-III was administered at the end of the standardization edition of the WMS-III. It was not administered as part of the WAIS-III standardization battery. Nevertheless, the subtest was included in the published version of the WAIS-III. This study examines differences between examinees administered the Letter Number Sequencing subtest at three different times during a psychological battery: (1) as part of the published battery, (2) as part of the WMS-III when the WMS-III was administered as the first test in a sequence, and (3) as part of the WMS-III standardization when the WAIS-III was administered immediately preceding the WMS-III. The participants were 372 examinees ( n = 124 in each condition) who were matched on key demographic variables. A repeated measures MANOVA yielded no difference in subtest scores when administered in any of these conditions. The results show no evidence of fatigue or ordering effects on the Letter Number Sequencing subtest.

  8. IMMEDIATE AND SHORT-TERM EFFECTS OF THE 5TH GRADE VERSION OF THE keepin’ it REAL SUBSTANCE USE PREVENTION INTERVENTION*

    PubMed Central

    Hecht, Michael L.; Elek, Elvira; Wagstaff, David A.; Kam, Jennifer A.; Marsiglia, Flavio; Dustman, Patricia; Reeves, Leslie; Harthun, Mary

    2010-01-01

    This study assessed the immediate and short-term outcomes of adapting a culturally-grounded middle school program, keepin’ it REAL, for elementary school students. After curriculum adaptation, 10 schools were randomly assigned to the intervention in 5th grade with follow-up boosters in 6th grade; 13 schools were randomly assigned to the control condition, implementing the school’s pre-existing substance use prevention programming. Students (n = 1,566) completed a questionnaire prior to curriculum implementation and follow-up questionnaires toward the end of 5th and 6th grade. The 5th grade kiR curriculum generally appeared no more effective than the control schools’ programming in changing students’ resistance or decision-making skills; substance use intentions, expectancies, or normative beliefs; or lifetime and recent substance use. Such findings have implications for the age appropriateness of school-based programs. PMID:19157042

  9. [Examining the reliability and validity of a Japanese version of the 12-item Erikson Psychosocial Stage Inventory (the 5th stage)].

    PubMed

    Hatano, Kai; Sugimura, Kazumi; Nakama, Reiko; Mizokami, Shinichi; Tsuzuki, Manabu

    2014-12-01

    This study aimed to develop a 12-item version of the Erikson Psychosocial Stage Inventory (the 5th stage) (EPSI (5th)) and examine its reliability and validity. University students (N = 545) participated in this study. Confirmatory factor analyses revealed that a two-factor model provided a better fit than alternative one-factor models. An analysis of Cronbach's α coefficients and the test-retest method showed acceptable scale reliability. In accordance with our hypotheses, correlation analyses revealed that the EPSI (5th) subscale scores (i.e., synthesis and confusion) were significantly related to measures of self-esteem, life satisfaction with life, and identity confusion. Implications and suggestions for future research are discussed.

  10. Implementing SPRINTT [Student Polar Research with IPY National(and International)Teacher Training] in 5th Grade Science

    NASA Astrophysics Data System (ADS)

    Glass, D. S.

    2009-12-01

    I implemented the new NSF-funded SPRINTT (Student Polar Research with IPY National (and International) Teacher Training) curriculum with a 5th grade science class. SPRINTT, developed at U.S. Satellite Laboratory, Inc., is a 5-8 week science program teaching 5th through 10th graders to investigate climate change using polar data. The program includes perspectives of both Western scientists and the indigenous Northern population. The course contains three phases: Phase 1 includes content, data interpretation, and hands-on experiments to study Frozen Water, Frozen Land, and Food; Phase 2 (optional) includes further content on specific polar topics; and Phase 3 is a scaffolded research investigation. Before the course, teachers were trained via live webinars. This curriculum capitalizes on children’s innate fascination with our planet’s final frontier and combines it with the politically and scientifically relevant topic of climate change. In 2009, I used SPRINTT with 23 heterogeneous fifth grade students at National Presbyterian School in Washington DC for an environmental science unit. Overall, it was a success. The students met most of the learning objectives and showed enthusiasm for the material. I share my experiences to help other educators and curriculum developers. The Phase 1 course includes earth science (glaciers, sea ice, weather and climate, greenhouse gases, seasons, and human impacts on environments), life science (needs of living things, food and energy transfer, adaptations, and ecosystems and biomes) and physical science (phases of matter). Tailoring the program, I focused on Phase 1, the most accessible material and content, while deemphasizing the more cumbersome Phase 3 online research project. Pre-assessments documented the students’ misconceptions and informed instruction. The investigations were appropriately educational and interesting. For example, students enjoyed looking at environmental factors and their impact on the people in the

  11. Molecular signatures (conserved indels) in protein sequences that are specific for the order Pasteurellales and distinguish two of its main clades.

    PubMed

    Naushad, Hafiz Sohail; Gupta, Radhey S

    2012-01-01

    The members of the order Pasteurellales are currently distinguished primarily on the basis of their branching in the rRNA trees and no convincing biochemical or molecular markers are known that distinguish them from all other bacteria. The genome sequences for 20 Pasteurellaceae species/strains are now publicly available. We report here detailed analyses of protein sequences from these genomes to identify conserved signature indels (CSIs) that are specific for either all Pasteurellales or its major clades. We describe more than 23 CSIs in widely distributed genes/proteins that are uniquely shared by all sequenced Pasteurellaceae species/strains but are not found in any other bacteria. Twenty-one additional CSIs are also specific for the Pasteurellales except in some of these cases homologues were not detected in a few species or the CSI was also present in an isolated non-Pasteurellaceae species. The sequenced Pasteurellaceae species formed two distinct clades in a phylogenetic tree based upon concatenated sequences for 10 conserved proteins. The first of these clades consisting of Aggregatibacter, Pasteurella, Actinobacillus succinogenes, Mannheimia succiniciproducens, Haemophilus influenzae and Haemophilus somnus was also independently supported by 13 uniquely shared CSIs that are not present in other Pasteurellaceae species or other bacteria. Another clade consisting of the remaining Pasteurellaceae species (viz. Actinobacillus pleuropneumoniae, Actinobacillus minor, Haemophilus ducryi, Mannheimia haemolytica and Haemophilus parasuis) was also strongly and independently supported by nine CSIs that are uniquely present in these bacteria. The order Pasteurellales is presently made up of a single family, Pasteurellaceae, that encompasses all of its genera. In this context, our identification of two distinct clades within the Pasteurellales, which are supported by both phylogenetic analyses and by multiple highly specific molecular markers, strongly argues for and

  12. The complete mitochondrial genome of the bass yabby Trypaea australiensis Dana 1852, (Crustacea; Decapoda; Callianassidae) - a new gene order for the Decapoda.

    PubMed

    Gan, Huan You; Gan, Han Ming; Lee, Yin Peng; Austin, Christopher M

    2016-11-01

    The complete mitochondrial genome of the Bass yabby Trypaea australiensis was obtained from a partial genome scan using the MiSeq sequencing system. The T. australiensis mitogenome is 16,821 bp in length (70.25% A + T content) made up of 13 protein-coding genes, 2 ribosomal subunit genes, 22 transfer RNAs and a putative 1977 bp non-coding AT-rich region. This Trypaea mitogenome sequence is the 5th for the family Callianassidae and represents a new gene order for the Decapoda involving protein-coding, rRNA and tRNA genes and the control region.

  13. Breastfeeding, introduction of other foods and effects on health: a systematic literature review for the 5th Nordic Nutrition Recommendations.

    PubMed

    Hörnell, Agneta; Lagström, Hanna; Lande, Britt; Thorsdottir, Inga

    2013-01-01

    The present systematic literature review is part of the 5th revision of the Nordic Nutrition Recommendations. The overall aim was to review recent scientific data valid in a Nordic setting on the short- and long-term health effects of breastfeeding (duration of both any and exclusive breastfeeding) and introduction of foods other than breast milk. The initial literature search resulted in 2,011 abstracts; 416 identified as potentially relevant. Full paper review resulted in 60 quality assessed papers (6A, 48B, and 6C). A complementary search found some additional papers. The grade of evidence was classified as convincing, probable, limited-suggestive, and limited-no conclusion. The evidence was convincing of a protective dose/duration effect of breastfeeding against overweight and obesity in childhood and adolescence, overall infections, acute otitis media, and gastrointestinal and respiratory tract infections. The evidence was probable that exclusive breastfeeding for longer than 4 months is associated with slower weight gain during the second half of the first year which could be part of the reason behind the reduced risk of later overweight or obesity. There was also probable evidence that breastfeeding is a protective factor against inflammatory bowel disease, celiac disease, and diabetes (type 1 and 2), provides beneficial effects on IQ and developmental scores of children as well as a small reductive effect on blood pressure and blood cholesterol levels in adulthood. Other associations explored were limited-suggestive or inconclusive. In conclusion, convincing and probable evidence was found for benefits of breastfeeding on several outcomes. The recommendation in NNR2004 about exclusive breastfeeding for 6 months and continued partial breastfeeding thereafter can stand unchanged. The relatively low proportion of infants in the Nordic countries following this recommendation indicates that strategies that protect, support and promote breastfeeding should be

  14. Breastfeeding, introduction of other foods and effects on health: a systematic literature review for the 5th Nordic Nutrition Recommendations

    PubMed Central

    Hörnell, Agneta; Lagström, Hanna; Lande, Britt; Thorsdottir, Inga

    2013-01-01

    The present systematic literature review is part of the 5th revision of the Nordic Nutrition Recommendations. The overall aim was to review recent scientific data valid in a Nordic setting on the short- and long-term health effects of breastfeeding (duration of both any and exclusive breastfeeding) and introduction of foods other than breast milk. The initial literature search resulted in 2,011 abstracts; 416 identified as potentially relevant. Full paper review resulted in 60 quality assessed papers (6A, 48B, and 6C). A complementary search found some additional papers. The grade of evidence was classified as convincing, probable, limited-suggestive, and limited-no conclusion. The evidence was convincing of a protective dose/duration effect of breastfeeding against overweight and obesity in childhood and adolescence, overall infections, acute otitis media, and gastrointestinal and respiratory tract infections. The evidence was probable that exclusive breastfeeding for longer than 4 months is associated with slower weight gain during the second half of the first year which could be part of the reason behind the reduced risk of later overweight or obesity. There was also probable evidence that breastfeeding is a protective factor against inflammatory bowel disease, celiac disease, and diabetes (type 1 and 2), provides beneficial effects on IQ and developmental scores of children as well as a small reductive effect on blood pressure and blood cholesterol levels in adulthood. Other associations explored were limited-suggestive or inconclusive. In conclusion, convincing and probable evidence was found for benefits of breastfeeding on several outcomes. The recommendation in NNR2004 about exclusive breastfeeding for 6 months and continued partial breastfeeding thereafter can stand unchanged. The relatively low proportion of infants in the Nordic countries following this recommendation indicates that strategies that protect, support and promote breastfeeding should be

  15. Validating the proposed diagnostic and statistical manual of mental disorders, 5th edition, severity indicator for personality disorder.

    PubMed

    Morey, Leslie C; Bender, Donna S; Skodol, Andrew E

    2013-09-01

    The authors sought to determine whether a 5-point global rating of personality dysfunction on the Level of Personality Functioning Scale proposed as a severity index for Diagnostic and Statistical Manual of Mental Disorders, 5th Edition (DSM-5), would be related to DSM-IV personality disorder diagnosis as well as to other key clinical judgments. Data were collected from a national sample of 337 mental health clinicians who provided complete diagnostic information relevant to DSM-IV and proposed DSM-5 personality disorder diagnoses, as well as demographic information and other clinical judgments, on one of their patients. Of the 337 patients described, 248 met criteria for 1 of the 10 specific DSM-IV personality disorders. A "moderate" or greater rating of impairment in personality functioning on the Level Scale demonstrated 84.6% sensitivity and 72.7% specificity for identifying patients meeting criteria for a specific DSM-IV personality disorder. The Level of Personality Functioning Scale had significant and substantial validity correlations with other measures of personality pathology and with clinical judgments regarding functioning, risk, prognosis, and optimal treatment intensity. Furthermore, the single-item Level of Personality Functioning rating was viewed as being as clinically useful as the 10 DSM-IV categories for treatment planning and patient description and was a better predictor of clinician ratings of broad psychosocial functioning than were the 10 DSM-IV categories combined. These results confirm hypotheses that the single-item Level of Personality Functioning Scale rating provides an indication of severity of personality pathology that predicts both assignment of personality disorder diagnosis and clinician appraisals of functioning, risk, prognosis, and needed treatment intensity.

  16. CENP-B box and pJalpha sequence distribution in human alpha satellite higher-order repeats (HOR).

    PubMed

    Rosandić, Marija; Paar, Vladimir; Basar, Ivan; Gluncić, Matko; Pavin, Nenad; Pilas, Ivan

    2006-01-01

    Using our Key String Algorithm (KSA) to analyze Build 35.1 assembly we determined consensus alpha satellite higher-order repeats (HOR) and consensus distributions of CENP-B box and pJalpha motif in human chromosomes 1, 4, 5, 7, 8, 10, 11, 17, 19, and X. We determined new suprachromosomal family (SF) assignments: SF5 for 13mer (2211 bp), SF5 for 13mer (2214 bp), SF2 for 11mer (1869 bp), SF1 for 18mer (3058 bp), SF3 for 12mer (2047 bp), SF3 for 14mer (2379 bp), and SF5 for 17mer (2896 bp) in chromosomes 4, 5, 8, 10, 11, 17, and 19, respectively. In chromosome 5 we identified SF5 13mer without any CENP-B box and pJalpha motif, highly homologous (96%) to 13mer in chromosome 19. Additionally, in chromosome 19 we identified new SF5 17mer with one CENP-B box and pJalpha motif, aligned to 13mer by deleting four monomers. In chromosome 11 we identified SF3 12mer, homologous to 12mer in chromosome X. In chromosome 10 we identified new SF1 18mer with eight CENP-B boxes in every other monomer (except one). In chromosome 4 we identified new SF5 13mer with CENP-B box in three consecutive monomers. We found four exceptions to the rule that CENP-B box belongs to type B and pJalpha motif to type A monomers.

  17. Time Management Problem in Science Course in Secondary School 5th-8th Grades in Turkey: Units Emphasized Less and the Reasons

    ERIC Educational Resources Information Center

    Bozdogan, Aykut Emre

    2016-01-01

    This study is carried out to reveal which units teachers who encounter problems about falling behind the science course curriculum in secondary school in the 5th grade through the 8th grade prefer to focus on less and the reasons for their preferences. Survey model was used in the research study. Total 302 science teachers from 28 different cities…

  18. Determination of Motivation of 5th Grade Students Living in Rural and Urban Environments towards Science Learning and Their Attitudes towards Science-Technology Course

    ERIC Educational Resources Information Center

    Kenar, Ismail; Köse, Mücahit; Demir, Halil Ibrahim

    2016-01-01

    In this research, determination of motivation of 5th grade students living in rural and urban environments towards science learning and their attitudes towards science-technology course is aimed. This research is conducted based on descriptive survey model. Samples are selected through teleological model in accordance with the aim of this…

  19. EUNIS '99: Information Technology Shaping European Universities. Proceedings of the International European University Information Systems (5th, Espoo, Finland, June 7-9, 1999).

    ERIC Educational Resources Information Center

    1999

    This document presents the proceedings from the 5th International European University Information Systems (EUNIS) Conference on Information Technology that took place in Helsinki, Finland on June 7-9, 1999. Topics of the conference proceedings were divided into five tracks (A through E): Use of Information Technology in Learning and Teaching;…

  20. An Analysis of the Learning Activities Covered in the 5th Grade Science Textbooks Based on 2005 and 2013 Turkish Science Curricula

    ERIC Educational Resources Information Center

    Aydogdu, Cemil; Idin, Sahin

    2015-01-01

    The aim of this study is to analyze the learning activities covered in 5th grade elementary science textbooks which depend on 2005 and 2013 elementary science curricula. Two elementary science textbooks [which] depend on 2005 science curriculum and two elementary science textbooks [which] depend on 2013 science curriculum were researched. The…

  1. An Analysis of the Learning Activities Covered in the 5th Grade Science Textbooks Based on 2005 and 2013 Turkish Science Curricula

    ERIC Educational Resources Information Center

    Aydogdu, Cemil; Idin, Sahin

    2015-01-01

    The aim of this study is to analyze the learning activities covered in 5th grade elementary science textbooks which depend on 2005 and 2013 elementary science curricula. Two elementary science textbooks depends on 2005 science curriculum and two elementary science textbooks depend on 2013 science curriculum were researched. The study is a…

  2. Measures of self-efficacy and norms for low-fat milk consumption are reliable and related to beverage consumption among 5th graders at school lunch

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The objective was to determine the reliability and validity of scales measuring low-fat milk consumption self-efficacy and norms during school lunch among a cohort of 5th graders. Two hundred seventy-five students completed lunch food records and a psychosocial questionnaire measuring self-efficacy ...

  3. Indian Health Career Handbook and Report on Ned Hatathli Seminar for Southern Arizona Indian Students (5th, Tucson, Arizona, February 6-7, 1975).

    ERIC Educational Resources Information Center

    Taylor, Arnold, Ed.; And Others

    Utilizing comments from teachers, professionals, college and high school students, this report is derived from the 5th Ned Hatathli Seminar, sponsored by the Navajo Health Authority, and presents factual information relative to American Indian participation in Indian Health careers. The following major speeches are presented: (1) "The Practice of…

  4. The Effect of Direct Instruction Strategy on Math Achievement of Primary 4th and 5th Grade Students with Learning Difficulties

    ERIC Educational Resources Information Center

    Al-Makahleh, Ahmad Abdulhameed Aufan

    2011-01-01

    This study seeks to verify the effect of direct instruction strategy on Math achievment of students with learning difficulties in the fourth and fifth grade levels and measure the improvement in their attitudes to Mathematics. Sample consisted of sixty (60) students with Math learning difficulties attending 4th and 5th grade level resource rooms…

  5. U.S. Dietary and Physical Activity Guideline Knowledge and Corresponding Behaviors among 4th and 5th Grade Students: A Multi-Site Pilot Study

    ERIC Educational Resources Information Center

    Bea, Jennifer W.; Martinez, Stephanie; Armstrong-Florian, Traci; Farrell, Vanessa; Martinez, Cathy; Whitmer, Evelyn; Hartz, Vern; Blake, Samuel; Nicolini, Ariana; Misner, Scottie

    2014-01-01

    Knowledge of U.S. dietary and physical activity recommendations and corresponding behaviors were surveyed among 4th and 5th graders in five Arizona counties to determine the need for related education in SNAP-Ed eligible schools. A <70% target response rate was the criterion. Participants correctly identified recommendations for: fruit, 20%;…

  6. Immediate and Short-Term Effects of the 5th Grade Version of the "keepin' it REAL" Substance Use Prevention Intervention

    ERIC Educational Resources Information Center

    Hecht, Michael L.; Elek, Elvira; Wagstaff, David A.; Kam, Jennifer A.; Marsiglia, Flavio; Dustman, Patricia; Reeves, Leslie; Harthun, Mary

    2009-01-01

    This study assessed the immediate and short-term outcomes of adapting a culturally-grounded middle school program, "keepin' it REAL", for elementary school students. After curriculum adaptation, 10 schools were randomly assigned to the intervention in 5th grade with follow-up boosters in 6th grade; 13 schools were randomly assigned to the control…

  7. The Analysis of the 5th Grade Students' Attitudes and Self-Efficacy for Physical Education Course in Terms of Demographic Characteristics

    ERIC Educational Resources Information Center

    Aydogan, Hayri

    2017-01-01

    The aim of the study is to analyze the 5th grade students' attitudes and self-efficacy for the physical education course that they have come across for the first time which is taught by physical education and sports teachers. Law No. 6287 was issued by the Turkish Grand National Assembly National Education Culture Youth and Sports Commission on…

  8. Evaluation of the Effects of Argumentation Based Science Teaching on 5th Grade Students' Conceptual Understanding of the Subjects Related to "Matter and Change"

    ERIC Educational Resources Information Center

    Çinar, Derya; Bayraktar, Sule

    2014-01-01

    The aim of this study is to evaluate the effects of Argumentation Based Science Teaching on 5th grade students' conceptual understanding of the subjects related to "Matter and Change". This research is a qualitative research and its design is a multiple (compare) case study. In this study, semi-structured interviews related to the…

  9. Comparison of the Leiter International Performance Scale-Revised and the Stanford-Binet Intelligence Scales, 5th Edition, in Children with Autism Spectrum Disorders

    ERIC Educational Resources Information Center

    Grondhuis, Sabrina Nicole; Mulick, James A.

    2013-01-01

    A review of hospital records was conducted for children evaluated for autism spectrum disorders who completed both the Leiter International Performance Scale-Revised (Leiter-R) and Stanford-Binet Intelligence Scales, 5th Edition (SB5). Participants were between 3 and 12 years of age. Diagnoses were autistic disorder (n = 26, 55%) and pervasive…

  10. Engaging Minds. Proceedings of the National Academy for Integration of Research, Teaching and Learning Annual Conference (5th, Galway, Ireland, June 9-10, 2011)

    ERIC Educational Resources Information Center

    National Academy for Integration of Research, Teaching and Learning (NJ1), 2011

    2011-01-01

    This publication contains the papers presented at the 5th Annual Conference of National Academy for Integration of Research, Teaching and Learning (NAIRTL) and the 9th Galway Symposium. Presenters from across Ireland and overseas share their perspectives. The theme of engagement touches on the very heart of what a "higher" education…

  11. A pedagogical example of second-order arithmetic sequences applied to the construction of computer passwords by upper elementary grade students

    NASA Astrophysics Data System (ADS)

    Coggins, Porter E.

    2015-04-01

    The purpose of this paper is (1) to present how general education elementary school age students constructed computer passwords using digital root sums and second-order arithmetic sequences, (2) argue that computer password construction can be used as an engaging introduction to generate interest in elementary school students to study mathematics related to computer science, and (3) share additional mathematical ideas accessible to elementary school students that can be used to create computer passwords. This paper serves to fill a current gap in the literature regarding the integration of mathematical content accessible to upper elementary school students and aspects of computer science in general, and computer password construction in particular. In addition, the protocols presented here can serve as a hook to generate further interest in mathematics and computer science. Students learned to create a random-looking computer password by using biometric measurements of their shoe size, height, and age in months and to create a second-order arithmetic sequence, then converted the resulting numbers into characters that become their computer passwords. This password protocol can be used to introduce students to good computer password habits that can serve a foundation for a life-long awareness of data security. A refinement of the password protocol is also presented.

  12. Two Successful Outreach Programs at Storm Peak Laboratory: GRASP for Undergraduates and Partnership for 5th Grade Science Education

    NASA Astrophysics Data System (ADS)

    Hallar, A. G.; McCubbin, I. B.; Wright, J.

    2007-12-01

    The Desert Research Institute operates a high elevation facility, Storm Peak Laboratory (SPL), located on the Steamboat Springs Ski Resort at an elevation 10,500 ft. SPL provides an ideal location for long-term atmospheric research. The SPL mission statement is to ensure that the laboratory will continue to integrate climate research and education by advancing discovery and understanding within the field of pollution, aerosol and cloud interactions. During the last year, SPL has created two successful outreach programs reaching very different audiences. First, to engage students from local elementary schools, SPL established a 5th grade climate education program. This program is based on a partnership between SPL and Yampatika's&penvironmental educators. Yampatika is a non-profit outdoor environmental education organization. The program spans three days for each school and includes five elementary schools. During the first day, educators from Yampatika visit each classroom to introduce the concepts of climate and weather as well as teach students how to use scientific equipment. During the field program on the second day, students measure and record information about temperature, pressure, relative humidity, wind speed, and particle concentration while they travel to SPL via the gondola (in winter) or Suburban (in fall). Once at the laboratory, students tour the facility, discuss SPL research activities, and explore application of these activities to their curriculum. Following the field trip, Yampatika educators and SPL scientists will visit the school for a follow-up to help children explore concepts, answer questions, and evaluate students" learning. The second program, Geoscience Research at Storm Peak (GRASP), was designed to engage students from underrepresented groups and created a partnership between three Minority Serving Institutions and the University of Nevada, Reno (UNR). Undergraduate students from Tennessee State University, Howard University

  13. PREFACE: PASREG 2005: The 5th International Workshop on Processing and Applications of Superconducting (RE)BCO Large Grain Materials

    NASA Astrophysics Data System (ADS)

    Murakami, Masato; Cardwell, David; Salama, Kamel; Izumi, Mitsuru

    2006-07-01

    Large grain, (RE)BCO bulk superconductors fabricated by top-seeded melt growth (TSMG) have outstanding potential for a variety of engineering applications such as magnetic separators, flywheel energy storage, magnetic bearings and permanent magnet-like devices due to their ability to generate large magnetic fields. Recent developments in materials and systems research has led to the manufacture of proto-type devices for use in magnetron sputtering, magnetic stirrers and a mobile magnetic separator based on bulk materials technology. This issue contains selected papers presented at the 5th International Workshop on the Processing and Applications of Superconducting (RE)BCO Large Grain Materials held on 21-23 October 2005 at Tokyo Marine University to report progress made in this field over the previous two years. The workshop followed those held previously in Cambridge, UK (1997), Morioka, Japan (1999), Seattle, USA (2001), and Jena, Germany (2003). A total of 76 papers were presented at this workshop, of which 27 were presented in oral form and 49 were presented as posters. This issue contains a total of 36 selected papers in the following categories of bulk (RE)BCO large grain material: processing, characterization, and applications. The editors are grateful for the support of many colleagues both within and outside the immediate bulk community who reviewed the manuscripts to guarantee their high technical quality. Finally, the attendees wish to acknowledge the efforts of Professor Mitsuru Izumi and his research staff from Tokyo Marine University for being generous hosts during the workshop, and the efforts of Professor Masato Murakami for the overall organization of the meeting. The International PASREG Board selected the following distinguished researchers as recipients of the 2005 PASREG Award of Excellence to acknowledge their contribution to the development of bulk high temperature superconductors: • Dr Michael Strasik (Boeing, Seattle, USA) • Dr Hiroshi

  14. Technological Characterization of Wall Paintings from the A Mithraic Tomb Dated to 4th-5th Century AD, Gargaresc, Libya

    NASA Astrophysics Data System (ADS)

    Abd El Salam, S.; Maniatis, Y.

    2009-04-01

    The excavations of Gargaresc started in 1965 and were one of the most important archaeological sites in Tripoli because it includes a period of about 500 years starting from the 1stc. AD was and continuing until the 5th century AD. The Mithraic tomb is one of the most important outlying monuments of Oea, 200 yards south of the western end of Gargaresc oasis, on the left of the Tripoli-Zuara road between kilometers 5 & 6. The tomb is cut in an outcrop of soft sandstone. The wall paintings found were symbolic to the religion of that period; which contained a mixture of older religions and Christian, and presented the interaction between the artistic and religious elements of that time. Several optical, chemical and mineralogical methods were applied to identify the materials, composition and technology of the plasters and mortars, as well as, the pigments used in the tomb. These are: -OP: Optical microscopy was used as the initial examination of polished cross-sections to identify the structure and microstratigraphy of the plasters and mortars as well as the painted layers. -MCT: Micro-chemical tests were used to identify the type of the plasters and mortars- calcium aluminium silicate and water-soluble salt to identify sulphates, chlorides, carbonates, nitrites and nitrates. -SM: Standard methods for chemical analysis to identify the quantitative and qualitative nature of the plasters and mortars and their mixture. -SEM & EDS: Analytical Scanning electron microscope with energy dispersive x-ray analysis system to examine the micrmorphology and determine the chemical composition of the plasters, pigments and the inclusions. -XRD: X-ray powder diffraction to identify the mineralogical composition of the plasters, mortars and pigments. On the bases of all the data obtained, it was possible to establish the nature of the plasters, mortars and their binder. The examination and analysis gave a full picture about the materials and the approximate ratio of amount of

  15. Integration of physical activity and technology motion devices within a combined 5th and 6th grade science curriculum

    NASA Astrophysics Data System (ADS)

    Finn, Kevin Eugene

    Background: National recommendations to increase school-based physical activity and promote academic success advise incorporating movement into traditional classroom lessons. Classroom-based physical activities have favorable associations with indicators of cognitive functioning, academic behaviors, and academic achievement. Purpose: This study analyzed the Active Science framework, which incorporated school-based physical activity within interactive science classroom lessons. Specifically, the study measured the effects of the Active Science framework on student physical activity levels in the classroom, student learning of science inquiry skills and content knowledge, and student perceptions of physical activity and science. A secondary purpose was to evaluate the teachers' perceptions on the implementation of the framework. Subjects: Participants were 37 Hispanic girls (age=11.1 +/-0.8 yr) in mixed 5th/6th grade science classes in a private, urban middle school. Methods: Physical activity levels of the students during the Active Science framework were measured using pedometers and heart rate monitors. Pre- and post-tests were used to assess the levels of learning achieved by the students in science inquiry skills and content during the Active Science framework. Student perceptions and attitudes toward science and physical activity were measured during student focus groups and pre-post perception surveys. Lesson plan evaluations completed by the teachers and structured interviews provided data on implementation of the framework. Results: Physical activity results showed heart rate (146 +/-9 bpm); maximal heart rate (196 +/-10.6 bpm); time (35 +/-2.5 mins); steps (3050 +/-402.7); calories (99 +/-8.4 kcal); and distance (1.1 +/-0.2 miles) while performing the activity portion of the science lessons were consistent with national recommendations for accumulating school-based physical activity. Significant increases in science content and skills test scores with a 22

  16. Effect on Physical Activity of a Randomized Afterschool Intervention for Inner City Children in 3rd to 5th Grade

    PubMed Central

    Crouter, Scott E.; de Ferranti, Sarah D.; Whiteley, Jessica; Steltz, Sarah K.; Osganian, Stavroula K.; Feldman, Henry A.; Hayman, Laura L.

    2015-01-01

    Background Less than 45% of U.S. children meet the 60 min.d-1 physical activity (PA) guideline. Structured after-school PA programing is one approach to help increase activity levels. This study aimed to evaluate the feasibility and short-term impact of a supervised after-school PA and nutrition education program on activity levels. Methods Forty-two 3rd-5th graders from an inner-city school in Boston, MA were randomly assigned to a 10-wk after-school program of either: 1) weekly nutrition education, or 2) weekly nutrition education plus supervised PA 3 d.wk-1 at a community-based center. At baseline and follow-up, PA was measured using accelerometry and fitness (VO2max) was estimated using the PACER 15-m shuttle run. Additional measures obtained were non-fasting finger stick total cholesterol (TC) and glucose levels, waist circumference (WC), body mass index (BMI), percent body fat (%BF), and blood pressure (BP). Values are presented as mean±SE, unless noted otherwise. Results Thirty-six participants completed the study (mean±SD; age 9.7±0.9 years). Participants attended >80% of the sessions. After adjusting for accelerometer wear time and other design factors, light and moderate-to-vigorous PA (MVPA) increased in the nutrition+PA group (+21.5±14.5 and +8.6±8.0 min.d-1, respectively) and decreased in the nutrition only group (-35.2±16.3 and -16.0±9.0 min.d-1, respectively); mean difference between groups of 56.8±21.7 min.d-1 (light PA, p = 0.01) and 24.5±12.0 min.d-1 (MVPA, p = 0.04). Time spent in sedentary behaviors declined in the nutrition+PA group (-14.8±20.7 min.d-1) and increased in the nutrition only group (+55.4±23.2 min.d-1); mean difference between groups of -70.2±30.9 min.d-1 (p = 0.02). Neither group showed changes in TC, BP, WC, %BF, BMI percentile, or fitness (p>0.05). Conclusions The supervised afterschool community-based nutrition and PA program was well accepted and had high attendance. The changes in light PA and MVPA has potential

  17. Exposure, drowning, and missed beats'': Shelf-edge sequence stratigraphy, Middle Ordovician non-cycle carbonates, east Tennessee

    SciTech Connect

    Steinhauff, D.M.; Walker, K.R. . Dept. of Geological Sciences)

    1993-03-01

    Stratigraphic sequences in a Middle Ordovician platform interior carbonate succession can be correlated to the shelf-edge. Surfaces of subaerial exposure are correlated among seven stratigraphic sections, 4 at on-shelf positions and 3 at or near the shelf-edge. This analysis of carbonate facies geometry is based on outcrop observation, analysis of thin-sections, and consideration of water-depth curves. In platform successions, most sequences are bounded by exposure surfaces, but in more continuously subtidal areas, period of shallowing and drowning are discerned in bathymetric curves based on multiple lines of evidence. Cephalopod-rich limestone beds that overlie subtidal limestones and contain black, iron-manganese oxide rich sediment and pavements provide additional evidence for drowning followed by condensed sedimentation. These non-cyclic carbonates have 4th order sequences that are grouped into 3rd order sequences based on the occurrence of pronounced and less pronounced exposure surfaces. For example, 7 pronounced surfaces of subaerial exposure define six 3rd order sequences at on-shelf positions at Thorn Hill, TN. Within the lower four 3rd order sequences, 19 less pronounced surfaces occur with a total of 23 surfaces recognized in about 400 m. These less pronounced surfaces define 4th order sequences that are correlative across the shelf. Within these 3rd and 4th order sequences, 5th order packages occur. Fifth order sequences are not correlative across the shelf or from the shelf to the shelf-edge and many are probably the result of lateral environmental migration. Stratigraphic sequences define shallowing-upward packages and are used to construct Fischer plots, substituting sequences for cycles. The modified Fischer plots show that some sequences are missing. Sequences are missed in 3 ways: Sea-level stays below the shelf edge even though sea level is oscillating; Tectonic uplift exposes the shelf until subsidence allows submergence; and During drowning.

  18. Proceedings for the 5th Asia-Pacific Conference on Disaster Medicine: creating an agenda for action.

    PubMed

    De Grace, M; Ericson, D; Folz, H; Greene, W; Ho, K; Pearce, L

    2001-01-01

    Disaster medicine has come to the forefront and has become the focus of interest not only in the medical community, but also in the eyes of the public. The 5th APCDM was convened in Vancouver, Canada, 27-30 September 2000. It brought together over 300 delegates from 32 countries to share their experiences and thoughts regarding disaster events and how to effectively manage them. The conference was devoted to the task of establishing priorities and creating an Agenda for Action. From the discussions, key actions required were defined: COMMUNICATIONS: (1) Identify existing regional telehealth groups and gather lessons to be learned from them; (2) Form a telehealth advisory group to work with regional groups to compile telehealth initiatives, identify international protocols in telehealth already in existence, and solicit feedback before setting international standards; and (3) Increase corporate partnerships in the fields of telehealth and telecommunications, and invite corporations to send delegates to future APCDM meetings. This should be an initiative of the APCDM, the World Association of Disaster and Emergency Medicine (WADEM), or the European Society of Emergency Medicine. EDUCATION AND RESEARCH: (1) Formalize education in disaster medicine and management. The World Health Organization and WADEM should take a leadership role; (2) WADEM is requested to hold a conference with a focus on qualitative research; (3) WHO is requested to continue the provision of international research teams, but to advocate for the development of national disaster research infrastructure; (4) Make research findings and reports available on web sites of such organizations as WHO and PAHO; (5) Develop the translation of research for community utilization. The WHO and PAHO are organizations that are requested to consider this action; and (6) WADEM/APCDM are requested to focus future conferences on applied research. INFORMATION AND DATA: (1) Create an "Information and Data Clearinghouse

  19. It takes a community to define a discipline: the 5th anniversary of Environmental Research Letters It takes a community to define a discipline: the 5th anniversary of Environmental Research Letters

    NASA Astrophysics Data System (ADS)

    Kammen, Dan

    2012-03-01

    commentary environment, a unique service in itself, and also a specific forum for research published in ERL. Individual topics often come up that warrant not only single articles, but collections of assessments, and ERL has published focus issues in key areas of environmental science including: tropical deforestation, wind energy, the Deepwater Horizon oil spill and climate engineering. ERL is currently publishing seven high-quality focus issues in cutting-edge areas such as arctic vegetation dynamics and cryospheric changes. Research letters appearing in ERL have received regular and significant coverage in the wider media, with several major news outlets and agencies choosing to cover ERL research, such as Nature, BBC News, New Scientist, The Guardian, Scientific American, Le Monde and many others. 4.The future community of ERL The process of community support will take many forms at ERL. The journal is growing—we have published the highest number of articles ever in a single volume in 2011 and are looking to continue this growth through into 2012. ERL had an over 50% increase in submissions from 2010 to 2011. One initiative to mark the journal's 5th anniversary was the 'Best articles' collection [1] a nominated compilation of articles showcasing the quality of published work in ERL as well as the subject area breadth. Co-authors of the five winning articles have been awarded free publication in ERL until the end of 2012. We can also see the open access model working, in that our articles are highly downloaded outside of the traditionally strong geographical areas of academia (North America and Western Europe), showing that the journal's readership is geographically diverse with high interest from Asia, South America and Africa. The journal is committed to progress and innovation; coming soon will be a set of new communication tools and online innovations, including: Video abstracts from the start of 2012 (for example, the video commentary published alongside this

  20. The Complete Mitochondrial DNA Sequence of the Bichir (Polypterus Ornatipinnis), a Basal Ray-Finned Fish: Ancient Establishment of the Consensus Vertebrate Gene Order

    PubMed Central

    Noack, K.; Zardoya, R.; Meyer, A.

    1996-01-01

    The evolutionary position of bichirs is disputed, and they have been variously aligned with ray-finned fish (Actinopterygii) or lobe-finned fish (Sarcopterygii), which also include tetrapods. Alternatively, they have been placed into their own group, the Brachiopterygii. The phylogenetic position of bichirs as possibly the most primitive living bony fish (Osteichthyes) made knowledge about their mitochondrial genome of considerable evolutionary interest. We determined the complete nucleotide sequence (16,624 bp) of the mitochondrial genome of a bichir, Polypterus ornatipinnis. Its genome contains 13 protein-coding genes, 22 tRNAs, two rRNAs and one major noncoding region. The genome's structure and organization show that this is the most basal vertebrate that conforms to the consensus vertebrate mtDNA gene order. Bichir mitochondrial protein-coding and ribosomal RNA genes have greater sequence similarity to ray-finned fish than to either lamprey or lungfish. Phylogenetic analyses suggest the bichir's placement as the most basal living member of the ray-finned fish and rule out its classification as a lobe-finned fish. Hence, its lobe-fins are probably not a shared-derived trait with those of lobe-finned fish (Sarcopterygii). PMID:8913758

  1. [The blocade of glutamate metabotropic 5-th tipe receptors prevents the locomotor behavior changes produced by intrastriatal picrotoxin microinjections in rats].

    PubMed

    Iakimovskiĭ, A F; Red'ka, Iu A; Iakubenko, A L

    2010-01-01

    It was demonstrated in chronic experiments in Wistar rats that only the first of daily multiple microinjections of glutamate metabotropic 5-th type receptor antagonist MTEP into the rostral region of neostriatum impaired the avoidance conditioning in a shuttle box. Within the next two weeks, MTEP was ineffective but being injected into the neostriatum simultaneously with picrotoxin prevented the impairment of avoidance conditioning in a shuttle-box and decreased the hyperactivity (open-field locomotor hyperactivity and choreic hyperkinesis) produced by this GABA-A receptor antagonist. The results do not suggest the involvement of striatal glutamate metabotropic 5-th type receptors in avoidance conditioning control but demonstrate that glutamate metabotropic system is involved in behavioral disorders mediated by inhibition of GABA-A receptors. In principle, it might be possible to treat the human hyperkinetic basal ganglia dysfunction (Huntington's horea), athetosis and similar disorders with glutamate metabotropic receptor antagonists.

  2. Conference highlights of the 5th international workshop on HIV persistence during therapy, 6-9 December 2011, St. Maartin, West Indies.

    PubMed

    Stevenson, Mario; Chomont, Nicolas; Lafeuillade, Alain

    2012-03-12

    The December 2011 5th International Workshop on HIV Persistence during Therapy addressed the issue of HIV persistence among 210 scientists from 10 countries involved in the study of HIV reservoirs and the search of an HIV cure. High quality abstracts were selected and discussed as oral or poster presentations. The aim of this review is to distribute the scientific highlights of this workshop outside the group as analyzed and represented by experts in retrovirology, immunology and clinical research.

  3. CONFERENCE REPORT: Summary of the 5th IAEA Technical Meeting on Steady State Operation of Magnetic Fusion Devices (Daejeon, Republic of Korea, 14 17 May 2007)

    NASA Astrophysics Data System (ADS)

    Lee, G. S.; Na, Yong-Su; Becoulet, A.; Ide, S.; Kessel, C. E.; Komori, A.; Kuteev, B. V.; Mank, G.; Olstad, R. A.; Sarkar, B.; Sips, A. C. C.; van Houtte, D.; Vdovin, V. L.

    2008-08-01

    This report summarizes the contributions presented at the 5th IAEA Technical Meeting on Steady State Operation of Magnetic Fusion Devices, held in Daejeon, Republic of Korea, 14-17 May 2007. The main topics of the meeting were overview and superconducting devices, long pulse operation and advanced tokamak, steady state fusion technology, heating and current drive, particle control and power exhaust and ITER-related issues.

  4. Effect of Anatomical Modeling on Space Radiation Dose Estimates: A Comparison of Doses for NASA Phantoms and 5th, 50th, and 95th Percentile UF Hybrid Phantoms

    NASA Technical Reports Server (NTRS)

    Bahadori, A.; VanBaalen, M.; Shavers, M.; Semones, E.; Dodge, C.; Bolch, W.

    2010-01-01

    The estimate of absorbed dose to individual organs of a space crewmember is affected by the geometry of the anatomical model of the astronaut used in the radiation transport calculation. For astronaut dosimetry, NASA currently uses the computerized anatomical male (CAM) and computerized anatomical female (CAF) stylized phantoms to represent astronauts in its operational radiation dose analyses. These phantoms are available in one size and in two body positions. In contrast, the UF Hybrid Adult Male and Female (UFHADM and UFHADF) phantoms have organ shapes based on actual CT data. The surfaces of these phantoms are defined by non-uniform rational B-spline surfaces, and are thus flexible in terms of body morphometry and extremity positioning. In this study, UFHADM and UFHADF are scaled to dimensions corresponding to 5th, 50th, and 95th percentile (PCTL) male and female astronauts. A ray-tracing program is written in Visual Basic 2008, which is then used to create areal density maps for dose points corresponding to various organs within the phantoms. The areal density maps, along with appropriate space radiation spectra, are input into the NASA program couplet HZETRN/BRYNTRN, and organ doses are calculated. The areal density maps selected tissues and organs of the 5th, 50th, and 95th PCTL male and female phantoms are presented and compared. In addition, the organ doses for the 5th, 50th, and 95th PCTL male and female phantoms are presented and compared to organ doses for CAM and CAF.

  5. FOREWORD: The 5th International Colloquium on Atomic Spectra and Oscillator Strengths for Astrophysical and Laboratory Plasmas

    NASA Astrophysics Data System (ADS)

    Tchang-Brillet, Wad Lydia; Wyart, Jean-François; Zeippen, Claude

    1996-01-01

    The 5th International Colloquium on Atomic Spectra and Oscillator Strengths for Astrophysical and Laboratory Plasmas was held in Meudon, France, from August 28 to 31 1995. It was the fifth in a series started by the Atomic Spectroscopic Group at the University of Lund, Sweden, in 1983. Then followed the meetings in Toledo, USA, Amsterdam, The Nether- lands and Gaithersburg, USA, with a three year period. The original title of the series ended with "... for Astrophysics and Fusion Research" and became more general with the 4th colloquium in Gaithersburg. The purpose of the present meeting was, in line with tradition, to bring together "producers" and "users" of atomic data so as to ensure optimal coordination. Atomic physicists who study the structure of atoms and their radiative and collisional properties were invited to explain the development of their work, emphasizing the possibilities of producing precise transition wavelengths and relative line intensities. Astrophysicists and laboratory plasma physicists were invited to review their present research interests and the context in which atomic data are needed. The number of participants was about 70 for the first three meetings, then exploded to 170 at Gaithersburg. About 140 participants, coming from 13 countries, attended the colloquium in Meudon. This large gathering was partly due to a number of participants from Eastern Europe larger than in the past, and it certainly showed a steady interest for interdisciplinary exchanges between different communities of scientists. This volume includes all the invited papers given at the conference and, in the appendix, practical information on access to some databases. All invited speakers presented their talks aiming at good communication between scientists from different backgrounds. A separate bound volume containing extended abstracts of the poster papers has been published by the Publications de l'Observatoire de Paris, (Meudon 1996), under the responsibility of

  6. Factors affecting the duration of nestling period and fledging order in Tengmalm's owl (Aegolius funereus): effect of wing length and hatching sequence.

    PubMed

    Kouba, Marek; Bartoš, Luděk; Korpimäki, Erkki; Zárybnická, Markéta

    2015-01-01

    In altricial birds, the nestling period is an important part of the breeding phase because the juveniles may spend quite a long time in the nest, with associated high energy costs for the parents. The length of the nestling period can be variable and its duration may be influenced by both biotic and abiotic factors; however, studies of this have mostly been undertaken on passerine birds. We studied individual duration of nestling period of 98 Tengmalm's owl chicks (Aegolius funereus) at 27 nests during five breeding seasons using a camera and chip system and radio-telemetry. We found the nestlings stayed in the nest box for 27 - 38 days from hatching (mean ± SD, 32.4 ± 2.2 days). The individual duration of nestling period was negatively related to wing length, but no formally significant effect was found for body weight, sex, prey availability and/or weather conditions. The fledging sequence of individual nestlings was primarily related to hatching order; no relationship with wing length and/or other factors was found in this case. We suggest the length of wing is the most important measure of body condition and individual quality in Tengmalm's owl young determining the duration of the nestling period. Other differences from passerines (e.g., the lack of effect of weather or prey availability on nestling period) are considered likely to be due to different life-history traits, in particular different food habits and nesting sites and greater risk of nest predation among passerines.

  7. Routing cancer immunology and immunotherapy from the lab to the clinic 4–5 th March 2014, Center for Applied Medical Research and University Clinic, Pamplona, Spain

    PubMed Central

    2014-01-01

    New approaches to generate effective anticancer responses by either inducing immune responses or inhibiting immunosuppression are under development to improve efficacy in patients. On March 4-5th, 2014, a symposium was held in Pamplona, Spain, to report the new strategies showing preclinical and clinical results regarding translational research efforts on the topic. Participants interacted through oral presentations of 15 speakers and further discussions on topics that included novel therapeutic agents for cancer immunotherapy, viral vectors and interferon-based approaches, experimental tumor imaging and immunostimulatory monoclonal antibodies. Promising agents to target cancer cells and therapeutic approaches that are under translation from bench to patients were presented. PMID:25060862

  8. The 5th world symposium for lymphedema surgery-Recent updates in lymphedema surgery and setting up of a global knowledge exchange platform.

    PubMed

    Loh, Charles Yuen Yung; Wu, Jerry Chih-Wei; Nguyen, Alexander; Dayan, Joseph; Smith, Mark; Masia, Jaume; Chang, David; Koshima, Isao; Cheng, Ming-Huei

    2017-01-01

    The successful completion of the 5th World Symposium for Lymphedema Surgery (WSLS) marks another milestone in the development and advancement of the management of lymphedema. We present our experience in organizing such a scientific lymphedema conference as well as a summary of seven variable live surgeries used for treating lymphedema. An update of current knowledge and determination of future direction in the treatment of lymphedema was made possible via WSLS 2016. J. Surg. Oncol. 2017;115:6-12. © 2016 Wiley Periodicals, Inc.

  9. The 5th World Congress of chemical engineering: Technologies critical to a changing World. Volume II: Agriculture, food biotechnology biomedical electric power process safety

    SciTech Connect

    1996-12-31

    Volume 2 of the proceedings from the 5th World Congress of Chemical Engineering covers four major topic areas from which papers were selected for the database: Agriculture, Food; Biotechnology; Electric Power, and Process Safety. Pertinent subtopics include: Renewable Resource Engineering; Special Processes in the Food Industry; Advances in Metabolite Production; Advances in Fermentation and Cell Culture Engineering; Coal and Nuclear Central Station Power Plants; Large Natural Gas Fired Power Stations; Distributed Generation; Potential Impact of Biomass Energy; and Chemical Hazards in Plant Design. 29 papers were selected from Volume 1 for the database.

  10. (S)Partners for Heart Health: a school-based program for enhancing physical activity and nutrition to promote cardiovascular health in 5th grade students

    PubMed Central

    Carlson, Joseph J; Eisenmann, Joey C; Pfeiffer, Karin A; Jager, Kathleen B; Sehnert, Scott T; Yee, Kimbo E; Klavinski, Rita A; Feltz, Deborah L

    2008-01-01

    Background The American Heart Association Position Statement on Cardiovascular Health Promotion in Public Schools encourages school-based interventions for the primary prevention of cardiovascular disease (CVD) through risk factor prevention or reduction in children with an emphasis on creating an environment that promotes healthy food choices and physical activity (PA). In an effort to address issues related to CVD risk factors including obesity in Michigan children, a multi-disciplinary team of Michigan State University (MSU) faculty, clinicians, and health profession students was formed to "(S)partner" with elementary school physical education (PE) teachers and MSU Extension staff to develop and implement a cost-effective, sustainable program aimed at CVD risk factor prevention and management for 5th grade students. This (S)partnership is intended to augment and improve the existing 5th grade PE, health and nutrition curriculum by achieving the following aims: 1) improve the students' knowledge, attitudes and confidence about nutrition, PA and heart health; 2) increase the number of students achieving national recommendations for PA and nutrition; and 3) increase the number of students with a desirable CVD risk factor status based on national pediatric guidelines. Secondary aims include promoting school staff and parental support for heart health to help children achieve their goals and to provide experiential learning and service for MSU health profession students for academic credit. Methods/Design This pilot effectiveness study was approved by the MSU IRB. At the beginning and the end of the school year students undergo a CVD risk factor assessment conducted by MSU medical students and graduate students. Key intervention components include eight lesson plans (conducted bi-monthly) designed to promote heart healthy nutrition and PA behaviors conducted by PE teachers with assistance from MSU undergraduate dietetic and kinesiology students (Spartners). The final

  11. Routing cancer immunology and immunotherapy from the lab to the clinic 4-5 th March 2014, Center for Applied Medical Research and University Clinic, Pamplona, Spain.

    PubMed

    Aznar, M Ángela; Melero, Ignacio; Quetglas, José I

    2014-07-24

    New approaches to generate effective anticancer responses by either inducing immune responses or inhibiting immunosuppression are under development to improve efficacy in patients. On March 4-5th, 2014, a symposium was held in Pamplona, Spain, to report the new strategies showing preclinical and clinical results regarding translational research efforts on the topic. Participants interacted through oral presentations of 15 speakers and further discussions on topics that included novel therapeutic agents for cancer immunotherapy, viral vectors and interferon-based approaches, experimental tumor imaging and immunostimulatory monoclonal antibodies. Promising agents to target cancer cells and therapeutic approaches that are under translation from bench to patients were presented.

  12. A new third-order sequence stratigraphic framework applied to the Triassic of the Paraná Basin, Rio Grande do Sul, Brazil, based on structural, stratigraphic and paleontological data

    NASA Astrophysics Data System (ADS)

    Horn, B. L. D.; Melo, T. M.; Schultz, C. L.; Philipp, R. P.; Kloss, H. P.; Goldberg, K.

    2014-11-01

    The Santacruzodon assemblage zone was originally defined as a vertebrate fossil assemblage composed basically of non-mammalian cynodonts found in Santa Cruz do Sul and Venâncio Aires municipalities in Southern Brazil. This assemblage zone was positioned at the top of the Sequence I, in the Triassic Santa Maria Supersequence, Paraná Basin. However, the Santacruzodon assemblage zone does not occur across the entire area of the Santa Maria Supersequence. Based on new paleontological, structural and sedimentological data, we propose the existence of a new third-order sequence (Santa Cruz Sequence) between Sequences I and II in the Santa Maria Supersequence. Satellite image analysis was used to identify regional, NW- and NE-oriented lineaments that limit the occurrence zone. Outcrop data allowed the identification of a regional, angular unconformity that bounds the new sequence. The faunal content allowed the correlation of the new Santa Cruz Sequence with Madagascar's Isalo II fauna, corresponding to the Ladinian (Middle Triassic). New names were suggested for the sequences in the Santa Maria Supersequence, since the Santa Cruz Sequence was deposited between the former Sequences I and II. This unit was deposited or preserved exclusively on the hanging wall of normal faults, being absent from the adjacent structural blocks.

  13. Autism according to diagnostic and statistical manual of mental disorders 5th edition: The need for further improvements

    PubMed Central

    Posar, Annio; Resca, Federica; Visconti, Paola

    2015-01-01

    The fifth edition of the diagnostic and statistical manual of mental disorders (DSM-5) introduced significant changes in the classification of autism spectrum disorders (ASD), including the abolition of the diagnostic subcategories proposed by DSM-IV-Text Revision. DSM-5 describes three levels of increasing severity of ASD. The authors report two explanatory cases with ASD (verbal boys, aged about 7 and a half years, without intellectual disability). According to DSM-5, both cases fall into the lowest severity level of ASD. However, their neuropsychological and neurobehavioral profile varies significantly. While the first boy showed a prevalent impairment of visuoconstructional and visuoperceptual abilities, the second one presented a predominant involvement of verbal functions, with qualitative impairments in communication. A further step forward in the definition and classification of ASD, taking into account both intensity and quality of symptoms, is recommended in order to formulate a reliable prognosis, plan an individualized treatment and monitor the clinical course over time. PMID:26167220

  14. Autism according to diagnostic and statistical manual of mental disorders 5(th) edition: The need for further improvements.

    PubMed

    Posar, Annio; Resca, Federica; Visconti, Paola

    2015-01-01

    The fifth edition of the diagnostic and statistical manual of mental disorders (DSM-5) introduced significant changes in the classification of autism spectrum disorders (ASD), including the abolition of the diagnostic subcategories proposed by DSM-IV-Text Revision. DSM-5 describes three levels of increasing severity of ASD. The authors report two explanatory cases with ASD (verbal boys, aged about 7 and a half years, without intellectual disability). According to DSM-5, both cases fall into the lowest severity level of ASD. However, their neuropsychological and neurobehavioral profile varies significantly. While the first boy showed a prevalent impairment of visuoconstructional and visuoperceptual abilities, the second one presented a predominant involvement of verbal functions, with qualitative impairments in communication. A further step forward in the definition and classification of ASD, taking into account both intensity and quality of symptoms, is recommended in order to formulate a reliable prognosis, plan an individualized treatment and monitor the clinical course over time.

  15. Factors Affecting the Duration of Nestling Period and Fledging Order in Tengmalm’s Owl (Aegolius funereus): Effect of Wing Length and Hatching Sequence

    PubMed Central

    Kouba, Marek; Bartoš, Luděk; Korpimäki, Erkki; Zárybnická, Markéta

    2015-01-01

    In altricial birds, the nestling period is an important part of the breeding phase because the juveniles may spend quite a long time in the nest, with associated high energy costs for the parents. The length of the nestling period can be variable and its duration may be influenced by both biotic and abiotic factors; however, studies of this have mostly been undertaken on passerine birds. We studied individual duration of nestling period of 98 Tengmalm’s owl chicks (Aegolius funereus) at 27 nests during five breeding seasons using a camera and chip system and radio-telemetry. We found the nestlings stayed in the nest box for 27 – 38 days from hatching (mean ± SD, 32.4 ± 2.2 days). The individual duration of nestling period was negatively related to wing length, but no formally significant effect was found for body weight, sex, prey availability and/or weather conditions. The fledging sequence of individual nestlings was primarily related to hatching order; no relationship with wing length and/or other factors was found in this case. We suggest the length of wing is the most important measure of body condition and individual quality in Tengmalm’s owl young determining the duration of the nestling period. Other differences from passerines (e.g., the lack of effect of weather or prey availability on nestling period) are considered likely to be due to different life-history traits, in particular different food habits and nesting sites and greater risk of nest predation among passerines. PMID:25793880

  16. The 5th IUPAP International Conference on Women in Physics: Making progress in the number of women in physics around the world

    NASA Astrophysics Data System (ADS)

    Cunningham, Beth

    2015-04-01

    A short report on the 5th IUPAP International Conference on Women in Physics (ICWIP) will be presented. In particular, a summary of the structure of the 5th ICWIP that occurred in Waterloo, Canada in August 2014 will be provided and placed into context of the previous four conferences. In addition, a synopsis of the recent efforts that are happening around the world to encourage girls and women to participate in physics will be given. Several US projects have been very successful in introducing girls to science and physics (e.g., ``Expanding Your Horizons'' intervention) and encouraging undergraduate women physics majors to continue into physics careers (e.g., Conferences for Undergraduate Women in Physics). Projects from other countries, such as the Juno Project in the UK that rates physics departments on their climate for women, might be implemented by US physics professional societies as well as colleges and universities. Several projects originating from the conference will be described: the new ``HERstories: Encouraging words from women in physics'' video based on interviews with delegates of the Conference, the My STEM Story project (http://mystemstory.wlu.ca), and the proceedings of the conference. Partial support provided by NSF #PHY-1419453.

  17. Rabies vaccine standards: comparison of the 5th and 6th WHO international reference standards to the USDA veterinary reference standard.

    PubMed

    Hermann, J; Fry, A; Reising, M; Patterson, P; Siev, D; Gatewood, D

    2012-11-06

    Ensuring rabies vaccines are potent and effective is paramount in preventing transmission of this deadly disease and safeguarding public health. Efficacy of human and veterinary vaccines is ensured by evaluating relative potency estimates of the vaccine compared to a rabies reference standard using the National Institutes of Health (NIH) test. Reference vaccines are based on the International Standard for Rabies Vaccine provided by the World Health Organization (WHO). A comparison study was conducted to determine the relative potency of the 5th WHO, 6th WHO, and United States Department of Agriculture's (USDA) 08-14 reference standards using the NIH test. Results from the study demonstrate that the 6th WHO reference standard is approximately twice as potent as the 5th WHO reference when reconstituted to contain 1 IU per ml. Based on these results, the Center for Veterinary Biologics (CVB) doubled the reconstitution volume of USDA veterinary reference 08-14 from 13 ml to 26 ml, for an initial use dilution of 0.7 IU per ml for use by veterinary biologics manufacturers in the NIH test. This study emphasizes the importance of reference standard calibration for use in the National Institutes of Health test.

  18. The effect and value of a WebQuest activity on weather in a 5th grade classroom

    NASA Astrophysics Data System (ADS)

    Oliver, Deborah

    WebQuests are increasing in popularity across the country, yet it remains unclear whether WebQuests confer a significant benefit in student content learning. In addition, the perceptions of teachers regarding the classroom value and efficacy of WebQuests in teaching higher level thinking skills are still unclear. The goals of the study were (a) to determine the effect of WebQuests on elementary students' content area knowledge gains; (b) to investigate teacher perceptions of students' higher order thinking skills while engaged in a WebQuest activity and the value the of the WebQuest, as perceived by teacher. To accomplish the above research goals, a quasi-experimental design was used in this study. The subjects were four teachers and classes at an elementary school in southern California. Results of the study showed that the WebQuest did increase content knowledge in fifth grade students, but not significantly more than traditional teaching as measured by a researcher-modified WebQuest For Teacher Questionnaire (WQFT) (Zheng, Perez, Williamson & Flygare, 2007) and teacher interviews. Teachers responded positively to the value of the WebQuest in their daily teaching. Teachers also indicated that their students engaged in higher level thinking skills while engaged in the WebQuest activity. Keywords: WebQuest, higher level thinking, learning

  19. Teachers' Inclusive Strategies to Accommodate 5th Grade Pupils' Crossing of Cultural Borders in Two Greek Multicultural Science Classrooms

    NASA Astrophysics Data System (ADS)

    Piliouras, Panagiotis; Evangelou, Odysseas

    2012-04-01

    The demographic changes in Greek schools underline the need for reconsidering the way in which migrant pupils move from their everyday culture into the culture of school science (a process known as "cultural border crossing"). Migrant pupils might face difficulties when they attempt to transcend cultural borders and this may influence their progress in science as well as the construction of suitable academic identities as a means of promoting scientific literacy. In the research we present in this paper, adopting the socioculturally driven thesis that learning can be viewed and studied as a meaning-making, collaborative inquiry process, we implemented an action research program (school year 2008-2009) in cooperation with two teachers, in a primary school of Athens with 85% migrant pupils. We examined whether the two teachers, who became gradually acquainted with cross-cultural pedagogy during the project, act towards accommodating the crossing of cultural borders by implementing a variety of inclusive strategies in science teaching. Our findings reveal that both teachers utilized suitable cross-border strategies (strategies concerning the establishment of a collaborative inquiry learning environment, and strategies that were in accordance with a cross-border pedagogy) to help students cross smoothly from their "world" to the "world of science". A crucial key to the teachers' expertise was their previous participation in collaborative action research (school years 2004-2006), in which they analyzed their own discourse practices during science lessons in order to establish more collaborative inquiry environments.

  20. PREFACE: 5th International Workshop DICE2010: Space-Time-Matter - Current Issues in Quantum Mechanics and Beyond

    NASA Astrophysics Data System (ADS)

    Diósi, Lajos; Elze, Hans-Thomas; Fronzoni, Leone; Halliwell, Jonathan; Prati, Enrico; Vitiello, Giuseppe; Yearsley, James

    2011-07-01

    These proceedings present the Invited Lectures and Contributed Papers of the Fifth International Workshop on Decoherence, Information, Complexity and Entropy - DICE 2010, held at Castello Pasquini, Castiglioncello (Tuscany), 13-17 September 2010. These proceedings are intended to document the stimulating exchange of ideas at this conference for both the interested public and the wider scientific community, as well as for the participants. The number of participants attending this series of meetings has been growing steadily, which reflects its increasing attraction. Our intention to bring together leading researchers, advanced students, and renowned scholars from various areas in order to stimulate new ideas and their exchange across the borders of specialization seems to bear fruit. In this way, the series of meetings has continued successfully from the beginning with DICE 2002 [1], followed by DICE 2004 [2], DICE 2006 [3], and DICE 2008 [4], uniting more than 100 participants representing almost 30 countries worldwide. It has been a great honour and inspiration to have Professor Luc Montagnier (Nobel Prize for Medicine 2008) from the World Foundation for AIDS Research and Prevention with us, who presented the lecture DNA waves and water (included in this volume). The discussions took place under the wider theme Space-Time-Matter - current issues in quantum mechanics and beyond in the very pleasant and inspiring atmosphere of Castello Pasquini, which - with its beautiful surroundings, overlooking the Tuscany coast - hosted the conference very successfully for the second time. The five-day program was grouped according to the following topics: Gravity and Quantum Mechanics Quantum Coherent Processes in Biology / Many-Body Systems From Quantum Foundations to Particle Physics The Deep Structure of Spacetime Quantum - Relativity - Cosmology A Public Roundtable Discussion formed an integral part of the program under the theme Sull' Onda Della Coerenza" - le nuove

  1. The complete mitochondrial genome sequence of the tubeworm Lamellibrachia satsuma and structural conservation in the mitochondrial genome control regions of Order Sabellida.

    PubMed

    Patra, Ajit Kumar; Kwon, Yong Min; Kang, Sung Gyun; Fujiwara, Yoshihiro; Kim, Sang-Jin

    2016-04-01

    The control region of the mitochondrial genomes shows high variation in conserved sequence organizations, which follow distinct evolutionary patterns in different species or taxa. In this study, we sequenced the complete mitochondrial genome of Lamellibrachia satsuma from the cold-seep region of Kagoshima Bay, as a part of whole genome study and extensively studied the structural features and patterns of the control region sequences. We obtained 15,037 bp of mitochondrial genome using Illumina sequencing and identified the non-coding AT-rich region or control region (354 bp, AT=83.9%) located between trnH and trnR. We found 7 conserved sequence blocks (CSB), scattered throughout the control region of L. satsuma and other taxa of Annelida. The poly-TA stretches, which commonly form the stem of multiple stem-loop structures, are most conserved in the CSB-I and CSB-II regions. The mitochondrial genome of L. satsuma encodes a unique repetitive sequence in the control region, which forms a unique secondary structure in comparison to Lamellibrachia luymesi. Phylogenetic analyses of all protein-coding genes indicate that L. satsuma forms a monophyletic clade with L. luymesi along with other tubeworms found in cold-seep regions (genera: Lamellibrachia, Escarpia, and Seepiophila). In general, the control region sequences of Annelida could be aligned with certainty within each genus, and to some extent within the family, but with a higher rate of variation in conserved regions.

  2. Health effects of different dietary iron intakes: a systematic literature review for the 5th Nordic Nutrition Recommendations

    PubMed Central

    Domellöf, Magnus; Thorsdottir, Inga; Thorstensen, Ketil

    2013-01-01

    Background The present literature review is part of the NNR5 project with the aim of reviewing and updating the scientific basis of the 4th edition of the Nordic Nutrition Recommendations (NNR) issued in 2004. Objective The objective of this systematic literature review was to assess the health effects of different intakes of iron, at different life stages (infants, children, adolescents, adults, elderly, and during pregnancy and lactation), in order to estimate the requirement for adequate growth, development, and maintenance of health. Methods The initial literature search resulted in 1,076 abstracts. Out of those, 276 papers were identified as potentially relevant. Of those, 49 were considered relevant and were quality assessed (A, B, or C). An additional search on iron and diabetes yielded six articles that were quality assessed. Thus, a total of 55 articles were evaluated. The grade of evidence was classified as convincing (grade 1), probable (grade 2), suggestive (grade 3), and inconclusive (grade 4). Results There is suggestive evidence that prevention or treatment of iron deficiency (ID) and iron deficiency anemia (IDA) improves cognitive, motoric, and behavioral development in young children, and that treatment of IDA improves attention and concentration in school children and adult women. There is insufficient evidence to show negative health effects of iron intakes in doses suggested by the NNR 4. There is insufficient evidence to suggest that normal birth weight, healthy, exclusively breast-fed infants need additional dietary iron before 6 months of life in the Nordic countries. An iron concentration of 4–8 mg/L in infant formulas seems to be safe and effective for normal birth weight infants. There is probable evidence that iron supplements (1–2 mg/kg/day) given up to 6 months of age to infants with low birth weight (<2,500 g) prevents IDA and possibly reduce the risk of behavioral problems later on. There is probable evidence that ID and IDA in

  3. Comparison of Values in 5th, 6th, 7th and 8th Grade Primary Education Music Class Students'? Workbooks According to Rokeach?s and Akbas's Value Classifications

    ERIC Educational Resources Information Center

    Çakirer, H. Serdar

    2014-01-01

    The aim of the present study is to compare the values in the songs of 5th, 6th, 7th and 8th grade primary education music classes students? workbooks according to the value categorizations proposed by Rockeach and Akbas and which values among the categories mentioned are taught to the students in the 5th, 6th, 7th and 8th grade primary education…

  4. Characteristics, stratigraphic architecture, and time framework of multi-order mixed siliciclastic and carbonate depositional sequences, outcropping Cisco Group (Late Pennsylvanian and Early Permian), Eastern Shelf, north-central Texas, USA

    NASA Astrophysics Data System (ADS)

    Yang, Wan; Kominz, Michelle A.

    2003-01-01

    The Cisco Group on the Eastern Shelf of the Midland Basin is composed of fluvial, deltaic, shelf, shelf-margin, and slope-to-basin carbonate and siliciclastic rocks. Sedimentologic and stratigraphic analyses of 181 meter-to-decimeter-scale depositional sequences exposed in the up-dip shelf indicated that the siliciclastic and carbonate parasequences in the transgressive systems tracts (TST) are thin and upward deepening, whereas those in highstand systems tracts (HST) are thick and upward shallowing. The sequences can be subdivided into five types on the basis of principal lithofacies, and exhibit variable magnitude of facies shift corresponding to variable extents of marine transgression and regression on the shelf. The sequence stacking patterns and their regional persistence suggest a three-level sequence hierarchy controlled by eustasy, whereas local and regional changes in lithology, thickness, and sequence type, magnitude, and absence were controlled by interplay of eustasy, differential shelf subsidence, depositional topography, and pattern of siliciclastic supply. The outcropping Cisco Group is highly incomplete with an estimated 6-11% stratigraphic completeness. The average duration of deposition of the major (third-order) sequences is estimated as 67-102 ka on the up-dip shelf and increases down dip, while the average duration of the major sequence boundaries (SB) is estimated as 831-1066 ka and decreases down dip. The nondepositional and erosional hiatus on the up-dip shelf was represented by lowstand deltaic systems in the basin and slope.

  5. Investigation of the aerodynamic performance and noise characteristics of a 1/5th scale model of the Dowty Rotol R212 propeller

    NASA Astrophysics Data System (ADS)

    Trebble, W. J. G.

    1983-11-01

    The four-bladed Dowty Rotol R212 propeller (NACA 16 sections) was studied at 1/5th scale (0.7 m diameter) in 1.5 m acoustic tunnel. Propeller power absorption and thrust were measured over a range of rotational speeds up to 8000 rev/min at mainstream speeds from 15 to 60 m/sec for a range of blade settings. Slipstream wake surveys show outward movement of the position of the peak pressure as propeller loading is increased. Noise analysis demonstrates the predominance of multiple tones whose number and intensity increase with helical-tip Mach number. An empirical formula shows that the fundamental tone sound pressure level varies with tip speed and power loading in an identical manner to that observed on an ARA-D section propeller.

  6. [Reasons for abolishing the Massage Department of the Imperial Academy of Medicine in the 5(th) year of Longqing Period of the Ming Dynasty].

    PubMed

    Li, Qiang

    2012-01-01

    In the 5th year of the Longqing Period (1571) of the Ming Dynasty, with the abolishment of the Massage and Zhuyou Departments (the latter with a primitive witch doctor, who was dominant in administering incantations, prayers, fortune telling and medicine), the number of departments of the Imperial Academy of Medicine was reduced from thirteen to eleven. In the Jiaqing Period, Taoists occupied some positions in the Imperial Academy of Medicine. Some of them became imperial doctors or even the president, which resulted in Emperor Jiaqing pursuing immortality and neglecting duty on national affairs for more than 20 years. The abolishment of the Massage Department was associated with the official system of reform developed by Emperor Longqing and the prime minister, Gao Gong. Against the background of official reform, they also advanced bold reform in the two departments which Taoists occupied.

  7. Variations in the geomagnetic field strength in the 5th 3rd centuries BC in the eastern Mediterranean (according to narrowly dated ceramics)

    NASA Astrophysics Data System (ADS)

    Nachasova, I. E.; Burakov, K. S.; Il'Ina, T. A.

    2008-06-01

    The magnetization of ceramics from the eastern Mediterranean dated within a short period (mostly shorter than ±20 years) has been studied, which made it possible to specify the geomagnetic field variations on the time interval 5th 3rd centuries BC. The 11-year time series of the geomagnetic field strength values has been constructed. The field strength changes have been considered, which indicated that the centennial variation with a characteristic time of ˜130 years (according to the obtained data) is observed on this time interval as well as during the last two millennia. The ceramic material from the Mayskaya Gora archeological site (Taman), the preparation succession of which was established based on the shape of pottery but the problem of absolute dating was not solved, has been dated.

  8. [The Revision and 5th Edition of the Diagnostic and Statistical Manual of Mental Disorders (DSM-5): Consequences for the Diagnostic Work with Children and Adolescents].

    PubMed

    Zulauf Logoz, Marina

    2014-01-01

    The Revision and 5th Edition of the Diagnostic and Statistical Manual of Mental Disorders (DSM-5): Consequences for the Diagnostic Work with Children and Adolescents.The present paper describes and discusses the major revisions in DSM-5 for children and adolescents. A major modification is that the separate chapter for disorders first diagnosed in childhood and adolescence was abandoned in favour of the integration of these clinical pictures into the relevant disorder-specific chapters. Several new diagnoses and diagnostic groups were introduced: "Disruptive mood regulation disorder" is a new diagnosis; the different diagnoses for autism were brought together into one, and a new diagnostic group for obsessive-compulsive disorders has been established. The developmental approach of DSM-5 and the integration of dimensional assessment tools are to be welcomed. Practice will show if the critiques afraid of possible increases in prevalences or those who approve the changes will end up being right.

  9. Comparison of the Leiter International Performance Scale-Revised and the Stanford-Binet Intelligence Scales, 5th Edition, in children with autism spectrum disorders.

    PubMed

    Grondhuis, Sabrina Nicole; Mulick, James A

    2013-01-01

    A review of hospital records was conducted for children evaluated for autism spectrum disorders who completed both the Leiter International Performance Scale-Revised (Leiter-R) and Stanford-Binet Intelligence Scales, 5th Edition (SB5). Participants were between 3 and 12 years of age. Diagnoses were autistic disorder (n  =  26, 55%) and pervasive developmental disorder-not otherwise specified (n  =  21, 45%). Analysis showed that the full sample received significantly higher scores on the Leiter-R than SB5 (mean discrepancy of 20.91 points), specific diagnosis was not a significant factor, and younger children had a larger discrepancy between tests. These analyses strongly suggest that the Leiter-R and the SB5 may not be equivalent measures of intellectual functioning in children with autism spectrum disorders, and that use of one or the other exclusively could lead to misclassification of intellectual capacity.

  10. Imagery May Arise from Associations Formed through Sensory Experience: A Network of Spiking Neurons Controlling a Robot Learns Visual Sequences in Order to Perform a Mental Rotation Task

    PubMed Central

    McKinstry, Jeffrey L.; Fleischer, Jason G.; Chen, Yanqing; Gall, W. Einar; Edelman, Gerald M.

    2016-01-01

    Mental imagery occurs “when a representation of the type created during the initial phases of perception is present but the stimulus is not actually being perceived.” How does the capability to perform mental imagery arise? Extending the idea that imagery arises from learned associations, we propose that mental rotation, a specific form of imagery, could arise through the mechanism of sequence learning–that is, by learning to regenerate the sequence of mental images perceived while passively observing a rotating object. To demonstrate the feasibility of this proposal, we constructed a simulated nervous system and embedded it within a behaving humanoid robot. By observing a rotating object, the system learns the sequence of neural activity patterns generated by the visual system in response to the object. After learning, it can internally regenerate a similar sequence of neural activations upon briefly viewing the static object. This system learns to perform a mental rotation task in which the subject must determine whether two objects are identical despite differences in orientation. As with human subjects, the time taken to respond is proportional to the angular difference between the two stimuli. Moreover, as reported in humans, the system fills in intermediate angles during the task, and this putative mental rotation activates the same pathways that are activated when the system views physical rotation. This work supports the proposal that mental rotation arises through sequence learning and the idea that mental imagery aids perception through learned associations, and suggests testable predictions for biological experiments. PMID:27653977

  11. Cognitive performance of young and elderly subjects on the free word recall memory test: effect of presentation order on recall order.

    PubMed

    Santos-Galduróz, R F; Oliveira, F G; Galduróz, J C F; Bueno, O F A

    2009-10-01

    The influence of aging on memory has been extensively studied, but the importance of short-term memory and recall sequence has not. The objective of the current study was to examine the recall order of words presented on lists and to determine if age affects recall sequence. Physically and psychologically healthy male subjects were divided into two groups according to age, i.e., 23 young subjects (20 to 30 years) and 50 elderly subjects (60 to 70 years) submitted to the Wechsler Adult Intelligence Scale-Revised and the free word recall test. The order of word presentation significantly affected the 3rd and 4th words recalled (P < 0.01; F = 14.6). In addition, there was interaction between the presentation order and the type of list presented (P < 0.05; F = 9.7). Also, both groups recalled the last words presented from each list (words 13-15) significantly more times 3rd and 4th than words presented in all remaining positions (P < 0.01). The order of word presentation also significantly affected the 5th and 6th words recalled (P = 0.05; F = 7.5) and there was a significant interaction between the order of presentation and the type of list presented (P < 0.01; F = 20.8). The more developed the cognitive functions, resulting mainly from formal education, the greater the cognitive reserve, helping to minimize the effects of aging on the long-term memory (episodic declarative).

  12. Nuclear Electricity. 5th Edition.

    ERIC Educational Resources Information Center

    Hore-Lacy, Ian

    Educators must address the need for young people to be informed about both the scientific concepts and the reasons for controversy when dealing with controversial issues. Young people must be given the opportunity to form their own opinions when presented with evidence for conflicting arguments. Previous editions of "Nuclear Electricity" have…

  13. Environmental chemistry. 5th edition

    SciTech Connect

    Manahan, S.E. . Dept. of Chemistry)

    1991-01-01

    This book is organized around several major sections: aquatic Chemistry, atmospheric chemistry, the geosphere and hazardous wastes, toxicological chemistry, and resources and energy. Specific topics discussed in the book include a general introduction to environment chemistry, basic principles of aquatic chemistry, water pollution and water treatment, the essential role of microorganisms in aquatic chemical phenomena, atmospheric chemistry, a discussion of major threats to the global atmosphere (particularly greenhouse gases and ozone-depleting chemicals), the geosphere and hazardous substances, soil chemistry, and the nature and sources of hazardous wastes. The environmental chemistry of hazardous wastes, their treatment, minimization, and recycling, and the effects of these hazardous substances in also presented.

  14. A phylogenetic analysis of woodpeckers and their allies using 12S, Cyt b, and COI nucleotide sequences (class Aves; order Piciformes).

    PubMed

    Webb, David Matthew; Moore, William S

    2005-08-01

    Although the woodpeckers have long been recognized as a natural, monophyletic taxon, morphological analyses of their intra- and intergeneric relationships have produced conflicting results. To clarify this issue, and as part of a larger study of piciform relationships, nucleotide sequences for the 12S ribosomal RNA (12S; 1123 bp), cytochrome b (Cyt b; 1022 bp), and cytochrome oxidase c subunit 1 (COI; 1512 bp) mitochondrial genes were obtained from 34 piciform species that included 16 of the 23 currently recognized woodpecker genera (subfamily Picinae), three piculets (subfamily Picumninae), a wryneck (subfamily Jynginae), a honeyguide (family Indicatoridae), and three barbets (infraorder Ramphastides). Analyses were conducted on the individual and combined 12S, Cyt b, and COI sequences with maximum parsimony, neighbor-joining, maximum likelihood, and Bayesian algorithms. Based on the strong, congruent support among the different data partitions and models of sequence evolution, a highly resolved consensus of the relationships among woodpeckers and their allies could be formed. The monophyly of Indicatoridae + Picidae (infraorder Picides), Picidae, Picinae + Picumninae, and Picinae was strongly supported in all analyses. However, the tribes Colaptini, Picini, Campephilini, and Campetherini were shown to be paraphyletic as were the genera of Colaptes and Piculus. A revision of the tribal-level classification of woodpeckers is proposed and the importance of plumage convergence among woodpeckers is discussed.

  15. Proceedings of the 5th International LISA Symposium and the 38th ESLAB Symposium, ESTEC, Noordwijk, The Netherlands, 12-15 July 2004

    NASA Astrophysics Data System (ADS)

    Jennrich, Oliver

    2005-05-01

    In its 10th year, the International LISA Symposium of 2004 was the first to be organized by ESA. After the first Symposium at the Rutherford Appleton Laboratory in 1996, and subsequent Symposia at Caltech (1998), the Albert Einstein Institute in Golm (2000) and Penn State University (2002), ESA's European Space and Technology Centre (ESTEC) is proud to have hosted the 5th International LISA Symposium in 2004 in conjunction with the 38th ESLAB Symposium. During these 10 years, we have seen the technology required for such ambitious space missions as LISA and LISA Pathfinder developing and maturing to a point where flightlevel hardware can be produced and tested. The technology demonstrator LISA Pathfinder has become a mission well established in the ESA programme and has entered its project implementation phase; the LISA mission is in the formulation phase. At the same time, the preparations for LISA data analysis and first activities on data archives and LISA simulators have begun, indicating that LISA is regarded as more than just a mission far in the future. The astrophysics of the sources of gravitational waves is emerging as a rapidly growing field that will become even more important in the coming years, when the focus of the activities on LISA and LISA Pathfinder will shift from making the missions possible to deriving scientific results from the data. The 5th International LISA Symposium had presentations on all of the above topics, from the technology of LISA and LISA Pathfinder, LISA data analysis, and modelling and simulation, to the astrophysics of the sources. The programme included an overview of the activities at the ground-based detectors, with which LISA shares not only a common technological heritage but also the prospect of detecting gravitational waves in the next 10 years. Such a conference would not be possible without the help of many people, not least the Scientific Organizing Committee, and the local organization, provided by ESA

  16. Offshore observations of aftershocks following the January 5th 2013 Mw 7.5 Queen Charlotte-Fairweather fault earthquake, southeast Alaska

    NASA Astrophysics Data System (ADS)

    Roland, E. C.; Gulick, S. P.; Levoir, M. A.; Haeussler, P. J.

    2013-12-01

    We present initial results from a rapid-response ocean bottom seismometer (OBS) deployment that recorded aftershock activity on the Queen Charlotte-Fairweather (QC-F) fault following the Mw 7.5 earthquake on January 5th 2013 near Craig, Alaska. This earthquake was the second of two Mw > 7 events on this fault system in a 3 month time period; the Craig earthquake followed a Mw 7.8 thrust event that occurred in October 2012, west of Haida Gwaii, British Columbia. Although the QC-F is a major plate boundary fault, little is known about the regional fault structure, interseismic coupling, and rheological controls on the depth distribution of seismic slip along the continent-ocean transform. The majority of the QC-F fault system extends offshore western British Columbia and southeast Alaska, making it difficult to characterize earthquakes and fault deformation with land-based seismic and geodetic instruments. This experiment is the first ever offshore seismometer deployment to record earthquake activity along this northern segment of the QC-F system, and was set in motion with help from the US Coast Guard, who provided a vessel and crew to deploy and recover the OBS array on short notice. The seismic array utilized 6 GeoPro short period OBS from the University of Texas Institute for Geophysics, which recorded approximately 3 weeks of aftershock activity in April-May of 2013. Combining high-quality local OBS recordings with land-based seismic observations from Alaska Earthquake Information Center (AEIC) stations to the east, we present more precise aftershock locations and depths that help to better characterize fault zone architecture along the northern section of the QC-F. Although moment tensor solutions indicate that the January 5th mainshock sustained slip consistent with Pacific-North America plate motions, aftershock focal mechanisms indicate some interaction with neighboring faults, such as the Chatham Straight fault. This new OBS dataset will also help to

  17. The 5th National Audit Project (NAP5) on accidental awareness during general anaesthesia: patient experiences, human factors, sedation, consent and medicolegal issues.

    PubMed

    Cook, T M; Andrade, J; Bogod, D G; Hitchman, J M; Jonker, W R; Lucas, N; Mackay, J H; Nimmo, A F; O'Connor, K; O'Sullivan, E P; Paul, R G; Palmer, J H MacG; Plaat, F; Radcliffe, J J; Sury, M R J; Torevell, H E; Wang, M; Hainsworth, J; Pandit, J J

    2014-10-01

    The 5th National Audit Project of the Royal College of Anaesthetists and the Association of Anaesthetists of Great Britain and Ireland into accidental awareness during general anaesthesia yielded data related to psychological aspects from the patient, and the anaesthetist, perspectives; patients' experiences ranged from isolated auditory or tactile sensations to complete awareness. A striking finding was that 75% of experiences were for < 5 min, yet 51% of patients (95% CI 43-60%) experienced distress and 41% (95% CI 33-50%) suffered longer-term adverse effect. Distress and longer-term harm occurred across the full range of experiences but were particularly likely when the patient experienced paralysis (with or without pain). The patient's interpretation of what is happening at the time of the awareness seemed central to later impact; explanation and reassurance during suspected accidental awareness during general anaesthesia or at the time of report seemed beneficial. Quality of care before the event was judged good in 26%, poor in 39% and mixed in 31%. Three quarters of cases of accidental awareness during general anaesthesia (75%) were judged preventable. In 12% of cases of accidental awareness during general anaesthesia, care was judged good and the episode not preventable. The contributory and human factors in the genesis of the majority of cases of accidental awareness during general anaesthesia included medication, patient and education/training. The findings have implications for national guidance, institutional organisation and individual practice. The incidence of 'accidental awareness' during sedation (~1:15 000) was similar to that during general anaesthesia (~1:19 000). The project raises significant issues about information giving and consent for both sedation and anaesthesia. We propose a novel approach to describing sedation from the patient's perspective which could be used in communication and consent. Eight (6%) of the patients had resorted

  18. Mutations with epigenetic effects in myeloproliferative neoplasms and recent progress in treatment: Proceedings from the 5th International Post-ASH Symposium

    PubMed Central

    Tefferi, A; Abdel-Wahab, O; Cervantes, F; Crispino, J D; Finazzi, G; Girodon, F; Gisslinger, H; Gotlib, J; Kiladjian, J-J; Levine, R L; Licht, J D; Mullally, A; Odenike, O; Pardanani, A; Silver, R T; Solary, E; Mughal, T

    2011-01-01

    Immediately following the 2010 annual American Society of Hematology (ASH) meeting, the 5th International Post-ASH Symposium on Chronic Myelogenous Leukemia and BCR-ABL1-Negative Myeloproliferative Neoplasms (MPNs) took place on 7–8 December 2010 in Orlando, Florida, USA. During this meeting, the most recent advances in laboratory research and clinical practice, including those that were presented at the 2010 ASH meeting, were discussed among recognized authorities in the field. The current paper summarizes the proceedings of this meeting in BCR-ABL1-negative MPN. We provide a detailed overview of new mutations with putative epigenetic effects (TET oncogene family member 2 (TET2), additional sex comb-like 1 (ASXL1), isocitrate dehydrogenase (IDH) and enhancer of zeste homolog 2 (EZH2)) and an update on treatment with Janus kinase (JAK) inhibitors, pomalidomide, everolimus, interferon-α, midostaurin and cladribine. In addition, the new ‘Dynamic International Prognostic Scoring System (DIPSS)-plus' prognostic model for primary myelofibrosis (PMF) and the clinical relevance of distinguishing essential thrombocythemia from prefibrotic PMF are discussed. PMID:23471017

  19. Cornelia de Lange syndrome: further delineation of phenotype, cohesin biology and educational focus, 5th Biennial Scientific and Educational Symposium abstracts.

    PubMed

    Kline, Antonie D; Calof, Anne L; Schaaf, Cheri A; Krantz, Ian D; Jyonouchi, Soma; Yokomori, Kyoko; Gauze, Maria; Carrico, Cheri S; Woodman, Julie; Gerton, Jennifer L; Vega, Hugo; Levin, Alex V; Shirahige, Katsuhiko; Champion, Michele; Goodban, Marjorie T; O'Connor, Julia T; Pipan, Mary; Horsfield, Julia; Deardorff, Matthew A; Ishman, Stacey L; Dorsett, Dale

    2014-06-01

    Cornelia de Lange syndrome (CdLS) is the prototype for the cohesinopathy disorders that have mutations in genes associated with the cohesin subunit in all cells. Roberts syndrome is the next most common cohesinopathy. In addition to the developmental implications of cohesin biology, there is much translational and basic research, with progress towards potential treatment for these conditions. Clinically, there are many issues in CdLS faced by the individual, parents and caretakers, professionals, and schools. The following abstracts are presentations from the 5th Cornelia de Lange Syndrome Scientific and Educational Symposium on June 20-21, 2012, in conjunction with the Cornelia de Lange Syndrome Foundation National Meeting, Lincolnshire, IL. The research committee of the CdLS Foundation organizes the meeting, reviews and accepts abstracts and subsequently disseminates the information to the families. In addition to the basic science and clinical discussions, there were educationally-focused talks related to practical aspects of management at home and in school. AMA CME credits were provided by Greater Baltimore Medical Center, Baltimore, MD.

  20. Proceedings from the 5th International Symposium on Light and Human Health: November 3-5, 2002, Orlando, Florida--EPRI Lighting Research Office

    SciTech Connect

    2004-05-01

    The 5th EPRI/LRO Lighting Research Symposium (November, 2002) was organized to present and examine current research information on the subject of Light and Human Health in response to a growing sense that light--both electric lighting and daylighting--impacts human beings well beyond what has been traditionally studied as vision and visual performance. This Final Report of the Symposium is a collection of 23 presented and seven poster papers grouped under the following headings: (1) Medical Applications of Light; (2) Circadian Effects of Light; (3) Hazards of Optical Radiation; and (4) Environmental Applications and Human Factors. Research from the medical, measurement, elderly, lighting, psychological, and vision fields is included, as well as an extensive commentary and summary. The direction of the research, taken as a whole, indicates that the definition of ''good lighting'' should be expanded to include ''healthy lighting,'' and that ongoing research will require better measurement and specification tools such as a new system of circadian photometry. Enhanced interaction between the medical research and lighting design communities will be required to bring the benefits of what is being discovered into common lighting practice.

  1. Consensus for Radiotherapy in Hepatocellular Carcinoma from The 5th Asia-Pacific Primary Liver Cancer Expert Meeting (APPLE 2014): Current Practice and Future Clinical Trials

    PubMed Central

    Park, Hee Chul; Yu, Jeong Il; Cheng, Jason Chia-Hsien; Zeng, Zhao Chong; Hong, Ji Hong; Wang, Michael Lian Chek; Kim, Mi Sook; Chi, Kwan Hwa; Liang, Po-Ching; Lee, Rheun-Chuan; Lau, Wan-Yee; Han, Kwang Hyub; Chow, Pierce Kah-Hoe; Seong, Jinsil

    2016-01-01

    A consensus meeting to develop practice guidelines and to recommend future clinical trials for radiation therapy (RT), including external beam RT (EBRT), and selective internal RT (SIRT) in hepatocellular carcinoma (HCC) was held at the 5th annual meeting of the Asia-Pacific Primary Liver Cancer Expert consortium. Although there is no randomized phase III trial evidence, the efficacy and safety of RT in HCC has been shown by prospective and retrospective studies using modern RT techniques. Based on these results, the committee came to a consensus on the utility and efficacy of RT in the management of HCC according to each disease stage as follows: in early and intermediate stage HCC, if standard treatment is not compatible, RT, including EBRT and SIRT can be considered. In locally advanced stage HCC, combined EBRT with transarterial chemoembolization or hepatic arterial infusion chemotherapy, and SIRT can be considered. In terminal stage HCC, EBRT can be considered for palliation of symptoms and reduction of morbidity caused by the primary tumor or its metastases. Despite the currently reported benefits of RT in HCC, the committee agreed that there is a compelling need for large prospective studies, including randomized phase III trial evidence evaluating the role of RT. Specifically studies evaluating the efficacy and safety of sequential combination of EBRT and SIRT are strongly recommended. PMID:27493892

  2. The sequence of sequencers: The history of sequencing DNA.

    PubMed

    Heather, James M; Chain, Benjamin

    2016-01-01

    Determining the order of nucleic acid residues in biological samples is an integral component of a wide variety of research applications. Over the last fifty years large numbers of researchers have applied themselves to the production of techniques and technologies to facilitate this feat, sequencing DNA and RNA molecules. This time-scale has witnessed tremendous changes, moving from sequencing short oligonucleotides to millions of bases, from struggling towards the deduction of the coding sequence of a single gene to rapid and widely available whole genome sequencing. This article traverses those years, iterating through the different generations of sequencing technology, highlighting some of the key discoveries, researchers, and sequences along the way.

  3. SVSI: fast and powerful set-valued system identification approach to identifying rare variants in sequencing studies for ordered categorical traits.

    PubMed

    Bi, Wenjian; Kang, Guolian; Zhao, Yanlong; Cui, Yuehua; Yan, Song; Li, Yun; Cheng, Cheng; Pounds, Stanley B; Borowitz, Michael J; Relling, Mary V; Yang, Jun J; Liu, Zhifa; Pui, Ching-Hon; Hunger, Stephen P; Hartford, Christine M; Leung, Wing; Zhang, Ji-Feng

    2015-07-01

    In genetic association studies of an ordered categorical phenotype, it is usual to either regroup multiple categories of the phenotype into two categories and then apply the logistic regression (LG), or apply ordered logistic (oLG), or ordered probit (oPRB) regression, which accounts for the ordinal nature of the phenotype. However, they may lose statistical power or may not control type I error due to their model assumption and/or instable parameter estimation algorithm when the genetic variant is rare or sample size is limited. To solve this problem, we propose a set-valued (SV) system model to identify genetic variants associated with an ordinal categorical phenotype. We couple this model with a SV system identification algorithm to identify all the key system parameters. Simulations and two real data analyses show that SV and LG accurately controlled the Type I error rate even at a significance level of 10(-6) but not oLG and oPRB in some cases. LG had significantly less power than the other three methods due to disregarding of the ordinal nature of the phenotype, and SV had similar or greater power than oLG and oPRB. We argue that SV should be employed in genetic association studies for ordered categorical phenotype.

  4. Whole exome sequencing reveals the order of genetic changes during malignant transformation and metastasis in a single patient with NF1-plexiform neurofibroma

    PubMed Central

    Hirbe, Angela C.; Dahiya, Sonika; Miller, Christopher A.; Li, Tiandao; Fulton, Robert S.; Zhang, Xiaochun; McDonald, Sandra; DeSchryver, Katherine; Duncavage, Eric J.; Walrath, Jessica; Reilly, Karlyne M.; Abel, Haley J.; Pekmezci, Melike; Perry, Arie; Ley, Timothy J.; Gutmann, David H.

    2015-01-01

    Purpose Malignant peripheral nerve sheath tumors (MPNSTs) occur at increased frequency in individuals with neurofibromatosis type 1 (NF1), where they likely arise from benign plexiform neurofibroma precursors. While previous studies have employed a variety of discovery approaches to discover genes associated with MPNST pathogenesis, it is currently unclear what molecular events are associated with the evolution of MPNST from plexiform neurofibroma. Experimental Design Whole exome sequencing was performed on biopsy materials representing plexiform neurofibroma (n=3), MPNST, and metastasis from a single individual with NF1 over a 14-year period. Additional validation cases were used to assess candidate genes involved in malignant progression, while a murine MPNST model was employed for functional analysis. Results There was an increasing proportion of cells with a somatic NF1 gene mutation as the tumors progressed from benign to malignant, suggesting a clonal process in MPNST development. Copy number variations, including loss of one copy of the TP53 gene, were identified in the primary tumor and the metastatic lesion, but not in benign precursor lesions. A limited number of genes with non-synonymous somatic mutations (βIII-spectrin and ZNF208) were discovered, several of which were validated in additional primary and metastatic MPNST samples. Lastly, increased βIII-spectrin expression was observed in the majority of MPNSTs, and shRNA-mediated knockdown reduced murine MPNST growth in vivo. Conclusion Collectively, the ability to track the molecular evolution of MPNST in a single individual with NF1 offers new insights into the sequence of genetic events important for disease pathogenesis and progression for future mechanistic study. PMID:25925892

  5. Trial-by-trial updating of an internal reference in discrimination tasks: evidence from effects of stimulus order and trial sequence.

    PubMed

    Dyjas, Oliver; Bausenhart, Karin M; Ulrich, Rolf

    2012-11-01

    In psychophysics, participants are often asked to discriminate between a constant standard and a variable comparison. Previous studies have shown that discrimination performance is better when the comparison follows, rather than precedes, the standard. Prominent difference models of psychophysics and decision making cannot easily explain this order effect. However, a simple extension of this model class involving dynamical updating of an internal reference accounts for this order effect. In addition, this Internal Reference Model (IRM) predicts sequential response effects. We examined the predictions of IRM in two duration discrimination experiments. The obtained results are in agreement with the predictions of IRM, suggesting that participants update their internal reference on every trial. Additional simulations show that IRM also accounts for the negative sequential effects observed in single-stimulus paradigms.

  6. 5th Ovarian Cancer Consensus Conference of the Gynecologic Cancer InterGroup (GCIG): Clinical trial design for rare ovarian tumours.

    PubMed

    Leary, A F; Quinn, M; Fujiwara, K; Coleman, R L; Kohn, E; Sugiyama, T; Glasspool, R; Ray-Coquard, I; Colombo, N; Bacon, M; Zeimet, A; Westermann, A; Gomez-Garcia, E; Provencher, D; Welch, S; Small, W; Millan, D; Okamoto, A; Stuart, G; Ochiai, K

    2016-12-19

    This manuscript reports the consensus statements on designing clinical trials in rare ovarian tumours reached at the 5th Ovarian Cancer Consensus Conference (OCCC) held in Tokyo, November 2015. Three important questions were identified concerning rare ovarian tumours (rare epithelial ovarian cancers (eOC), sex-cord stromal tumours (SCST) and germ cell tumours (GCT)): (1) What are the research and trial issues that are unique to rare ovarian tumours? There is a lack of randomised phase III data defining standards of care which makes it difficult to define control arms, but identifies unmet needs that merit investigation. Internationally agreed upon diagnostic criteria, expert pathological review, and translational research are crucial. (2) What should be investigated in rare eOC, GCT and SCST? Trials dedicated to each rare ovarian tumour should be encouraged. Nonetheless, where the question is relevant, rare eOC can be included in eOC trials but with rigorous stratification. Although there is emerging evidence suggesting that rare eOC have different molecular profiles, trials are needed to define new type-specific standards for each rare eOC (clear cell, low grade serous and mucinous). For GCTs, a priority is reducing toxicities from treatment while maintaining cure rates. Both a robust prognostic scoring system and more effective treatments for de novo poor prognosis and relapsed GCTs are needed. For SCSTs, validated prognostic markers as well as alternatives to the current standard of bleomycin/etoposide/cisplatin (BEP) should be identified. (3) Are randomised trials feasible? Randomised controlled trials (RCT) should be feasible in any of the rare tumours through international collaboration. Ongoing trials have already demonstrated the feasibility of RCT in rare eOC and SCST. Mucinous OC may be considered for inclusion, stratified, into RCTs of non-gynaecological mucinous tumours, while RCTs in high risk or relapsed GCT may be performed as a subset of male and

  7. Phylogenetic relationships of Russian far eastern flatfish (Pleuronectiformes, Pleuronectidae) based on two mitochondrial gene sequences, Co-1 and Cyt-b, with inferences in order phylogeny using complete mitogenome data.

    PubMed

    Kartavtsev, Yuri Phedorovich; Sharina, Svetlana N; Saitoh, Kenji; Imoto, Junichi M; Hanzawa, Naoto; Redin, Alexander D

    2016-01-01

    The systematics and phylogeny of flatfish is investigated on the complete sequence of nucleotides at subunit 1 cytochrome c oxidase (Co-1) and cytochrome b (Cyt-b) genes. In total 17 species from our collection and some species from GenBank were analyzed. Four types of trees were built: Bayesian (BA), maximum likelihood (ML), maximum parsimony (MP), and neighbor joining (NJ). These trees showed similar topology. Two separate clusters on the trees support subfamily Hippoglossoidinae and Hippoglossinae subdivision and monophyletic status of these taxa. The subfamily Pleuronectinae also can be considered monophyletic, if the tribe Microstomini is excluded from it and genus Lepidopsetta is moved into the tribe Pleuronectini. Mitogenomes represented by 25 complete sequences from NCBI GenBank were analyzed. After alignment two sets of nucleotide sequences were formed and investigated independently. One set included 13 structural genes (14,886 bp), the second set comprised by the mtDNA without ND6 gene (10,457 bp). Both data sets give congruent phylogenetic signal that agreed with conventional views on the taxonomy of the order Pleuronectiformes; however, the first set gives better topology. In BA gene tree there are two well supported nodes which include the representatives of suborders Pleuronectoidei and Psettoidei. Within Pleuronectoidei two superfamilies, Pleuronectoidea and Soleidea are highly supported in BA but in all four kinds of gene trees (BA, ML, MP and NJ) the only superfamily Pleuronectoidea is well supported. At the top of hierarchy, all flatfishes belonging to the order Pleuronectiformes forming also a monophyletic clade in our data, with support level of 100% but in BA tree only. The monophyly of the family Pleuronectidae is well supported both by single gene data and by complete mtDNA sequences.

  8. A Study on Reading Comprehension Skills of Primary School 5th Grade Students--Learning Basic Reading and Writing Skills through Phonics-Based Sentence Method or Decoding Method

    ERIC Educational Resources Information Center

    Kusdemir Kayiran, Bilge; Karabay, Aysegul

    2012-01-01

    This research aims at investigating the influence of two methods implemented in primary reading and writing teaching programs--phonics-based sentence method and decoding (analysis) method--on primary school 5th grade students' reading comprehension achievement. Also, the study considers the relationship between socio-economic status and reading…

  9. How Do 4th, 5th, and 6th Grade Students' Categories of Cognitive Reflections in Interviews on Derivational Morphology Compare to Their Upper Level Spelling Inventory Orthographic Knowledge?

    ERIC Educational Resources Information Center

    Smith, Darcie D.

    2012-01-01

    Eighty-seven 4th, 5th and 6th grade students were administered the "Derivational Relatedness Interview" (DRI) (Templeton, Smith, Moloney, Van Pelt, & Ives, 2009). The purpose of this instrument is to explore students' understanding of derivational morphology. During the same week, the subjects were also administered an Upper…

  10. Mountain Dew[R] or Mountain Don't?: A Pilot Investigation of Caffeine Use Parameters and Relations to Depression and Anxiety Symptoms in 5th- and 10th-Grade Students

    ERIC Educational Resources Information Center

    Luebbe, Aaron M.; Bell, Debora J.

    2009-01-01

    Background: Caffeine, the only licit psychoactive drug available to minors, may have a harmful impact on students' health and adjustment, yet little is known about its use or effects on students, especially from a developmental perspective. Caffeine use in 5th- and 10th-grade students was examined in a cross-sectional design, and relations and…

  11. A Response to Lawrence Ferrara's Chapter Four in R. Phelps, R. Sadoff, E. Warburton, and L. Ferrara, "A Guide to Research in Music Education," 5th Edition (Lanham, Maryland, Scarecrow Press, Inc., 2005)

    ERIC Educational Resources Information Center

    Heller, Jack

    2006-01-01

    A reply to Lawrence Ferrara's Chapter 4 in R. Phelps, R. Sadoff, E. Warburton, and L. Ferrara, "A Guide to Research in Music Education," 5th Edition is presented. It it curious that Ferrara disagrees with Jack Heller and Edward J. P. O'Connor's view that "philosophy" is not "research," yet in the chapter headings in the book A Guide to Research in…

  12. Draft genome sequence of Mesotoga strain PhosAC3, a mesophilic member of the bacterial order Thermotogales, isolated from a digestor treating phosphogypsum in Tunisia.

    PubMed

    Ben Hania, Wajdi; Fadhlaoui, Khaled; Brochier-Armanet, Céline; Persillon, Cécile; Postec, Anne; Hamdi, Moktar; Dolla, Alain; Ollivier, Bernard; Fardeau, Marie-Laure; Le Mer, Jean; Erauso, Gaël

    2015-01-01

    Mesotoga strain PhosAc3 was the first mesophilic cultivated member of the order Thermotogales. This genus currently contain two described species, M. prima and M. infera. Strain PhosAc3, isolated from a Tunisian digestor treating phosphogypsum, is phylogenetically closely related to M. prima strain MesG1.Ag.4.2(T). Strain PhosAc3 has a genome of 3.1 Mb with a G+C content of 45.2%. It contains 3,051 protein-coding genes of which 74.6% have their best reciprocal BLAST hit in the genome of the type species, strain MesG1.Ag.4.2(T). For this reason we propose to assign strain PhosAc3 as a novel ecotype of the Mesotoga prima species. However, in contrast with the M. prima type strain, (i) it does not ferment sugars but uses them only in the presence of elemental sulfur as terminal electron acceptor, (ii) it produces only acetate and CO2 from sugars, whereas strain MesG1.Ag.4.2(T) produces acetate, butyrate, isobutyrate, isovalerate, 2-methyl-butyrate and (iii) sulfides are also end products of the elemental sulfur reduction in theses growth conditions.

  13. Recognizing Sequences of Sequences

    PubMed Central

    Kiebel, Stefan J.; von Kriegstein, Katharina; Daunizeau, Jean; Friston, Karl J.

    2009-01-01

    The brain's decoding of fast sensory streams is currently impossible to emulate, even approximately, with artificial agents. For example, robust speech recognition is relatively easy for humans but exceptionally difficult for artificial speech recognition systems. In this paper, we propose that recognition can be simplified with an internal model of how sensory input is generated, when formulated in a Bayesian framework. We show that a plausible candidate for an internal or generative model is a hierarchy of ‘stable heteroclinic channels’. This model describes continuous dynamics in the environment as a hierarchy of sequences, where slower sequences cause faster sequences. Under this model, online recognition corresponds to the dynamic decoding of causal sequences, giving a representation of the environment with predictive power on several timescales. We illustrate the ensuing decoding or recognition scheme using synthetic sequences of syllables, where syllables are sequences of phonemes and phonemes are sequences of sound-wave modulations. By presenting anomalous stimuli, we find that the resulting recognition dynamics disclose inference at multiple time scales and are reminiscent of neuronal dynamics seen in the real brain. PMID:19680429

  14. Overview of the 80(th) Annual Scientific Meeting of the Japanese Circulation Society - The Past, Present and Future of Cardiovascular Medicine in Japan - - The 5(th) Anniversary of the Great East Japan Earthquake.

    PubMed

    Takahashi, Jun; Satoh, Kimio; Fukuda, Koji; Sugimura, Koichiro; Matsumoto, Yasuharu; Nakano, Makoto; Tsuburaya, Ryuji; Aoki, Tatsuo; Hao, Kiyotaka; Nishimiya, Kensuke; Ito, Kenta; Sakata, Yasuhiko; Shimokawa, Hiroaki

    2016-07-25

    The 80(th)Annual Scientific Meeting of the Japanese Circulation Society was held in Sendai, Japan, on March 18-20, 2016, which coincided with the 5(th)anniversary of the Great East Japan Earthquake that hit the Tohoku area on March 11, 2011. Thus, the main themes for this meeting were "The Past, Present and Future of Cardiovascular Medicine in Japan" and "The 5(th)Anniversary of the Great East Japan Earthquake". Despite the provincial location, approximately 15,000 people attended during the 3-day meeting, and there were in-depth discussions in each of the various sessions on these themes. Especially, to our great pleasure, the Japanese Royals, Emperor Akihito and Empress Michiko, kindly visited the panel exhibition of the Great East Japan Earthquake and spoke words of appreciation to us. The meeting successfully completed and we sincerely appreciate the great cooperation and support from all affiliates. (Circ J 2016; 80: 1689-1694).

  15. Schur monotone decreasing sequences

    NASA Astrophysics Data System (ADS)

    Ganikhodjaev, Rasul; Saburov, Mansoor; Saburov, Khikmat

    2013-09-01

    In this paper, we introduce Schur monotone decreasing sequences in an n-dimensional space by considering a majorization pre-order. By means of down arrow mappings, we study omega limiting points of bounded Schur monotone decreasing sequences. We provide convergence criteria for such kinds of sequences. We prove that a Cesaro mean (or an arithmetic mean) of any bounded Schur monotone decreasing sequences converges to a unique limiting point.

  16. Blast Mitigation Sea Analysis - Evaluation of Lumbar Compression Data Trends in 5th Percentile Female Anthropomorphic Test Device Performance Compared to 50th Percentile Male Anthropomorphic Test Device in Drop Tower Testing

    DTIC Science & Technology

    2016-08-21

    energy absorption properties and EA mechanisms to ensure all Soldiers, regardless of size and weight, are provided with equivalent protection...350 g for peak lumbar compression based on occupant size • All tests at 350 g had lumbar compression below the IARV threshold • Lumbar traces show...similar between the 5th female and 50th male ATD across almost all seat models • Seat C features initial loading rates for both occupant sizes that are

  17. The sequence of sequencers: The history of sequencing DNA

    PubMed Central

    Heather, James M.; Chain, Benjamin

    2016-01-01

    Determining the order of nucleic acid residues in biological samples is an integral component of a wide variety of research applications. Over the last fifty years large numbers of researchers have applied themselves to the production of techniques and technologies to facilitate this feat, sequencing DNA and RNA molecules. This time-scale has witnessed tremendous changes, moving from sequencing short oligonucleotides to millions of bases, from struggling towards the deduction of the coding sequence of a single gene to rapid and widely available whole genome sequencing. This article traverses those years, iterating through the different generations of sequencing technology, highlighting some of the key discoveries, researchers, and sequences along the way. PMID:26554401

  18. PREFACE: MEM07: The 5th Annual Workshop on Mechanical and Electromagnetic Properties of Composite Superconductors (Princeton, NJ, USA, 21 24 August 2007)

    NASA Astrophysics Data System (ADS)

    Larbalestier, D. C.; Osamura, K.; Hampshire, D. P.

    2008-05-01

    MEM07 was the 5th international workshop concentrating on the mechanical and electrical properties of composite superconductors, which are the technological conductor forms from which practical superconducting devices are made. Such superconducting conductors respond to important challenges we currently face, especially those concerned with the proper management of the world's energy resources. Superconductivity provides a means to address the challenges in the generation, transmission and distribution, and use of energy. For energy generation, the ITER Fusion Tokomak (now underway in France) provides exciting new challenges for the whole superconductivity community, due to the enormous size and strong fields of the plasma confinement superconducting magnets that will form the largest and most powerful superconducting machine yet built. Significant attention was paid at MEM07 to the modeling, characterization, testing and validation of the high-amperage Nb3Sn cable-in-conduit conductors needed for ITER. As for electric energy industry uses, there was much discussion of both first generation (Bi,Pb)2Sr2Ca2Cu3Ox conductors and the rapidly emerging second generation coated conductors made from YBa2Cu37-x. High-performing, affordable conductors of these materials are vital for large capacity transmission cables, energy storage systems, fault current limiters, generators and motors—many prototypes of which are being pursued in technologically advanced countries. There is a broad consensus that the prototype stage for high-current-high-field superconducting applications is nearing its end and that large scale applications are technologically feasible. However full industrialization of large-scale superconducting technologies in electric utility applications will benefit from continuous improvement in critical current, lower ac loss, higher strength and other vital conductor properties. The establishment of optimal procedures for the system design accompanying scale

  19. Genome Sequencing.

    PubMed

    Verma, Mansi; Kulshrestha, Samarth; Puri, Ayush

    2017-01-01

    Genome sequencing is an important step toward correlating genotypes with phenotypic characters. Sequencing technologies are important in many fields in the life sciences, including functional genomics, transcriptomics, oncology, evolutionary biology, forensic sciences, and many more. The era of sequencing has been divided into three generations. First generation sequencing involved sequencing by synthesis (Sanger sequencing) and sequencing by cleavage (Maxam-Gilbert sequencing). Sanger sequencing led to the completion of various genome sequences (including human) and provided the foundation for development of other sequencing technologies. Since then, various techniques have been developed which can overcome some of the limitations of Sanger sequencing. These techniques are collectively known as "Next-generation sequencing" (NGS), and are further classified into second and third generation technologies. Although NGS methods have many advantages in terms of speed, cost, and parallelism, the accuracy and read length of Sanger sequencing is still superior and has confined the use of NGS mainly to resequencing genomes. Consequently, there is a continuing need to develop improved real time sequencing techniques. This chapter reviews some of the options currently available and provides a generic workflow for sequencing a genome.

  20. Order Up

    ERIC Educational Resources Information Center

    Gibeault, Michael

    2005-01-01

    Change orders. The words can turn the stomachs of administrators. Horror stories about change orders create fear and distrust among school officials, designers and builders. Can change orders be avoided? If car manufacturers can produce millions of intricately designed vehicles, why can't the same quality control be achieved on a construction…

  1. ­Dynamic interactions between the October 28th 2012 Haida Gwaii and January 5th 2013 Craig earthquakes and other faults in Southeast Alaska

    NASA Astrophysics Data System (ADS)

    Walter, J. I.; Kao, H.; Meng, X.; Peng, Z.; Hobbs, T. E.; Dotray, P.; Newman, A. V.; Mulder, T.

    2015-12-01

    The Mw 7.8 (28 October 2012) Haida Gwaii earthquake and the Mw 7.5 (5 January 2013) Craig, Alaska earthquake occurred just 400 km and 68 days apart from each other. The short duration and distance between the events poses the question of whether these two events are related. We combine existing seismic data from permanent networks in Alaska and Canada, including temporary aftershock deployments (both on land and ocean-bottom sensors) installed in the Haida Gwaii islands, to search for precursory activity prior to each of the events. In order to improve the catalog completeness, we utilize a matched-filter technique to identify potential missing earthquakes before and after each mainshock. This technique utilizes existing cataloged waveforms as templates to identify repeating or nearby earthquakes with high cross-correlations. We examine the seismic activity prior to and following each event and determine whether any dynamic or delayed triggering of earthquakes or tremor occurs regionally due to these earthquakes. We find small earthquakes on the Fairweather Fault, near Glacier Bay, directly triggered in the minutes after the Haida Gwaii event. In addition, preliminary evidence suggests the Haida Gwaii earthquake triggered some seismicity in the rupture region of the Craig earthquake over the ~2 month period of time between the mainshocks. We plan to assess whether the later-occurring Craig earthquake triggered any increase in aftershock activity within the Haida Gwaii rupture region. The static and dynamic transmission of stresses from large earthquakes has important implications for transient fault zone loading in areas adjacent to those initial rupture zones. This study should shed some light on large earthquake interactions at various distance scales and future seismic risks across Alaska and western Canada.

  2. Sequences, cycles, and basin dynamics in the Silurian of the Appalachian Foreland Basin

    NASA Astrophysics Data System (ADS)

    Brett, Carlton E.; Goodman, William M.; LoDuca, Steven T.

    1990-12-01

    , roughly upward deepening (to slightly shallowing) successions of strata. In turn, sub-sequences are further divisible into widespread minor parasequences and parasequence sets, probably corresponding to 6th- and 5th-order cycles, respectively. The smaller scale units (0.2-5 mthick) commonly display an upward shallowing motif. The nested relationship of these cycles supports the hierarchical model of transgressive-regressive allocycles proposed by Busch and Rollins (1984). Niagaran cycles discussed herein are equivalent to third-, fourth- and fifth-order cycles and are traceable circumbasinally. Depocenters of successive sequences and sub-sequences display a pattern of eastward-westward-eastward basin-axis migration through the Silurian. During early Llandoverian, the Taconic (Queenston) deltaic complex began to subside, and the basin axis, depocenter, and eastern shoreline shifted eastward approximately 200 km over a 6 million year period. As the basin axis migrated eastward, the western basin ramp (forebulge) was repeatedly upwarded and eroded, resulting in the generation of regionally angular unconformities at the bases of sequences II, IV and VI. The pattern of unconformity (greatest to the west) suggests rise of the Algonquin Arch concomitant with eastward basin-axis migration. During the late Llandoverian to early Wenlockian, the Algonquin Arch subsided slightly, concurrently with a reversal in direction of basin-axis migration. During deposition of upper Clinton and Lockport-Vernon strata (sequences V, VI), the basin axis shifted approximately 300 km back to the west. Eastward migration of the basin axis corresponds with a time of tectonic quiescence and probable thrust-load relaxation. The abrupt reversal of migration in the late Llandoverian may be a signal of renewed thrusting in the hinterland at the onset of the Salinic Disturbance.

  3. The effect of differentiated curriculum enhancements on the achievement of at-risk and normally achieving students in 5th grade science

    NASA Astrophysics Data System (ADS)

    Simpkins, Pamela Mccrea

    2007-12-01

    At-risk students show consistent patterns of under achievement and social maladjustment in school which leads to their demise in high school (McMillian & Reed, 1994). Similarly, special education students are at increased risk of not completing high school and do not perform as well on national achievement tests than their nondisabled peers (Land & Legters, 2002). It is possible that students at-risk for academic failure will not meet graduation requirements unless interventions are put in place to alleviate this problem. It has been documented that science textbooks contain difficult vocabulary and high reading levels that are challenging for struggling students. Using approaches such as activities oriented instruction, which supports the cooperative learning/peer tutoring model is one approach that has been successful with normally achieving and special education students. This research examined the effect of differentiated curriculum enhancements with peer tutoring on the achievement of at-risk and normally achieving students in science. A crossover design was implemented in three fifth grade inclusive classes, consisting of typically achieving students, students at-risk, and students with learning disabilities. The participants included 16 at-risk students, three special education students and 44 normally achieving students. The science review activities were implemented during two consecutive science units. One unit covered Earth and Space science. The other unit covered Light and Sound. Each curriculum enhancement had identification and production level activities. The identification level provided prompts; the production level did not provide prompts. Pretest and posttest were administered. Overall findings of the study revealed a significant interaction between experimental condition and treatment order, suggesting an advantage for students using differentiated curriculum enhancements. Main effects analysis suggested that students performed better on one

  4. EDITORIAL: Artificial Muscles: Selected papers from the 5th World Congress on Biomimetics, Artificial Muscles and Nano-Bio (Osaka, Japan, 25-27 November 2009) Artificial Muscles: Selected papers from the 5th World Congress on Biomimetics, Artificial Muscles and Nano-Bio (Osaka, Japan, 25-27 November 2009)

    NASA Astrophysics Data System (ADS)

    Shahinpoor, Mohsen

    2011-12-01

    The 5th World Congress on Biomimetics, Artificial Muscles and Nano-Bio and the 4th International Conference on Artificial Muscles were held in Osaka, Japan, 23-27 November 2009. This special section of Smart Materials and Structures is devoted to a selected number of research papers presented at this international conference and congress. Of the 76 or so papers presented at the conference, only 10 papers were finally selected, reviewed and accepted for this special section, following the regular reviewing procedures of the journal. This special section is focused on polymeric artificial muscles, electroactive polymers, multifunctional nanocomposites and their applications. In particular, an electromechanical model for self-sensing ionic polymer-metal composite actuating devices with patterned surface electrodes is presented which discusses the concept of creating self-sensing ionic polymer-metal composite (IPMC) actuating devices with patterned surface electrodes where actuator and sensor elements are separated by a grounded shielding electrode. Eventually, an electromechanical model of the device is also proposed and validated. Following that, there is broad coverage of polytetrahydrofurane-polyethylene oxide-PEDOT conducting interpenetrating polymer networks (IPNs) for high speed actuators. The conducting polymer (poly(3,4-ethylenedioxythiophene)) is incorporated within the IPNs, which are synthesized from polyethylene oxide (PEO)/polytetrahydrofurane (PTHF) networks. PEO/PTHF IPNs are prepared using poly(ethylene glycol) methacrylate and dimethacrylate and hydroxythelechelic PTHF as starting materials. The conducting IPN actuators are prepared by oxidative polymerization of 3,4-ethylenedioxithiophene (EDOT) using FeCl3 as an oxidizing agent within the PEO/PTHF IPN host matrix. Subsequently, giant and reversible magnetorheology of carrageenan/iron oxide magnetic gels are discussed and the effect of magnetic fields on the viscoelastic properties

  5. A 4. 5-megabase yeast artificial chromosome contig from human chromosome 13q14. 3 ordering 9 polymorphic microsatellites (22 sequence-tagged sites) tightly linked to the Wilson disease locus

    SciTech Connect

    White, A.; Tomfohrde, J.; Barnes, R. ); Stewart, E.; Cavalli-Sforza, L. ); Le Paslier, D. ); Weissenbach, J. ); Farrer, L. ); Bowcock, A. Eugene McDermott Center of Human Growth and Development, Dallas, TX )

    1993-11-15

    The authors have previously performed a genetic analysis of multiply affected families to map a locus responsible for Wilson disease (WND) to a 0.3-centimorgan (cM) region within chromosome 13q14.3, between D12S31 and D13S59. Here they describe the construction of a contig of [approx]4.5 Mb, which spans this region and extends from D13S25 to D13S59. This contig consists of 28 genomic yeast artificial chromosome (YAC) clones. Five critical crossover events have been defined in this interval in two unaffected (Centre d'Etudes du Polymorphisme Humain) and three WND families. The combination of sequence tagged site content mapping of YACs with both polymorphic and nonpolymorphic markers and recombination breakpoint mapping resulted in the following order of polymorphic markers: centromere-RB1-D13S25-AFM205vh2-D13S31-D13S227-D13S228-AFM238vc3-D13S133-AFM084xc5-D13S137-D13S169, D13S155-D13S59-telomere. The recombination/physical distance ratio varies from [approx] 3000 kb per cM in the region between D13S31 and D13S25 to 6000 kb per cM in the region between D13S31 and D13S59. Three WND families exhibiting recombination between the disease locus and D13S31 or D13S59 were genotyped for additional markers in this region and further refined the location of the WND gene to between D13S155 and D13S133. Nine of the markers in this region of <1 cM are polymorphic microsatellites (seven have observed heterozygosities of 70% or above) that will be extremely useful in prenatal and preclinical diagnosis of this disease. This physical map is an essential step in the isolation of the WND gene and is a framework for the identification of candidate genes.

  6. International Workshop on Microplasmas (5th)

    DTIC Science & Technology

    2010-04-14

    Biofilm Inactivation?” 10:05 – 10:35 Coffee Break 10:35 – 11:05 Alena Hinze Technical University Braunschweig, Germany “Microplasma-Based...FOR CANCER AND OTHER MICROPLASMAS: MODELINGS AND EXPERIMENTS Jae Koo Lee, Pohang University of Science and Technology San 31, Hyoja, Pohang...Gyoo Cheon Kim, Department of Oral Anatomy, Pusan National University In our difficult war against cancer for the past few decades, we have emerged

  7. Regression Analysis by Example. 5th Edition

    ERIC Educational Resources Information Center

    Chatterjee, Samprit; Hadi, Ali S.

    2012-01-01

    Regression analysis is a conceptually simple method for investigating relationships among variables. Carrying out a successful application of regression analysis, however, requires a balance of theoretical results, empirical rules, and subjective judgment. "Regression Analysis by Example, Fifth Edition" has been expanded and thoroughly…

  8. Elementary Science Guide -- 5th Grade.

    ERIC Educational Resources Information Center

    Wieland, Anne; And Others

    Presented is a resource book to be used with instructional kits for elementary school science students, grade 5. The individual units at this grade level are based on curriculum which has been developed by the National Science Foundation in the 1960s and revised to meet student and teacher identified needs in Anchorage, Alaska. Six units are…

  9. 5TH BIOTECHNOLOGICAL INVESTIGATIONS OCEAN MARGINS PROGRAM

    SciTech Connect

    DR. ARTURO MASSOL, PROGRAM CHAIR; DR. ROSA BUXEDA, PROGRAM CO-CHAIR

    2004-01-08

    BI-OMP supports DOE's mission in Climate Change Research. The program provides the fundamental understanding of the linkages between carbon and nitrogen cycles in ocean margins. Researchers are providing a mechanistic understanding of these cycles, using the tools of modern molecular biology. The models that will allow policy makers to determine safe levels of greenhouse gases for the Earth System.

  10. Peace Corps 5th Annual Report.

    ERIC Educational Resources Information Center

    Peace Corps, Washington, DC.

    Projects, operations, and future plans are covered in this annual report for the fifth year of the Peace Corps. An introduction overviews past and future activities of the Peace Corps and its volunteers. Section 2 reviews the year 1966 and covers these topics: the new director, Jack Vaughn; countries in which new programs were begun; the…

  11. Designing Effective Instruction. 5th Edition

    ERIC Educational Resources Information Center

    Morrison, Gary R.; Ross, Steven M.; Kemp, Jerrold E.

    2006-01-01

    This valuable resource provides instructional designers with the guidance they need to meet the challenge of creating effective and efficient instruction. Maintaining a careful balance between theory and application, the Fifth Edition presents a practical, easy-to-follow approach to instructional design that can be applied to K-12 classrooms,…

  12. Measurement in Physical Education. 5th Edition.

    ERIC Educational Resources Information Center

    Mathews, Donald K.

    Concepts of measurement in physical education are presented in this college-level text to enable the preservice physical education major to develop skills in determining pupil status, designing effective physical activity programs, and measuring student progress. Emphasis is placed upon discussion of essential statistical methods, test…

  13. 5th Annual Earth System Grid Federation

    SciTech Connect

    Williams, Dean N.

    2016-04-01

    The purpose of the Fifth Annual Earth System Grid Federation (ESGF) Face-to-Face (F2F) Conference was to present the most recent information on the state of ESGF’s software stack and to identify and address the data needs and gaps for the climate and weather communities that ESGF supports.

  14. A vision for ubiquitous sequencing.

    PubMed

    Erlich, Yaniv

    2015-10-01

    Genomics has recently celebrated reaching the $1000 genome milestone, making affordable DNA sequencing a reality. With this goal successfully completed, the next goal of the sequencing revolution can be sequencing sensors--miniaturized sequencing devices that are manufactured for real-time applications and deployed in large quantities at low costs. The first part of this manuscript envisions applications that will benefit from moving the sequencers to the samples in a range of domains. In the second part, the manuscript outlines the critical barriers that need to be addressed in order to reach the goal of ubiquitous sequencing sensors.

  15. A vision for ubiquitous sequencing

    PubMed Central

    Erlich, Yaniv

    2015-01-01

    Genomics has recently celebrated reaching the $1000 genome milestone, making affordable DNA sequencing a reality. With this goal successfully completed, the next goal of the sequencing revolution can be sequencing sensors—miniaturized sequencing devices that are manufactured for real-time applications and deployed in large quantities at low costs. The first part of this manuscript envisions applications that will benefit from moving the sequencers to the samples in a range of domains. In the second part, the manuscript outlines the critical barriers that need to be addressed in order to reach the goal of ubiquitous sequencing sensors. PMID:26430149

  16. Sequencing technologies and genome sequencing.

    PubMed

    Pareek, Chandra Shekhar; Smoczynski, Rafal; Tretyn, Andrzej

    2011-11-01

    The high-throughput - next generation sequencing (HT-NGS) technologies are currently the hottest topic in the field of human and animals genomics researches, which can produce over 100 times more data compared to the most sophisticated capillary sequencers based on the Sanger method. With the ongoing developments of high throughput sequencing machines and advancement of modern bioinformatics tools at unprecedented pace, the target goal of sequencing individual genomes of living organism at a cost of $1,000 each is seemed to be realistically feasible in the near future. In the relatively short time frame since 2005, the HT-NGS technologies are revolutionizing the human and animal genome researches by analysis of chromatin immunoprecipitation coupled to DNA microarray (ChIP-chip) or sequencing (ChIP-seq), RNA sequencing (RNA-seq), whole genome genotyping, genome wide structural variation, de novo assembling and re-assembling of genome, mutation detection and carrier screening, detection of inherited disorders and complex human diseases, DNA library preparation, paired ends and genomic captures, sequencing of mitochondrial genome and personal genomics. In this review, we addressed the important features of HT-NGS like, first generation DNA sequencers, birth of HT-NGS, second generation HT-NGS platforms, third generation HT-NGS platforms: including single molecule Heliscope™, SMRT™ and RNAP sequencers, Nanopore, Archon Genomics X PRIZE foundation, comparison of second and third HT-NGS platforms, applications, advances and future perspectives of sequencing technologies on human and animal genome research.

  17. Counterbalancing for Serial Order Carryover Effects in Experimental Condition Orders

    ERIC Educational Resources Information Center

    Brooks, Joseph L.

    2012-01-01

    Reactions of neural, psychological, and social systems are rarely, if ever, independent of previous inputs and states. The potential for serial order carryover effects from one condition to the next in a sequence of experimental trials makes counterbalancing of condition order an essential part of experimental design. Here, a method is proposed…

  18. Translational research in oncology research & development and its impact on early development in China: report of the 5th Annual Meeting of the US Chinese Anti-Cancer Association (USCACA) at 2013 AACR Annual Meeting.

    PubMed

    Guan, Lingjie; Dai, Yun; Luo, Roger

    2013-07-01

    In April 2013, the US Chinese Anti-Cancer Association (USCACA) held its 5th annual meeting in conjunction with the American Association for Cancer Research (AACR) 2013 Annual Meeting in Washington DC. The USCACA executive committee reported activities and programs and highlighted the partnership and collaboration between USCACA and other major organizations. The key initiatives and programs of USCACA included 1) USCACA-TIGM Esophageal Cancer Program that funds translational research of esophageal cancer prevention and treatment at the Xinxiang Medical University in Henan province, China; 2) the USCACA-NFCR-AFCR Scholarship Program, which has supported 10 young outstanding Chinese cancer researchers and will award 4 fellowships at the Guangzhou International Symposium on Oncology in November this year; 3) USCACA-Hengrui Training Program for Early Phase Clinical Research, which has supported the training of a Chinese scholar at two major cancer centers in the US; and 4) USCACA has continued its partnership with the Chinese Journal of Cancer, which has reached significant international impact.

  19. Analysis of archaeological triacylglycerols by high resolution nanoESI, FT-ICR MS and IRMPD MS/MS: Application to 5th century BC-4th century AD oil lamps from Olbia (Ukraine)

    NASA Astrophysics Data System (ADS)

    Garnier, Nicolas; Rolando, Christian; Høtje, Jakob Munk; Tokarski, Caroline

    2009-07-01

    This work presents the precise identification of triacylglycerols (TAGs) extracted from archaeological samples using a methodology based on nanoelectrospray and Fourier transform mass spectrometry. The archaeological TAG identification needs adapted sample preparation protocols to trace samples in advanced degradation state. More precisely, the proposed preparation procedure includes extraction of the lipid components from finely grinded ceramic using dichloromethane/methanol mixture with additional ultrasonication treatment, and TAG purification by solid phase extraction on a diol cartridge. Focusing on the analytical approach, the implementation of "in-house" species-dependent TAG database was investigated using MS and InfraRed Multiphoton Dissociation (IRMPD) MS/MS spectra; several vegetal oils, dairy products and animal fats were studied. The high mass accuracy of the Fourier transform analyzer ([Delta]m below 2.5 ppm) provides easier data interpretation, and allows distinction between products of different origins. In details, the IRMPD spectra of the lithiated TAGs reveal fragmentation reactions including loss of free neutral fatty acid and loss of fatty acid as [alpha],[beta]-unsaturated moieties. Based on the developed preparation procedure and on the constituted database, TAG extracts from 5th century BC to 4th century AD Olbia lamps were analyzed. The structural information obtained succeeds in identifying that bovine/ovine fats were used as fuel used in these archaeological Olbia lamps.

  20. Dna Sequencing

    DOEpatents

    Tabor, Stanley; Richardson, Charles C.

    1995-04-25

    A method for sequencing a strand of DNA, including the steps off: providing the strand of DNA; annealing the strand with a primer able to hybridize to the strand to give an annealed mixture; incubating the mixture with four deoxyribonucleoside triphosphates, a DNA polymerase, and at least three deoxyribonucleoside triphosphates in different amounts, under conditions in favoring primer extension to form nucleic acid fragments complementory to the DNA to be sequenced; labelling the nucleic and fragments; separating them and determining the position of the deoxyribonucleoside triphosphates by differences in the intensity of the labels, thereby to determine the DNA sequence.

  1. Contribution of cathodoluminescence to the knowledge of manganese speciation into pelagic limestones. Determination of the control of sea-level variations on third-order sequences during the Upper JurassicApport de la cathodoluminescence à la connaissance de la spéciation du manganèse dans les carbonates pélagiques

    NASA Astrophysics Data System (ADS)

    de Rafélis, Marc; Renard, Maurice; Emmanuel, Laurent; Durlet, Christophe

    2000-03-01

    Mn contents analysis of pelagic carbonates from the Upper Jurassic of the Vocontian trough (Châteauneuf-d'Oze section, Hautes-Alpes) allowed the definition of six third-order eustatic sequences that agree with the chronostratigraphic chart [17]. Cathodoluminescence intensity enables a semi-quantitative approach of Mn trapped in the calcite lattice; thus, CL-results show that most of Mn is found in the pelagic limestones as Mn 2+. The Mn content variations observed in the low stands (low Mn contents) and in the high-stand systems tract samples (high Mn contents) reflect the sea water Mn content variations, which appear to be linked to the hydrothermal activity, especially by the ocean ridge. In the Vocontian realm, third-order sequences of the Upper Jurassic seem to be controlled by tectono-eustatism.

  2. High-resolution sequence stratigraphic framework of carbonate deposition controlled by sea level and geostrophic bottom currents, south Florida platform margin

    SciTech Connect

    Locker, S.D.; Hine, A.C. ); Shinn, E.A. )

    1992-01-01

    High-resolution seismic reflection profiles seaward of the Marquesas Keys reveal at least eight late Quaternary sequences which downlap onto the Miocene ( ) age Pourtales Terrace at 250 m water depth. Inferred correlations are presented between these sequences and the last 7--8 sea-level cycles during the past 150 ky. The setting is unusual in that the present reef-rimmed, shallow inner shelf supplies minimal sediment to the adjacent margin where over 30 m of Holocene sediment has accumulated on portions of the outer shelf and slope. Seaward of the inner-shelf reef'' barrier, an outer-shelf terrace in 50--60 m water depth forms the upper boundary of the prograding late Quaternary sequences. These sequences exhibit both current-controlled internal geometries (e.g., sediment drifts) and sea-level controlled features such as lowstand slope erosion, transgressive unconformities, and paleoshorelines or reefs formed during lower stands of sea level. Bottom currents also severely eroded the slope at times, creating prominent unconformities. These 5th-6th order depositional sequences exhibit many features outlined by the Exxon sequence stratigraphy models. Systems tracts inferred from seismic records include lowstand wedge, shelf margin, and highstand deposits. Transgressive systems tracts are more difficult to identify and correspond to the flat outer-shelf terrace that experienced rapid lateral transgressions and regressions of sea level, and was exposed to subaerial processes during low stands. This study provides new insight on the importance of both geostrophic boundary currents and sea-level change in controlling stratigraphic development of a carbonate platform margin. Locally-thick accumulations off the Marquesas Keys may demonstrate sedimentation in response to a persistent cold cyclonic gyre in this area which causes weak counter-currents in an otherwise strong geostrophic current area.

  3. Prehistoric "fish-eaters" along the eastern Arabian coasts: dental variation, morphology, and oral health in the Ra's al-Hamra community (Qurum, sultanate of Oman, 5th-4th millennia BC).

    PubMed

    Macchiarelli, R

    1989-04-01

    The Ra's al-Hamra prehistoric fishermen lived in isolation on the Qurum rocky promontorium in Oman during the 5th-4th millennia BC. To date, they represent the most ancient and numerous human fossil group excavated from the Arabian peninsula. Like other contemporaneous archaeologically documented small communities along the desert Arabian coasts, they intensively exploited ocean resources and collected molluscs from nearby mangrove swamps. The present study analyzes aspects of dental anthropology (including crown variation, morphology, dental wear, and oral health), in 600 permanent teeth from 49 individuals of both sexes excavated at the Mesolithic RH5-site by the Italian Archaeological Mission in Oman from 1981 to 1985. In association with a general low degree of morphometric variation, the Ra's al-Hamra dental crowns show low sexual dimorphism and are consistently reduced in size. These features are unexpected in a preagricultural population, especially when these data are compared to other eastern African and near Middle Eastern prehistoric populations. These data are discussed within the general context of human dental structural reduction occurring during the post-Pleistocene and are interpreted according to the "increasing population density effect" model. There are other significant differences that characterize the Ra's al-Hamra dentitions with respect to both eastern and western prehistoric human groups. The frequency of numerous nonmetric crown traits supports the hypothesis that a microdifferentiation phenomenon occurred in this marginal area. The preliminary skeletal analysis and the palaeodemographic profile show that the Omani prehistoric fishermen were affected by genetic isolation and inbreeding as well as strong environmental stress. Because of the grit assimilated with dried fish and the high shellfish consumption, dental wear was extreme in all age groups at Ra's al-Hamra and occasionally was responsible for serious hematogenously spread

  4. The effect of anatomical modeling on space radiation dose estimates: a comparison of doses for NASA phantoms and the 5th, 50th, and 95th percentile male and female astronauts

    NASA Astrophysics Data System (ADS)

    Bahadori, Amir A.; Van Baalen, Mary; Shavers, Mark R.; Dodge, Charles; Semones, Edward J.; Bolch, Wesley E.

    2011-03-01

    The National Aeronautics and Space Administration (NASA) performs organ dosimetry and risk assessment for astronauts using model-normalized measurements of the radiation fields encountered in space. To determine the radiation fields in an organ or tissue of interest, particle transport calculations are performed using self-shielding distributions generated with the computer program CAMERA to represent the human body. CAMERA mathematically traces linear rays (or path lengths) through the computerized anatomical man (CAM) phantom, a computational stylized model developed in the early 1970s with organ and body profiles modeled using solid shapes and scaled to represent the body morphometry of the 1950 50th percentile (PCTL) Air Force male. With the increasing use of voxel phantoms in medical and health physics, a conversion from a mathematical-based to a voxel-based ray-tracing algorithm is warranted. In this study, the voxel-based ray tracer (VoBRaT) is introduced to ray trace voxel phantoms using a modified version of the algorithm first proposed by Siddon (1985 Med. Phys. 12 252-5). After validation, VoBRAT is used to evaluate variations in body self-shielding distributions for NASA phantoms and six University of Florida (UF) hybrid phantoms, scaled to represent the 5th, 50th, and 95th PCTL male and female astronaut body morphometries, which have changed considerably since the inception of CAM. These body self-shielding distributions are used to generate organ dose equivalents and effective doses for five commonly evaluated space radiation environments. It is found that dosimetric differences among the phantoms are greatest for soft radiation spectra and light vehicular shielding.

  5. The effect of anatomical modeling on space radiation dose estimates: a comparison of doses for NASA phantoms and the 5th, 50th, and 95th percentile male and female astronauts.

    PubMed

    Bahadori, Amir A; Van Baalen, Mary; Shavers, Mark R; Dodge, Charles; Semones, Edward J; Bolch, Wesley E

    2011-03-21

    The National Aeronautics and Space Administration (NASA) performs organ dosimetry and risk assessment for astronauts using model-normalized measurements of the radiation fields encountered in space. To determine the radiation fields in an organ or tissue of interest, particle transport calculations are performed using self-shielding distributions generated with the computer program CAMERA to represent the human body. CAMERA mathematically traces linear rays (or path lengths) through the computerized anatomical man (CAM) phantom, a computational stylized model developed in the early 1970s with organ and body profiles modeled using solid shapes and scaled to represent the body morphometry of the 1950 50th percentile (PCTL) Air Force male. With the increasing use of voxel phantoms in medical and health physics, a conversion from a mathematical-based to a voxel-based ray-tracing algorithm is warranted. In this study, the voxel-based ray tracer (VoBRaT) is introduced to ray trace voxel phantoms using a modified version of the algorithm first proposed by Siddon (1985 Med. Phys. 12 252-5). After validation, VoBRAT is used to evaluate variations in body self-shielding distributions for NASA phantoms and six University of Florida (UF) hybrid phantoms, scaled to represent the 5th, 50th, and 95th PCTL male and female astronaut body morphometries, which have changed considerably since the inception of CAM. These body self-shielding distributions are used to generate organ dose equivalents and effective doses for five commonly evaluated space radiation environments. It is found that dosimetric differences among the phantoms are greatest for soft radiation spectra and light vehicular shielding.

  6. Comparative Evaluation of Microshear Bond Strength of 5th, 6th and 7th Generation Bonding Agents to Coronal Dentin Versus Dentin at Floor of Pulp Chamber: An In vitro Study

    PubMed Central

    Deepa, Velagala Lakshmi; Damaraju, Bhargavi; Priyadharsini, Bollu Indira; Subbarao, Vummidisetti V; Raju, K Rama Krishna

    2014-01-01

    Background: Lack of seal and adhesion between the final restoration and tooth structure adversely affects the results of root canal treatment. Lots of adhesive bonding agents are marketed to overcome this deficiency and achieve successful restoration. So the study compares and evaluates the micro shear bond strength of coronal dentin and pulp chamber dentin using three different generation dentin bonding systems and to know clinical efficiency for clinical use. Materials and Methods: Different generation dentin bonding systems used were: (1) One bottle total etch system (XP Bond-5th generation), (2) Two-step self-etch system (Clearfil SE Bond-6th generation) and (3) All-in-one system (G Bond-7th generation). Thirty human mandibular molars were collected out of which sixty samples were prepared by sectioning each tooth into coronal dentin and pulpal floor dentin. They were divided into two major groups. Group I: 30 Coronal dentin samples. Group II:30 Pulpal floor dentin samples. Both the groups were further subdivided depending on the bonding agent used. Subgroup Ia:XP Bond, Subgroup Ib:Clearfil SE Bond, Subgroup Ic:G Bond, Subgroup IIa:XP Bond, Subgroup IIb:Clearfil SE Bond, Subgroup IIc:G Bond. Resin composite was bonded to these samples and tested for micro-shear bond strength. The mean bond strengths and standard deviations were calculated and analyzed using one-way ANOVA test and Student’s t-test (unpaired) and honestly significant difference post-hoc tests. Results: Coronal dentin showed higher values of micro shear bond strength than the pulpal floor dentin. All-in-one system (G Bond) showed least bond strength values to both the regions coronal dentin and pulpal floor dentin. Conclusion: Factors affecting the shear bond strength are dependent on material (adhesive system), substrate depth and adhesive/depth interaction. Hence composition and substrate treatment should be considered for good adhesive. Chemical composition of adhesive system determines

  7. Single-order laser high harmonics in XUV for ultrafast photoelectron spectroscopy of molecular wavepacket dynamics

    PubMed Central

    Fushitani, Mizuho; Hishikawa, Akiyoshi

    2016-01-01

    We present applications of extreme ultraviolet (XUV) single-order laser harmonics to gas-phase ultrafast photoelectron spectroscopy. Ultrashort XUV pulses at 80 nm are obtained as the 5th order harmonics of the fundamental laser at 400 nm by using Xe or Kr as the nonlinear medium and separated from other harmonic orders by using an indium foil. The single-order laser harmonics is applied for real-time probing of vibrational wavepacket dynamics of I2 molecules in the bound and dissociating low-lying electronic states and electronic-vibrational wavepacket dynamics of highly excited Rydberg N2 molecules. PMID:27795976

  8. Serial Order: A Parallel Distributed Processing Approach.

    ERIC Educational Resources Information Center

    Jordan, Michael I.

    Human behavior shows a variety of serially ordered action sequences. This paper presents a theory of serial order which describes how sequences of actions might be learned and performed. In this theory, parallel interactions across time (coarticulation) and parallel interactions across space (dual-task interference) are viewed as two aspects of a…

  9. An Assignment Sequence for Underprepared Writers.

    ERIC Educational Resources Information Center

    Nimmo, Kristi

    2000-01-01

    Presents a sequenced writing assignment on shopping to aid basic writers. Describes a writing assignment focused around online and mail-order shopping. Notes steps in preparing for the assignment, the sequence, and discusses responses to the assignments. (SC)

  10. Automated Identification of Nucleotide Sequences

    NASA Technical Reports Server (NTRS)

    Osman, Shariff; Venkateswaran, Kasthuri; Fox, George; Zhu, Dian-Hui

    2007-01-01

    STITCH is a computer program that processes raw nucleotide-sequence data to automatically remove unwanted vector information, perform reverse-complement comparison, stitch shorter sequences together to make longer ones to which the shorter ones presumably belong, and search against the user s choice of private and Internet-accessible public 16S rRNA databases. ["16S rRNA" denotes a ribosomal ribonucleic acid (rRNA) sequence that is common to all organisms.] In STITCH, a template 16S rRNA sequence is used to position forward and reverse reads. STITCH then automatically searches known 16S rRNA sequences in the user s chosen database(s) to find the sequence most similar to (the sequence that lies at the smallest edit distance from) each spliced sequence. The result of processing by STITCH is the identification of the most similar well-described bacterium. Whereas previously commercially available software for analyzing genetic sequences operates on one sequence at a time, STITCH can manipulate multiple sequences simultaneously to perform the aforementioned operations. A typical analysis of several dozen sequences (length of the order of 103 base pairs) by use of STITCH is completed in a few minutes, whereas such an analysis performed by use of prior software takes hours or days.

  11. MSLICE Sequencing

    NASA Technical Reports Server (NTRS)

    Crockett, Thomas M.; Joswig, Joseph C.; Shams, Khawaja S.; Norris, Jeffrey S.; Morris, John R.

    2011-01-01

    MSLICE Sequencing is a graphical tool for writing sequences and integrating them into RML files, as well as for producing SCMF files for uplink. When operated in a testbed environment, it also supports uplinking these SCMF files to the testbed via Chill. This software features a free-form textural sequence editor featuring syntax coloring, automatic content assistance (including command and argument completion proposals), complete with types, value ranges, unites, and descriptions from the command dictionary that appear as they are typed. The sequence editor also has a "field mode" that allows tabbing between arguments and displays type/range/units/description for each argument as it is edited. Color-coded error and warning annotations on problematic tokens are included, as well as indications of problems that are not visible in the current scroll range. "Quick Fix" suggestions are made for resolving problems, and all the features afforded by modern source editors are also included such as copy/cut/paste, undo/redo, and a sophisticated find-and-replace system optionally using regular expressions. The software offers a full XML editor for RML files, which features syntax coloring, content assistance and problem annotations as above. There is a form-based, "detail view" that allows structured editing of command arguments and sequence parameters when preferred. The "project view" shows the user s "workspace" as a tree of "resources" (projects, folders, and files) that can subsequently be opened in editors by double-clicking. Files can be added, deleted, dragged-dropped/copied-pasted between folders or projects, and these operations are undoable and redoable. A "problems view" contains a tabular list of all problems in the current workspace. Double-clicking on any row in the table opens an editor for the appropriate sequence, scrolling to the specific line with the problem, and highlighting the problematic characters. From there, one can invoke "quick fix" as described

  12. The relationship between shellbed type and sequence architecture: examples from Japan and New Zealand

    NASA Astrophysics Data System (ADS)

    Kondo, Yasuo; Abbott, Stephen T.; Kitamura, Akihisa; Kamp, Peter J. J.; Naish, Tim R.; Kamataki, Takanobu; Saul, Gordon S.

    1998-12-01

    Examples of lithology, fossil content and taphonomic features of shellbeds and intervening less fossiliferous intervals are presented from four Plio-Pleistocene successions (Shimosa Group, Boso Peninsula, Omma Formation, Hokuriku area, Japan, and Okehu, Kai-iwi, and Shakespeare groups in Wanganui, and the Rangitikei Group along the Rangitikei River in New Zealand). As for pre-Pliocene 3rd- and 4th-order depositional sequences, Plio-Pleistocene 5th- to 7th-order depositional sequences contain a variety of shellbeds which are often associated with surfaces or intervals that are characterized by sedimentary condensation, omission or erosion (e.g. sequence boundaries, ravinement surfaces, downlap surfaces and condensed sections). Stratigraphic patterns of shellbed type tend to be similar and repetitive within a basin and a locality. This demonstrates that a specific palaeogeography played an important role in determining the nature of shellbeds. For example, shellbeds formed in the context of toplap are common only in the Shimosa Group, which was deposited in a moderately sheltered sea, the palaeo-Tokyo Bay. Toplap shellbeds are rare in other sequences formed in more open conditions. Despite the variability resulting from such basin characteristics, common styles of shellbeds can be recognized that formed under conditions of marine onlap, backlap, downlap and toplap. Each type of shellbed has a characteristic fossil composition and taphonomy. Onlap and toplap shellbeds contain low-diversity macrobenthic associations including Glycymeris, Mercenaria, Paphies or other bivalves having robust shells, which are often abraded or fragmented. Backlap shellbeds, which are equivalent to the condensed section formed at the maximum transgression, are characterized by dominance of epifaunal macrobenthos such as bryozoa, brachiopoda, pectinid and ostreid bivalves, preserved in a slightly cemented, glauconitic muddy matrix. In contrast to fossils in such condensed sections, the shell

  13. Insertion Sequences

    PubMed Central

    Mahillon, Jacques; Chandler, Michael

    1998-01-01

    Insertion sequences (ISs) constitute an important component of most bacterial genomes. Over 500 individual ISs have been described in the literature to date, and many more are being discovered in the ongoing prokaryotic and eukaryotic genome-sequencing projects. The last 10 years have also seen some striking advances in our understanding of the transposition process itself. Not least of these has been the development of various in vitro transposition systems for both prokaryotic and eukaryotic elements and, for several of these, a detailed understanding of the transposition process at the chemical level. This review presents a general overview of the organization and function of insertion sequences of eubacterial, archaebacterial, and eukaryotic origins with particular emphasis on bacterial elements and on different aspects of the transposition mechanism. It also attempts to provide a framework for classification of these elements by assigning them to various families or groups. A total of 443 members of the collection have been grouped in 17 families based on combinations of the following criteria: (i) similarities in genetic organization (arrangement of open reading frames); (ii) marked identities or similarities in the enzymes which mediate the transposition reactions, the recombinases/transposases (Tpases); (iii) similar features of their ends (terminal IRs); and (iv) fate of the nucleotide sequence of their target sites (generation of a direct target duplication of determined length). A brief description of the mechanism(s) involved in the mobility of individual ISs in each family and of the structure-function relationships of the individual Tpases is included where available. PMID:9729608

  14. Scaling exponents for ordered maxima

    SciTech Connect

    Ben-Naim, E.; Krapivsky, P. L.; Lemons, N. W.

    2015-12-22

    We study extreme value statistics of multiple sequences of random variables. For each sequence with N variables, independently drawn from the same distribution, the running maximum is defined as the largest variable to date. We compare the running maxima of m independent sequences and investigate the probability SN that the maxima are perfectly ordered, that is, the running maximum of the first sequence is always larger than that of the second sequence, which is always larger than the running maximum of the third sequence, and so on. The probability SN is universal: it does not depend on the distribution from which the random variables are drawn. For two sequences, SN~N–1/2, and in general, the decay is algebraic, SN~N–σm, for large N. We analytically obtain the exponent σ3≅1.302931 as root of a transcendental equation. Moreover, the exponents σm grow with m, and we show that σm~m for large m.

  15. Scaling exponents for ordered maxima

    DOE PAGES

    Ben-Naim, E.; Krapivsky, P. L.; Lemons, N. W.

    2015-12-22

    We study extreme value statistics of multiple sequences of random variables. For each sequence with N variables, independently drawn from the same distribution, the running maximum is defined as the largest variable to date. We compare the running maxima of m independent sequences and investigate the probability SN that the maxima are perfectly ordered, that is, the running maximum of the first sequence is always larger than that of the second sequence, which is always larger than the running maximum of the third sequence, and so on. The probability SN is universal: it does not depend on the distribution frommore » which the random variables are drawn. For two sequences, SN~N–1/2, and in general, the decay is algebraic, SN~N–σm, for large N. We analytically obtain the exponent σ3≅1.302931 as root of a transcendental equation. Moreover, the exponents σm grow with m, and we show that σm~m for large m.« less

  16. Source potential and sequence stratigraphic characterization of microbial evaporitic mudrocks: Upper Permian Zechstein Group, Northern Germany

    NASA Astrophysics Data System (ADS)

    Hammes, Ursula; Mutti, Maria

    2013-04-01

    Microbial evaporitic carbonate mudrocks are important source rocks throughout much of the earth history. Some of the largest hydrocarbon provinces are potentially sourced by evaporite source rocks such as the Cretaceous and Jurassic in the Middle East, the Tertiary in Spain, the Permian in northern Germany, the Devonian in Canada, and the Pennsylvanian in the USA. Carbonate mudrocks deposited under mesosaline conditions are often over-looked and dismissed as potential source rocks. However, preservation and accumulation of organic matter in salinity-layered intraplatform epeiric depressions and restricted basin centers are significant. These mudrocks may not only constitute the source but also exhibit reservoir qualities. Slope and basin laminated mudrocks were investigated for their source and reservoir potential using sequence stratigraphic and geochemical techniques to investigate the exploration potential of the northern German Upper Permian Zechstein Formation. The lower Zechstein cycles Z1 and Z2 are characterized by calcareous to argillaceous, laminated, organic-rich mudstones with TOC (total organic carbon) contents ranging mostly <1% in the Z2 and >6% in the Z1 cycle. Maturities range from 0.9 to >3% Ro depending on depth of burial for these two cycles. While the Z1 mudrocks deposited above the Rotliegend clastic section are more argillaceous and clay-rich grading upward from calcareous mudstones to intraclast, coated grain, thrombolitic wacke- and packstones into coated-grain grainstones, the Z2 mudrocks are dominated by calcareous to dolomitic laminated mudstones. Both cycles are characterized by microbially bound carbonates ranging from thrombolytic to crenulated laminated structures that are overlain by anhydrite and salt. Stacking patterns of the Z1 3rd-order cycle reveal three 5th-order parasequences stacking into two 4th-order sequences; Z2 3rd-order cycle is composed of three 4th-order parasequences that first deepen and then shallow upwards

  17. Program for Editing Spacecraft Command Sequences

    NASA Technical Reports Server (NTRS)

    Gladden, Roy; Waggoner, Bruce; Kordon, Mark; Hashemi, Mahnaz; Hanks, David; Salcedo, Jose

    2006-01-01

    Sequence Translator, Editor, and Expander Resource (STEER) is a computer program that facilitates construction of sequences and blocks of sequences (hereafter denoted generally as sequence products) for commanding a spacecraft. STEER also provides mechanisms for translating among various sequence product types and quickly expanding activities of a given sequence in chronological order for review and analysis of the sequence. To date, construction of sequence products has generally been done by use of such clumsy mechanisms as text-editor programs, translating among sequence product types has been challenging, and expanding sequences to time-ordered lists has involved arduous processes of converting sequence products to "real" sequences and running them through Class-A software (defined, loosely, as flight and ground software critical to a spacecraft mission). Also, heretofore, generating sequence products in standard formats has been troublesome because precise formatting and syntax are required. STEER alleviates these issues by providing a graphical user interface containing intuitive fields in which the user can enter the necessary information. The STEER expansion function provides a "quick and dirty" means of seeing how a sequence and sequence block would expand into a chronological list, without need to use of Class-A software.

  18. Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305(T)), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae.

    PubMed

    Scheuner, Carmen; Tindall, Brian J; Lu, Megan; Nolan, Matt; Lapidus, Alla; Cheng, Jan-Fang; Goodwin, Lynne; Pitluck, Sam; Huntemann, Marcel; Liolios, Konstantinos; Pagani, Ioanna; Mavromatis, Konstantinos; Ivanova, Natalia; Pati, Amrita; Chen, Amy; Palaniappan, Krishna; Jeffries, Cynthia D; Hauser, Loren; Land, Miriam; Mwirichia, Romano; Rohde, Manfred; Abt, Birte; Detter, John C; Woyke, Tanja; Eisen, Jonathan A; Markowitz, Victor; Hugenholtz, Philip; Göker, Markus; Kyrpides, Nikos C; Klenk, Hans-Peter

    2014-01-01

    Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather than a peptidoglycan layer. The first strains of P. brasiliensis, including the type strain IFAM 1448(T), were isolated from a water sample of Lagoa Vermelha, a salt pit near Rio de Janeiro, Brasil. This is the second completed genome sequence of a type strain of the genus Planctomyces to be published and the sixth type strain genome sequence from the family Planctomycetaceae. The 6,006,602 bp long genome with its 4,811 protein-coding and 54 RNA genes is a part of the G enomic E ncyclopedia of Bacteria and Archaea project. Phylogenomic analyses indicate that the classification within the Planctomycetaceae is partially in conflict with its evolutionary history, as the positioning of Schlesneria renders the genus Planctomyces paraphyletic. A re-analysis of published fatty-acid measurements also does not support the current arrangement of the two genera. A quantitative comparison of phylogenetic and phenotypic aspects indicates that the three Planctomyces species with type strains available in public culture collections should be placed in separate genera. Thus the genera Gimesia, Planctopirus and Rubinisphaera are proposed to accommodate P. maris, P. limnophilus and P. brasiliensis, respectively. Pronounced differences between the reported G + C content of Gemmata obscuriglobus, Singulisphaera acidiphila and Zavarzinella formosa and G + C content calculated from their genome sequences call for emendation of their species descriptions. In addition to other features, the range of G + C values reported for the genera within the Planctomycetaceae indicates that the descriptions of the family and the order should be

  19. Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae

    DOE PAGES

    Scheuner, Carmen; Tindall, Brian J.; Lu, Megan; ...

    2014-12-08

    Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather than a peptidoglycan layer. The first strains of P. brasiliensis, including the type strain IFAM 1448 T, were isolated from a water sample of Lagoa Vermelha, a salt pit near Rio de Janeiro, Brasil. This is the second completed genome sequence of a type strain of the genus Planctomyces to be published andmore » the sixth type strain genome sequence from the family Planctomycetaceae. The 6,006,602 bp long genome with its 4,811 protein-coding and 54 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project. We study phylogenomic analyses that indicate that the classification within the Planctomycetaceae is partially in conflict with its evolutionary history, as the positioning of Schlesneria renders the genus Planctomyces paraphyletic. A re-analysis of published fatty-acid measurements also does not support the current arrangement of the two genera. A quantitative comparison of phylogenetic and phenotypic aspects indicates that the three Planctomyces species with type strains available in public culture collections should be placed in separate genera. Thus the genera Gimesia, Planctopirus and Rubinisphaera are proposed to accommodate P. maris, P. limnophilus and P. brasiliensis, respectively. Pronounced differences between the reported G + C content of Gemmata obscuriglobus, Singulisphaera acidiphila and Zavarzinella formosa and G + C content calculated from their genome sequences call for emendation of their species descriptions. Lastly, in addition to other features, the range of G + C values reported for the genera within the Planctomycetaceae indicates that the descriptions of the family and the

  20. Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae

    PubMed Central

    2014-01-01

    Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather than a peptidoglycan layer. The first strains of P. brasiliensis, including the type strain IFAM 1448T, were isolated from a water sample of Lagoa Vermelha, a salt pit near Rio de Janeiro, Brasil. This is the second completed genome sequence of a type strain of the genus Planctomyces to be published and the sixth type strain genome sequence from the family Planctomycetaceae. The 6,006,602 bp long genome with its 4,811 protein-coding and 54 RNA genes is a part of the G enomic E ncyclopedia of Bacteria and Archaea project. Phylogenomic analyses indicate that the classification within the Planctomycetaceae is partially in conflict with its evolutionary history, as the positioning of Schlesneria renders the genus Planctomyces paraphyletic. A re-analysis of published fatty-acid measurements also does not support the current arrangement of the two genera. A quantitative comparison of phylogenetic and phenotypic aspects indicates that the three Planctomyces species with type strains available in public culture collections should be placed in separate genera. Thus the genera Gimesia, Planctopirus and Rubinisphaera are proposed to accommodate P. maris, P. limnophilus and P. brasiliensis, respectively. Pronounced differences between the reported G + C content of Gemmata obscuriglobus, Singulisphaera acidiphila and Zavarzinella formosa and G + C content calculated from their genome sequences call for emendation of their species descriptions. In addition to other features, the range of G + C values reported for the genera within the Planctomycetaceae indicates that the descriptions of the family and the order should be

  1. Block variables for deterministic aperiodic sequences

    NASA Astrophysics Data System (ADS)

    Hörnquist, Michael

    1997-10-01

    We use the concept of block variables to obtain a measure of order/disorder for some one-dimensional deterministic aperiodic sequences. For the Thue - Morse sequence, the Rudin - Shapiro sequence and the period-doubling sequence it is possible to obtain analytical expressions in the limit of infinite sequences. For the Fibonacci sequence, we present some analytical results which can be supported by numerical arguments. It turns out that the block variables show a wide range of different behaviour, some of them indicating that some of the considered sequences are more `random' than other. However, the method does not give any definite answer to the question of which sequence is more disordered than the other and, in this sense, the results obtained are negative. We compare this with some other ways of measuring the amount of order/disorder in such systems, and there seems to be no direct correspondence between the measures.

  2. Rapid Equilibrium-Ordered Enzyme Mechanisms.

    ERIC Educational Resources Information Center

    Chauncey, Thomas R.; And Others

    1985-01-01

    Discusses: (1) characteristic initial velocity behavior (considering the five-step reaction sequence for rapid equilibrium-order bisubstrate mechanisms); (2) dead-end inhibition; (3) inhibition by single products; and (4) an activator as a leading reactant. (JN)

  3. Chameleon sequences in neurodegenerative diseases.

    PubMed

    Bahramali, Golnaz; Goliaei, Bahram; Minuchehr, Zarrin; Salari, Ali

    2016-03-25

    Chameleon sequences can adopt either alpha helix sheet or a coil conformation. Defining chameleon sequences in PDB (Protein Data Bank) may yield to an insight on defining peptides and proteins responsible in neurodegeneration. In this research, we benefitted from the large PDB and performed a sequence analysis on Chameleons, where we developed an algorithm to extract peptide segments with identical sequences, but different structures. In order to find new chameleon sequences, we extracted a set of 8315 non-redundant protein sequences from the PDB with an identity less than 25%. Our data was classified to "helix to strand (HE)", "helix to coil (HC)" and "strand to coil (CE)" alterations. We also analyzed the occurrence of singlet and doublet amino acids and the solvent accessibility in the chameleon sequences; we then sorted out the proteins with the most number of chameleon sequences and named them Chameleon Flexible Proteins (CFPs) in our dataset. Our data revealed that Gly, Val, Ile, Tyr and Phe, are the major amino acids in Chameleons. We also found that there are proteins such as Insulin Degrading Enzyme IDE and GTP-binding nuclear protein Ran (RAN) with the most number of chameleons (640 and 405 respectively). These proteins have known roles in neurodegenerative diseases. Therefore it can be inferred that other CFP's can serve as key proteins in neurodegeneration, and a study on them can shed light on curing and preventing neurodegenerative diseases.

  4. Variable Order and Distributed Order Fractional Operators

    NASA Technical Reports Server (NTRS)

    Lorenzo, Carl F.; Hartley, Tom T.

    2002-01-01

    Many physical processes appear to exhibit fractional order behavior that may vary with time or space. The continuum of order in the fractional calculus allows the order of the fractional operator to be considered as a variable. This paper develops the concept of variable and distributed order fractional operators. Definitions based on the Riemann-Liouville definitions are introduced and behavior of the operators is studied. Several time domain definitions that assign different arguments to the order q in the Riemann-Liouville definition are introduced. For each of these definitions various characteristics are determined. These include: time invariance of the operator, operator initialization, physical realization, linearity, operational transforms. and memory characteristics of the defining kernels. A measure (m2) for memory retentiveness of the order history is introduced. A generalized linear argument for the order q allows the concept of "tailored" variable order fractional operators whose a, memory may be chosen for a particular application. Memory retentiveness (m2) and order dynamic behavior are investigated and applications are shown. The concept of distributed order operators where the order of the time based operator depends on an additional independent (spatial) variable is also forwarded. Several definitions and their Laplace transforms are developed, analysis methods with these operators are demonstrated, and examples shown. Finally operators of multivariable and distributed order are defined in their various applications are outlined.

  5. Contrasting Sequence Groups by Emerging Sequences

    NASA Astrophysics Data System (ADS)

    Deng, Kang; Zaïane, Osmar R.

    Group comparison per se is a fundamental task in many scientific endeavours but is also the basis of any classifier. Contrast sets and emerging patterns contrast between groups of categorical data. Comparing groups of sequence data is a relevant task in many applications. We define Emerging Sequences (ESs) as subsequences that are frequent in sequences of one group and less frequent in the sequences of another, and thus distinguishing or contrasting sequences of different classes. There are two challenges to distinguish sequence classes: the extraction of ESs is not trivially efficient and only exact matches of sequences are considered. In our work we address those problems by a suffix tree-based framework and a similar matching mechanism. We propose a classifier based on Emerging Sequences. Evaluating against two learning algorithms based on frequent subsequences and exact matching subsequences, the experiments on two datasets show that our model outperforms the baseline approaches by up to 20% in prediction accuracy.

  6. Image analysis for DNA sequencing

    NASA Astrophysics Data System (ADS)

    Palaniappan, Kannappan; Huang, Thomas S.

    1991-07-01

    There is a great deal of interest in automating the process of DNA (deoxyribonucleic acid) sequencing to support the analysis of genomic DNA such as the Human and Mouse Genome projects. In one class of gel-based sequencing protocols autoradiograph images are generated in the final step and usually require manual interpretation to reconstruct the DNA sequence represented by the image. The need to handle a large volume of sequence information necessitates automation of the manual autoradiograph reading step through image analysis in order to reduce the length of time required to obtain sequence data and reduce transcription errors. Various adaptive image enhancement, segmentation and alignment methods were applied to autoradiograph images. The methods are adaptive to the local characteristics of the image such as noise, background signal, or presence of edges. Once the two-dimensional data is converted to a set of aligned one-dimensional profiles waveform analysis is used to determine the location of each band which represents one nucleotide in the sequence. Different classification strategies including a rule-based approach are investigated to map the profile signals, augmented with the original two-dimensional image data as necessary, to textual DNA sequence information.

  7. Ossification sequence heterochrony among amphibians.

    PubMed

    Harrington, Sean M; Harrison, Luke B; Sheil, Christopher A

    2013-01-01

    Heterochrony is an important mechanism in the evolution of amphibians. Although studies have centered on the relationship between size and shape and the rates of development, ossification sequence heterochrony also may have been important. Rigorous, phylogenetic methods for assessing sequence heterochrony are relatively new, and a comprehensive study of the relative timing of ossification of skeletal elements has not been used to identify instances of sequence heterochrony across Amphibia. In this study, a new version of the program Parsimov-based genetic inference (PGi) was used to identify shifts in ossification sequences across all extant orders of amphibians, for all major structural units of the skeleton. PGi identified a number of heterochronic sequence shifts in all analyses, the most interesting of which seem to be tied to differences in metamorphic patterns among major clades. Early ossification of the vomer, premaxilla, and dentary is retained by Apateon caducus and members of Gymnophiona and Urodela, which lack the strongly biphasic development seen in anurans. In contrast, bones associated with the jaws and face were identified as shifting late in the ancestor of Anura. The bones that do not shift late, and thereby occupy the earliest positions in the anuran cranial sequence, are those in regions of the skull that undergo the least restructuring throughout anuran metamorphosis. Additionally, within Anura, bones of the hind limb and pelvic girdle were also identified as shifting early in the sequence of ossification, which may be a result of functional constraints imposed by the drastic metamorphosis of most anurans.

  8. Integer sequence discovery from small graphs

    PubMed Central

    Hoppe, Travis; Petrone, Anna

    2015-01-01

    We have exhaustively enumerated all simple, connected graphs of a finite order and have computed a selection of invariants over this set. Integer sequences were constructed from these invariants and checked against the Online Encyclopedia of Integer Sequences (OEIS). 141 new sequences were added and six sequences were extended. From the graph database, we were able to programmatically suggest relationships among the invariants. It will be shown that we can readily visualize any sequence of graphs with a given criteria. The code has been released as an open-source framework for further analysis and the database was constructed to be extensible to invariants not considered in this work. PMID:27034526

  9. Shotgun protein sequencing.

    SciTech Connect

    Faulon, Jean-Loup Michel; Heffelfinger, Grant S.

    2009-06-01

    A novel experimental and computational technique based on multiple enzymatic digestion of a protein or protein mixture that reconstructs protein sequences from sequences of overlapping peptides is described in this SAND report. This approach, analogous to shotgun sequencing of DNA, is to be used to sequence alternative spliced proteins, to identify post-translational modifications, and to sequence genetically engineered proteins.

  10. Multimodal sequence learning.

    PubMed

    Kemény, Ferenc; Meier, Beat

    2016-02-01

    While sequence learning research models complex phenomena, previous studies have mostly focused on unimodal sequences. The goal of the current experiment is to put implicit sequence learning into a multimodal context: to test whether it can operate across different modalities. We used the Task Sequence Learning paradigm to test whether sequence learning varies across modalities, and whether participants are able to learn multimodal sequences. Our results show that implicit sequence learning is very similar regardless of the source modality. However, the presence of correlated task and response sequences was required for learning to take place. The experiment provides new evidence for implicit sequence learning of abstract conceptual representations. In general, the results suggest that correlated sequences are necessary for implicit sequence learning to occur. Moreover, they show that elements from different modalities can be automatically integrated into one unitary multimodal sequence.

  11. Quasi-Fibonacci Numbers of Order 11

    NASA Astrophysics Data System (ADS)

    Wituła, Roman; Słota, Damian

    2007-08-01

    In this paper we introduce and investigate the so-called quasi-Fibonacci numbers of order 11 . These numbers are defined by five conjugate recurrence equations of order five. We study some relations and identities concerning these numbers. We present some applications to the decomposition of some polynomials. Many of the identities presented here are the generalizations of the identities characteristic for general recurrence sequences of order three given by Rabinowitz.

  12. An overview of task order 10

    SciTech Connect

    Rousculp, Christopher L

    2011-01-12

    Task Order 10 formalizes a collaboration in high explosive pulsed power (HEPP) experiments between LANL and VNIIEF. The focus is the VNIIEF disk explosive magnetic generator (DEMG) technology. The task order outlines a sequence of tasks and deliverables culminating in an experiment which takes place in the US utilizing US explosives and a Russian DEMG. This talk summarizes task order 10. It gives a brief history and present status in terms of the proposed high pressure EOS experiment (ALT-3).

  13. Exact significance test for Markov order

    NASA Astrophysics Data System (ADS)

    Pethel, S. D.; Hahs, D. W.

    2014-02-01

    We describe an exact significance test of the null hypothesis that a Markov chain is nth order. The procedure utilizes surrogate data to yield an exact test statistic distribution valid for any sample size. Surrogate data are generated using a novel algorithm that guarantees, per shot, a uniform sampling from the set of sequences that exactly match the nth order properties of the observed data. Using the test, the Markov order of Tel Aviv rainfall data is examined.

  14. Coordinate cytokine regulatory sequences

    DOEpatents

    Frazer, Kelly A.; Rubin, Edward M.; Loots, Gabriela G.

    2005-05-10

    The present invention provides CNS sequences that regulate the cytokine gene expression, expression cassettes and vectors comprising or lacking the CNS sequences, host cells and non-human transgenic animals comprising the CNS sequences or lacking the CNS sequences. The present invention also provides methods for identifying compounds that modulate the functions of CNS sequences as well as methods for diagnosing defects in the CNS sequences of patients.

  15. Exercise order in resistance training.

    PubMed

    Simão, Roberto; de Salles, Belmiro Freitas; Figueiredo, Tiago; Dias, Ingrid; Willardson, Jeffrey M

    2012-03-01

    adaptations, greater strength increases were evident by untrained subjects for the first exercise of a given sequence, while strength increases were inhibited for the last exercise of a given sequence. Additionally, based on strength and hypertrophy (i.e. muscle thickness and volume) effect-size data, the research suggests that exercises be ordered based on priority of importance as dictated by the training goal of a programme, irrespective of whether the exercise involves a relatively large or small muscle group. In summary, exercise order is an important variable that should receive greater attention in RT prescription. When prescribed appropriately with other key prescriptive variables (i.e. load, volume, rest interval between sets and exercises), the exercise order can influence the efficiency, safety and ultimate effectiveness of an RT programme.

  16. Implicit learning of fifth- and sixth-order sequential probabilities.

    PubMed

    Remillard, Gilbert

    2010-10-01

    Serial reaction time (SRT) task studies have established that people can implicitly learn sequential contingencies as complex as fourth-order probabilities. The present study examined people's ability to learn fifth-order (Experiment 1) and sixth-order (Experiment 2) probabilities. Remarkably, people learned fifth- and sixth-order probabilities. This suggests that the implicit sequence learning mechanism can operate over a range of at least seven sequence elements.

  17. Asteroid Ida Rotation Sequence

    NASA Technical Reports Server (NTRS)

    1994-01-01

    This montage of 14 images (the time order is right to left, bottom to top) shows Ida as it appeared in the field of view of Galileo's camera on August 28, 1993. Asteroid Ida rotates once every 4 hours, 39 minutes and clockwise when viewed from above the north pole; these images cover about one Ida 'day.' This sequence has been used to create a 3-D model that shows Ida to be almost croissant shaped. The earliest view (lower right) was taken from a range of 240,000 kilometers (150,000 miles), 5.4 hours before closest approach. The asteroid Ida draws its name from mythology, in which the Greek god Zeus was raised by the nymph Ida.

  18. High speed nucleic acid sequencing

    SciTech Connect

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2011-05-17

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid. Each type of labeled nucleotide comprises an acceptor fluorophore attached to a phosphate portion of the nucleotide such that the fluorophore is removed upon incorporation into a growing strand. Fluorescent signal is emitted via fluorescent resonance energy transfer between the donor fluorophore and the acceptor fluorophore as each nucleotide is incorporated into the growing strand. The sequence is deduced by identifying which base is being incorporated into the growing strand.

  19. Sequencing Events: Exploring Art and Art Jobs.

    ERIC Educational Resources Information Center

    Stephens, Pamela Geiger; Shaddix, Robin K.

    2000-01-01

    Presents an activity for upper-elementary students that correlates the actions of archaeologists, patrons, and artists with the sequencing of events in a logical order. Features ancient Egyptian art images. Discusses the preparation of materials, motivation, a pre-writing activity, and writing a story in sequence. (CMK)

  20. A Matrix Approach for General Higher Order Linear Recurrences

    DTIC Science & Technology

    2011-01-01

    properties of linear recurrences (such as the well-known Fibonacci and Pell sequences ). In [2], Er defined k linear recurring sequences of order at...the nth term of the ith generalized order-k Fibonacci sequence . Communicated by Lee See Keong. Received: March 26, 2009; Revised: August 28, 2009...6], the author gave the generalized order-k Fibonacci and Pell (F-P) sequence as follows: For m ≥ 0, n > 0 and 1 ≤ i ≤ k uin = 2 muin−1 + u i n−2

  1. Order Theoretical Semantic Recommendation

    SciTech Connect

    Joslyn, Cliff A.; Hogan, Emilie A.; Paulson, Patrick R.; Peterson, Elena S.; Stephan, Eric G.; Thomas, Dennis G.

    2013-07-23

    Mathematical concepts of order and ordering relations play multiple roles in semantic technologies. Discrete totally ordered data characterize both input streams and top-k rank-ordered recommendations and query output, while temporal attributes establish numerical total orders, either over time points or in the more complex case of startend temporal intervals. But also of note are the fully partially ordered data, including both lattices and non-lattices, which actually dominate the semantic strcuture of ontological systems. Scalar semantic similarities over partially-ordered semantic data are traditionally used to return rank-ordered recommendations, but these require complementation with true metrics available over partially ordered sets. In this paper we report on our work in the foundations of partial order measurement in ontologies, with application to top-k semantic recommendation in workflows.

  2. MRO Sequence Checking Tool

    NASA Technical Reports Server (NTRS)

    Fisher, Forest; Gladden, Roy; Khanampornpan, Teerapat

    2008-01-01

    The MRO Sequence Checking Tool program, mro_check, automates significant portions of the MRO (Mars Reconnaissance Orbiter) sequence checking procedure. Though MRO has similar checks to the ODY s (Mars Odyssey) Mega Check tool, the checks needed for MRO are unique to the MRO spacecraft. The MRO sequence checking tool automates the majority of the sequence validation procedure and check lists that are used to validate the sequences generated by MRO MPST (mission planning and sequencing team). The tool performs more than 50 different checks on the sequence. The automation varies from summarizing data about the sequence needed for visual verification of the sequence, to performing automated checks on the sequence and providing a report for each step. To allow for the addition of new checks as needed, this tool is built in a modular fashion.

  3. Los Alamos sequence analysis package for nucleic acids and proteins.

    PubMed Central

    Kanehisa, M I

    1982-01-01

    An interactive system for computer analysis of nucleic acid and protein sequences has been developed for the Los Alamos DNA Sequence Database. It provides a convenient way to search or verify various sequence features, e.g., restriction enzyme sites, protein coding frames, and properties of coded proteins. Further, the comprehensive analysis package on a large-scale database can be used for comparative studies on sequence and structural homologies in order to find unnoted information stored in nucleic acid sequences. PMID:6174934

  4. Minimal Orderings Revisited

    SciTech Connect

    Peyton, B.W.

    1999-07-01

    When minimum orderings proved too difficult to deal with, Rose, Tarjan, and Leuker instead studied minimal orderings and how to compute them (Algorithmic aspects of vertex elimination on graphs, SIAM J. Comput., 5:266-283, 1976). This paper introduces an algorithm that is capable of computing much better minimal orderings much more efficiently than the algorithm in Rose et al. The new insight is a way to use certain structures and concepts from modern sparse Cholesky solvers to re-express one of the basic results in Rose et al. The new algorithm begins with any initial ordering and then refines it until a minimal ordering is obtained. it is simple to obtain high-quality low-cost minimal orderings by using fill-reducing heuristic orderings as initial orderings for the algorithm. We examine several such initial orderings in some detail.

  5. Model of evolution of molecular sequences

    NASA Astrophysics Data System (ADS)

    Luo, Liaofu; Tsai, Lu; Lee, Weijiang

    1990-05-01

    A simplified model of the evolution of molecular sequences is proposed. An ensemble of strings is considered that consists of two letters and undergoes random point mutations and natural selections. A set of evolution equations is deduced. From the solution it is found that the first-order (second-order) informational parameters (redundancies) D1 decrease (D2 increase) in the course of evolution. Furthermore, the statistical correlations of the letters (bases) in the sequences are investigated in detail and the short-distance correlation is demonstrated. These results give a preliminary explanation of some physical aspects in the evolution of nucleic acid sequences.

  6. Distinguishing Proteins From Arbitrary Amino Acid Sequences

    PubMed Central

    Yau, Stephen S.-T.; Mao, Wei-Guang; Benson, Max; He, Rong Lucy

    2015-01-01

    What kinds of amino acid sequences could possibly be protein sequences? From all existing databases that we can find, known proteins are only a small fraction of all possible combinations of amino acids. Beginning with Sanger's first detailed determination of a protein sequence in 1952, previous studies have focused on describing the structure of existing protein sequences in order to construct the protein universe. No one, however, has developed a criteria for determining whether an arbitrary amino acid sequence can be a protein. Here we show that when the collection of arbitrary amino acid sequences is viewed in an appropriate geometric context, the protein sequences cluster together. This leads to a new computational test, described here, that has proved to be remarkably accurate at determining whether an arbitrary amino acid sequence can be a protein. Even more, if the results of this test indicate that the sequence can be a protein, and it is indeed a protein sequence, then its identity as a protein sequence is uniquely defined. We anticipate our computational test will be useful for those who are attempting to complete the job of discovering all proteins, or constructing the protein universe. PMID:25609314

  7. Sequence Factorization with Multiple References

    PubMed Central

    Wandelt, Sebastian; Leser, Ulf

    2015-01-01

    The success of high-throughput sequencing has lead to an increasing number of projects which sequence large populations of a species. Storage and analysis of sequence data is a key challenge in these projects, because of the sheer size of the datasets. Compression is one simple technology to deal with this challenge. Referential factorization and compression schemes, which store only the differences between input sequence and a reference sequence, gained lots of interest in this field. Highly-similar sequences, e.g., Human genomes, can be compressed with a compression ratio of 1,000:1 and more, up to two orders of magnitude better than with standard compression techniques. Recently, it was shown that the compression against multiple references from the same species can boost the compression ratio up to 4,000:1. However, a detailed analysis of using multiple references is lacking, e.g., for main memory consumption and optimality. In this paper, we describe one key technique for the referential compression against multiple references: The factorization of sequences. Based on the notion of an optimal factorization, we propose optimization heuristics and identify parameter settings which greatly influence 1) the size of the factorization, 2) the time for factorization, and 3) the required amount of main memory. We evaluate a total of 30 setups with a varying number of references on data from three different species. Our results show a wide range of factorization sizes (optimal to an overhead of up to 300%), factorization speed (0.01 MB/s to more than 600 MB/s), and main memory usage (few dozen MB to dozens of GB). Based on our evaluation, we identify the best configurations for common use cases. Our evaluation shows that multi-reference factorization is much better than single-reference factorization. PMID:26422374

  8. First-order inflation

    SciTech Connect

    Kolb, E.W. Chicago Univ., IL . Enrico Fermi Inst.)

    1990-09-01

    In the original proposal, inflation occurred in the process of a strongly first-order phase transition. This model was soon demonstrated to be fatally flawed. Subsequent models for inflation involved phase transitions that were second-order, or perhaps weakly first-order; some even involved no phase transition at all. Recently the possibility of inflation during a strongly first-order phase transition has been revived. In this talk I will discuss some models for first-order inflation, and emphasize unique signatures that result in inflation is realized in a first-order transition. Before discussing first-order inflation, I will briefly review some of the history of inflation to demonstrate how first-order inflation differs from other models. 58 refs., 3 figs.

  9. ASDC Ordering Tool

    Atmospheric Science Data Center

    2017-02-08

    ... Ordering requires login , searching does not. Projects by science discipline: Aerosols | Clouds | Radiation Budget ... Tropospheric Composition | Field Campaigns All projects Details:  ASDC Ordering Tool ...

  10. The Connell Sum Sequence

    NASA Astrophysics Data System (ADS)

    Bullington, Grady D.

    2007-01-01

    The Connell sum sequence refers to the partial sums of the Connell sequence. In this paper, the Connell sequence, Connell sum sequence and generalizations from Iannucci and Mills-Taylor are interpreted as sums of elements of triangles, relating them to polygonal number-stuttered arithmetic progressions. The n-th element of the Connell sum sequence is established as a sharp upper bound for the value of a gamma-labeling of a graph of size n. The limiting behavior and a explicit formula for the Connell (m,r)-sum sequence are also given.

  11. Genome Sequence Databases (Overview): Sequencing and Assembly

    SciTech Connect

    Lapidus, Alla L.

    2009-01-01

    From the date its role in heredity was discovered, DNA has been generating interest among scientists from different fields of knowledge: physicists have studied the three dimensional structure of the DNA molecule, biologists tried to decode the secrets of life hidden within these long molecules, and technologists invent and improve methods of DNA analysis. The analysis of the nucleotide sequence of DNA occupies a special place among the methods developed. Thanks to the variety of sequencing technologies available, the process of decoding the sequence of genomic DNA (or whole genome sequencing) has become robust and inexpensive. Meanwhile the assembly of whole genome sequences remains a challenging task. In addition to the need to assemble millions of DNA fragments of different length (from 35 bp (Solexa) to 800 bp (Sanger)), great interest in analysis of microbial communities (metagenomes) of different complexities raises new problems and pushes some new requirements for sequence assembly tools to the forefront. The genome assembly process can be divided into two steps: draft assembly and assembly improvement (finishing). Despite the fact that automatically performed assembly (or draft assembly) is capable of covering up to 98% of the genome, in most cases, it still contains incorrectly assembled reads. The error rate of the consensus sequence produced at this stage is about 1/2000 bp. A finished genome represents the genome assembly of much higher accuracy (with no gaps or incorrectly assembled areas) and quality ({approx}1 error/10,000 bp), validated through a number of computer and laboratory experiments.

  12. Automated DNA Sequencing System

    SciTech Connect

    Armstrong, G.A.; Ekkebus, C.P.; Hauser, L.J.; Kress, R.L.; Mural, R.J.

    1999-04-25

    Oak Ridge National Laboratory (ORNL) is developing a core DNA sequencing facility to support biological research endeavors at ORNL and to conduct basic sequencing automation research. This facility is novel because its development is based on existing standard biology laboratory equipment; thus, the development process is of interest to the many small laboratories trying to use automation to control costs and increase throughput. Before automation, biology Laboratory personnel purified DNA, completed cycle sequencing, and prepared 96-well sample plates with commercially available hardware designed specifically for each step in the process. Following purification and thermal cycling, an automated sequencing machine was used for the sequencing. A technician handled all movement of the 96-well sample plates between machines. To automate the process, ORNL is adding a CRS Robotics A- 465 arm, ABI 377 sequencing machine, automated centrifuge, automated refrigerator, and possibly an automated SpeedVac. The entire system will be integrated with one central controller that will direct each machine and the robot. The goal of this system is to completely automate the sequencing procedure from bacterial cell samples through ready-to-be-sequenced DNA and ultimately to completed sequence. The system will be flexible and will accommodate different chemistries than existing automated sequencing lines. The system will be expanded in the future to include colony picking and/or actual sequencing. This discrete event, DNA sequencing system will demonstrate that smaller sequencing labs can achieve cost-effective the laboratory grow.

  13. Cellulases and coding sequences

    DOEpatents

    Li, Xin-Liang; Ljungdahl, Lars G.; Chen, Huizhong

    2001-02-20

    The present invention provides three fungal cellulases, their coding sequences, recombinant DNA molecules comprising the cellulase coding sequences, recombinant host cells and methods for producing same. The present cellulases are from Orpinomyces PC-2.

  14. Cellulases and coding sequences

    DOEpatents

    Li, Xin-Liang; Ljungdahl, Lars G.; Chen, Huizhong

    2001-01-01

    The present invention provides three fungal cellulases, their coding sequences, recombinant DNA molecules comprising the cellulase coding sequences, recombinant host cells and methods for producing same. The present cellulases are from Orpinomyces PC-2.

  15. Sequence information signal processor

    DOEpatents

    Peterson, John C.; Chow, Edward T.; Waterman, Michael S.; Hunkapillar, Timothy J.

    1999-01-01

    An electronic circuit is used to compare two sequences, such as genetic sequences, to determine which alignment of the sequences produces the greatest similarity. The circuit includes a linear array of series-connected processors, each of which stores a single element from one of the sequences and compares that element with each successive element in the other sequence. For each comparison, the processor generates a scoring parameter that indicates which segment ending at those two elements produces the greatest degree of similarity between the sequences. The processor uses the scoring parameter to generate a similar scoring parameter for a comparison between the stored element and the next successive element from the other sequence. The processor also delivers the scoring parameter to the next processor in the array for use in generating a similar scoring parameter for another pair of elements. The electronic circuit determines which processor and alignment of the sequences produce the scoring parameter with the highest value.

  16. Nonparametric Combinatorial Sequence Models

    NASA Astrophysics Data System (ADS)

    Wauthier, Fabian L.; Jordan, Michael I.; Jojic, Nebojsa

    This work considers biological sequences that exhibit combinatorial structures in their composition: groups of positions of the aligned sequences are "linked" and covary as one unit across sequences. If multiple such groups exist, complex interactions can emerge between them. Sequences of this kind arise frequently in biology but methodologies for analyzing them are still being developed. This paper presents a nonparametric prior on sequences which allows combinatorial structures to emerge and which induces a posterior distribution over factorized sequence representations. We carry out experiments on three sequence datasets which indicate that combinatorial structures are indeed present and that combinatorial sequence models can more succinctly describe them than simpler mixture models. We conclude with an application to MHC binding prediction which highlights the utility of the posterior distribution induced by the prior. By integrating out the posterior our method compares favorably to leading binding predictors.

  17. Roles of repetitive sequences

    SciTech Connect

    Bell, G.I.

    1991-12-31

    The DNA of higher eukaryotes contains many repetitive sequences. The study of repetitive sequences is important, not only because many have important biological function, but also because they provide information on genome organization, evolution and dynamics. In this paper, I will first discuss some generic effects that repetitive sequences will have upon genome dynamics and evolution. In particular, it will be shown that repetitive sequences foster recombination among, and turnover of, the elements of a genome. I will then consider some examples of repetitive sequences, notably minisatellite sequences and telomere sequences as examples of tandem repeats, without and with respectively known function, and Alu sequences as an example of interspersed repeats. Some other examples will also be considered in less detail.

  18. DNA sequencing conference, 2

    SciTech Connect

    Cook-Deegan, R.M.; Venter, J.C.; Gilbert, W.; Mulligan, J.; Mansfield, B.K.

    1991-06-19

    This conference focused on DNA sequencing, genetic linkage mapping, physical mapping, informatics and bioethics. Several were used to study this sequencing and mapping. This article also discusses computer hardware and software aiding in the mapping of genes.

  19. Function-Based Algorithms for Biological Sequences

    ERIC Educational Resources Information Center

    Mohanty, Pragyan Sheela P.

    2015-01-01

    Two problems at two different abstraction levels of computational biology are studied. At the molecular level, efficient pattern matching algorithms in DNA sequences are presented. For gene order data, an efficient data structure is presented capable of storing all gene re-orderings in a systematic manner. A common characteristic of presented…

  20. FRESCO: Referential compression of highly similar sequences.

    PubMed

    Wandelt, Sebastian; Leser, Ulf

    2013-01-01

    In many applications, sets of similar texts or sequences are of high importance. Prominent examples are revision histories of documents or genomic sequences. Modern high-throughput sequencing technologies are able to generate DNA sequences at an ever-increasing rate. In parallel to the decreasing experimental time and cost necessary to produce DNA sequences, computational requirements for analysis and storage of the sequences are steeply increasing. Compression is a key technology to deal with this challenge. Recently, referential compression schemes, storing only the differences between a to-be-compressed input and a known reference sequence, gained a lot of interest in this field. In this paper, we propose a general open-source framework to compress large amounts of biological sequence data called Framework for REferential Sequence COmpression (FRESCO). Our basic compression algorithm is shown to be one to two orders of magnitudes faster than comparable related work, while achieving similar compression ratios. We also propose several techniques to further increase compression ratios, while still retaining the advantage in speed: 1) selecting a good reference sequence; and 2) rewriting a reference sequence to allow for better compression. In addition,we propose a new way of further boosting the compression ratios by applying referential compression to already referentially compressed files (second-order compression). This technique allows for compression ratios way beyond state of the art, for instance,4,000:1 and higher for human genomes. We evaluate our algorithms on a large data set from three different species (more than 1,000 genomes, more than 3 TB) and on a collection of versions of Wikipedia pages. Our results show that real-time compression of highly similar sequences at high compression ratios is possible on modern hardware.

  1. Interference of electron trajectories and generation of high-order optical harmonics in a Coulomb system

    SciTech Connect

    Platonenko, Viktor T

    2001-01-31

    The amplitudes of harmonics of the atomic response are determined as functions of the intensity of the pump light wave within the range of intensities of 4.9x10{sup 13} - 2.1x10{sup 14} W cm{sup -2} through the numerical solution of the Schrodinger equation for a hydrogen atom in an oscillating electric field. For the amplitudes of harmonics starting from the 5th up to at least the 55th order, these dependences display a deep modulation. Generation of high-order harmonics is analysed within the framework of semiclassical theory including several factors that were ignored in earlier studies. Relatively simple formulas for the amplitudes of high-order harmonics are derived. These formulas agree well with the results of numerical simulations in the range of tunnelling ionisation and provide a satisfactory agreement with numerical simulations in the range of barrier-suppression ionisation. (nonlinear optical phenomena)

  2. Career Academy Course Sequences.

    ERIC Educational Resources Information Center

    Markham, Thom; Lenz, Robert

    This career academy course sequence guide is designed to give teachers a quick overview of the course sequences of well-known career academy and career pathway programs from across the country. The guide presents a variety of sample course sequences for the following academy themes: (1) arts and communication; (2) business and finance; (3)…

  3. Consumer’s Resource Handbook (5th Edition)

    DTIC Science & Technology

    1990-01-01

    Wacker Drive Customer Service and Insurance Ms. Linda Mulrenan Chicago, IL 60606 Atlas Van Lines Director, Consumer Affairs (32) 701- 300 1212 St. Georme...Winston-Salem, NC 27103 Best Western International (919)76- 8611 Beatrice Hunt -Wesson, Inc. PO. Box 10203 Grocery Division Phoenix, AZ 85064 Corporate...President (301) 527-7100 48 Wall Street, 16th Floor Consumer Products Division New York, NY 10286 Becton Dickinson and Company Ms. Lori Hunt (212) 495

  4. Physics for Scientists and Engineers, 5th edition - Volume 1

    NASA Astrophysics Data System (ADS)

    Tipler, Paul A.; Mosca, Gene P.

    For nearly 30 years, Paul Tipler's Physics for Scientists and Engineers has set the standard in the introductory calculus-based physics course for clarity, accuracy, and precision. In this fifth edition, Paul has recruited Gene Mosca to bring his years of teaching experience to bear on the text, to scrutinize every explanation and example from the perspective of the freshman student. The result is a teaching tool that retains its precision and rigor, but offers struggling students the support they need to solve problems strategically and to gain real understanding of physical concepts.

  5. International Conference on Ultrawideband and Ultrashort Impulse Signals (5th)

    DTIC Science & Technology

    2010-09-10

    The viability of Drosophila melanogaster after irradiation was eva- luated by the quantity of adult insects developed from the irradiated eggs of one...to that of sham-exposed cells within 2h of recovery in the absence irradiation . The data suggest that HF-EMF with a carrier frequency and...with irradiation dose. At irradiation intensity 10-3 W/cm-2 the process of heterochromatin granule formation was fully re- versible after 2 h of

  6. PREFACE: 5th European Conference on Neutron Scattering

    NASA Astrophysics Data System (ADS)

    Mikula, Pavel; Hlinka, Jiří; Prokeš, Karel; Dohnálek, Jan; Šittner, Petr; Javorský, Pavel

    2012-02-01

    This volume contains proceedings of ECNS 2011, held in Prague, Czech Republic, 17-22 July 2011. ECNS 2011 was the fifth Conference in a series of meetings organized in various European cities under patronage of the European Neutron Scattering Association, and was preceded by the European Neutron Scattering Conferences in Interlaken (1996), Budapest (1999), Montpellier (2003) and Lund (2007). The positive atmosphere of the Prague meeting of the neutron community can certainly be attributed to recent progress in the extension of the European neutron experimental base, in particular the completion of the ISIS second target station and considerable progress in the European Spallation Source project in Lund. The success of ECNS 2011 has been manifested by the participation of 698 scientists from 36 countries, who presented 231 talks and 534 posters. This proceedings contains 112 papers from authors who wished to have the written versions of their contributions published. The contributions illustrate the broad scale of scientific problems investigated by neutron scattering methods and give a picture of growing activities in the field. The conference chairmen wish to express their thanks to all colleagues who contributed to the organization and preparation of ECNS 2011, in particular the members of the International Advisory Committee, the International Program Committee and the Local Organizing Committee. We very much appreciate the role of Professor Michael Steiner, the President of ENSA, and all ENSA representatives who contributed valuable conceptual input and advice in the preparatory phase of the conference organization. Special thanks go to the editors and all the referees who helped us to publish the ECNS 2011 Proceedings in such a short time. Vladimír SechovskýPetr Lukáš Conference chairmen The PDF contains photographs from the conference and a full list of participants.

  7. Living the Language: International Exchanges for 5th Graders

    ERIC Educational Resources Information Center

    Wood, Emily

    2006-01-01

    The American Council on Teaching of Foreign Languages (ACTFL) annually presents the Melba Woodruff Award to an exemplary foreign language program in the nation. This year at the ACTFL conference in Baltimore, MD, the Eisenhower International School received this award for its outstanding immersion programs. International student exchanges at the…

  8. Nutrition Super Stars [5th and 6th Grades].

    ERIC Educational Resources Information Center

    Houtkooper, Linda; And Others

    This nutrition and physical fitness curriculum kit provides a means for students, teachers, parents, and school health and food service staff to learn about the nutritional value of food and the relationship of food and physical fitness to growth, development, and health; develop food and activity habits which promote good health; and share this…

  9. Quantum Chemistry, 5th Edition by Ira N. Levine

    NASA Astrophysics Data System (ADS)

    Hinde, Robert J.

    2000-12-01

    Of course, there is no one- or two-week shortcut by which nonspecialists can master enough quantum mechanics to become informed users of quantum chemical techniques. Nevertheless, a text that integrated the fundamentals of quantum theory with a rigorous introduction to quantum chemistry could help instructors design a class that would benefit both these nonspecialists and graduate students in physical chemistry. Could such a class overcome the (undeserved) stigma associated with the physical chemistry curriculum? That remains to be seen.

  10. International Symposium on Air Breathing Engines (5th)

    DTIC Science & Technology

    1981-05-29

    favorably received by specialists in that area while also having some morsels of interest to the research community. US papers covered the status of power...plant controls, turbine-diagnostics effectiveness, life-cycle cost considerations, and a review and status of environmental effects of aircraft...04 Diagnostic and Monitoring of Turboprop Engines Ingg. 0. Natale and V.P. Riviello , Alfa Romeo, Italy 05 The Engineering Basis for the Application of

  11. Educational and Training Opportunities in Sustainable Agriculture. 5th Edition.

    ERIC Educational Resources Information Center

    Gates, Jane Potter

    This directory lists 151 programs in alternative farming systems (systems that aim at maintaining agricultural productivity and profitability, while protecting natural resources, especially sustainable, low-input, regenerative, biodynamic or organic farming and gardening). It includes programs conducted by colleges and universities, research…

  12. Purdue University Physics 152L [Manual] (5th Edition).

    ERIC Educational Resources Information Center

    Purdue Univ., Lafayette, IN.

    This document is a laboratory manual for an undergraduate physics course at Purdue University, the major goals of which are to develop students' laboratory skills, to illustrate principles and phenomena described in the physics lectures, and to promote conceptual change about the major topics in Newtonian mechanics. A hardware and software guide…

  13. How Zucchini Won 5th-Grade Hearts.

    ERIC Educational Resources Information Center

    Cavaliere, Denise

    1987-01-01

    Describes an innovative gardening/nutrition education program in Tucson, Arizona, public elementary schools--Meals for Millions "Sow and Grow"--where children in kindergarten to sixth grade invest time and "tender loving cultivation" into their own school vegetable gardens and learn to like foods--zucchini--that are good for…

  14. Meeting Materials from the 5th ESA Workshop

    EPA Pesticide Factsheets

    EPA and its federal partners, Fish and Wildlife Service and National Marine Fisheries Service, held a meeting for stakeholder suggestions for refining some of the interim scientific methods used in the recently released draft.

  15. Report on the 5th International Bio-logging Symposium

    DTIC Science & Technology

    2014-09-30

    PERFORMING ORGANIZATION NAME(S) AND ADDRESS(ES) Institute multidisciplinary Hubert CURIEN (IPHC),CNRS UMR7178,23 rue du Loess ,67037 Strasbourg, France, 8...Symposium Yan Ropert-Coudert Institut Pluridisciplinaire Hubert Curien CNRS UMR7178 23 rue du Loess 67037 Strasbourg, France phone: +33(0) 3 88 10 69

  16. A Possible 5th Planet in the Kepler-89 System

    NASA Astrophysics Data System (ADS)

    Mayo, Andrew; Deck, Katherine; Knutson, Heather; Batygin, Konstantin; Christiansen, Jessie

    2017-01-01

    Kepler-89 is a system with four known, transiting planets. We investigate a large discrepancy in the mass of the Jupiter-sized Kepler-89d between previous radial velocity (RV) and transit timing variation (TTV) measurements. We model the TTV data for the system and find evidence of a fifth planet, which we call Kepler-89f, inducing high amplitude TTVs on the outer transiting planet, Kepler-89e. We model the characteristics of this hypothetical planet and investigate how its presence may affect other system parameters, including the mass of Kepler-89d. We also analyze whether future transit observations of Kepler-89e could improve the characterization of Kepler-89f. Lastly, we explore how model results differ between fitting against TTV data versus fitting against raw transit times, and whether this could also be a contributing factor to the discrepancy between RV and TTV measurements of Kepler-89d.

  17. 5th International PCB Workshop--summary and implications.

    PubMed

    Birnbaum, L S; Staskal-Wikoff, D S

    2010-11-01

    A summation of new and novel findings presented at "The Fifth PCB Workshop: New Knowledge Gained from Old Pollutants" workshop is provided in this overview, along with discussion of data gaps and research needs in the future. Relative to the previous workshop, the scientific presentations had a decreased emphasis on toxicology; rather, more than half of the sessions dealt with environmental sources, fate and transport, or transformations. Approximately 100 presentations in the form of talks and posters were included in the workshop. The presentations were generally divided into: emissions and transport of PCBs in natural and urban settings; chiral aspects of PCB transport; metabolism and distribution; new aspects of environmental metabolism of PCBs--from microbes to plants to animals; reproduction, developmental and cardiovascular effects of PCBs; updates on Anniston--the most highly exposed PCB community in the U.S. to date; and new and novel approaches for evaluating PCB mixtures (e.g., PCB toxic equivalency factors, and TEFs)--and the implications of such for risk assessment. An overarching state-of-the-science view is important to the goal of preventing negative health consequences. Currently, there are still many roadblocks to evaluating risk associated with this large group of 209 congeners--all of which have different physiochemical properties, variable fate and transport mechanism in the environment, and a range of ability for persistence, bioaccumulation, and biological activity.

  18. PREFACE: 5th International Conference on Mechatronics (ICOM'13)

    NASA Astrophysics Data System (ADS)

    Akramin Shafie, Amir; Raisuddin Khan, Md

    2013-12-01

    The Fifth International Conference on Mechatronics (ICOM2013), took place in Kuala Lumpur Malaysia from 2-4 July 2013. The biannual conference which started in 2001 is regularly organized by Faculty of Engineering, International Islamic University Malaysia (IIUM) with the aims to serve as a platform for exchange of ideas on advances of in mechatronics and their applications as well as to foster research and worldwide collaboration. The theme for the 2013 conference was 'Mechatronics: Sustainable Development through Innovative Solutions'. The ICOM 2013 Conference consisted of Keynote Speeches (5) and oral contributions (150). The topics of the conference were: Mechatronic systems and Applications Intelligent Systems Control and Instrumentation Signal and Image Processing Machine Vision Robotics and Automation Manufacturing Mechatronics Green Mechatronics Mechatronic Education Smart Materials and Structures Active Vibration Control Computer and Information Technology MEMS and NEMS Biomechatronics and Rehabilitation Engineering Autonomous Systems Energy and Sustainability Transportation System It is our great pleasure to present this volume of IOP Conference Series: Materials Science and Engineering (MSE) to the scientific community to promote further research in these areas. We believe that this volume will be both an excellent source of scientific material in the fast evolving fields that were covered by ICOM 2013. We thank the authors for their enthusiastic and high-grade contributions. We would also like to express our gratitude to the Organizing Committee, the Institutions and Sponsors and everyone who contributed to this conference through their supports and invaluable efforts. Editors Amir A Shafie aashafie@iium.edu.my Raisuddin Khan raisuddin@iium.edu.my Mahbubur Rashid mahbub@iium.edu.my Department of Mechatronics, International Islamic University Malaysia (IIUM), Kuala Lumpur Malaysia Organizing Committee Md Raisuddin Khan Md Mozasser Rahman Shahrul Naim Sidek Muhammad Mahbubur Rashid Amir Akramin Shafie Nahrul Khair Alang Md Rasyid Rini Akmeliati Roslizar Mat Ali Hazlina Md Yusof Asan Gani Abdul Muthalif Wahju Sediono Salmiah Ahmad Iskandar Al-Thani Mahmood Yasir Mohd Mustafah Moinul Bhuiyan Zulkifli Zainal Abidin Nadzril Sulaiman Momoh J Salami Conference logos

  19. Global Positioning System, Theory and Practice, 5th Edition

    NASA Astrophysics Data System (ADS)

    Nerem, R. S.; Larson, K. M.

    The Global Positioning System (GPS) is rapidly becoming as much a part of our daily lives as the Internet, and it is now being used to navigate and locate cars, commercial and private aircraft, military vehicles, ships, spacecraft, recreational vehicles, hikers, and wildlife. In addition, GPS is becoming our primary system for precision timing and an important tool for active microwave remote sensing. Finally, in the geophysics community, GPS is the primary geodetic tool for monitoring crustal deformation.Hundreds of receivers have already been installed in areas subject to seismic and volcanic risk in the United States alone, with many more worldwide. Therefore, interest in the technical details of how the system works has rapidly increased, as evidenced by the proliferation of GPS courses in academia and professional workshops.

  20. Screening and Brief Intervention Enter Their 5th Decade

    ERIC Educational Resources Information Center

    Saitz, Richard

    2007-01-01

    About 40 years since the first controlled study, screening and brief intervention (SBI) are being disseminated into practice. But many unanswered questions remain. Studies in this special issue address what we know and don't know about alcohol and drug SBI, cost-effectiveness, patient preferences, education for clinicians, quality performance…

  1. Proceedings of the 5th Annual Users' Conference

    NASA Technical Reports Server (NTRS)

    Szczur, M. (Editor); Harris, E. (Editor)

    1985-01-01

    The Transportable Applications Executive (TAE) was conceived in 1979. It was proposed to be a general purpose software executive that could be applied in various systems. The success of this concept and of TAE was demonstrated. Topics included: TAE current status; TAE development; TAE applications; and UNIX emphasis.

  2. Proceedings of the International Betatron Symposium (5th) (Selected Articles)

    DTIC Science & Technology

    1981-04-24

    can be coherent oscillations of particles in the beam, caused by the final conductivity cf surrounding walls, and also excitation of the accelerative...about the economical utilization of the accelerated beam of particles . By the solution cf this questicn are represented two basic possibilities: the...in the nuwter of accelerated particles per pulse, tut by a question of a reduction in weight and overall sizes cf special attention it was not given

  3. Multicultural Education: Issues and Perspectives. 5th Edition, Update

    ERIC Educational Resources Information Center

    Banks, James A.; Banks, Cherry A. McGee

    2004-01-01

    With this collection of chapters by leading scholars and researchers in the field, the reader can develop the knowledge and skills needed to maximize the opportunities that diversity offers while minimizing its challenges. The reader will explore current and emerging research, concepts, debates, and teaching strategies for educating students from…

  4. Developing Language Skills in the Elementary Schools. 5th Edition.

    ERIC Educational Resources Information Center

    Greene, Harry A.; Petty, Walter T.

    This book contains 17 chapters dealing with the development of language skills at the elementary level: "The Language Arts, Language, and Linguistics,""Dialect, Grammar, and Usage: Some Considerations,""Planning for Instruction in the Language Arts,""Language Learning and Beginning Language Arts Instruction,""Instructional Attention to…

  5. The Bioelectromagnetics Society Annual Scientific Session (5th) Abstracts,

    DTIC Science & Technology

    1983-01-01

    Postow Editor-in-Chief Carl Durney Past President DIRECTORS Frank S . Barnes Engineering/Physical Sciences Richard A. TeO Engineering/Physical...Ellen O’Connor Biological/Medical Sciences Ralph J. Smiabwicz Biological/Medical Sciences F. Kristian Storm Biological/Medical Sciences Tom S ...the range 15-30*C to establish the temperature dependence for our system. The crossed-beam spectrophotometer system previously developed In this

  6. Highlights of the 5th Annual ATS Convention

    NASA Astrophysics Data System (ADS)

    Talbot, Stuart

    The convention was held in Bath, hosted by Ron Maddison. The Lord Mayor of Bath held a reception in the Roman Baths before the keynote address by Dr. Allan Chapman, The Brotherhood of Big Reflecting Telescopes: William Herschel to William Lassell. An ATS award was presented to Dr. Henry King for The History of the Telescope, as was one presented to Robert Hambleton, ATS editor. The lectures included one given by Patrick Moore, Peter Louwman, Rolf Willach, Eugene Rudd, and Ken Launie. Tours were conducted of the Science Museum London's Blythe House, the Royal Society, the Whipple Museum and the University Observatory, both at Cambridge, Wollsthorpe Manor, Issac Newton's home, the University of London Observatory at Mill Hill, and the Royal Observatory at Greenwich. Several pictures of the convention are included in the article.

  7. Books for Adult New Readers. 5th Revised Edition.

    ERIC Educational Resources Information Center

    Pursell, Frances Josephson

    This book identifies appropriate reading material for adults who read at levels through grade seven. An introduction lists criteria used for selection and discusses emphases in selection of nonfiction. To make this recommended list of 748 entries most useful to libraries, titles are arranged in a very general Dewey Decimal Classification. Each…

  8. Symbols of a cosmic order

    NASA Astrophysics Data System (ADS)

    Madjid, F. Hadi; Myers, John M.

    2016-10-01

    The world runs on networks over which signals communicate sequences of symbols, e.g. numerals. Examining both engineered and natural communications networks reveals an unsuspected order that depends on contact with an unpredictable entity. This order has three roots. The first is a proof within quantum theory that no evidence can ever determine its explanation, so that an agent choosing an explanation must do so unpredictably. The second root is the showing that clocks that step computers do not "tell time" but serve as self-adjusting symbol-handling agents that regulate "logically synchronized" motion in response to unpredictable disturbances. Such a clock-agent has a certain independence as well as the capacity to communicate via unpredictable symbols with other clock-agents and to adjust its own tick rate in response to that communication. The third root is the noticing of unpredictable symbol exchange in natural systems, including the transmission of symbols found in molecular biology. We introduce a symbol-handling agent as a role played in some cases by a person, for example a physicist who chooses an explanation of given experimental outcomes, and in other cases by some other biological entity, and in still other cases by an inanimate device, such as a computer-based detector used in physical measurements. While we forbear to try to explain the propensity of agents at all levels from cells to civilizations to form and operate networks of logically synchronized symbol-handling agents, we point to this propensity as an overlooked cosmic order, an order structured by the unpredictability ensuing from the proof. Appreciating the cosmic order leads to a conception of agency that replaces volition by unpredictability and reconceives the notion of objectivity in a way that makes a place for agency in the world as described by physics. Some specific implications for physics are outlined.

  9. Characterizing limit order prices

    NASA Astrophysics Data System (ADS)

    Withanawasam, R. M.; Whigham, P. A.; Crack, Timothy Falcon

    2013-11-01

    A computational model of a limit order book is used to study the effect of different limit order distribution offsets. Reference prices such as same side/contra side best market prices and last traded price are considered in combination with different price offset distributions. We show that when characterizing limit order prices, varying the offset distribution only produces different behavior when the reference price is the contra side best price. Irrespective of the underlying mechanisms used in computing the limit order prices, the shape of the price graph and the behavior of the average order book profile distribution are strikingly similar in all the considered reference prices/offset distributions. This implies that existing averaging methods can cancel variabilities in limit order book shape/attributes and may be misleading.

  10. DNA Sequence Determination by Hybridization: A Strategy for Efficient Large-Scale Sequencing

    NASA Astrophysics Data System (ADS)

    Drmanac, R.; Drmanac, S.; Strezoska, Z.; Paunesku, T.; Labat, I.; Zeremski, M.; Snoddy, J.; Funkhouser, W. K.; Koop, B.; Hood, L.; Crkvenjakov, R.

    1993-06-01

    The concept of sequencing by hybridization (SBH) makes use of an array of all possible n-nucleotide oligomers (n-mers) to identify n-mers present in an unknown DNA sequence. Computational approaches can then be used to assemble the complete sequence. As a validation of this concept, the sequences of three DNA fragments, 343 base pairs in length, were determined with octamer oligonucleotides. Possible applications of SBH include physical mapping (ordering) of overlapping DNA clones, sequence checking, DNA fingerprinting comparisons of normal and disease-causing genes, and the identification of DNA fragments with particular sequence motifs in complementary DNA and genomic libraries. The SBH techniques may accelerate the mapping and sequencing phases of the human genome project.

  11. DNA sequence determination by hybridization: A strategy for efficient large-scale sequencing

    SciTech Connect

    Drmanac, R.; Drmanac, S.; Strezoska, Z.; Paunesku, T.; Labat, I.; Zeremski, M.; Snoody, J.; Crkvenjakov, R. ); Funkhouser, W.K.; Koop, B.; Hood, L. )

    1993-06-11

    The concept of sequencing by hybridization (SBH) makes use of an array of all possible n-nucleotide oligomers (n-mers) to identify n-mers present in an unknown DNA sequence. Computational approaches can then be used to assemble the complete sequence. As a validation of this concept, the sequences of three DNA fragments, 343 base pairs in length, were determined with octamer oligonucleotides. Possible applications of SBH include physical mapping (ordering) of overlapping DNA clones, sequence checking, DNA fingerprinting comparisons of normal and disease-causing genes, and the identification of DNA fragments with particular sequence motifs in complementary DNA and genomic libraries. The SBH techniques may accelerate the mapping and sequencing phases of the human genome project. 22 refs., 3 figs.

  12. Multiple ordering in magnetite.

    NASA Technical Reports Server (NTRS)

    Cullen, J. R.; Callen, E. R.

    1973-01-01

    Results of a self-consistent band calculation of the ground-state energy and charge orderings based on a tight-binding scheme in magnetite are presented. They show that below a critical (about 2.2) value of the ratio of interatomic Coulomb energy to bandwidth the lowest energy state has no order. Between this critical value and 2.5, the preferred state is multiply ordered.

  13. Low autocorrelation binary sequences

    NASA Astrophysics Data System (ADS)

    Packebusch, Tom; Mertens, Stephan

    2016-04-01

    Binary sequences with minimal autocorrelations have applications in communication engineering, mathematics and computer science. In statistical physics they appear as groundstates of the Bernasconi model. Finding these sequences is a notoriously hard problem, that so far can be solved only by exhaustive search. We review recent algorithms and present a new algorithm that finds optimal sequences of length N in time O(N {1.73}N). We computed all optimal sequences for N≤slant 66 and all optimal skewsymmetric sequences for N≤slant 119.

  14. HIV Sequence Databases

    PubMed Central

    Kuiken, Carla; Korber, Bette; Shafer, Robert W.

    2008-01-01

    Two important databases are often used in HIV genetic research, the HIV Sequence Database in Los Alamos, which collects all sequences and focuses on annotation and data analysis, and the HIV RT/Protease Sequence Database in Stanford, which collects sequences associated with the development of viral resistance against anti-retroviral drugs and focuses on analysis of those sequences. The types of data and services these two databases offer, the tools they provide, and the way they are set up and operated are described in detail. PMID:12875108

  15. Composition for nucleic acid sequencing

    DOEpatents

    Korlach, Jonas; Webb, Watt W.; Levene, Michael; Turner, Stephen; Craighead, Harold G.; Foquet, Mathieu

    2008-08-26

    The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid, i.e. the activity of a nucleic acid polymerizing enzyme on the template nucleic acid molecule to be sequenced is followed in real time. The sequence is deduced by identifying which base is being incorporated into the growing complementary strand of the target nucleic acid by the catalytic activity of the nucleic acid polymerizing enzyme at each step in the sequence of base additions. A polymerase on the target nucleic acid molecule complex is provided in a position suitable to move along the target nucleic acid molecule and extend the oligonucleotide primer at an active site. A plurality of labelled types of nucleotide analogs are provided proximate to the active site, with each distinguishable type of nucleotide analog being complementary to a different nucleotide in the target nucleic acid sequence. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand at the active site, where the nucleotide analog being added is complementary to the nucleotide of the target nucleic acid at the active site. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The steps of providing labelled nucleotide analogs, polymerizing the growing nucleic acid strand, and identifying the added nucleotide analog are repeated so that the nucleic acid strand is further extended and the sequence of the target nucleic acid is determined.

  16. Complete genome sequence of Methanoculleus marisnigri type strain JR1

    SciTech Connect

    Anderson, Iain; Sieprawska-Lupa, Magdalena; Goltsman, Eugene; Lapidus, Alla L.; Copeland, A; Glavina Del Rio, Tijana; Tice, Hope; Dalin, Eileen; Barry, Kerrie; Saunders, Elizabeth H; Han, Cliff; Brettin, Tom; Detter, J. Chris; Bruce, David; Mikhailova, Natalia; Pitluck, Sam; Hauser, Loren John; Land, Miriam L; Lucas, Susan; Richardson, P M; Whitman, W. B.; Kyrpides, Nikos C

    2009-01-01

    Methanoculleus marisnigri Romesser et al. 1981 is a methanogen belonging to the order Methanomicrobiales within the archaeal phylum Euryarchaeota. The type strain, JR1, was isolated from anoxic sediments of the Black Sea. M. marisnigri is of phylogenetic interest because at the time the sequencing project began only one genome had previously been sequenced from the order Methanomicrobiales. We report here the complete genome sequence of M. marisnigri type strain JR1 and its annotation. This is part of a Joint Genome Institute 2006 Community Sequencing Program to sequence genomes of diverse Archaea.

  17. Complete genome sequence of Methanocorpusculum labreanum type strain Z

    SciTech Connect

    Anderson, Iain; Sieprawska-Lupa, Magdalena; Goltsman, Eugene; Lapidus, Alla L.; Copeland, A; Glavina Del Rio, Tijana; Tice, Hope; Dalin, Eileen; Barry, Kerrie; Pitluck, Sam; Hauser, Loren John; Land, Miriam L; Lucas, Susan; Richardson, P M; Whitman, W. B.; Kyrpides, Nikos C

    2009-01-01

    Methanocorpusculum labreanum is a methanogen belonging to the order Methanomicrobiales within the archaeal phylum Euryarchaeota. The type strain Z was isolated from surface sediments of Tar Pit Lake in the La Brea Tar Pits in Los Angeles, California. M. labreanum is of phylogenetic interest because at the time the sequencing project began only one genome had previously been sequenced from the order Methanomicrobiales. We report here the complete genome sequence of M. labreanum type strain Z and its annotation. This is part of a 2006 Joint Genome Institute Community Sequencing Program project to sequence genomes of diverse Archaea.

  18. Narcissism and birth order.

    PubMed

    Eyring, W E; Sobelman, S

    1996-04-01

    The purpose of this investigation was to clarify the relationship between birth-order position and the development of narcissism, while refining research and theory. The relationship between birth-order status and narcissism was examined with a sample of 79 undergraduate students (55 women and 24 men). These subjects were placed in one of the four following birth-order categories of firstborn, second-born, last-born, and only children. These categories were chosen given their significance in Adlerian theory. Each subject completed the Narcissistic Personality Inventory and a demographic inventory. Based on psychodynamic theory, it was hypothesized that firstborn children were expected to score highest, but statistical significance was not found for an association between narcissism and birth order. Further research is urged to investigate personality theory as it relates to parenting style and birth order.

  19. Locomotor sequence learning in visually guided walking.

    PubMed

    Choi, Julia T; Jensen, Peter; Nielsen, Jens Bo

    2016-04-01

    Voluntary limb modifications must be integrated with basic walking patterns during visually guided walking. In this study we tested whether voluntary gait modifications can become more automatic with practice. We challenged walking control by presenting visual stepping targets that instructed subjects to modify step length from one trial to the next. Our sequence learning paradigm is derived from the serial reaction-time (SRT) task that has been used in upper limb studies. Both random and ordered sequences of step lengths were used to measure sequence-specific and sequence-nonspecific learning during walking. In addition, we determined how age (i.e., healthy young adults vs. children) and biomechanical factors (i.e., walking speed) affected the rate and magnitude of locomotor sequence learning. The results showed that healthy young adults (age 24 ± 5 yr,n= 20) could learn a specific sequence of step lengths over 300 training steps. Younger children (age 6-10 yr,n= 8) had lower baseline performance, but their magnitude and rate of sequence learning were the same compared with those of older children (11-16 yr,n= 10) and healthy adults. In addition, learning capacity may be more limited at faster walking speeds. To our knowledge, this is the first study to demonstrate that spatial sequence learning can be integrated with a highly automatic task such as walking. These findings suggest that adults and children use implicit knowledge about the sequence to plan and execute leg movement during visually guided walking.

  20. The Hippocampus and Disambiguation of Overlapping Sequences

    PubMed Central

    Agster, Kara L.; Fortin, Norbert J.; Eichenbaum, Howard

    2010-01-01

    Recent models of hippocampal function emphasize its potential role in disambiguating sequences of events that compose distinct episodic memories. In this study, rats were trained to distinguish two overlapping sequences of odor choices. The capacity to disambiguate the sequences was measured by the critical odor choice after the overlapping elements of the sequences. When the sequences were presented in rapid alternation, damage to the hippocampus, produced either by infusions of the neurotoxin ibotenic acid or by radiofrequency current, produced a severe deficit, although animals with radiofrequency lesions relearned the task. When the sequences were presented spaced apart and in random order, animals with radiofrequency hippocampal lesions could perform the task. However, they failed when a memory delay was imposed before the critical choice. These findings support the hypothesis that the hippocampus is involved in representing sequences of nonspatial events, particularly when interference between the sequences is high or when animals must remember across a substantial delay preceding items in a current sequence. PMID:12097529

  1. Using SEQUEST with Theoretically Complete Sequence Databases

    NASA Astrophysics Data System (ADS)

    Sadygov, Rovshan G.

    2015-11-01

    SEQUEST has long been used to identify peptides/proteins from their tandem mass spectra and protein sequence databases. The algorithm has proven to be hugely successful for its sensitivity and specificity in identifying peptides/proteins, the sequences of which are present in the protein sequence databases. In this work, we report on work that attempts a new use for the algorithm by applying it to search a complete list of theoretically possible peptides, a de novo-like sequencing. We used freely available mass spectral data and determined a number of unique peptides as identified by SEQUEST. Using masses of these peptides and the mass accuracy of 0.001 Da, we have created a database of all theoretically possible peptide sequences corresponding to the precursor masses. We used our recently developed algorithm for determining all amino acid compositions corresponding to a mass interval, and used a lexicographic ordering to generate theoretical sequences from the compositions. The newly generated theoretical database was many-fold more complex than the original protein sequence database. We used SEQUEST to search and identify the best matches to the spectra from all theoretically possible peptide sequences. We found that SEQUEST cross-correlation score ranked the correct peptide match among the top sequence matches. The results testify to the high specificity of SEQUEST when combined with the high mass accuracy for intact peptides.

  2. Ordered fast fourier transforms on a massively parallel hypercube multiprocessor

    NASA Technical Reports Server (NTRS)

    Tong, Charles; Swarztrauber, Paul N.

    1989-01-01

    Design alternatives for ordered Fast Fourier Transformation (FFT) algorithms were examined on massively parallel hypercube multiprocessors such as the Connection Machine. Particular emphasis is placed on reducing communication which is known to dominate the overall computing time. To this end, the order and computational phases of the FFT were combined, and the sequence to processor maps that reduce communication were used. The class of ordered transforms is expanded to include any FFT in which the order of the transform is the same as that of the input sequence. Two such orderings are examined, namely, standard-order and A-order which can be implemented with equal ease on the Connection Machine where orderings are determined by geometries and priorities. If the sequence has N = 2 exp r elements and the hypercube has P = 2 exp d processors, then a standard-order FFT can be implemented with d + r/2 + 1 parallel transmissions. An A-order sequence can be transformed with 2d - r/2 parallel transmissions which is r - d + 1 fewer than the standard order. A parallel method for computing the trigonometric coefficients is presented that does not use trigonometric functions or interprocessor communication. A performance of 0.9 GFLOPS was obtained for an A-order transform on the Connection Machine.

  3. Efficient Graph Sequence Mining Using Reverse Search

    NASA Astrophysics Data System (ADS)

    Inokuchi, Akihiro; Ikuta, Hiroaki; Washio, Takashi

    The mining of frequent subgraphs from labeled graph data has been studied extensively. Furthermore, much attention has recently been paid to frequent pattern mining from graph sequences. A method, called GTRACE, has been proposed to mine frequent patterns from graph sequences under the assumption that changes in graphs are gradual. Although GTRACE mines the frequent patterns efficiently, it still needs substantial computation time to mine the patterns from graph sequences containing large graphs and long sequences. In this paper, we propose a new version of GTRACE that permits efficient mining of frequent patterns based on the principle of a reverse search. The underlying concept of the reverse search is a general scheme for designing efficient algorithms for hard enumeration problems. Our performance study shows that the proposed method is efficient and scalable for mining both long and large graph sequence patterns and is several orders of magnitude faster than the original GTRACE.

  4. ASDC Order Tools

    Atmospheric Science Data Center

    2012-04-17

    ... users to search our data holdings without logging in to the system. The user, however, must log in before ordering the data. ... Cavity Radiometer Irradiance Monitor II (ACRIM II) Total Solar Irradiance Data Global Tropospheric Experiment (GTE) data (Selected ...

  5. Court Ordered Desegregation

    ERIC Educational Resources Information Center

    Reber, Sarah J.

    2005-01-01

    The effect of the court ordered desegregation plans, on trends in segregation and white flight, are estimated. The effect of availability of school districts and other factors on the white flight across districts is also mentioned.

  6. Computer assisted multiplex sequencing

    SciTech Connect

    Church, G.M.

    1992-08-01

    The objectives of this project are automation and optimization of multiplex sequencing. This year we have integrated direct transfer electrophoresis, automated multiplex hybridizations and automated film reading and applied this toward sequencing of three contiguous E. coli cosmids. Primers for the directed dideoxy sequence walking and sequence confirmation steps were synthesized with a 15 base tag complimentary to an alkaline phosphatase conjugate. A higher throughput synthesis device is well along in testing as are new automated hybridization devices. We have developed software for automatically annotating ORFs and databases of precise termini of proteis and RNA.

  7. Quantum dots in aperiodic order

    NASA Astrophysics Data System (ADS)

    Hörnquist, Michael; Ouchterlony, Thomas

    1998-12-01

    We study numerically with a Green-function technique one-dimensional arrays of quantum dots with two different models. The arrays are ordered according to the Fibonacci, the Thue-Morse, and the Rudin-Shapiro sequences. As a comparison, results from a periodically ordered chain and also from a random chain are included. The focus is on how the conductance (calculated within the Landauer-Büttiker formalism) depends on the Fermi level. In the first model, we find that in some cases rather small systems (≈60 dots) behave in the same manner as very large systems (>16,000 dots) and this makes it possible in these cases to interpret our results for the small systems in terms of the spectral properties of the infinite systems. In particular, we find that it is possible to see some consequences of the singular continuous spectra that some of the systems possess, at least for temperatures up to 100 mK. In the second model, we study the phenomenon ohmic addition, i.e. when the resistances of the constrictions add up to the total resistance. It results that of the systems studied, it is only the Rudin-Shapiro system that has this behaviour for large structures, while the resistances of the Fibonacci and the Thue-Morse systems might reach a limiting value (as a periodic system does).

  8. Regularization in Short-Term Memory for Serial Order

    ERIC Educational Resources Information Center

    Botvinick, Matthew; Bylsma, Lauren M.

    2005-01-01

    Previous research has shown that short-term memory for serial order can be influenced by background knowledge concerning regularities of sequential structure. Specifically, it has been shown that recall is superior for sequences that fit well with familiar sequencing constraints. The authors report a corresponding effect pertaining to serial…

  9. Building Higher-Order Markov Chain Models with EXCEL

    ERIC Educational Resources Information Center

    Ching, Wai-Ki; Fung, Eric S.; Ng, Michael K.

    2004-01-01

    Categorical data sequences occur in many applications such as forecasting, data mining and bioinformatics. In this note, we present higher-order Markov chain models for modelling categorical data sequences with an efficient algorithm for solving the model parameters. The algorithm can be implemented easily in a Microsoft EXCEL worksheet. We give a…

  10. An enhanced algorithm for multiple sequence alignment of protein sequences using genetic algorithm

    PubMed Central

    Kumar, Manish

    2015-01-01

    One of the most fundamental operations in biological sequence analysis is multiple sequence alignment (MSA). The basic of multiple sequence alignment problems is to determine the most biologically plausible alignments of protein or DNA sequences. In this paper, an alignment method using genetic algorithm for multiple sequence alignment has been proposed. Two different genetic operators mainly crossover and mutation were defined and implemented with the proposed method in order to know the population evolution and quality of the sequence aligned. The proposed method is assessed with protein benchmark dataset, e.g., BALIBASE, by comparing the obtained results to those obtained with other alignment algorithms, e.g., SAGA, RBT-GA, PRRP, HMMT, SB-PIMA, CLUSTALX, CLUSTAL W, DIALIGN and PILEUP8 etc. Experiments on a wide range of data have shown that the proposed algorithm is much better (it terms of score) than previously proposed algorithms in its ability to achieve high alignment quality. PMID:27065770

  11. Arguments from Developmental Order

    PubMed Central

    Stöckle-Schobel, Richard

    2016-01-01

    In this article1, I investigate a special type of argument regarding the role of development in theorizing about psychological processes and cognitive capacities. Among the issues that developmental psychologists study, discovering the ontogenetic trajectory of mechanisms or capacities underpinning our cognitive functions ranks highly. The order in which functions are developed or capacities are acquired is a matter of debate between competing psychological theories, and also philosophical conceptions of the mind – getting the role and the significance of the different steps in this order right could be seen as an important virtue of such theories. Thus, a special kind of strategy in arguments between competing philosophical or psychological theories is using developmental order in arguing for or against a given psychological claim. In this article, I will introduce an analysis of arguments from developmental order, which come in two general types: arguments emphasizing the importance of the early cognitive processes and arguments emphasizing the late cognitive processes. I will discuss their role in one of the central tools for evaluating scientific theories, namely in making inferences to the best explanation. I will argue that appeal to developmental order is, by itself, an insufficient criterion for theory choice and has to be part of an argument based on other core explanatory or empirical virtues. I will end by proposing a more concerted study of philosophical issues concerning (cognitive) development, and I will present some topics that also pertain to a full-fledged ‘philosophy of development.’ PMID:27242648

  12. The evolutionary sequence: origin and emergences.

    PubMed

    Fox, S W

    1986-03-01

    The evolutionary sequence is being reexamined experimentally from a "Big Bang"origin to the protocell and from the emergence of protocell and variety of species to Darwin's mental power (mind) and society (The Descent of Man). A most fundamentally revisionary consequence of experiments is an emphasis on endogenous ordering. This principle, seen vividly in ordered copolymerization of amino acids, has had new impact on the theory of Darwinian evolution and has been found to apply to the entire sequence. Herein, I will discuss some problems of dealing with teaching controversial subjects.

  13. The evolutionary sequence: origin and emergences

    NASA Technical Reports Server (NTRS)

    Fox, S. W.

    1986-01-01

    The evolutionary sequence is being reexamined experimentally from a "Big Bang"origin to the protocell and from the emergence of protocell and variety of species to Darwin's mental power (mind) and society (The Descent of Man). A most fundamentally revisionary consequence of experiments is an emphasis on endogenous ordering. This principle, seen vividly in ordered copolymerization of amino acids, has had new impact on the theory of Darwinian evolution and has been found to apply to the entire sequence. Herein, I will discuss some problems of dealing with teaching controversial subjects.

  14. Sequences, Series, and Mathematica.

    ERIC Educational Resources Information Center

    Mathews, John H.

    1992-01-01

    Describes how the computer algebra system Mathematica can be used to enhance the teaching of the topics of sequences and series. Examines its capabilities to find exact, approximate, and graphically generated approximate solutions to problems from these topics and to understand proofs about sequences. (MDH)

  15. Can sequence determine function?

    PubMed Central

    Gerlt, John A; Babbitt, Patricia C

    2000-01-01

    The functional annotation of proteins identified in genome sequencing projects is based on similarities to homologs in the databases. As a result of the possible strategies for divergent evolution, homologous enzymes frequently do not catalyze the same reaction, and we conclude that assignment of function from sequence information alone should be viewed with some skepticism. PMID:11178260

  16. Lichenase and coding sequences

    DOEpatents

    Li, Xin-Liang; Ljungdahl, Lars G.; Chen, Huizhong

    2000-08-15

    The present invention provides a fungal lichenase, i.e., an endo-1,3-1,4-.beta.-D-glucanohydrolase, its coding sequence, recombinant DNA molecules comprising the lichenase coding sequences, recombinant host cells and methods for producing same. The present lichenase is from Orpinomyces PC-2.

  17. Biotools: Patenting DNA sequences

    SciTech Connect

    Yablonsky, M.D.; Hone, W.J.

    1995-07-01

    The decision, known as In re Deuel{sup 2}, rejects the PTO`s interpretation of a previous decision of the Federal Circuit and makes it more possible that a {open_quotes}nucleic acid of a particular sequence{close_quotes} - commonly known as a gene sequence - may be patentable. 15 refs.

  18. Sequences for Student Investigation

    ERIC Educational Resources Information Center

    Barton, Jeffrey; Feil, David; Lartigue, David; Mullins, Bernadette

    2004-01-01

    We describe two classes of sequences that give rise to accessible problems for undergraduate research. These problems may be understood with virtually no prerequisites and are well suited for computer-aided investigation. The first sequence is a variation of one introduced by Stephen Wolfram in connection with his study of cellular automata. The…

  19. Cosmetology: Scope and Sequence.

    ERIC Educational Resources Information Center

    Nashville - Davidson County Metropolitan Public Schools, TN.

    This scope and sequence guide, developed for a cosmetology vocational education program, represents an initial step in the development of a systemwide articulated curriculum sequence for all vocational programs within the Metropolitan Nashville Public School System. It was developed as a result of needs expressed by teachers, parents, and the…

  20. Agriculture: Scope and Sequence.

    ERIC Educational Resources Information Center

    Nashville - Davidson County Metropolitan Public Schools, TN.

    This guide, which was written as an initial step in the development of a systemwide articulated curriculum sequence for all vocational programs within the Metropolitan Nashville Public School System, outlines the suggested scope and sequence of a 3-year program in agriculture. The guide consists of a course description; general course objectives;…

  1. Concatenating familiar movement sequences: the versatile cognitive processor.

    PubMed

    Verwey, W B

    2001-01-01

    Earlier studies demonstrated that practicing a series of key presses in a fixed order yields memory representations (i.e., motor chunks) that can be selected and used for sequence execution as if familiar key pressing sequences are single responses. In order to examine whether these motor chunks are robust in different situations and whether preparation for one sequence may overlap with execution of another one, two experiments were carried out in which participants executed two highly practiced keying sequences in rapid succession in response to two simultaneously presented stimuli. The results confirmed robustness of motor chunks, even when the sequences included only two elements, and showed that preparation (and in particular, selection) of a forthcoming sequence may occur during execution of the earlier sequence. Sequences including only two keys appeared to be slowed more by concurrent preparation than longer sequences. Together these results suggest that the execution of familiar keying sequences is predominantly carried out by a dedicated motor processor, and that the cognitive processor can be allocated to preparing a forthcoming sequence (e.g., during execution of an earlier sequence) or, some times, to selecting individual sequence elements in parallel to the motor processor.

  2. High-order local maximum principle preserving (MPP) discontinuous Galerkin finite element method for the transport equation

    NASA Astrophysics Data System (ADS)

    Anderson, R.; Dobrev, V.; Kolev, Tz.; Kuzmin, D.; Quezada de Luna, M.; Rieben, R.; Tomov, V.

    2017-04-01

    In this work we present a FCT-like Maximum-Principle Preserving (MPP) method to solve the transport equation. We use high-order polynomial spaces; in particular, we consider up to 5th order spaces in two and three dimensions and 23rd order spaces in one dimension. The method combines the concepts of positive basis functions for discontinuous Galerkin finite element spatial discretization, locally defined solution bounds, element-based flux correction, and non-linear local mass redistribution. We consider a simple 1D problem with non-smooth initial data to explain and understand the behavior of different parts of the method. Convergence tests in space indicate that high-order accuracy is achieved. Numerical results from several benchmarks in two and three dimensions are also reported.

  3. Concomitant Ordering and Symmetry Lowering

    ERIC Educational Resources Information Center

    Boo, William O. J.; Mattern, Daniell L.

    2008-01-01

    Examples of concomitant ordering include magnetic ordering, Jahn-Teller cooperative ordering, electronic ordering, ionic ordering, and ordering of partially-filled sites. Concomitant ordering sets in when a crystal is cooled and always lowers the degree of symmetry of the crystal. Concomitant ordering concepts can also be productively applied to…

  4. Spatially ordered treemaps.

    PubMed

    Wood, Jo; Dykes, Jason

    2008-01-01

    Existing treemap layout algorithms suffer to some extent from poor or inconsistent mappings between data order and visual ordering in their representation, reducing their cognitive plausibility. While attempts have been made to quantify this mismatch, and algorithms proposed to minimize inconsistency, solutions provided tend to concentrate on one-dimensional ordering. We propose extensions to the existing squarified layout algorithm that exploit the two-dimensional arrangement of treemap nodes more effectively. Our proposed spatial squarified layout algorithm provides a more consistent arrangement of nodes while maintaining low aspect ratios. It is suitable for the arrangement of data with a geographic component and can be used to create tessellated cartograms for geovisualization. Locational consistency is measured and visualized and a number of layout algorithms are compared. CIELab color space and displacement vector overlays are used to assess and emphasize the spatial layout of treemap nodes. A case study involving locations of tagged photographs in the Flickr database is described.

  5. Sequencing the maize genome.

    PubMed

    Martienssen, Robert A; Rabinowicz, Pablo D; O'Shaughnessy, Andrew; McCombie, W Richard

    2004-04-01

    Sequencing of complex genomes can be accomplished by enriching shotgun libraries for genes. In maize, gene-enrichment by copy-number normalization (high C(0)t) and methylation filtration (MF) have been used to generate up to two-fold coverage of the gene-space with less than 1 million sequencing reads. Simulations using sequenced bacterial artificial chromosome (BAC) clones predict that 5x coverage of gene-rich regions, accompanied by less than 1x coverage of subclones from BAC contigs, will generate high-quality mapped sequence that meets the needs of geneticists while accommodating unusually high levels of structural polymorphism. By sequencing several inbred strains, we propose a strategy for capturing this polymorphism to investigate hybrid vigor or heterosis.

  6. Sequence History Update Tool

    NASA Technical Reports Server (NTRS)

    Khanampompan, Teerapat; Gladden, Roy; Fisher, Forest; DelGuercio, Chris

    2008-01-01

    The Sequence History Update Tool performs Web-based sequence statistics archiving for Mars Reconnaissance Orbiter (MRO). Using a single UNIX command, the software takes advantage of sequencing conventions to automatically extract the needed statistics from multiple files. This information is then used to populate a PHP database, which is then seamlessly formatted into a dynamic Web page. This tool replaces a previous tedious and error-prone process of manually editing HTML code to construct a Web-based table. Because the tool manages all of the statistics gathering and file delivery to and from multiple data sources spread across multiple servers, there is also a considerable time and effort savings. With the use of The Sequence History Update Tool what previously took minutes is now done in less than 30 seconds, and now provides a more accurate archival record of the sequence commanding for MRO.

  7. Mobile physician order entry.

    PubMed

    Ying, Alan

    2003-01-01

    Because both computerized physician order entry (CPOE) systems and mobile technologies such as handheld devices have the potential to greatly impact the industry's future, IT vendors, hospitals, and clinicians are simply merging them into a logical convergence--"CPOE on a handheld"--with an expectation of full functionality on all platforms: computer workstations, rolling laptops, tablet PCs, and handheld devices. For these trends to succeed together, however, this expectation must be revised to establish a distinct category--mobile physician order entry (MPOE)--that is different from CPOE in form, function, and implementation.

  8. Ordered transport and identification of particles

    DOEpatents

    Shera, E.B.

    1993-05-11

    A method and apparatus are provided for application of electrical field gradients to induce particle velocities to enable particle sequence and identification information to be obtained. Particle sequence is maintained by providing electroosmotic flow for an electrolytic solution in a particle transport tube. The transport tube and electrolytic solution are selected to provide an electroosmotic radius of >100 so that a plug flow profile is obtained for the electrolytic solution in the transport tube. Thus, particles are maintained in the same order in which they are introduced in the transport tube. When the particles also have known electrophoretic velocities, the field gradients introduce an electrophoretic velocity component onto the electroosmotic velocity. The time that the particles pass selected locations along the transport tube may then be detected and the electrophoretic velocity component calculated for particle identification. One particular application is the ordered transport and identification of labeled nucleotides sequentially cleaved from a strand of DNA.

  9. Ordered transport and identification of particles

    DOEpatents

    Shera, E. Brooks

    1993-01-01

    A method and apparatus are provided for application of electrical field gradients to induce particle velocities to enable particle sequence and identification information to be obtained. Particle sequence is maintained by providing electroosmotic flow for an electrolytic solution in a particle transport tube. The transport tube and electrolytic solution are selected to provide an electroosmotic radius of >100 so that a plug flow profile is obtained for the electrolytic solution in the transport tube. Thus, particles are maintained in the same order in which they are introduced in the transport tube. When the particles also have known electrophoretic velocities, the field gradients introduce an electrophoretic velocity component onto the electroosmotic velocity. The time that the particles pass selected locations along the transport tube may then be detected and the electrophoretic velocity component calculated for particle identification. One particular application is the ordered transport and identification of labeled nucleotides sequentially cleaved from a strand of DNA.

  10. Court-ordered caesareans.

    PubMed

    Prochaska, Elizabeth; Lomri, Sara

    2014-11-01

    Court-ordered caesarean sections are in the news after a number of recent legal decisions authorising surgery for women who lack mental capacity to consent. The decisions have not always been based on good evidence and they raise serious concerns about the protection of the rights of mentally ill women. The authors explain the legal process and question the wisdom of recent judgements.

  11. Land and World Order.

    ERIC Educational Resources Information Center

    Mische, Patricia, Ed.; And Others

    1982-01-01

    The papers in this publication discuss the land and how what happens to the land affects us. The publication is one in a series of monographs that examine the linkages between local and global concerns and explore alternative world futures. Examples of topics discussed in the papers follow. The paper "Land and World Order" examines…

  12. Education and World Order

    ERIC Educational Resources Information Center

    Jones, Phillip W.

    2007-01-01

    The impact on educational analysis of mainstream international relations (IR) theories is yet to realize its full potential. The problem of education in relation to the construction of world order is considered in relation to core developments in IR theory since the Second World War. In particular, the global architecture of education is seen as a…

  13. Birth Order Debate Resolved?

    ERIC Educational Resources Information Center

    Zajonc, R. B.

    2001-01-01

    Critiques Rodgers et al.'s June 2000 research on the relation between birth order and intelligence, which suggests that it is a methodological illusion. Explains how the intellectual environment and the teaching function (whereby older children tutor younger ones) contribute to the growth of intellectual maturity, the first negatively and the…

  14. The Birth Order Puzzle.

    ERIC Educational Resources Information Center

    Zajonc, R. B.; And Others

    1979-01-01

    Discusses the controversy of the relationship between birth order and intellectual performance through a detailed evaluation of the confluence model which assumes that the rate of intellectual growth is a function of the intellectual environment within the family and associated with the special circumstances of last children. (CM)

  15. Pansedik: Ordering Creative Chaos.

    ERIC Educational Resources Information Center

    Austin, Barbara L.

    1998-01-01

    Presents a case study for use in business communication classes to help students understand and learn both the context and the strategies for communication with business and management. Deals with a new human resource director's attempt to bring order to an organization and software developers' concerns over their work being hindered. Includes two…

  16. Order Division Automated System.

    ERIC Educational Resources Information Center

    Kniemeyer, Justin M.; And Others

    This publication was prepared by the Order Division Automation Project staff to fulfill the Library of Congress' requirement to document all automation efforts. The report was originally intended for internal use only and not for distribution outside the Library. It is now felt that the library community at-large may have an interest in the…

  17. Order Lepidoptera Linnaeus, 1758.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Based on two recent molecular analyses, augmented by the discovery of several published or unpublished novel morphological synapomorphies, a new classification is proposed for the order Lepidoptera. The new classification is more consistent with our growing knowledge of the phylogeny of the group an...

  18. Order, topology and preference

    NASA Technical Reports Server (NTRS)

    Sertel, M. R.

    1971-01-01

    Some standard order-related and topological notions, facts, and methods are brought to bear on central topics in the theory of preference and the theory of optimization. Consequences of connectivity are considered, especially from the viewpoint of normally preordered spaces. Examples are given showing how the theory of preference, or utility theory, can be applied to social analysis.

  19. Second order Horner's syndrome in a cat.

    PubMed

    De Risio, Luisa; Fraser McConnell, James

    2009-08-01

    This case report describes the clinical and magnetic resonance imaging (MRI) findings of a 3.5-year-old, male neutered, domestic shorthair cat with second order Horner's syndrome as the only clinical abnormality. The neuroanatomical pathway of the sympathetic innervation to the eye, differential diagnoses for Horner's syndrome in cats, and the interpretation of pharmacological testing are reviewed. The unusual MRI findings and the value of fat-suppressed MRI sequences are discussed.

  20. Next-Generation Sequencing.

    PubMed

    Le Gallo, Matthieu; Lozy, Fred; Bell, Daphne W

    2017-01-01

    Endometrial cancers are the most frequently diagnosed gynecological malignancy and were expected to be the seventh leading cause of cancer death among American women in 2015. The majority of endometrial cancers are of serous or endometrioid histology. Most human tumors, including endometrial tumors, are driven by the acquisition of pathogenic mutations in cancer genes. Thus, the identification of somatic mutations within tumor genomes is an entry point toward cancer gene discovery. However, efforts to pinpoint somatic mutations in human cancers have, until recently, relied on high-throughput sequencing of single genes or gene families using Sanger sequencing. Although this approach has been fruitful, the cost and throughput of Sanger sequencing generally prohibits systematic sequencing of the ~22,000 genes that make up the exome. The recent development of next-generation sequencing technologies changed this paradigm by providing the capability to rapidly sequence exomes, transcriptomes, and genomes at relatively low cost. Remarkably, the application of this technology to catalog the mutational landscapes of endometrial tumor exomes, transcriptomes, and genomes has revealed, for the first time, that serous and endometrioid endometrial cancers can be classified into four distinct molecular subgroups. In this chapter, we overview the characteristic genomic features of each subgroup and discuss the known and putative cancer genes that have emerged from next-generation sequencing of endometrial carcinomas.

  1. HIV Sequence Compendium 2015

    SciTech Connect

    Foley, Brian Thomas; Leitner, Thomas Kenneth; Apetrei, Cristian; Hahn, Beatrice; Mizrachi, Ilene; Mullins, James; Rambaut, Andrew; Wolinsky, Steven; Korber, Bette Tina Marie

    2015-10-05

    This compendium is an annual printed summary of the data contained in the HIV sequence database. We try to present a judicious selection of the data in such a way that it is of maximum utility to HIV researchers. Each of the alignments attempts to display the genetic variability within the different species, groups and subtypes of the virus. This compendium contains sequences published before January 1, 2015. Hence, though it is published in 2015 and called the 2015 Compendium, its contents correspond to the 2014 curated alignments on our website. The number of sequences in the HIV database is still increasing. In total, at the end of 2014, there were 624,121 sequences in the HIV Sequence Database, an increase of 7% since the previous year. This is the first year that the number of new sequences added to the database has decreased compared to the previous year. The number of near complete genomes (>7000 nucleotides) increased to 5834 by end of 2014. However, as in previous years, the compendium alignments contain only a fraction of these. A more complete version of all alignments is available on our website, http://www.hiv.lanl.gov/ content/sequence/NEWALIGN/align.html As always, we are open to complaints and suggestions for improvement. Inquiries and comments regarding the compendium should be addressed to seq-info@lanl.gov.

  2. Personalized Course Sequence Recommendations

    NASA Astrophysics Data System (ADS)

    Xu, Jie; Xing, Tianwei; van der Schaar, Mihaela

    2016-10-01

    Given the variability in student learning it is becoming increasingly important to tailor courses as well as course sequences to student needs. This paper presents a systematic methodology for offering personalized course sequence recommendations to students. First, a forward-search backward-induction algorithm is developed that can optimally select course sequences to decrease the time required for a student to graduate. The algorithm accounts for prerequisite requirements (typically present in higher level education) and course availability. Second, using the tools of multi-armed bandits, an algorithm is developed that can optimally recommend a course sequence that both reduces the time to graduate while also increasing the overall GPA of the student. The algorithm dynamically learns how students with different contextual backgrounds perform for given course sequences and then recommends an optimal course sequence for new students. Using real-world student data from the UCLA Mechanical and Aerospace Engineering department, we illustrate how the proposed algorithms outperform other methods that do not include student contextual information when making course sequence recommendations.

  3. Phylogenetic Trees From Sequences

    NASA Astrophysics Data System (ADS)

    Ryvkin, Paul; Wang, Li-San

    In this chapter, we review important concepts and approaches for phylogeny reconstruction from sequence data.We first cover some basic definitions and properties of phylogenetics, and briefly explain how scientists model sequence evolution and measure sequence divergence. We then discuss three major approaches for phylogenetic reconstruction: distance-based phylogenetic reconstruction, maximum parsimony, and maximum likelihood. In the third part of the chapter, we review how multiple phylogenies are compared by consensus methods and how to assess confidence using bootstrapping. At the end of the chapter are two sections that list popular software packages and additional reading.

  4. Automatic Command Sequence Generation

    NASA Technical Reports Server (NTRS)

    Fisher, Forest; Gladded, Roy; Khanampompan, Teerapat

    2007-01-01

    Automatic Sequence Generator (Autogen) Version 3.0 software automatically generates command sequences for the Mars Reconnaissance Orbiter (MRO) and several other JPL spacecraft operated by the multi-mission support team. Autogen uses standard JPL sequencing tools like APGEN, ASP, SEQGEN, and the DOM database to automate the generation of uplink command products, Spacecraft Command Message Format (SCMF) files, and the corresponding ground command products, DSN Keywords Files (DKF). Autogen supports all the major multi-mission mission phases including the cruise, aerobraking, mapping/science, and relay mission phases. Autogen is a Perl script, which functions within the mission operations UNIX environment. It consists of two parts: a set of model files and the autogen Perl script. Autogen encodes the behaviors of the system into a model and encodes algorithms for context sensitive customizations of the modeled behaviors. The model includes knowledge of different mission phases and how the resultant command products must differ for these phases. The executable software portion of Autogen, automates the setup and use of APGEN for constructing a spacecraft activity sequence file (SASF). The setup includes file retrieval through the DOM (Distributed Object Manager), an object database used to store project files. This step retrieves all the needed input files for generating the command products. Depending on the mission phase, Autogen also uses the ASP (Automated Sequence Processor) and SEQGEN to generate the command product sent to the spacecraft. Autogen also provides the means for customizing sequences through the use of configuration files. By automating the majority of the sequencing generation process, Autogen eliminates many sequence generation errors commonly introduced by manually constructing spacecraft command sequences. Through the layering of commands into the sequence by a series of scheduling algorithms, users are able to rapidly and reliably construct the

  5. Toward nanoscale genome sequencing.

    PubMed

    Ryan, Declan; Rahimi, Maryam; Lund, John; Mehta, Ranjana; Parviz, Babak A

    2007-09-01

    This article reports on the state-of-the-art technologies that sequence DNA using miniaturized devices. The article considers the miniaturization of existing technologies for sequencing DNA and the opportunities for cost reduction that 'on-chip' devices can deliver. The ability to construct nano-scale structures and perform measurements using novel nano-scale effects has provided new opportunities to identify nucleotides directly using physical, and not chemical, methods. The challenges that these technologies need to overcome to provide a US$1000-genome sequencing technology are also presented.

  6. Detection of small target using recursive higher order statistics

    NASA Astrophysics Data System (ADS)

    Hou, Wang; Sun, Hongyuan; Lei, Zhihui

    2014-02-01

    In this paper, a recursive higher order statistics algorithm is proposed for small target detection in temporal domain. Firstly, the background of image sequence is normalized. Then, the higher order statistics are recursively solved in image sequence to obtain the feature image. Finally, the feature image is segmented with threshold to detect the small target. To validate the algorithm proposed in this paper, five simulated and one semi-simulation image sequences are created. The ROC curves are employed for evaluation of experimental results. Experiment results show that our method is very effective for small target detection.

  7. Sequence composition and genome organization of maize

    PubMed Central

    Messing, Joachim; Bharti, Arvind K.; Karlowski, Wojciech M.; Gundlach, Heidrun; Kim, Hye Ran; Yu, Yeisoo; Wei, Fusheng; Fuks, Galina; Soderlund, Carol A.; Mayer, Klaus F. X.; Wing, Rod A.

    2004-01-01

    Zea mays L. ssp. mays, or corn, one of the most important crops and a model for plant genetics, has a genome ≈80% the size of the human genome. To gain global insight into the organization of its genome, we have sequenced the ends of large insert clones, yielding a cumulative length of one-eighth of the genome with a DNA sequence read every 6.2 kb, thereby describing a large percentage of the genes and transposable elements of maize in an unbiased approach. Based on the accumulative 307 Mb of sequence, repeat sequences occupy 58% and genic regions occupy 7.5%. A conservative estimate predicts ≈59,000 genes, which is higher than in any other organism sequenced so far. Because the sequences are derived from bacterial artificial chromosome clones, which are ordered in overlapping bins, tagged genes are also ordered along continuous chromosomal segments. Based on this positional information, roughly one-third of the genes appear to consist of tandemly arrayed gene families. Although the ancestor of maize arose by tetraploidization, fewer than half of the genes appear to be present in two orthologous copies, indicating that the maize genome has undergone significant gene loss since the duplication event. PMID:15388850

  8. A Unified Theoretical Framework for Cognitive Sequencing

    PubMed Central

    Savalia, Tejas; Shukla, Anuj; Bapi, Raju S.

    2016-01-01

    The capacity to sequence information is central to human performance. Sequencing ability forms the foundation stone for higher order cognition related to language and goal-directed planning. Information related to the order of items, their timing, chunking and hierarchical organization are important aspects in sequencing. Past research on sequencing has emphasized two distinct and independent dichotomies: implicit vs. explicit and goal-directed vs. habits. We propose a theoretical framework unifying these two streams. Our proposal relies on brain's ability to implicitly extract statistical regularities from the stream of stimuli and with attentional engagement organizing sequences explicitly and hierarchically. Similarly, sequences that need to be assembled purposively to accomplish a goal require engagement of attentional processes. With repetition, these goal-directed plans become habits with concomitant disengagement of attention. Thus, attention and awareness play a crucial role in the implicit-to-explicit transition as well as in how goal-directed plans become automatic habits. Cortico-subcortical loops basal ganglia-frontal cortex and hippocampus-frontal cortex loops mediate the transition process. We show how the computational principles of model-free and model-based learning paradigms, along with a pivotal role for attention and awareness, offer a unifying framework for these two dichotomies. Based on this framework, we make testable predictions related to the potential influence of response-to-stimulus interval (RSI) on developing awareness in implicit learning tasks. PMID:27917146

  9. DNA sequences encoding osteoinductive products

    SciTech Connect

    Wang, E.A.; Wozney, J.M.; Rosen, V.

    1991-05-07

    This patent describes an isolated DNA sequence encoding an osteoinductive protein the DNA sequence comprising a coding sequence. It comprises: nucleotide No.1 through nucleotide No.387, nucleotide No.356 through nucleotide No.1543, nucleotide $402 through nucleotide No.1626, naturally occurring allelic sequences and equivalent degenerative codon sequences and sequences which hybridize to any of sequences under stringent hybridization conditions; and encode a protein characterized by the ability to induce the formation of bone and/or cartilage.

  10. Reduced Order Podolsky Model

    NASA Astrophysics Data System (ADS)

    Thibes, Ronaldo

    2017-02-01

    We perform the canonical and path integral quantizations of a lower-order derivatives model describing Podolsky's generalized electrodynamics. The physical content of the model shows an auxiliary massive vector field coupled to the usual electromagnetic field. The equivalence with Podolsky's original model is studied at classical and quantum levels. Concerning the dynamical time evolution, we obtain a theory with two first-class and two second-class constraints in phase space. We calculate explicitly the corresponding Dirac brackets involving both vector fields. We use the Senjanovic procedure to implement the second-class constraints and the Batalin-Fradkin-Vilkovisky path integral quantization scheme to deal with the symmetries generated by the first-class constraints. The physical interpretation of the results turns out to be simpler due to the reduced derivatives order permeating the equations of motion, Dirac brackets and effective action.

  11. Hierarchical partial order ranking.

    PubMed

    Carlsen, Lars

    2008-09-01

    Assessing the potential impact on environmental and human health from the production and use of chemicals or from polluted sites involves a multi-criteria evaluation scheme. A priori several parameters are to address, e.g., production tonnage, specific release scenarios, geographical and site-specific factors in addition to various substance dependent parameters. Further socio-economic factors may be taken into consideration. The number of parameters to be included may well appear to be prohibitive for developing a sensible model. The study introduces hierarchical partial order ranking (HPOR) that remedies this problem. By HPOR the original parameters are initially grouped based on their mutual connection and a set of meta-descriptors is derived representing the ranking corresponding to the single groups of descriptors, respectively. A second partial order ranking is carried out based on the meta-descriptors, the final ranking being disclosed though average ranks. An illustrative example on the prioritization of polluted sites is given.

  12. Second order gauge theory

    SciTech Connect

    Cuzinatto, R.R. . E-mail: rodrigo@ift.unesp.br; Melo, C.A.M. de . E-mail: cassius.anderson@gmail.com; Pompeia, P.J. . E-mail: pompeia@ift.unesp.br

    2007-05-15

    A gauge theory of second order in the derivatives of the auxiliary field is constructed following Utiyama's program. A novel field strength G = {partial_derivative}F + fAF arises besides the one of the first order treatment, F = {partial_derivative}A - {partial_derivative}A + fAA. The associated conserved current is obtained. It has a new feature: topological terms are determined from local invariance requirements. Podolsky Generalized Eletrodynamics is derived as a particular case in which the Lagrangian of the gauge field is L {sub P} {proportional_to} G {sup 2}. In this application the photon mass is estimated. The SU (N) infrared regime is analysed by means of Alekseev-Arbuzov-Baikov's Lagrangian.

  13. Magnetic order in ?

    NASA Astrophysics Data System (ADS)

    Crook, M. R.; Coles, B. R.; Ritter, C.; Cywinski, R.

    1996-10-01

    Neutron powder diffraction has been used to study the evolution of magnetic order with increasing Zr substitution in the C14 Laves phase compounds 0953-8984/8/41/022/img8. For compounds with x = 0.3 and x = 0.4 we find a simple antiferromagnetic structure, similar to that reported for isostructural 0953-8984/8/41/022/img9. In this structure the Fe moments at the 6h sites are aligned along the c-axis, ferromagnetically coupled within the a - b plane, with adjacent planes antiferromagnetically coupled. This spin structure results in a cancellation of the molecular field at the interplanar 2a sites, and the Fe atoms at these sites carry no ordered moment. The neutron diffraction measurements on 0953-8984/8/41/022/img10 compounds in the composition range 0953-8984/8/41/022/img11 provide evidence of a low-temperature spin-canted structure in which the antiferromagnetic structure described above is modified by the appearance of a basal-plane ferromagnetic component which in turn leads to a small ordered Fe moment at the 2a site. The temperature dependence of the staggered magnetization in the antiferromagnetic state of the x = 0.4 compounds is found to closely follow the form 0953-8984/8/41/022/img12, as predicted for weak itinerant antiferromagnets by SCR spin-fluctuation theory.

  14. Competing Orders and Anomalies

    PubMed Central

    Moon, Eun-Gook

    2016-01-01

    A conservation law is one of the most fundamental properties in nature, but a certain class of conservation “laws” could be spoiled by intrinsic quantum mechanical effects, so-called quantum anomalies. Profound properties of the anomalies have deepened our understanding in quantum many body systems. Here, we investigate quantum anomaly effects in quantum phase transitions between competing orders and striking consequences of their presence. We explicitly calculate topological nature of anomalies of non-linear sigma models (NLSMs) with the Wess-Zumino-Witten (WZW) terms. The non-perturbative nature is directly related with the ’t Hooft anomaly matching condition: anomalies are conserved in renormalization group flow. By applying the matching condition, we show massless excitations are enforced by the anomalies in a whole phase diagram in sharp contrast to the case of the Landau-Ginzburg-Wilson theory which only has massive excitations in symmetric phases. Furthermore, we find non-perturbative criteria to characterize quantum phase transitions between competing orders. For example, in 4D, we show the two competing order parameter theories, CP(1) and the NLSM with WZW, describe different universality class. Physical realizations and experimental implication of the anomalies are also discussed. PMID:27499184

  15. Competing Orders and Anomalies

    NASA Astrophysics Data System (ADS)

    Moon, Eun-Gook

    2016-08-01

    A conservation law is one of the most fundamental properties in nature, but a certain class of conservation “laws” could be spoiled by intrinsic quantum mechanical effects, so-called quantum anomalies. Profound properties of the anomalies have deepened our understanding in quantum many body systems. Here, we investigate quantum anomaly effects in quantum phase transitions between competing orders and striking consequences of their presence. We explicitly calculate topological nature of anomalies of non-linear sigma models (NLSMs) with the Wess-Zumino-Witten (WZW) terms. The non-perturbative nature is directly related with the ’t Hooft anomaly matching condition: anomalies are conserved in renormalization group flow. By applying the matching condition, we show massless excitations are enforced by the anomalies in a whole phase diagram in sharp contrast to the case of the Landau-Ginzburg-Wilson theory which only has massive excitations in symmetric phases. Furthermore, we find non-perturbative criteria to characterize quantum phase transitions between competing orders. For example, in 4D, we show the two competing order parameter theories, CP(1) and the NLSM with WZW, describe different universality class. Physical realizations and experimental implication of the anomalies are also discussed.

  16. Competing Orders and Anomalies.

    PubMed

    Moon, Eun-Gook

    2016-08-08

    A conservation law is one of the most fundamental properties in nature, but a certain class of conservation "laws" could be spoiled by intrinsic quantum mechanical effects, so-called quantum anomalies. Profound properties of the anomalies have deepened our understanding in quantum many body systems. Here, we investigate quantum anomaly effects in quantum phase transitions between competing orders and striking consequences of their presence. We explicitly calculate topological nature of anomalies of non-linear sigma models (NLSMs) with the Wess-Zumino-Witten (WZW) terms. The non-perturbative nature is directly related with the 't Hooft anomaly matching condition: anomalies are conserved in renormalization group flow. By applying the matching condition, we show massless excitations are enforced by the anomalies in a whole phase diagram in sharp contrast to the case of the Landau-Ginzburg-Wilson theory which only has massive excitations in symmetric phases. Furthermore, we find non-perturbative criteria to characterize quantum phase transitions between competing orders. For example, in 4D, we show the two competing order parameter theories, CP(1) and the NLSM with WZW, describe different universality class. Physical realizations and experimental implication of the anomalies are also discussed.

  17. Fauna Europaea - Orthopteroid orders.

    PubMed

    Heller, Klaus-Gerhard; Bohn, Horst; Haas, Fabian; Willemse, Fer; de Jong, Yde

    2016-01-01

    Fauna Europaea provides a public web-service with an index of scientific names (including important synonyms) of all extant European terrestrial and freshwater animals, their geographical distribution at the level of countries and major islands (west of the Urals and excluding the Caucasus region), and some additional information. The Fauna Europaea project comprises about 230,000 taxonomic names, including 130,000 accepted species and 14,000 accepted subspecies, which is much more than the originally projected number of 100,000 species. Fauna Europaea represents a huge effort by more than 400 contributing specialists throughout Europe and is a unique (standard) reference suitable for many users in science, government, industry, nature conservation and education. The "Orthopteroid orders" is one of the 58 Fauna Europaea major taxonomic groups. It contains series of mostly well-known insect orders: Embiodea (webspinners), Dermaptera (earwigs), Phasmatodea (walking sticks), Orthoptera s.s. (grasshoppers, crickets, bush-crickets) and Dictyoptera with the suborders Mantodea (mantids), Blattaria (cockroaches) and Isoptera (termites). For the Orthopteroid orders, data from 35 families containing 1,371 species are included in this paper.

  18. Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae

    SciTech Connect

    Scheuner, Carmen; Tindall, Brian J.; Lu, Megan; Nolan, Matt; Lapidus, Alla L.; Cheng, Jan-Fang; Goodwin, Lynne A.; Pitluck, Sam; Huntemann, Marcel; Liolios, Konstantinos; Pagani, Ioanna; Mavromatis, Konstantinos; Ivanova, Natalia; Pati, Amrita; Chen, Amy; Palaniappan, Krishna; Jeffries, Cynthia D.; Hauser, Loren John; Land, Miriam L.; Mwirichia, Romano; Rohde, Manfred; Abt, Birte; Detter, John Chris; Woyke, Tanja; Eisen, Jonathan A.; Markowitz, Victor; Hugenholtz, Philip; Goker, Markus; Kyrpides, Nikos C.; Klenk, Hans-Peter

    2014-12-08

    Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather than a peptidoglycan layer. The first strains of P. brasiliensis, including the type strain IFAM 1448 T, were isolated from a water sample of Lagoa Vermelha, a salt pit near Rio de Janeiro, Brasil. This is the second completed genome sequence of a type strain of the genus Planctomyces to be published and the sixth type strain genome sequence from the family Planctomycetaceae. The 6,006,602 bp long genome with its 4,811 protein-coding and 54 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project. We study phylogenomic analyses that indicate that the classification within the Planctomycetaceae is partially in conflict with its evolutionary history, as the positioning of Schlesneria renders the genus Planctomyces paraphyletic. A re-analysis of published fatty-acid measurements also does not support the current arrangement of the two genera. A quantitative comparison of phylogenetic and phenotypic aspects indicates that the three Planctomyces species with type strains available in public culture collections should be placed in separate genera. Thus the genera Gimesia, Planctopirus and Rubinisphaera are proposed to accommodate P. maris, P. limnophilus and P. brasiliensis, respectively. Pronounced differences between the reported G + C content of Gemmata obscuriglobus, Singulisphaera acidiphila and Zavarzinella formosa and G + C content calculated from their genome sequences call for emendation of their species descriptions. Lastly, in addition to other features, the range of G + C values reported for

  19. Compact rotary sequencer

    NASA Technical Reports Server (NTRS)

    Appleberry, W. T.

    1980-01-01

    Rotary sequencer is assembled from conventional planetary differential gearset and latching mechanism utilizing inputs and outputs which are coaxial. Applications include automated production-line equipment in home appliances and in vehicles.

  20. Authentication of byte sequences

    SciTech Connect

    Stearns, S.D.

    1991-06-01

    Algorithms for the authentication of byte sequences are described. The algorithms are designed to authenticate data in the Storage, Retrieval, Analysis, and Display (SRAD) Test Data Archive of the Radiation Effects and Testing Directorate (9100) at Sandia National Laboratories, and may be used in similar situations where authentication of stored data is required. The algorithms use a well-known error detection method called the Cyclic Redundancy Check (CRC). When a byte sequence is authenticated and stored, CRC bytes are generated and attached to the end of the sequence. When the authenticated data is retrieved, the authentication check consists of processing the entire sequence, including the CRC bytes, and checking for a remainder of zero. The error detection properties of the CRC are extensive and result in a reliable authentication of SRAD data.

  1. Advances in sequence analysis.

    PubMed

    Califano, A

    2001-06-01

    In its early days, the entire field of computational biology revolved almost entirely around biological sequence analysis. Over the past few years, however, a number of new non-sequence-based areas of investigation have become mainstream, from the analysis of gene expression data from microarrays, to whole-genome association discovery, and to the reverse engineering of gene regulatory pathways. Nonetheless, with the completion of private and public efforts to map the human genome, as well as those of other organisms, sequence data continue to be a veritable mother lode of valuable biological information that can be mined in a variety of contexts. Furthermore, the integration of sequence data with a variety of alternative information is providing valuable and fundamentally new insight into biological processes, as well as an array of new computational methodologies for the analysis of biological data.

  2. Non-contiguous finished genome sequence of Bacteroides coprosuis type strain (PC 139T)

    SciTech Connect

    Land, Miriam L; Held, Brittany; Gronow, Sabine; Abt, Birte; Lucas, Susan; Glavina Del Rio, Tijana; Nolan, Matt; Tice, Hope; Cheng, Jan-Fang; Pitluck, Sam; Liolios, Konstantinos; Pagani, Ioanna; Ivanova, N; Mavromatis, K; Pati, Amrita; Tapia, Roxanne; Han, Cliff; Goodwin, Lynne A.; Chen, Amy; Palaniappan, Krishna; Hauser, Loren John; Brambilla, Evelyne-Marie; Rohde, Manfred; Goker, Markus; Detter, J. Chris; Woyke, Tanja; Bristow, James; Eisen, Jonathan; Markowitz, Victor; Hugenholtz, Philip; Kyrpides, Nikos C; Klenk, Hans-Peter; Lapidus, Alla L.

    2011-01-01

    Bacteroides coprosuis Whitehead et al. 2005 belongs to the genus Bacteroides, which is a member of the family Bacteroidaceae. Members of the genus Bacteroides in general are known as beneficial protectors of animal guts against pathogenic microorganisms, and as contributors to the degradation of complex molecules such as polysaccharides. B. coprosuis itself was isolated from a manure storage pit of a swine facility, but has not yet been found in an animal host. The species is of interest solely because of its isolated phylogenetic location. The genome of B. coprosuis is already the 5th sequenced type strain genome from the genus Bacteroides. The 2,991,798 bp long genome with its 2,461 protein-coding and 78 RNA genes and is a part of the Genomic Encyclopedia of Bacteria and Archaea project.

  3. Non-contiguous finished genome sequence of Bacteroides coprosuis type strain (PC139T)

    PubMed Central

    Land, Miriam; Held, Brittany; Gronow, Sabine; Abt, Birte; Lucas, Susan; Del Rio, Tijana Glavina; Nolan, Matt; Tice, Hope; Cheng, Jan-Fang; Pitluck, Sam; Liolios, Konstantinos; Pagani, Ioanna; Ivanova, Natalia; Mavromatis, Konstantinos; Mikhailova, Natalia; Pati, Amrita; Tapia, Roxane; Han, Cliff; Goodwin, Lynne; Chen, Amy; Palaniappan, Krishna; Hauser, Loren; Brambilla, Evelyne-Marie; Rohde, Manfred; Göker, Markus; Detter, John C.; Woyke, Tanja; Bristow, James; Eisen, Jonathan A.; Markowitz, Victor; Hugenholtz, Philip; Kyrpides, Nikos C.; Klenk, Hans-Peter; Lapidus, Alla

    2011-01-01

    Bacteroides coprosuis Whitehead et al. 2005 belongs to the genus Bacteroides, which is a member of the family Bacteroidaceae. Members of the genus Bacteroides in general are known as beneficial protectors of animal guts against pathogenic microorganisms, and as contributors to the degradation of complex molecules such as polysaccharides. B. coprosuis itself was isolated from a manure storage pit of a swine facility, but has not yet been found in an animal host. The species is of interest solely because of its isolated phylogenetic location. The genome of B. coprosuis is already the 5th sequenced type strain genome from the genus Bacteroides. The 2,991,798 bp long genome with its 2,461 protein-coding and 78 RNA genes and is a part of the Genomic Encyclopedia of Bacteria and Archaea project. PMID:21677860

  4. Kingella kingae sequence type-complex 14 arthritis in a 16-month-old child in Greece.

    PubMed

    Grivea, Ioanna N; Michoula, Aspasia N; Basmaci, Romain; Dailiana, Zoe H; Tsimitselis, George; Bonacorsi, Stéphane; Syrogiannopoulos, George A

    2015-01-01

    We describe the first case of Kingella kingae arthritis in a 16-month-old girl in Greece, which has been diagnosed by novel molecular techniques. A joint aspiration of her knee was performed before the initiation of antibiotics, as well as on the 5th and 14th day of empiric antimicrobial therapy. The synovial fluid white blood cell count decreased from 65,000 to 1500 cells/mm, but the percentage of neutrophils remained 90% in all 3 specimens. Molecular analysis of the synovial fluid specimens by real-time polymerase chain reaction and multilocus sequence typing enabled us to reveal the presence of K. kingae belonging to the international sequence type-complex 14, which persisted up to the fifth day of antibiotic therapy.

  5. Application of the order-of-magnitude analysis to a fourth-order RANS closure for simulating a 2D boundary layer

    NASA Astrophysics Data System (ADS)

    Poroseva, Svetlana V.

    2013-11-01

    Simulations of turbulent boundary-layer flows are usually conducted using a set of the simplified Reynolds-Averaged Navier-Stokes (RANS) equations obtained by order-of-magnitude analysis (OMA) of the original RANS equations. The resultant equations for the mean-velocity components are closed using the Boussinesq approximation for the Reynolds stresses. In this study OMA is applied to the fourth-order RANS (FORANS) set of equations. The FORANS equations are chosen as they can be closed on the level of the 5th-order correlations without using unknown model coefficients, i.e. no turbulent diffusion modeling is required. New models for the 2nd-, 3rd- and 4th-order velocity-pressure gradient correlations are derived for the current FORANS equations. This set of FORANS equations and models are analyzed for the case of two-dimensional mean flow. The equations include familiar transport terms for the mean-velocity components along with algebraic expressions for velocity correlations of different orders specific to the FORANS approach. Flat plate DNS data (Spalart, 1988) are used to verify these expressions and the areas of the OMA applicability within the boundary layer. The material is based upon work supported by NASA under award NNX12AJ61A.

  6. HIV Sequence Compendium 2010

    SciTech Connect

    Kuiken, Carla; Foley, Brian; Leitner, Thomas; Apetrei, Christian; Hahn, Beatrice; Mizrachi, Ilene; Mullins, James; Rambaut, Andrew; Wolinsky, Steven; Korber, Bette

    2010-12-31

    This compendium is an annual printed summary of the data contained in the HIV sequence database. In these compendia we try to present a judicious selection of the data in such a way that it is of maximum utility to HIV researchers. Each of the alignments attempts to display the genetic variability within the different species, groups and subtypes of the virus. This compendium contains sequences published before January 1, 2010. Hence, though it is called the 2010 Compendium, its contents correspond to the 2009 curated alignments on our website. The number of sequences in the HIV database is still increasing exponentially. In total, at the time of printing, there were 339,306 sequences in the HIV Sequence Database, an increase of 45% since last year. The number of near complete genomes (>7000 nucleotides) increased to 2576 by end of 2009, reflecting a smaller increase than in previous years. However, as in previous years, the compendium alignments contain only a small fraction of these. Included in the alignments are a small number of sequences representing each of the subtypes and the more prevalent circulating recombinant forms (CRFs) such as 01 and 02, as well as a few outgroup sequences (group O and N and SIV-CPZ). Of the rarer CRFs we included one representative each. A more complete version of all alignments is available on our website, http://www.hiv.lanl.gov/content/sequence/NEWALIGN/align.html. Reprints are available from our website in the form of both HTML and PDF files. As always, we are open to complaints and suggestions for improvement. Inquiries and comments regarding the compendium should be addressed to seq-info@lanl.gov.

  7. Quadruplex DNA: sequence, topology and structure

    PubMed Central

    Burge, Sarah; Parkinson, Gary N.; Hazel, Pascale; Todd, Alan K.; Neidle, Stephen

    2006-01-01

    G-quadruplexes are higher-order DNA and RNA structures formed from G-rich sequences that are built around tetrads of hydrogen-bonded guanine bases. Potential quadruplex sequences have been identified in G-rich eukaryotic telomeres, and more recently in non-telomeric genomic DNA, e.g. in nuclease-hypersensitive promoter regions. The natural role and biological validation of these structures is starting to be explored, and there is particular interest in them as targets for therapeutic intervention. This survey focuses on the folding and structural features on quadruplexes formed from telomeric and non-telomeric DNA sequences, and examines fundamental aspects of topology and the emerging relationships with sequence. Emphasis is placed on information from the high-resolution methods of X-ray crystallography and NMR, and their scope and current limitations are discussed. Such information, together with biological insights, will be important for the discovery of drugs targeting quadruplexes from particular genes. PMID:17012276

  8. Female-specific DNA sequences in geese.

    PubMed

    Huang, M C; Lin, W C; Horng, Y M; Rouvier, R; Huang, C W

    2003-07-01

    1. The OPAE random primers (Operon Technologies, Inc., CA) were used for random amplified polymorphic DNA (RAPD) fingerprinting in Chinese, White Roman and Landaise geese. One of these primers, OPAE-06, produced a 938-bp sex-specific fragment in all females and in no males of Chinese geese only. 2. A novel female-specific DNA sequence in Chinese goose was cloned and sequenced. Two primers, CGSex-F and CGSex-R, were designed in order to amplify a 912-bp sex-specific polymerase chain reaction (PCR) fragment on genomic DNA from female geese. 3. It was shown that a simple and effective PCR-based sexing technique could be used in the three goose breeds studied. 4. Nucleotide sequencing of the sex-specific fragments in White Roman and Landaise geese was performed and sequence differences were observed among these three breeds.

  9. Two-dimensional gratings of hexagonal holes for high order diffraction suppression.

    PubMed

    Liu, Ziwei; Shi, Lina; Pu, Tanchao; Li, Hailiang; Niu, Jiebin; Wang, Guanya; Xie, Changqing

    2017-01-23

    We propose two-dimensional gratings comprised of a large number of identical and similarly oriented hexagonal holes for the high order diffraction suppression. An analytical study of the diffraction property for such gratings, based on both square and triangle arrays, is described. The dependence of the high order diffraction property on the hole shape and size is investigated. Notably, theoretical calculation reveals that the 2nd, 3rd and 4th order diffractions adjacent to the 1st order diffraction can be completely suppressed, and the 5th order diffraction efficiency is as low as 0.01%, which will be submerged in the background noise for most practical applications. The 1st order diffraction intensity efficiency 6.93% can be achieved as the hexagonal holes along y-axis connect with each other. For the case of b=Py/3, the 1st order diffraction intensity efficiency is 3.08%. The experimental results are also presented, confirming the theoretical predictions. Especially, our two-dimensional gratings have the ability to form free-standing structures which are highly desired for the x-ray region. Comparing with the grating of the square array, the grating of the triangle array is easy to be fabricated by silicon planar process due to the large spacing between any two adjacent holes. Our results should be of great interest in a wide spectrum unscrambling from the infrared to the x-ray region.

  10. Pairwise Sequence Alignment Library

    SciTech Connect

    Jeff Daily, PNNL

    2015-05-20

    Vector extensions, such as SSE, have been part of the x86 CPU since the 1990s, with applications in graphics, signal processing, and scientific applications. Although many algorithms and applications can naturally benefit from automatic vectorization techniques, there are still many that are difficult to vectorize due to their dependence on irregular data structures, dense branch operations, or data dependencies. Sequence alignment, one of the most widely used operations in bioinformatics workflows, has a computational footprint that features complex data dependencies. The trend of widening vector registers adversely affects the state-of-the-art sequence alignment algorithm based on striped data layouts. Therefore, a novel SIMD implementation of a parallel scan-based sequence alignment algorithm that can better exploit wider SIMD units was implemented as part of the Parallel Sequence Alignment Library (parasail). Parasail features: Reference implementations of all known vectorized sequence alignment approaches. Implementations of Smith Waterman (SW), semi-global (SG), and Needleman Wunsch (NW) sequence alignment algorithms. Implementations across all modern CPU instruction sets including AVX2 and KNC. Language interfaces for C/C++ and Python.

  11. Application of sequence stratigraphy to modern sediments

    SciTech Connect

    Suter, J.R.; Boyd, R.; Penland, S.

    1988-02-01

    The concept of sequence stratigraphy provides a genetically linked depositional history of sea level and sedimentary processes which has been effectively used to interpret ancient deposits. Few efforts have been made to apply sequence stratigraphy to modern sediments, primarily due to differences in scale and the million(s)-year time span required to develop the lower-order depositional sequences upon which the concept is based. An extensive high-resolution seismic and vibracore database compiled over the last six years on the Louisiana continental shelf, coupled with published information, allows an application of sequence stratigraphy to the Mississippi River delta (MRD) system. Each of the major elements of the model has a counterpart in the MRD sequence. Eustatic fall beginning some 27,000 years ago resulted in fluvial downcutting and subaerial exposure of the continental shelf, creating incised valleys, a Type 1 unconformity, and a lowstand wedge. The incised valleys filled as sea level began rising some 18,000 years ago, until a series of backstepping shelf-phase deltas were deposited during relative stillstands, onlapping the Type 1 unconformity as a transgressive systems tract. Once sea level reached its current position about 3000 years ago, continuing deltaic deposition initiated the highstand systems tracts, which has reached the shelf margin in the form of the Balize delta complex. Major depocenters like the MRD are able to form deposits analogous to lower-order sequences in time spans several orders of magnitude less than thought necessary, raising questions regarding the driving mechanism and time scale of the sequence stratigraphy approach.

  12. A simple method of accelerating monotonic sequences

    NASA Astrophysics Data System (ADS)

    Sarkar, B.; Bhattacharyya, K.

    1993-03-01

    A converse of the well known Cesaro method has been demonstrated to accelerate successfully various monotonic sequences of practical concern. The method is simple, regular and particular apt for low-order data. Pilot calculations highlighting the workability in varying practical contexts involve atomic lattice constants (cubic), typical nuclear attraction integrals in molecular calculations and critical parameters in phase transitions.

  13. From deep sequencing to actual clones.

    PubMed

    D'Angelo, Sara; Kumar, Sandeep; Naranjo, Leslie; Ferrara, Fortunato; Kiss, Csaba; Bradbury, Andrew R M

    2014-10-01

    The application of deep sequencing to in vitro display technologies has been invaluable for the straightforward analysis of enriched clones. After sequencing in vitro selected populations, clones are binned into identical or similar groups and ordered by abundance, allowing identification of those that are most enriched. However, the greatest strength of deep sequencing is also its greatest weakness: clones are easily identified by their DNA sequences, but are not physically available for testing without a laborious multistep process involving several rounds of polymerization chain reaction (PCR), assembly and cloning. Here, using the isolation of antibody genes from a phage and yeast display selection as an example, we show the power of a rapid and simple inverse PCR-based method to easily isolate clones identified by deep sequencing. Once primers have been received, clone isolation can be carried out in a single day, rather than two days. Furthermore the reduced number of PCRs required will reduce PCR mutations correspondingly. We have observed a 100% success rate in amplifying clones with an abundance as low as 0.5% in a polyclonal population. This approach allows us to obtain full-length clones even when an incomplete sequence is available, and greatly simplifies the subcloning process. Moreover, rarer, but functional clones missed by traditional screening can be easily isolated using this method, and the approach can be extended to any selected library (scFv, cDNA, libraries based on scaffold proteins) where a unique sequence signature for the desired clones of interest is available.

  14. Exploration of Noncoding Sequences in Metagenomes

    PubMed Central

    Tobar-Tosse, Fabián; Rodríguez, Adrián C.; Vélez, Patricia E.; Zambrano, María M.; Moreno, Pedro A.

    2013-01-01

    Environment-dependent genomic features have been defined for different metagenomes, whose genes and their associated processes are related to specific environments. Identification of ORFs and their functional categories are the most common methods for association between functional and environmental features. However, this analysis based on finding ORFs misses noncoding sequences and, therefore, some metagenome regulatory or structural information could be discarded. In this work we analyzed 23 whole metagenomes, including coding and noncoding sequences using the following sequence patterns: (G+C) content, Codon Usage (Cd), Trinucleotide Usage (Tn), and functional assignments for ORF prediction. Herein, we present evidence of a high proportion of noncoding sequences discarded in common similarity-based methods in metagenomics, and the kind of relevant information present in those. We found a high density of trinucleotide repeat sequences (TRS) in noncoding sequences, with a regulatory and adaptive function for metagenome communities. We present associations between trinucleotide values and gene function, where metagenome clustering correlate with microorganism adaptations and kinds of metagenomes. We propose here that noncoding sequences have relevant information to describe metagenomes that could be considered in a whole metagenome analysis in order to improve their organization, classification protocols, and their relation with the environment. PMID:23536879

  15. Nonspatial Sequence Coding in CA1 Neurons

    PubMed Central

    Allen, Timothy A.; Salz, Daniel M.; McKenzie, Sam

    2016-01-01

    The hippocampus is critical to the memory for sequences of events, a defining feature of episodic memory. However, the fundamental neuronal mechanisms underlying this capacity remain elusive. While considerable research indicates hippocampal neurons can represent sequences of locations, direct evidence of coding for the memory of sequential relationships among nonspatial events remains lacking. To address this important issue, we recorded neural activity in CA1 as rats performed a hippocampus-dependent sequence-memory task. Briefly, the task involves the presentation of repeated sequences of odors at a single port and requires rats to identify each item as “in sequence” or “out of sequence”. We report that, while the animals' location and behavior remained constant, hippocampal activity differed depending on the temporal context of items—in this case, whether they were presented in or out of sequence. Some neurons showed this effect across items or sequence positions (general sequence cells), while others exhibited selectivity for specific conjunctions of item and sequence position information (conjunctive sequence cells) or for specific probe types (probe-specific sequence cells). We also found that the temporal context of individual trials could be accurately decoded from the activity of neuronal ensembles, that sequence coding at the single-cell and ensemble level was linked to sequence memory performance, and that slow-gamma oscillations (20–40 Hz) were more strongly modulated by temporal context and performance than theta oscillations (4–12 Hz). These findings provide compelling evidence that sequence coding extends beyond the domain of spatial trajectories and is thus a fundamental function of the hippocampus. SIGNIFICANCE STATEMENT The ability to remember the order of life events depends on the hippocampus, but the underlying neural mechanisms remain poorly understood. Here we addressed this issue by recording neural activity in hippocampal

  16. A High Order Mixed Vector Finite Element Method for Solving the Time Dependent Maxwell Equations on Unstructured Grids

    SciTech Connect

    Rieben, R N; Rodrigue, G H; White, D A

    2004-03-09

    We present a mixed vector finite element method for solving the time dependent coupled Ampere and Faraday laws of Maxwell's equations on unstructured hexahedral grids that employs high order discretization in both space and time. The method is of arbitrary order accuracy in space and up to 5th order accurate in time, making it well suited for electrically large problems where grid anisotropy and numerical dispersion have plagued other methods. In addition, the method correctly models both the jump discontinuities and the divergence-free properties of the electric and magnetic fields, is charge and energy conserving, conditionally stable, and free of spurious modes. Several computational experiments are performed to demonstrate the accuracy, efficiency and benefits of the method.

  17. Experimental demonstration of fractional order differentiation using a long-period grating-based in-fiber modal interferometer

    NASA Astrophysics Data System (ADS)

    Poveda-Wong, L.; Carrascosa, A.; Cuadrado-Laborde, C.; Cruz, J. L.; Andrés, M. V.

    2016-12-01

    In this work we demonstrate both, experimentally and theoretically, that a long-period grating-based in-fiber modal interferometer can perform an all-optical arbitrary-order fractional differentiation. Experimentally, we fractionally differentiated to the 0.5th order a secant hyperbolic-like pulse of 23 ps time width provided by a 1039.5 nm emission wavelength modelocked fiber laser, with a chirp parameter of -30. An analytical expression relating the fractional order of differentiation n with the characteristics of the modal interferometer was also derived, with the purpose to simplify the design procedure. The proposal was corroborated also numerically. This device may find applications in real time phase recovery.

  18. Triclinic Fluid Order

    NASA Astrophysics Data System (ADS)

    Chattham, Nattaporn; Korblova, Eva; Shao, Renfan; Walba, David M.; Maclennan, Joseph E.; Clark, Noel A.

    2010-02-01

    Among the condensed phases, those of lowest point group symmetry are the triclinic crystals, which have only the identity element or the identity and inversion elements. Such low symmetry is stabilized by the specificity of molecular interaction, which is weakened with increasing disorder, so that known phases with fluid degrees of freedom are more symmetric. Here we report triclinic order, appearing as a broken symmetry in a single, isolated, fluid smectic liquid crystal layer freely suspended in air, showing that none of its principal dielectric axes lies either normal or parallel to the layer plane.

  19. Triclinic fluid order.

    PubMed

    Chattham, Nattaporn; Korblova, Eva; Shao, Renfan; Walba, David M; Maclennan, Joseph E; Clark, Noel A

    2010-02-12

    Among the condensed phases, those of lowest point group symmetry are the triclinic crystals, which have only the identity element or the identity and inversion elements. Such low symmetry is stabilized by the specificity of molecular interaction, which is weakened with increasing disorder, so that known phases with fluid degrees of freedom are more symmetric. Here we report triclinic order, appearing as a broken symmetry in a single, isolated, fluid smectic liquid crystal layer freely suspended in air, showing that none of its principal dielectric axes lies either normal or parallel to the layer plane.

  20. CpSAT-1, a transcribed satellite sequence from the codling moth, Cydia pomonella.

    PubMed

    Věchtová, Pavlína; Dalíková, Martina; Sýkorová, Miroslava; Žurovcová, Martina; Füssy, Zoltán; Zrzavá, Magda

    2016-08-01

    Satellite DNA (satDNA) is a non-coding component of eukaryotic genomes, located mainly in heterochromatic regions. Relevance of satDNA began to emerge with accumulating evidence of its potential yet hardly comprehensible role that it can play in the genome of many organisms. We isolated the first satDNA of the codling moth (Cydia pomonella, Tortricidae, Lepidoptera), a species with holokinetic chromosomes and a single large heterochromatic element, the W chromosome in females. The satDNA, called CpSAT-1, is located on all chromosomes of the complement, although in different amounts. Surprisingly, the satellite is almost missing in the heterochromatic W chromosome. Additionally, we isolated mRNA from all developmental stages (1st-5th instar larva, pupa, adult), both sexes (adult male and female) and several tissues (Malpighian tubules, gut, heart, testes, and ovaries) of the codling moth and showed the CpSAT-1 sequence was transcribed in all tested samples. Using CpSAT-1 specific primers we amplified, cloned and sequenced 40 monomers from cDNA and gDNA, respectively. The sequence analysis revealed a high mutation rate and the presence of potentially functional motifs, mainly in non-conserved regions of the monomers. Both the chromosomal distribution and the sequence analysis suggest that CPSAT-1 has no function in the C. pomonella genome.

  1. The semantic origins of word order.

    PubMed

    Schouwstra, Marieke; de Swart, Henriëtte

    2014-06-01

    Where do the different sentence orders in the languages of the world come from? Recently, it has been suggested that there is a basic sentence order, SOV (Subject-Object-Verb), which was the starting point for other sentence orders. Backup for this claim was found in newly emerging languages, as well as in experiments where people are asked to convey simple meanings in improvised gesture production. In both cases, researchers found that the predominant word order is SOV. Recent literature has shown that the pragmatic rule 'Agent first' drives the preference for S initial word order, but this rule does not decide between SOV and SVO. This paper presents experimental evidence for grounding the word order that emerges in gesture production in semantic properties of the message to be conveyed. We focus on the role of the verb, and argue that the preference for SOV word order reported in earlier experiments is due to the use of extensional verbs (e.g. throw). With intensional verbs like think, the object is dependent on the agent's thought, and our experiment confirms that such verbs lead to a preference for SVO instead. We conclude that the meaning of the verb plays a crucial role in the sequencing of utterances in emerging language systems. This finding is relevant for the debate on language evolution, because it suggests that semantics underlies the early formation of syntactic rules.

  2. Fractional order junctions

    NASA Astrophysics Data System (ADS)

    Machado, J. Tenreiro

    2015-01-01

    Gottfried Leibniz generalized the derivation and integration, extending the operators from integer up to real, or even complex, orders. It is presently recognized that the resulting models capture long term memory effects difficult to describe by classical tools. Leon Chua generalized the set of lumped electrical elements that provide the building blocks in mathematical models. His proposal of the memristor and of higher order elements broadened the scope of variables and relationships embedded in the development of models. This paper follows the two directions and proposes a new logical step, by generalizing the concept of junction. Classical junctions interconnect system elements using simple algebraic restrictions. Nevertheless, this simplistic approach may be misleading in the presence of unexpected dynamical phenomena and requires including additional "parasitic" elements. The novel γ -junction includes, as special cases, the standard series and parallel connections and allows a new degree of freedom when building models. The proposal motivates the search for experimental and real world manifestations of the abstract conjectures.

  3. Localization protected quantum order

    NASA Astrophysics Data System (ADS)

    Nandkishore, Rahul

    2015-03-01

    Many body localization occurs in isolated quantum systems, usually with strong disorder, and is marked by absence of dissipation, absence of thermal equilibration, and a memory of the initial conditions that survives in local observables for arbitrarily long times. The many body localized regime is a non-equilibrium, strongly disordered, non-self averaging regime that presents a new frontier for quantum statistical mechanics. In this talk, I point out that there exists a vast zoo of correlated many body localized states of matter, which may be classified using familiar notions of spontaneous symmetry breaking and topological order. I will point out that in the many body localized regime, spontaneous symmetry breaking can occur even at high energy densities in one dimensional systems, and topological order can occur even without a bulk gap. I will also discuss the phenomenology of imperfectly isolated many body localized systems, which are weakly coupled to a heat bath. I will conclude with a brief discussion of how these phenomena may best be detected in experiments. Collaborators: David Huse, S.L. Sondhi, Arijeet Pal, Vadim Oganesyan, A.C. Potter, Sarang Gopalakrishnan, S. Johri, R.N. Bhatt.

  4. End Anchoring in Short-Term Order Memory

    ERIC Educational Resources Information Center

    Farrell, Simon; Lelievre, Anna

    2009-01-01

    Temporally grouping lists has systematic effects on immediate serial recall accuracy, order errors, and recall latencies, and is generally taken to reflect the use of multiple dimensions of ordering in short-term memory. It has been argued that these representations are fully relative, in that all sequence positions are anchored to both the start…

  5. Program Synthesizes UML Sequence Diagrams

    NASA Technical Reports Server (NTRS)

    Barry, Matthew R.; Osborne, Richard N.

    2006-01-01

    A computer program called "Rational Sequence" generates Universal Modeling Language (UML) sequence diagrams of a target Java program running on a Java virtual machine (JVM). Rational Sequence thereby performs a reverse engineering function that aids in the design documentation of the target Java program. Whereas previously, the construction of sequence diagrams was a tedious manual process, Rational Sequence generates UML sequence diagrams automatically from the running Java code.

  6. De novo sequencing of highly modified therapeutic oligonucleotides by hydrophobic tag sequencing coupled with LC-MS.

    PubMed

    Goto, R; Miyakawa, S; Inomata, E; Takami, T; Yamaura, J; Nakamura, Y

    2017-02-01

    Correct sequences are prerequisite for quality control of therapeutic oligonucleotides. However, there is no definitive method available for determining sequences of highly modified therapeutic RNAs, and thereby, most of the oligonucleotides have been used clinically without direct sequence determination. In this study, we developed a novel sequencing method called 'hydrophobic tag sequencing'. Highly modified oligonucleotides are sequenced by partially digesting oligonucleotides conjugated with a 5'-hydrophobic tag, followed by liquid chromatography-mass spectrometry analysis. 5'-Hydrophobic tag-printed fragments (5'-tag degradates) can be separated in order of their molecular masses from tag-free oligonucleotides by reversed-phase liquid chromatography. As models for the sequencing, the anti-VEGF aptamer (Macugen) and the highly modified 38-mer RNA sequences were analyzed under blind conditions. Most nucleotides were identified from the molecular weight of hydrophobic 5'-tag degradates calculated from monoisotopic mass in simple full mass data. When monoisotopic mass could not be assigned, the nucleotide was estimated using the molecular weight of the most abundant mass. The sequences of Macugen and 38-mer RNA perfectly matched the theoretical sequences. The hydrophobic tag sequencing worked well to obtain simple full mass data, resulting in accurate and clear sequencing. The present study provides for the first time a de novo sequencing technology for highly modified RNAs and contributes to quality control of therapeutic oligonucleotides. Copyright © 2016 John Wiley & Sons, Ltd.

  7. Sequencing the Connectome

    PubMed Central

    Zador, Anthony M.; Dubnau, Joshua; Oyibo, Hassana K.; Zhan, Huiqing; Cao, Gang; Peikon, Ian D.

    2012-01-01

    Connectivity determines the function of neural circuits. Historically, circuit mapping has usually been viewed as a problem of microscopy, but no current method can achieve high-throughput mapping of entire circuits with single neuron precision. Here we describe a novel approach to determining connectivity. We propose BOINC (“barcoding of individual neuronal connections”), a method for converting the problem of connectivity into a form that can be read out by high-throughput DNA sequencing. The appeal of using sequencing is that its scale—sequencing billions of nucleotides per day is now routine—is a natural match to the complexity of neural circuits. An inexpensive high-throughput technique for establishing circuit connectivity at single neuron resolution could transform neuroscience research. PMID:23109909

  8. Sequence analysis by iterated maps, a review.

    PubMed

    Almeida, Jonas S

    2014-05-01

    Among alignment-free methods, Iterated Maps (IMs) are on a particular extreme: they are also scale free (order free). The use of IMs for sequence analysis is also distinct from other alignment-free methodologies in being rooted in statistical mechanics instead of computational linguistics. Both of these roots go back over two decades to the use of fractal geometry in the characterization of phase-space representations. The time series analysis origin of the field is betrayed by the title of the manuscript that started this alignment-free subdomain in 1990, 'Chaos Game Representation'. The clash between the analysis of sequences as continuous series and the better established use of Markovian approaches to discrete series was almost immediate, with a defining critique published in same journal 2 years later. The rest of that decade would go by before the scale-free nature of the IM space was uncovered. The ensuing decade saw this scalability generalized for non-genomic alphabets as well as an interest in its use for graphic representation of biological sequences. Finally, in the past couple of years, in step with the emergence of BigData and MapReduce as a new computational paradigm, there is a surprising third act in the IM story. Multiple reports have described gains in computational efficiency of multiple orders of magnitude over more conventional sequence analysis methodologies. The stage appears to be now set for a recasting of IMs with a central role in processing nextgen sequencing results.

  9. Spectral entropy criteria for structural segmentation in genomic DNA sequences

    NASA Astrophysics Data System (ADS)

    Chechetkin, V. R.; Lobzin, V. V.

    2004-07-01

    The spectral entropy is calculated with Fourier structure factors and characterizes the level of structural ordering in a sequence of symbols. It may efficiently be applied to the assessment and reconstruction of the modular structure in genomic DNA sequences. We present the relevant spectral entropy criteria for the local and non-local structural segmentation in DNA sequences. The results are illustrated with the model examples and analysis of intervening exon-intron segments in the protein-coding regions.

  10. Integration of retinal image sequences

    NASA Astrophysics Data System (ADS)

    Ballerini, Lucia

    1998-10-01

    In this paper a method for noise reduction in ocular fundus image sequences is described. The eye is the only part of the human body where the capillary network can be observed along with the arterial and venous circulation using a non invasive technique. The study of the retinal vessels is very important both for the study of the local pathology (retinal disease) and for the large amount of information it offers on systematic haemodynamics, such as hypertension, arteriosclerosis, and diabetes. In this paper a method for image integration of ocular fundus image sequences is described. The procedure can be divided in two step: registration and fusion. First we describe an automatic alignment algorithm for registration of ocular fundus images. In order to enhance vessel structures, we used a spatially oriented bank of filters designed to match the properties of the objects of interest. To evaluate interframe misalignment we adopted a fast cross-correlation algorithm. The performances of the alignment method have been estimated by simulating shifts between image pairs and by using a cross-validation approach. Then we propose a temporal integration technique of image sequences so as to compute enhanced pictures of the overall capillary network. Image registration is combined with image enhancement by fusing subsequent frames of a same region. To evaluate the attainable results, the signal-to-noise ratio was estimated before and after integration. Experimental results on synthetic images of vessel-like structures with different kind of Gaussian additive noise as well as on real fundus images are reported.

  11. An evaluation of Comparative Genome Sequencing (CGS) by comparing two previously-sequenced bacterial genomes

    PubMed Central

    Herring, Christopher D; Palsson, Bernhard Ø

    2007-01-01

    Background With the development of new technology, it has recently become practical to resequence the genome of a bacterium after experimental manipulation. It is critical though to know the accuracy of the technique used, and to establish confidence that all of the mutations were detected. Results In order to evaluate the accuracy of genome resequencing using the microarray-based Comparative Genome Sequencing service provided by Nimblegen Systems Inc., we resequenced the E. coli strain W3110 Kohara using MG1655 as a reference, both of which have been completely sequenced using traditional sequencing methods. CGS detected 7 of 8 small sequence differences, one large deletion, and 9 of 12 IS element insertions present in W3110, but did not detect a large chromosomal inversion. In addition, we confirmed that CGS also detected 2 SNPs, one deletion and 7 IS element insertions that are not present in the genome sequence, which we attribute to changes that occurred after the creation of the W3110 lambda clone library. The false positive rate for SNPs was one per 244 Kb of genome sequence. Conclusion CGS is an effective way to detect multiple mutations present in one bacterium relative to another, and while highly cost-effective, is prone to certain errors. Mutations occurring in repeated sequences or in sequences with a high degree of secondary structure may go undetected. It is also critical to follow up on regions of interest in which SNPs were not called because they often indicate deletions or IS element insertions. PMID:17697331

  12. Method to amplify variable sequences without imposing primer sequences

    DOEpatents

    Bradbury, Andrew M.; Zeytun, Ahmet

    2006-11-14

    The present invention provides methods of amplifying target sequences without including regions flanking the target sequence in the amplified product or imposing amplification primer sequences on the amplified product. Also provided are methods of preparing a library from such amplified target sequences.

  13. Polynomials Generated by the Fibonacci Sequence

    NASA Astrophysics Data System (ADS)

    Garth, David; Mills, Donald; Mitchell, Patrick

    2007-06-01

    The Fibonacci sequence's initial terms are F_0=0 and F_1=1, with F_n=F_{n-1}+F_{n-2} for n>=2. We define the polynomial sequence p by setting p_0(x)=1 and p_{n}(x)=x*p_{n-1}(x)+F_{n+1} for n>=1, with p_{n}(x)= sum_{k=0}^{n} F_{k+1}x^{n-k}. We call p_n(x) the Fibonacci-coefficient polynomial (FCP) of order n. The FCP sequence is distinct from the well-known Fibonacci polynomial sequence. We answer several questions regarding these polynomials. Specifically, we show that each even-degree FCP has no real zeros, while each odd-degree FCP has a unique, and (for degree at least 3) irrational, real zero. Further, we show that this sequence of unique real zeros converges monotonically to the negative of the golden ratio. Using Rouche's theorem, we prove that the zeros of the FCP's approach the golden ratio in modulus. We also prove a general result that gives the Mahler measures of an infinite subsequence of the FCP sequence whose coefficients are reduced modulo an integer m>=2. We then apply this to the case that m=L_n, the nth Lucas number, showing that the Mahler measure of the subsequence is phi^{n-1}, where phi=(1+sqrt 5)/2.

  14. Sequencing proteins with transverse ionic transport

    NASA Astrophysics Data System (ADS)

    Boynton, Paul; di Ventra, Massimiliano

    2015-03-01

    De novo protein sequencing is essential for understanding cellular processes that govern the function of living organisms. By obtaining the order of the amino acids that composes a given protein one can determine both its secondary and tertiary structures through protein structure prediction, which is used to create models for protein aggregation diseases such as Alzheimer's Disease. Mass spectrometry is the current technique of choice for de novo sequencing, but because some amino acids have the same mass the sequence cannot be completely determined in many cases. In this paper we propose a new technique for de novo protein sequencing that involves translocating a polypeptide through a synthetic nanochannel and measuring the ionic current of each amino acid through an intersecting perpendicular nanochannel, similar to that proposed in for DNA sequencing. Indeed, we find that the distribution of ionic currents for each of the 20 proteinogenic amino acids encoded by eukaryotic genes is statistically distinct, showing this technique's potential for de novo protein sequencing.

  15. Oligorotaxane Radicals under Orders.

    PubMed

    Wang, Yuping; Frasconi, Marco; Liu, Wei-Guang; Sun, Junling; Wu, Yilei; Nassar, Majed S; Botros, Youssry Y; Goddard, William A; Wasielewski, Michael R; Stoddart, J Fraser

    2016-02-24

    A strategy for creating foldameric oligorotaxanes composed of only positively charged components is reported. Threadlike components-namely oligoviologens-in which different numbers of 4,4'-bipyridinium (BIPY(2+)) subunits are linked by p-xylylene bridges, are shown to be capable of being threaded by cyclobis(paraquat-p-phenylene) (CBPQT(4+)) rings following the introduction of radical-pairing interactions under reducing conditions. UV/vis/NIR spectroscopic and electrochemical investigations suggest that the reduced oligopseudorotaxanes fold into highly ordered secondary structures as a result of the formation of BIPY(•+) radical cation pairs. Furthermore, by installing bulky stoppers at each end of the oligopseudorotaxanes by means of Cu-free alkyne-azide cycloadditions, their analogous oligorotaxanes, which retain the same stoichiometries as their progenitors, can be prepared. Solution-state studies of the oligorotaxanes indicate that their mechanically interlocked structures lead to the enforced interactions between the dumbbell and ring components, allowing them to fold (contract) in their reduced states and unfold (expand) in their fully oxidized states as a result of Coulombic repulsions. This electrochemically controlled reversible folding and unfolding process, during which the oligorotaxanes experience length contractions and expansions, is reminiscent of the mechanisms of actuation associated with muscle fibers.

  16. Oligorotaxane Radicals under Orders

    PubMed Central

    2016-01-01

    A strategy for creating foldameric oligorotaxanes composed of only positively charged components is reported. Threadlike components—namely oligoviologens—in which different numbers of 4,4′-bipyridinium (BIPY2+) subunits are linked by p-xylylene bridges, are shown to be capable of being threaded by cyclobis(paraquat-p-phenylene) (CBPQT4+) rings following the introduction of radical-pairing interactions under reducing conditions. UV/vis/NIR spectroscopic and electrochemical investigations suggest that the reduced oligopseudorotaxanes fold into highly ordered secondary structures as a result of the formation of BIPY•+ radical cation pairs. Furthermore, by installing bulky stoppers at each end of the oligopseudorotaxanes by means of Cu-free alkyne–azide cycloadditions, their analogous oligorotaxanes, which retain the same stoichiometries as their progenitors, can be prepared. Solution-state studies of the oligorotaxanes indicate that their mechanically interlocked structures lead to the enforced interactions between the dumbbell and ring components, allowing them to fold (contract) in their reduced states and unfold (expand) in their fully oxidized states as a result of Coulombic repulsions. This electrochemically controlled reversible folding and unfolding process, during which the oligorotaxanes experience length contractions and expansions, is reminiscent of the mechanisms of actuation associated with muscle fibers. PMID:27163033

  17. Order in Spontaneous Behavior

    PubMed Central

    Maye, Alexander; Hsieh, Chih-hao; Sugihara, George; Brembs, Björn

    2007-01-01

    Brains are usually described as input/output systems: they transform sensory input into motor output. However, the motor output of brains (behavior) is notoriously variable, even under identical sensory conditions. The question of whether this behavioral variability merely reflects residual deviations due to extrinsic random noise in such otherwise deterministic systems or an intrinsic, adaptive indeterminacy trait is central for the basic understanding of brain function. Instead of random noise, we find a fractal order (resembling Lévy flights) in the temporal structure of spontaneous flight maneuvers in tethered Drosophila fruit flies. Lévy-like probabilistic behavior patterns are evolutionarily conserved, suggesting a general neural mechanism underlying spontaneous behavior. Drosophila can produce these patterns endogenously, without any external cues. The fly's behavior is controlled by brain circuits which operate as a nonlinear system with unstable dynamics far from equilibrium. These findings suggest that both general models of brain function and autonomous agents ought to include biologically relevant nonlinear, endogenous behavior-initiating mechanisms if they strive to realistically simulate biological brains or out-compete other agents. PMID:17505542

  18. Sequence stratigraphy of an apparently non-cyclic carbonate succession: Recognizing subaerial exposure in largely subtidal sequences, M. Ordovician, East Tennessee

    SciTech Connect

    Steinhauff, D.M. ); Walker, K.R. . Dept. of Geological Sciences)

    1992-01-01

    A 400 meter thick succession of Middle Ordovician non-cyclic carbonates occurs at four on-shelf localities exposed along a 6 km transect on the northwest limb of the Copper Creek allochthon of East Tennessee. By using paleobathymetric analysis the authors were able to unravel the sequencing of stratigraphic units in this succession. Inflection points in water-depth curves indicate stratigraphic intervals that, on further detailed analysis, also contain subtle indicators of subaerial exposure. Seven surfaces of subaerial exposure or drowning define six third order sequences in the entire Middle and Upper Ordovician. They have analyzed in detail the lower four and the lower part of the fifth third order sequences and their contained 22 fourth order sequences that appear to be correlative across the shelf. These third and fourth order sequences, contain many fifth order or meter-scale packages, here termed sub-sequences. Sub-sequences are not correlative from place to place and many of these are probably the result of fine scale, lateral environmental migration. Stratigraphic sequences and sub-sequences represent shallowing-upward packages similar to cycles. However, these sequences and sub-sequences differ from the usual cycles in that they mostly lack peritidal caps, and evidence for exposure and shoaling is subtle and generally revealed only through detailed microscopic examination. A Fischer plot, substituting sub-sequences for cycles, supports interpretations previously made for this succession based on other lines of evidence and helps clarify new observations revealed through water-depth analysis.

  19. 47 CFR 32.21 - Sequence of accounts.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 47 Telecommunication 2 2010-10-01 2010-10-01 false Sequence of accounts. 32.21 Section 32.21 Telecommunication FEDERAL COMMUNICATIONS COMMISSION (CONTINUED) COMMON CARRIER SERVICES UNIFORM SYSTEM OF ACCOUNTS FOR TELECOMMUNICATIONS COMPANIES General Instructions § 32.21 Sequence of accounts. The order in...

  20. 47 CFR 32.21 - Sequence of accounts.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 47 Telecommunication 2 2012-10-01 2012-10-01 false Sequence of accounts. 32.21 Section 32.21 Telecommunication FEDERAL COMMUNICATIONS COMMISSION (CONTINUED) COMMON CARRIER SERVICES UNIFORM SYSTEM OF ACCOUNTS FOR TELECOMMUNICATIONS COMPANIES General Instructions § 32.21 Sequence of accounts. The order in...